Preprint highlights

• Canonical mTOR signaling supports complete fin regeneration selected by Theodora M Stougiannou
• Whole-Cell Proteomics Identifies Novel Regulators of Ciliogenesis Beyond the Axoneme selected by Jawdat Sandakly
• Synthetic lumen rounding directs neural progenitor division mode selected by Sristilekha Nath
• Lamin A/C directs nucleosome-scale chromatin remodeling to define early lineage segregation in mammals selected by Deevitha Balasubramanian
• Abnormal ventricular wall patterning precedes and drives MYBPC3 hypertrophic cardiomyopathy selected by Theodora M Stougiannou

Preprint:

Theodora M Stougiannou

Preprint:

Canonical mTOR signaling supports complete fin regeneration
Josane F. de Sousa, Gabriela Lima, Louise Perez, Michaela Tsanova, Cyrus Bronson, Garrison Boehl, Icyss Sargeant, Rogerio Gomes, Aline C. Dragalzew, Wainna B. Mendes, Igor Schneider

preLight:

Fins, and cells, and signals, and regeneration, oh my! How the Senegal bichir regrows its fins after amputation.

The authors of this preprint investigate fin regeneration in the Senegal bichir (Polypterus senegalus), a type of ray-finned fish capable of full fin regeneration; this biological characteristic is quite impressive on its own, as the fin includes different tissues, such as skeletal, cartilaginous, muscular and connective tissue with complexity comparable to that found in tetrapod limbs.

The preprint authors show that regeneration entails the activation of canonical mTOR cellular programs, as treatment with the mTOR inhibitor rapamycin prevented this regeneration, though wound healing proceeded normally. Signaling was activated upon amputation, first in epithelial cells in the epidermis and then in adjacent mesenchymal cells below the superficial layers, as well as myeloid cell types.

It seems that mTOR programs in myeloid populations are responsible for the coordination of regenerative procedures across different cell types, as well as its eventual resolution.  Moreover, existence of such programs in species of fish highlights the ‘ancient’ evolutionary origins of tissue regeneration, giving hope for application of these principles in other species.

Jawdat Sandakly

Preprint:

Whole-Cell Proteomics Identifies Novel Regulators of Ciliogenesis Beyond the Axoneme
Xiaolu Xu, Yanbao Yu, Tony Zheng, Fiona Clark, Jean Ross, Neha Sindhu, Andre L P Tavares, John B Wallingford, Shuo Wei, Jian Sun

preLight:

Uncovering new players in ciliogenesis by whole-cell proteomics

Motile cilia are microtubule-based organelles that are involved in fundamental biological processes such as embryonic development, signalling, and mucus clearance. Their dysfunction results in several disorders known as ciliopathies.

Several efforts over the years have helped in elucidating the molecular architecture of motile cilia and in understanding ciliary structures and functions. Moreover, previous proteomic studies provided valuable insights into the axonemal composition. However, many molecular regulators of ciliogenesis remain unknown and other critical cellular components beyond the axoneme involved in ciliogenesis require further investigation.

In this preprint, the authors performed a high-resolution whole-cell proteomic profile of multiciliated cells (MCC), whose function is regulated by axonemal proteins, basal bodies, cytoplasmic factors, and nuclear components. They induced MCC cell fate in Xenopus, therefore enriching ciliary proteins and generating mucociliary organoids. Following their high-depth proteomic profiling, they identified several previously uncharacterized proteins that are essential for MCC maintenance and ciliogenesis. Through in situ hybridization, immunostaining, and gene knockdown, they further confirmed the new candidates, thus providing new potential targets to be further explored to gain a better understanding of the mechanisms related to ciliopathies.

Sristilekha Nath

Preprint:

Synthetic lumen rounding directs neural progenitor division mode
Marina Marchenko, Guillermo Martínez Ara, Juslina Pulikkal, Keisuke Ishihara, Miki Ebisuya

preLight:

Cells read lumen geometry to instruct division mode and lineage progression

During early brain development, tissue geometry – including lumen geometry – dynamically changes; a process which varies across species. But does this geometry simply result from development, or does it actively instruct how cells behave?

The authors of this preprint investigate this question by artificially controlling lumen geometry in brain organoids using two approaches: chemical induction of Shroom3, a protein that drives apical constriction and OptoShroom3, an optogenetic system enabling precise, light-controlled activation. The latter enables spatially targeted control without affecting overall Shroom3 levels within the organoids.

The results reveal that lumen geometry is not a passive consequence of development, but an active regulator of cell behavior. Chemically-induced Shroom3 organoids formed much rounder lumens and neural buds, and generated basal progenitor cells faster than controls, while cells gradually switched from vertical to horizontal cleavage planes over time, a critical reorientation since horizontal division results in asymmetric cell division that generates more basal progenitors, whereas vertical division (in controls) maintains more apical progenitors. When the authors used OptoShroom3 to create rounded lumens with localized blue light illumination, apical progenitor cells in target buds similarly shifted toward horizontal cleavage planes within an hour, whereas those without illumination (control bud within the same organoid) did not.

These findings demonstrate that cells ‘read’ their geometric environment to make developmental decisions, suggesting lumen shape as a key determinant, not merely a consequence of morphogenetic outcomes, a principle likely applicable broadly across organs and species. 

Deevitha Balasubramanian

Preprint:

Lamin A/C directs nucleosome-scale chromatin remodeling to define early lineage segregation in mammals
Alice Sherrard, Liangwen Zhong, Caroline Hoppe, Srikar Krishna, Scott Youlten, Curtis W. Boswell, Stephen Cross, Fiona E. Sievers, Goli Ardestani, Denny Sakkas, Liyun Miao, Zachary D. Smith, Berna Sozen, Antonio J. Giraldez

preLight:

Nuclear lamins direct the first lineage decision in mammalian cells

The first lineage decision during mammalian development into the inner cell mass (ICM) and trophectoderm (TE) is well known to be initiated by transcriptional and epigenetic factors and reinforced by mechanical forces. While global chromatin organization is understood to be important for this process, it remains unclear how the fine-scale distribution of chromatin and nucleosomes plays a role in these cell fate decisions.

To investigate this, the authors set up an improved chromatin electron tomography protocol called ChromEMT to observe nanometer-scale sub-nucleosomal structures. Using ChromEMT on human and mouse cell cultures before, during, and after specification into ICM and TE, they identified key differences in chromatin packing density and nucleosome spacing between these lineages. Importantly, they found that TE nuclei have highly compacted chromatin at their nuclear periphery. In line with this increased peripheral compaction, the authors could show that proteins located at the inner nuclear membrane, particularly lamins A and C, are specifically upregulated in TE cells across mammals. Loss of Lamin A/C resulted in loss of peripheral chromatin compaction and upregulation of pluripotency genes in TE cells, suggesting an overall transition to ICM-like characteristics. This, in turn, impairs normal progression through embryogenesis.

In concert with many more supporting findings, this preprint demonstrates how chromatin compaction and nuclear lamins directly shape early mammalian development.

Theodora M Stougiannou

Preprint:

Abnormal ventricular wall patterning precedes and drives MYBPC3 hypertrophic cardiomyopathy
Alejandro Salguero-Jiménez, Alba Pau-Navalón, Marcos Siguero-Álvarez, Carlos Relaño-Rupérez, Javier Santos-Cantador, María Sabater-Molina, Xiaoxi Luo, Laura Lalaguna, Laura Sen-Martín, Daniel Martín Pérez, Abel Galicia Martín, Bin Zhou, Juan Antonio Bernal Rodríguez, Fátima Sánchez-Cabo, Enrique Lara-Pezzi, Jorge Alegre-Cebollada, Juan R. Gimeno-Blanes, Donal MacGrogan, José Luis de la Pompa

preLight:

More ‘heart’, more problems; a natural history of myocardial hypertrophy progression from embryonic development to adulthood and the role of sarcomeric protein mutations (Mybpc3) in its emergence.

The authors of this preprint investigated the developmental biology underlying hypertrophic cardiomyopathy and left ventricular non-compaction in mice. To this end, they used CRISPR-Cas9, a method used to induce genetic alterations, to introduce MYBPC3 frameshift mutations in the mouse genome and then followed these mice from embryonic and fetal development into adulthood. Adult mice with these mutations displayed hypertrophic cardiomyopathy but with no evidence of left ventricular non-compaction, as opposed to humans. These formations began as trabecular enlargement and crypt enlargement during embryonic development and progressed to hypertrophy in adulthood. Lineage tracing studies further showed invasion of cardiomyocytes normally found in compact myocardium (Hey+ cardiomyocytes), into the developing trabeculae, while after birth, Hey+ cardiomyocytes became restricted to compact myocardium and the inner trabecular myocardium underwent hypertrophy. This is associated with downregulation of the Prdm16; this study highlights how the latter has potential to combat myocardial hypertrophy.

This study highlights the natural history of myocardial hypertrophy and how loss of Mybpc3 is associated with reduction in Prdm16 and onset of pathological hypertrophic remodeling.

The post preLighters’ choice – A curated selection of recent preprints appeared first on the Node.

The Medical Research Council provided £750K in funding for the National Mouse Genetics Network’s Business Engagement Fund with a call for applications in early 2023. The Business Engagement Fund supported 3–12-month projects, providing grants of £15–100K, with the expectation that matched funding would be provided by industry collaborators. Funded projects were designed to build and strengthen collaborations between the Network and businesses through feasibility, pilot, or initial studies. These activities aimed to explore ideas and generate initial data to support the development of competitive collaborative grant proposals.

We are now reporting on the first of these projects, highlighting how collaborative endeavours of this kind can help shape preclinical research and accelerate the development of therapeutic interventions.

The project was a partnership between Professor Nick Greene of University College London and OutFox Bio. Nick is a member of the Congenital Anomalies Cluster and a leading academic researcher studying a range of birth defects, with a long-standing interest in the role of folates in development and inherited metabolic disease. OutFox Bio is a delivery technology company focused on the development and optimisation of next-generation lipid nanoparticle (LNP) gene delivery technologies, designed to enable new gene therapy approaches and expand their potential applications.

A life-limiting incurable disease

Non-Ketotic Hyperglycinemia (NKH) is a life-limiting autosomal recessive neurometabolic disease that presents in neonates with lethargy, hypotonia, myoclonic jerks and apnoea. Affected children experience profound neurological impairment and complex epilepsy. Around one-third of infants with severe neonatal-onset NKH die within the first year, but age at death is highly variable, with some children surviving into their teenage years.

NKH is caused by mutations in genes that encode the glycine cleavage system (GCS). Most patients (80%) carry mutations in GLDC (glycine decarboxylase), with the remainder carrying mutations in AMT (aminomethyltransferase). The GCS decarboxylates glycine, with the concomitant transfer of a one-carbon (1C) group to tetrahydrofolate (THF), generating methylene-THF. Subsequent reactions in folate one-carbon metabolism (FOCM) provide 1C groups for multiple outputs, including nucleotide biosynthesis and methylation reactions. Hence, GCS dysfunction leads both to the accumulation of excess glycine in the body and to suppression of FOCM.

There is no cure for NKH; current treatments have limited efficacy. Prognosis remains very poor, highlighting an urgent unmet need for novel therapies. There is currently no established standard of care for NKH, although patients are typically treated with multiple anti-seizure medications. The most common treatment is sodium benzoate, which is administered to lower circulating glycine by stimulating glycine conjugation in the liver, generating hippurate (benzoylglycine) for excretion. Benzoate helps with seizure control but can be toxic and is associated with severe gastrointestinal side effects, necessitating long-term co-administration of proton-pump inhibitors which may carry additional risks. Replacement of benzoate has been highlighted as a priority during discussions with families of affected children.

To investigate NKH pathogenesis and develop novel treatments, Nick’s group developed a GLDC-deficient mouse model that recapitulates hallmark features of the disease, including elevated plasma and tissue glycine and neurological abnormalities. Loss of glycine cleavage system activity was confirmed by enzymatic assay and metabolic tracing using isotopically labelled glycine. Glycine is both a biomarker and a therapeutic target in NKH; both glycine and guanidinoacetate, a glycine–arginine conjugate, are epileptogenic.

In GLDC-deficient mice, the group observed that liver-specific reinstatement of GLDC expression or stimulation of hepatic glycine conjugation through benzoate administration led to normalisation of liver tissue glycine and glycine derivatives, correction of blood glycine concentrations, and reduction of glycine levels in the brain, the main site of NKH pathogenesis. These studies provide proof of principle for liver-directed therapy as a means of controlling systemic and brain glycine levels.

The causative genes are known, making NKH potentially amenable to therapies that restore gene expression. The aim is to develop RNA-based approaches to reinstate GLDC expression and normalise metabolism in NKH. Lipid nanoparticle (LNP)-mediated delivery of mRNA to the liver represents an attractive methodology for therapeutic gene expression. LNP systems have proven to be effective and safe for mRNA delivery and are already in clinical use for other conditions.

In this NMGN Business Engagement Fund project, undertaken in partnership with OutFox Bio, the team initially sought to address two key questions using a reporter-encoding mRNA.  First, they tested whether the liver in NKH remains amenable to LNP-mediated mRNA delivery despite abnormal metabolism. Second, they sought to identify the optimal LNP composition for mRNA delivery to the liver in the NKH GLDC-deficient mouse model. The team identified LNP compositions with improved efficacy compared with clinically approved benchmarks. They also confirmed that compromised glycine metabolism in the liver does not hinder uptake or expression of LNP-delivered mRNA in the NKH mouse model. For example, expression of LNP-mediated reporter expression was at least as high in GLDC-deficient mice as in wild-type mice following treatment with each LNP composition. These findings provided the proof of concept for extending the project to therapeutic mRNA, prioritising the lead LNPs.

The ongoing objective of the project is to develop an mRNA-based therapy that reinstates liver GLDC expression, normalises metabolism, and improves neurological outcomes in the GLDC-deficient NKH mouse model. Outputs from this project are expected to provide an evidence base for advancing this approach towards clinical trials in children with NKH.

Nick presented some of this work at the NKH Crusaders 11th Annual International Family Conference in Boston, where he gave a presentation and took part in several round-table discussions. The event was reported on social media, where Nick’s talk was also mentioned.

The post A Business Engagement Fund project to test Lipid Nanoparticle (LNP)-mediated mRNA delivery and efficacy appeared first on the Node.

As members of the British Society for Developmental Biology, its annual meetings are always a highlight. This year’s ‘from Molecules to Morphogenesis’ meeting was held at University of Warwick in March, bringing together an inspiring range of talks spanning classical and modern developmental biology as well as a wide range of model systems.

Day 1: Seven Decades of Developmental Biology

On the first day we were all welcomed by a heartwarming introduction from Marysia Placzek (BSDB chair) talking about the history of the BSDB and the pioneer work of researchers that have shaped this society since the beginning, such as Philip Ingham who was present in the audience. The first session thus commemorated Seven Decades of Developmental Biology with a great line up of invited speakers highlighting the power of revisiting classical developmental questions with new technologies.

Starting with Denis Duboule remarkably showing in vitro embryo models retaining axis elongation and A-P polarity despite removing Hox gene function but showing defects in endodermal and mesodermal fate. Ruth Lehmann talked about the role of Nanos in early specification and maintenance of the Primordial Germ Cell (PGC) program in Drosophila embryos. Cliff Tabin added an evolutionary perspective on duck syrinx formation and morphological asymmetry through different types of Shh gradients. Yun Xia gave a fascinating talk on using ‘assembloids’ to study the interplay of cell repertoires in kidney development and disease progression. After a short coffee break, Alicia Hidalgo spoke about Toll signalling in brain plasticity and degeneration in flies. A standout talk for me was Norbert Perrimon’s on a decade long effort (also in flies!) to lay a framework of metabolic crosstalk between growing tumours and the host tissues that result in cachexia, a complex wasting syndrome. Andy McMahon described the underlying principles to direct iPSCs and generate human kidney organoids.

The last talk of the day was Valentina Lorenzi from the Wellcome Sanger Institute, who received the Beddington Medal for her impressive PhD work characterising spatiotemporal developmental trajectories of the human reproductive tract using cutting-edge technologies, but also for her work advancing and communicating women’s health as the former president of the Cambridge Femtech Society and through a collaborative zine called ‘Pelvic Matters’.

The Annual General Meeting followed, where all BSDB members get to hear from the committee what the society has been doing for the past year. All members also vote on changes to the constitution and on new committee members. The day ended with welcome drinks and dinner to encourage networking across all attendees.

Day 2: Cell Identity & Gene Regulation, Patterning & Morphogenesis

The first session of day two on Cell Identity and Gene Regulation, chaired by Vicki Metzis, began with Edith Heard on the dynamics of X-chromosome inactivation (XCI), followed by two short talks from Amruta Vasudevan, examining a Wnt/Nodal/Notch temporal module underlying symmetry breaking in mouse gastruloids, and Oliver Davis, highlighting the role of FoxG1 in regulating chromatin accessibility and neural fate in cerebral organoids. Joshua Brickman talked about using in vitro models to study chromatin remodelling and Sox2 activity. Following a short break and snacks, the session continued with Hilary Ashe, discussing ribosomal pausing and protein synthesis control in Drosophila embryos, and two more short talks. Christos Kalaitzis on the Hox code mediating regional diversity of vagal neural crest cells, and Daniel Goszczynski on dual developmental origins of mammalian PGCs.

There were also two rounds of flash talks from poster presenters, spanning varied topics including nuclear mechanosensing, transgenic avian lines, cell size scaling, cell morphology and more. During lunch time, the poster session provided a fantastic opportunity for delegates to dive deeper into the science, spark new conversations, and discover exciting work being done across the community. With packed rooms, lively discussions, and an exceptionally high standard of posters, the poster sessions were a highlight of the meeting.

The afternoon session covered Patterning & Morphogenesis under the lens of model organism diversity, chaired by Shankar Srinivas. Ranging from Drosophila to Arabidopsis, this was a unique opportunity to learn about how very distinct systems develop and shape their body plan or organs (e.g. mouse heart, fly blastoderm and epithelium, chick and shark telencephalon, mayfly eye, marsupial trunk, plant roots!). Several talks also highlighted the question of developmental timing. Kenzo Ivanovitch showed how early versus late primitive streak progenitors make distinct parts of the heart. Sergio Menchero from the Crick Institute gave the Dennis Summerbell Award lecture, showcasing his study on temporal diversity in marsupials’ developmental programs and how they prioritise differentiation of necessary structures for their survival. Dana Fakhreddine presented her work identifying heterochronic differences in molecular events shaping the distinct telencephalon identities. Erik Clark refined the classical morphogen-gradient models by adding a temporal lock mechanism to explain how striped expression is appearing in the fly embryo. Lastly, Bert De Rybel presented work from his lab on Arabidopsis root meristem, introducing the idea of developmental timers during development and aging.

After dinner two medal winners were announced. First, the Wolpert Medal was awarded to Prof. Neil Vargesson from U. of Aberdeen to recognise his outstanding contributions to our understanding of chemically induced birth differences for the past 20 years. Neil’s work has led to changes in health policies and help for affected families in the UK and abroad. His commitment to public engagement through numerous outreach activities has raised awareness of developmental biology and medicine safety. Next, the Waddington Medal lecture by this year’s awardee, James Briscoe from the Crick Institute. James’ fundamental discoveries have shaped our understanding of how morphogens work. He has also promoted developmental biology through numerous roles, including as Director and then Editor-in-Chief of the journal ‘Development’ from the Company of Biologists.

To end the evening, we had a Student/Postdoc ECR social event that lived up to expectations in every way. A science-themed pub quiz drew 120 attendees into teams that brought their competitive best. The questions ranged from easy to tricky and delightfully niche, a favourite was ‘when dealing with chick development, what does YSL stand for?’ and no, the answer is not Yves Saint Laurent but Yolk Syncytial Layer. Spirits were high and competition was tough, but one team came on top: ‘Shut up nurds!’ (a nod to Joshua Brickman’s talk). Perhaps the most creative team name came second, ‘Bad Scientists Doing Biology’ or, of course, B.S.D.B., and in third place we had the ‘Mighty-Chondria’ team. A great way to end day two!

Day 3: Cell Communication & Fate, Organogenesis & Regeneration, Conference Dinner

Wednesday morning started with the Cell Communication & Fate session, chaired by David Turner. This series of talks opened with Sally Lowell summarising elegant work from her lab generating new tools to track the neighbourhood of a cell and discussed how these tools can be applied to diverse model systems. Following this, a series of fascinating talks covered distinct systems where cell fate is controlled by intrinsic mechanisms, such as post-transcriptional modifications shaping neural crest fate as presented by Lara Busby, and extracellular cues provided by the environment, such as mechanical cues generated by neighbouring cells. On this topic, Stefan Harmansa presented his work on how mechanical forces shape epithelium architecture in the drosophila wing disk by combining experimental and modelling approaches. Vikas Trivedi shared recent work from his lab investigating the role of temperature on the shape of the zebrafish epithelial layer during gastrulation. Nine flash-talks concluded this session by covering a diversity of questions, ranging from the impact of metabolic alterations to the role of cellular geometry.

After lunch and the second poster session of this meeting, we returned for the afternoon session on Organogenesis & Regeneration, chaired by Timothy Saunders. This session underscored how the study of diverse systems furthers our general understanding of morphological and regenerative processes. Beautiful work from Emily Noël focused on the importance of ECM asymmetry in shaping the developing zebrafish heart. Cristina Newnes on muscle development in Drosophila embryos, showed the power of established model systems. Meanwhile, the comparative analysis of muscle development in zebrafish versus sharks from Peter Currie’s lab, the study of head scale formation in diverse reptiles by Rory Cooper, and the in vitro generation of hindlimb progenitors from hPSCs by Sude Uyulgan, all made clear how much there is to learn from studying novel or less conventional systems.

The Marie Johansson Prize was introduced for the first time by Corinne Houart, in memory of an outstanding Postdoc in her lab to recognise leading ECR researchers contributing to developmental biology. The first recipient of this prize is Giulia Boezio from the Crick Institute for her exceptional work on spinal cord patterning and establishing new techniques in complex embryonic tissues in vivo, as well as her contributions to public engagement, mentoring, and network. The Tickle Medal was then awarded to Cynthia Andoniadou from KCL for her incredible work as a developmental endocrinologist on the pituitary gland, building the human pituitary atlas, and championing female scientists in the UK and internationally.

Ending the last full day, we had the long-awaited Conference Dinner, during which Marysia Placzek acknowledged and thanked the meeting organisers with a special gift for making this meeting happen. She then announced the poster prize runner ups and winners: Gareth Moore (£150) and Luke Simpson (£300) in the postdoc category, Achira Karunaratna (£150) and Noura Maziak in the student category. Noura won the big prize of an all-expenses-paid trip to attend the Society for Developmental Biology meeting in the US! The new members of the BSDB committee were also announced, congratulations and welcome to Paula Alexandre, Gi Fay (Geoffrey) Mok, and Teresa Rayon. Finally, it wouldn’t be a BSDB meeting without lots of scientists cheering and dancing the night away!

Day 4: Human Development & Disease

Our final session of the conference mercifully started at 9.30, giving us extra time to recover after the night before. This session was all about Human Development & Disease, chaired by Anahi Binagui-Casas. Sarah Teichmann showed the incredible efforts of the Human Developmental Cell Atlas, which has mapped >450 cell types across pre- and postnatal development, an invaluable resource for the community. This work also highlighted an underlying theme across the conference that many progenitor populations and lineage commitments emerge earlier in development than previously anticipated. Presentations from Lila Allou, Teresa P. Silva, and Lorenz Studer also made clear, in a sometimes-poignant manner, how garnering a deeper understanding of developmental processes such as organogenesis and axis formation can help us to better understand how such processes change in the context of congenital diseases. Kathy Niakan shared the molecular mechanisms regulating the first cell fate decisions in human embryos but also made a noteworthy remark about supporting model organisms, highlighting that “we wouldn’t be able to know what to look for [in humans] if it wasn’t for work in other organisms”.

Overall, this was an enjoyable and memorable meeting thanks to all the attendees, speakers, organisers, and everyone in the community coming together to share their passion for developmental biology. Looking forward to next year’s BSDB meeting in Edinburgh!

P.S. Check the programme to learn more about the speakers, the BSDB website for more information on the awards and to become a member, and the BSDB social media to relive the highlights of the 2026 meeting! (@bsdb.socials on Instagram and TikTok)

The post ‘Molecules to Morphogenesis’ – Perspectives on the BSDB 2026 meeting in Warwick appeared first on the Node.

Jen’s interviews

During the Biologists @ 100 conference, Jen spoke with researchers working on a range of different topics. Here we highlight Jen’s interview with Saroj Saurya, who is working to minimise the environmental impact of her biological research at the University of Oxford.

Saroj Saurya

At Biologists @ 100, The Company of Biologists invited attendees to submit essays on how they made they journey to Liverpool more sustainable, you can read the winning essays below:

My journey from Paris to Liverpool in four trains by Léa Manke

Reducing emissions on the way to Biologists @ 100 by Saurabh Chand Sagar

Read more about the ways The Company of Biologists reduced their carbon footprint for the event in their blog post: 100 years celebrated sustainably

More Biologists @ 100 content

For further perspectives, check out the excellent coverage from our sister sites and contributors:

• Jen’s interviews: Throwback to Biologists @ 100: Interviews from Liverpool
• Margarida’s reflections on FocalPlane: Interviews and researchers’ testimonies from Biologists @100
• Jonathan’s interview series on preLights: Spotlights: conversations from Biologists @100
• Meeting reports on the Node:
  – Biologists @ 100: A blueprint for interdisciplinary meetings
  – Cell-ebrating 100 years of The Company of Biologists: perspectives from two PhD students

The post Throwback to Biologists @ 100: Focus on sustainability appeared first on the Node.

Plants dominate the earth. It is estimated that they make up the majority of Earth’s living biomass, and among them flowering plants (angiosperms) account for around 90% of all plant species¹.

Land plants have been around for at least 450 million years, according to fossil records². Angiosperms, however, appeared much later, emerging suddenly and in remarkable diversity during the early Cretaceous period, around 130 million years ago³. This rapid rise and diversification puzzled Charles Darwin, who famously called the explosive expansion of flowering plants “an abominable mystery”⁴.

Flowering is a crucial step in plant development, and its timing depends on a variety of factors to maximise reproductive success. The manipulation of flowering time has also been central to crop domestication, since humans rely on plants for survival. Yet, despite its importance, the molecular basis of flowering has only begun to unfold over the past few decades, thanks to advances in modern molecular biology.

An important early figure in this field is Mikhail Chailakhyan, who carried out his PhD during a turbulent era for science in the Soviet Union in the 1930s (beautifully summarized by Marc Somssich⁵). Chailakhyan noticed that the plants that he worked on flowered faster under short days than long days and discovered that simply exposing the leaves to a specific light regime was enough to trigger flowering. In a series of clever experiments, including grafting the main stem of a long-day plant onto the leaves of a short-day plant, the long-day stem would flower under short-day conditions. This led him to propose that leaves produce a mobile signal that travels from leaves to the shoot and initiates flowering. Believing it to be a hormone, he named the mysterious substance “florigen” (flower-former)⁶.

Figure 1: Plant scientist in the greenhouse, by scientist-artist Hsuan Pai.

In 2007, many years after being suggested by Chailakhyan, multiple independent studies including one from the group of George Coupland showed that florigen is Flowering locus T (FT), a mobile protein that moves from the leaves to the inflorescence, where it then induces the transition to flowering^{7, 8, 9, 10}.

Recently, George Coupland’s group at the Max Planck Institute in Cologne published two new studies on florigen and its partners. The findings, published in Nature and Development, reveal that once FT reaches inflorescence, it creates the florigen activation complex (FAC), which assembles directly on DNA through a series of steps¹¹.

They also show that florigen does more than just trigger the start of flowering; it later takes on additional, independent roles during the formation of flowers¹².

Together, these findings describe a new mechanism for how the FAC assembles and reveal that its functions differ between the shoot meristem and the developing flower. Given the strong conservation of florigen and the FAC across seed plants, these discoveries also advance our understanding of flowering and floral development in major crops.

Sadly, Chailakhyan passed away in the early 1990s and never got to witness the remarkable progress made in understanding flowering. Turns out that even after a century of research, there are still exciting discoveries to be made!

Edited by Laura Turchi

References:

1.         Bar-On, Y. M., Phillips, R. & Milo, R. The biomass distribution on Earth. Proc. Natl. Acad. Sci. U. S. A. 115, 6506–6511 (2018).

2.         Strother, P. K. & Foster, C. A fossil record of land plant origins from charophyte algae. Science 373, 792–796 (2021).

3.         Zuntini, A. R. et al. Phylogenomics and the rise of the angiosperms. Nature 629, 843–850 (2024).

4.         Darwin, C. (1903). More letters of Charles Darwin: a record of his work in a series of hitherto unpublished letters (Vol. 2). D. Appleton.

5.         Somssich, M. A Short History of Vernalization. Preprint at https://doi.org/10.5281/zenodo.3708478 (2020).

6.         Zeevaart, J. A. D. Florigen Coming of Age after 70 Years. Plant Cell 18, 1783–1789 (2006).

7.         Mathieu, J., Warthmann, N., Küttner, F. & Schmid, M. Export of FT Protein from Phloem Companion Cells Is Sufficient for Floral Induction in Arabidopsis. Curr. Biol. 17, 1055–1060 (2007).

8.         Corbesier, L. et al. FT Protein Movement Contributes to Long-Distance Signaling in Floral Induction of Arabidopsis. Science 316, 1030–1033 (2007).

9.         Jaeger, K. E. & Wigge, P. A. FT Protein Acts as a Long-Range Signal in Arabidopsis. Curr. Biol. 17, 1050–1054 (2007).

10.      Lin, M.-K. et al. FLOWERING LOCUS T Protein May Act as the Long-Distance Florigenic Signal in the Cucurbits. Plant Cell 19, 1488–1506 (2007).

11.      Gao, H. et al. Florigen activation complex forms via multifaceted assembly in Arabidopsis. Nature 1–10 (2025).

12.      Romera-Branchat, M. et al. FD and FDP bZIP transcription factors and FT florigen regulate floral development and control homeotic gene expression in Arabidopsis floral meristems. Development 152, dev204241 (2025).

The post New developments in a decades-old quest on flowering appeared first on the Node.

November highlights

• ERK builds a population of short-lived nascent adhesions that produce persistent edge protrusion and cell migration selected by Aline Grata
• A geothermal amoeba sets a new upper temperature limit for eukaryotes selected by Deevitha Balasubramanian
• An ancient transcription factor functions as the master regulator of primary cilia formation selected by Jawdat Sandakly
• Gene editing in “cell villages” enables exploring disease-relevant mutations in many genetic backgrounds
  selected by Manuel Lessi
• Human pluripotent stem cell-derived macrophages modify development of human kidney organoids selected by Theodora M Stougiannou

Preprint:

Aline Grata

ERK builds a population of short-lived nascent adhesions that produce persistent edge protrusion and cell migration
Andrew P. Shepherd, Keith R. Carney, Andrew Elliott, Sangyoon J. Han, Michelle C. Mendoza

preLight:

ERK builds a population of short-lived nascent adhesions that produce persistent edge protrusion and cell migration

How does a cell coordinate the tiny, fast, fragile adhesions at its leading edge to keep moving forward?
In this work, the authors use a clever ERK FRET biosensor targeted specifically to nascent adhesions, letting them pinpoint when and where ERK becomes active as these structures form. They find that ERK activation occurs right within the assembling region via paxillin, and that this local activity promotes both the formation and rapid turnover of nascent adhesions. This work therefore shows that ERK isn’t just about breaking adhesions down, as traditionally emphasized; it fine-tunes a high-turnover adhesion population that keeps protrusions persistent. The rescue experiment, where simply increasing nascent adhesions restores movement even without ERK, demonstrates the functional importance of this fundamental mechanism.
Overall, this study reveals a core principle of how cells balance adhesion dynamics to drive migration, an essential process in development, wound healing, and cancer.

Deevitha Balasubramanian

Preprint:

A geothermal amoeba sets a new upper temperature limit for eukaryotes
H. Beryl Rappaport, Natalie A. Petek-Seoane, Tomáš Tyml, Felix Mikus, Kurt LaButti, Godwin Ani, Jessica K. Niblo, Ethan MacVicar, Rachel M. Shepherd, Ignacio de la Higuera, Samuel J. Lord, Gautam Dey, Gordon V. Wolfe, Omaya Dudin, Shahar Sukenik, Laura A. Katz, Kenneth M. Stedman, Kristen Skruber, Frederik Schulz, R. Dyche Mullins, Angela M. Oliverio

preLight:

Pushing the temperature limit for eukaryotic survival and function

This preprint reports the discovery of a thermophilic amoeba, Incendiamoeba cascadensis, that can survive, grow, and perform metabolic functions at temperatures up to 64°C, setting a new record for the upper temperature limit of eukaryotes. Isolated from a geothermal stream in California, Incendiamoeba represents a new genus in the Tubulinea class of Amoebozoa. The authors perform detailed experiments to characterize its cellular functions, including replication and motility, at high temperatures. They also highlight several features that could help the organism cope with higher and fluctuating temperatures, such as an enrichment of genes involved in calcium signalling, proteostasis, and DNA repair regulation, as well as higher average melting temperature and surface charge of I. cascadensis proteins.

Jawdat Sandakly

Preprint:

An ancient transcription factor functions as the master regulator of primary cilia formation
Weihua Wang, Xiqi Zhang, Yaxuan Qiu, Xiangrui Meng, Sitong Cheng, Yutong Chen, Siqi Liu, Wenhui Chen, Jiayan Yi, Xiwen You, Hongni Liu, Junqiao Xing, Cheng Xu, Haochen Jiang, Haibo Wang, Guangmei Tian, Zhangfeng Hu

preLight:

Old but gold: an ancient transcription factor is repurposed to regulate primary ciliogenesis

Cilia are highly conserved microtubule-based organelles projecting from the cell surface of almost every quiescent or differentiated mammalian cell. They play key roles in signaling and motility, and their dysfunction can lead to a class of genetic disorders known as ciliopathies. There are motile and non-motile (primary cilia) subtypes. While the transcriptional regulators of ciliogenesis in motile cilia are well established, the upstream cell-type-specific transcriptional programs for the primary cilium remain poorly understood.
The authors of this preprint previously identified the conserved transcription factor X chromosome-associated protein 5 (Xap5) as a key regulator for the assembly of motile cilia, which prompted them to investigate its role in primary ciliogenesis. Here, they demonstrate that in somatic cells, Xap5 interacts with the nuclear protein Nono and forms a complex required for primary cilium assembly. This complex activates a downstream transcriptional cascade involving Sox5 and Sox9. Interestingly, they find that loss of Xap5 or Nono impairs primary ciliogenesis. Their findings not only identify Xap5 as a master upstream regulator of primary ciliogenesis, but also provide new insights into the transcriptional machinery behind primary cilium formation.

Manuel Lessi

Preprint:

Gene editing in “cell villages” enables exploring disease-relevant mutations in many genetic backgrounds
Rachel A. Battaglia, Sonia Bolshakova, Ilinca Mazureac, Dhara Liyanage, Noah Pettinari, Autumn Johnson, Ethan Crouse, Sartaj Habib, Isabel Flessas, Ajay Nadig, Derek Hawes, Matthew Tegtmeyer, Caroline Becker, Sulagna Ghosh, Giulio Genovese, Marina Hogan, Adrianna Maglieri, Lindy E. Barrett, Laurence Daheron, Steven A. McCarroll, Ralda Nehme

preLight:

Gene editing in “cell villages” enables exploring disease-relevant mutations in many genetic backgrounds

Gene editing is one of the most widely used tools in biology to study how genetic variation shapes phenotype. Over the past decades, major efforts have focused on using technologies such as CRISPR to introduce mutations in genes of interest and investigate their effects on developmentally relevant features, particularly in stem cells, which provide a flexible and physiologically meaningful model. However, generating mutant cell lines is a labor-intensive process, and the challenge becomes even greater when attempting to assess the same mutation across multiple genetic backgrounds. This is especially important in the context of neurodevelopmental disorders such as schizophrenia, where the same variant can produce distinct phenotypes depending on the genomic background.
How do we overcome these limitations? By growing cells together! In this work, the authors created “cell villages,” in which the inhabitants are stem cells derived from different donors. They performed bulk gene editing across the mixed population, then isolated single clones, validated them, and subsequently deconvolved their donor identity. This strategy enabled the generation of dozens of edited cell lines within a single experiment, improving efficiency while reducing labor, time, and technical variability.
The authors then differentiated the edited lines into neurons and successfully detected donor-specific responses to NRXN1 and LRP1 knockout. This approach substantially increases the throughput of gene editing in human stem cells, expanding both the flexibility of the system and the genetic toolkit available to developmental biologists for studying the effects of single-gene variants across diverse genomic contexts.

Theodora M Stougiannou

Preprint:

Human pluripotent stem cell-derived macrophages modify development of human kidney organoids
Filipa M. Lopes, Ioannis Bantounas, Alexandra Sarov, Adrian S. Woolf, Susan J. Kimber

preLight:

To make a kidney is one thing; to have kidney with immune populations is another. An immune update on the classic organoid recipe.

The authors of this preprint used macrophages derived from human pluripotent stem cells (hPSC) collected at varying maturation stages in vitro, and then added these to organoid cultures of kidney precursors. Three different concentration of macrophages – in comparison to constant numbers of nephrogenic cells – were evaluated, namely concentrations of 1%, 5% and 20%. Addition of early-stage macrophages seemed to increase the percentage area occupied by developing glomeruli, though adding too high a number of macrophages hindered kidney development, evident by the reduction in the overall organoid area and the dysmorphic kidney tissue generated. This study highlights the contribution of elements of the immune system, including macrophages, to the embryonic development of other systems, including physiological development of the kidney.

The post preLighters’ choice – November’s handpicked preprints appeared first on the Node.

October highlights

• Multiplexed embryo profiling links cellular state to zygotic genome activation in single cells selected by Deevitha Balasubramanian
• A toolkit for testing membrane-localising tags across species selected by Dillan Saunders
• Post-translational Tuning of Human Cortical Progenitor Neuronal Output selected by Jawdat Sandakly
• A conserved logic for the development of cortical layering in tetrapods selected by Mansi Srivastava
• IPSC-based modeling of resiliency in centenarians reveals longevity-specific signatures selected by Manuel Lessi
• Tissue surface mechanics constrains proliferation-driven forces to guide mammalian body axis elongation selected by Sristilekha Nath
• Generation of parasympathetic neurons from hiPSC that reproduce the electrophysiological properties of native neurons and modulate the activity of hiPSC-atrial cardiomyocytes
  &
  ETV2 mediated differentiation of human pluripotent stem cells results in functional endothelial cells for engineering advanced vascularized microphysiological models selected by Theodora M Stougiannou

Deevitha Balasubramanian

Preprint:

Multiplexed embryo profiling links cellular state to zygotic genome activation in single cells
Max Hess, Marvin F. Wyss, Edlyn Wu, Joel Lüthi, Chiara Rebagliati, Nadine L. Vastenhouw, Darren Gilmour, Shayan Shamipour, Lucas Pelkmans

preLight:

Have you ever wanted to image dozens of your favorite proteins, together, in 3D, and at single-cell resolution?

This preprint describes the development of a 3D adaptation of the previously described iterative indirect immunofluorescence imaging (4i) technique and its application to early zebrafish embryos to explore the heterogeneity in the onset of zygotic genome activation (ZGA). 3D-4i enables multiplexed immunofluorescence and in toto imaging of whole-mount structures, allowing high-resolution and high-throughput visualization of proteins and is supported by a comprehensive image analysis pipeline. Using 3D-4i, the authors capture the levels of proteins like cell cycle regulators, histone modifications, pluripotency factors, and RNA polymerase II at single-cell resolution. This leads to many key findings, including a framework to infer cell cycle phase and accurately predict transcriptional output, revealing how multiple features act collectively to precisely modulate ZGA onset.

Dillan Saunders

Preprint:

A toolkit for testing membrane-localising tags across species
Irene Karapidaki, Mette Handberg-Thorsager, Tsuyoshi Momose, Hitoyoshi Yasuo, Grigory Genikhovich, Sarah Assaf, Clara Deleau, Ying Pang, Clayton Pavlich, Beke Lohmann, Maria Lorenza Rusciano, Mattia Stranges, Juliette Mathieu, Marie Zilliox, Kirill Ustyantsev, Bastien Salmon, Béryl Laplace-Builhé, Manon Koenig, Jeffrey J. Colgren, Maria Ina Arnone, Eugene Berezikov, Thibaut Brunet, Gregor Bucher, Pawel Burkhardt, Daniel J. Dickinson, Evelyn Houliston, Jan Huisken, Lucas Leclère, Michalis Averof

preLight:

All things bright and beautiful. 

Advances in technology have made detailed study of non-model organisms more feasible, yet there is always a challenge in applying existing techniques to new systems. The authors take a systemic approach to screening a varied set of membrane-localisation tags in the early embryos of a wide range of organisms. They identify several tags that display strong, membrane specific fluorophore localization in many species but highlight that no single tag is ubiquitously successful. This work is an open science project that combines the efforts of many labs to provide a useful community resource. Check this preprint out if you’re looking to label membranes in your species of interest!

Jawdat Sandakly

Preprint:

Post-translational Tuning of Human Cortical Progenitor Neuronal Output
Julien Pigeon, Tamina Dietl, Myriame Abou Mrad, Ludovico Rizzuti, Miguel V. Silva, Natasha Danda, Corentine Marie, Clarisse Brunet Avalos, Hayat Mokrani, Laila El Khattabi, Alexandre D. Baffet, Diogo S. Castro, Carlos Parras, Boyan Bonev, Bassem A. Hassan

preLight:

A novel role for PTMs in fine tuning neurogenesis.

While human brain development has long been linked to alterations in genomic sequence, the authors raise the question: do post translational modifications (PTMs) offer a complementary mechanism in shaping human brain evolution ? In particular,  they focus on Neurogenin 2 (NEUROG2), a master regulator of neural fate and neuronal identity specification, whose activity is dependent on PTMs such as phosphorylation. Through a combination of genome editing, high-throughput imaging, and single-cell multiomics, they investigate whether NEUROG2 has evolved species-specific functional plasticity in human radial glial cells (RGCs). They find that the human NEUROG2 regulates both deep and upper layer neuron production and controls the balance between proliferative and neurogenic divisions in RGCs via its phosphorylation at residue T149. This phosphorylation tunes AP-1 (JUN/FOS) driven gene regulatory networks in RGCs, enhancing neurogenic commitment and increasing upper-layer neuron production. Phospho-mutant NEUROG2 promotes premature chromatin opening at AP-1 binding sites, priming RGCs for differentiation without accelerating neuron maturation. Overall, their findings suggest that the evolutionary innovations in brain development do not solely rely on genetic changes but can also arise through modifications of conserved proteins.

Mansi Srivastava

Preprints:

A conserved logic for the development of cortical layering in tetrapods
Astrid Deryckere, Saket Choudhary, Connor Lynch, Lian Kirit V. P. Limperis, Pauline Affatato, Jamie Woych, Elias Gumnit, Alonso Ortega Gurrola, Rahul Satija, Christian Mayer, Maria Antonietta Tosches

&

An atlas of shark developing telencephalon reveals ancient origin of basal progenitors and Cajal-Retzius cells
Idoia Quintana-Urzainqui, Tobias Gerber, Phillip A. Oel, Leslie Pan, Nikolaos Papadopoulos, Z. Gülce Serka, Ana Verbanac, Maite Börsig, Dorinda Torres-Sabino, Isabel Clara Rollán-Delgado, Luca Santangeli, Henrik Kaessmann, Detlev Arendt

preLight:

Shark and Salamander – pioneers in building beautiful brains.

“Evolutionary change is often driven by changes in development.”

Most of our understanding of brain development comes from studying the mouse (mammal). However, a tubular brain and backbone are the defining features of a subphylum – vertebrata. What if mammalian brain development actually combines elements found in the brain developmental programs of fish, salamanders, and birds, much like a musical genre blending influences from several styles?
These two papers dig into shark and salamander brains using a combination of single-cell RNA sequencing, spatial transcriptomics, birth-dating, lineage tracing, and computational approaches to learn the origin of brain development as we know it.

Combining these two papers is as satisfying as putting together a jigsaw puzzle.

• The shark brain has field-level homology with that of the salamander and mouse.
• Both sharks and salamanders have multipotent progenitors that give rise to intermediate progenitors: the driving force behind big brains.
• The Cajal-Retzius cells marked their enigmatic presence in sharks.
• In salamander, the molecular identity, layer position, and projection are functions of birthdate.

With this prologue, dive into the many observations these two papers make, and discuss where the point of difference arose in the vertebrates that made their brains look and behave differently. 

Manuel Lessi

Preprint:

IPSC-based modeling of resiliency in centenarians reveals longevity-specific signatures
Todd W. Dowrey, Samuel F. Cranston, Nicholas Skvir, Yvonne Lok, Payton Bock, Elizabeth K. Kharitonova, Elise MacDonald, Ella Zeldich, Christopher Gabel, Alexander Tyshkovskiy, Stefano Monti, Vadim N. Gladyshev, Paola Sebastiani, Thomas T. Perls, Stacy L. Andersen, George J. Murphy

preLight:

Giving new life to elderly cells reveals what makes them resilient to aging.

Understanding the molecular and cellular mechanisms that govern aging has been, and will likely remain, a central question for humanity. What better way to approach this challenge than by studying individuals who appear to defy canonical aging mechanisms? In this study, the authors generated pluripotent stem cells from a cohort of centenarians and differentiated them into excitatory cortical neurons. Molecular and cellular comparisons with neurons from non-centenarian individuals revealed that centenarian-derived neurons exhibit a distinct resilience signature, marked by enhanced synaptic integrity, calcium homeostasis, and energy-efficient metabolism at baseline. When challenged, these neurons demonstrated superior dynamic stress responses, in contrast to non-centenarian neurons, which showed chronic proteostatic stress activation and blunted responsiveness. Overall, this work highlights the versatility of the stem cell platform in uncovering molecular mechanisms that confer resilience to aging in neural systems. This represents a foundational resource for investigating the determinants of aging across diverse cell types and developmental contexts, leveraging the innate ability of stem cells to recapitulate key human developmental processes.

Sristilekha Nath

Preprint:

Tissue surface mechanics constrains proliferation-driven forces to guide mammalian body axis elongation
Marc Trani-Bustos, Ryan G Savill, Arthur Boutillon, Petr Pospíšil, Deniz Conkar, Claudia Froeb, Johannes R Soltwedel, Heidi L van de Wouw, Ellen M Sletten, Jesse V Veenvliet, Otger Campàs

preLight:

Decoding mammalian body axis elongation: a supracellular ‘actin cap’ in action.

Body axis elongation is fundamental to establishing a head-to-tail body plan in vertebrates, including mammals. Although the genetic and biochemical pathways involved are well studied, the physical forces that help shape the mammalian axis remain less understood. To investigate these mechanisms, the authors of this preprint used mouse and human stem-cell-derived gastruloids, an accessible model that bypasses the challenges of working with embryos in utero. By integrating a previously developed gastruloid analysis framework and oil droplet-based deformation measurements, the authors aimed to uncover the mechanical forces at play. Their findings show that randomly oriented cell divisions generate isotropic expansive forces throughout the gastruloid during the elongation period. However, a posteriorly enriched actin network, termed the ‘actin cap’, provides localized mechanical resistance, preventing tissues at the posterior domain from expanding laterally, thereby guiding the elongation of the body axis.  Apart from mouse and human gastruloids, mouse embryo explants display similar proliferation and actin patterns, supporting the idea that this actin cap–based mechanical constraint is a conserved and previously overlooked mechanism in mammalian axis elongation. 

Theodora M Stougiannou

Preprint #1:

Generation of parasympathetic neurons from hiPSC that reproduce the electrophysiological properties of native neurons and modulate the activity of hiPSC-atrial cardiomyocytes
Alison M. Thomas, Isabella Noelle Chiong, Joana F Neves, Andrew Tinker, Franziska Denk,  Laura Fedele

preLight:

What if we could use patient cells to generate neurons that can replace dysfunctional native cells and tackle diseases characterised by the aberration of atrial electromechanical activity, namely atrial fibrillation? This is the question the authors of this manuscript in preprint answer, a detailed protocol for the derivation of parasympathetic neurons from human induced pluripotent stem cells (hiPSC). The described protocol includes several useful features, including the lack of batch-testing for growth factors as well as the integration of electrophysiological and functional assessment testing to specifically identify the presence of parasympathetic neurons. The authors also describe cellular features the user should look out for, to ensure proper progression through the protocol steps, including the presence of smooth spheroids during the Embryoid bodies stage and the presence of neuronal-like projections during the neuronal differentiation stage, the expression of specified markers of autonomic (ASCL1, PHOX2B) and parasympathetic (CHAT, VACHT) populations and markers of autonomic neuron development (ISL1). The protocol also includes troubleshooting sections, which is sure to help new users make the most of it.

Preprint #2:

ETV2 mediated differentiation of human pluripotent stem cells results in functional endothelial cells for engineering advanced vascularized microphysiological models
Shun Zhang, Zhengpeng Wan, Lei Wang, Caihong Wu, Junkai Zhang, Sarah Spitz, Xun Wang, Marie A. Floryan, Mark F Coughlin, Francesca M. Pramotton, Liling Xu, Ron Weiss, Roger D. Kamm

preLight:

Water must flow, but will blood in in vitro models do the same? In this study, the authors generate endothelial cells (EC) derived from human induced pluripotent stem cells (hiPSC); efficiency of hiPSC-derived EC generation is enhanced via overexpression of ETV2, a factor involved in vascular and cardiac development. In short, expression of ETV2 is induced in the hiPSC lines used; these are then subjected to differentiation protocols that will eventually generate EC. In vitro, these same cell lines can self-assemble into stable and lumenized microvascular networks (MVN) on the surface of microfludic chips; more importantly, however, no such success in vascular formation has been observed in lines subjected to the conventional differentiation models, highlighting the importance of growth factor overexpression in pluripotent source populations. This study provides an answer to the problem of organoid vascularization and can be applied in models examining tumor vascularization as well as models evaluating the blood brain barrier (BBB).

The post preLighters’ choice – October’s handpicked preprints appeared first on the Node.

Traditionally, developmental biology has been considered the study of the embryo, and significant events such as metamorphosis or birth signify the pinnacle of development. However, we now better appreciate that development is a continuum and that – as in plants – developmental processes occur throughout the lifetime of an animal. Cell fate specification and differentiation, morphogenesis and patterning can continue after embryonic development; growth, degrowth, ageing, regeneration, and even reverse development (e.g. in some disease states) are just some examples of development-like processes occurring during the life history of a species. This special issue sought to draw these connections and to highlight how embryonic studies have revealed fundamental lifelong principles, advocating for a broader interpretation of developmental biology that circumvents restriction to specific stages in the life cycle.

The 26 research and review-type papers published in this issue illustrate this goal, including a breadth of mechanisms, research organisms and organ types. A selection of Research Articles demonstrates how several tissues and organs continue to develop, differentiate and mature during post-embryonic stages, establishing the principle of lifelong development. These examples include the mouse gut (Pan et al., 2025) and adipose tissue (Mahapatra et al., 2025), zebrafish vasculature (Preußner et al., 2025), and the Caenorhabditis elegans germline (Gupta et al., 2025). The mammalian nervous system represents a particularly well-studied example of postnatal refinement in response to sensory stimuli and learning. Therefore, we are glad to capture studies that discuss the ongoing development of retinal cells (Shah et al., 2025) and visual cortex (Xavier et al., 2025), microglia (Hammond et al., 2025), astrocytes (Iyer et al., 2025) and neurons (Liu et al., 2025). In addition to an extension of embryonic development, some tissues and organs undergo extensive remodelling during metamorphosis in invertebrates or puberty in humans (Rauner et al., 2025), and tissue-resident stem cells are crucial for the homeostasis and maintenance of adult tissues, which may also change behaviour over a lifespan due to shifting niche environments (Puri and Blanc, 2025).

Beyond these examples of post-embryonic development, regeneration offers perhaps the most striking illustration of development-like processes occurring in adults. We are therefore excited that regenerative studies are well represented in the special issue. Research papers characterise the initial molecular events and signalling in regeneration (Quinn et al., 2025), as well as the regeneration of specific tissues and organs, such as the zebrafish skin (Craig et al., 2025) and heart (Feng et al., 2025; Forman-Rubinsky et al., 2025). Whole-body regeneration is also explored in planarians, with studies revealing how these species maintain robust regenerative potential throughout life (Zelko et al., 2025), and the mechanisms by which polarity and patterning are re-established during regeneration (Anderson and Petersen, 2025; Miliard et al., 2025). In addition, our review-type content highlights a recent workshop from this field (Bayin et al., 2025), the interplay between vertebrate regeneration and the nervous system (Wakelin and Johnston, 2025; Tendolkar and Mokalled, 2025) and non-traditional model systems with remarkable regenerative potential (García-Arrarás et al., 2025). We are pleased that one of these organisms, the tapeworm, also features in a Research Article in the same issue (Nanista et al., 2025). Moreover, our Techniques and Resources articles provide valuable references for studying adult stages of highly plastic species (Temiz et al., 2025; Little et al., 2025), with a Hypothesis article exploring such phenotypic plasticity as the basis of complex developmental potential (Dardiry and Ikmi, 2025).

This special issue underscores the continuity of developmental processes across the lifespan from embryogenesis to regeneration, tissue maintenance and phenotypic plasticity. By linking classical developmental biology and emerging insights into post-embryonic and adult stages, we aim to broaden the field’s conceptual understanding of developmental biology. We hope you enjoy reading the issue and that it inspires further investigation of how developmental mechanisms operate beyond early life, adapt to environmental cues, and contribute to lifelong organismal plasticity. Development welcomes future submissions that explore these dynamic and evolving aspects of development across diverse systems and life stages.

The post Beyond the beginning – development that lasts a lifetime appeared first on the Node.

The question

You may know the axolotl (Ambystoma mexicanum), its funny face and gills floating around its head.

What you may not know is that it is also a model organism for organ regeneration thanks to its ability to regenerate many body parts, including its limbs. This is possible because cells know and remember where they are and can use this knowledge to inform the regeneration process. Cells found at the front of the limb possess so-called anterior identity, while those at the back hold posterior identity information. After amputation, cells from the anterior and posterior parts of the stub meet and trigger correct limb regeneration.

But how do cells know to produce a new limb after limb amputation, and not a tail or head instead?

The molecular bit

A recent study by Otsuki and colleagues¹, highlighted in a News & Views article², investigates the process of limb regeneration in axolotl through transgenic lines, transcriptomics and grafting experiments.

Otsuki and colleagues found that posterior identity in axolotl is established and maintained by a positive feedback loop that involves Hand2, a protein that controls the expression of other genes, and Shh (Sonic hedgehog), a signalling protein involved in limb growth. During development, Hand2 is expressed in posterior cells, and it is present at a steady state in adults. During regeneration, Hand2 is necessary and sufficient to induce the expression of Shh, which in turn activates Hand2 expression in nearby cells, sustaining the establishment of posterior identity in the new limb. After regeneration, Shh expression stops but residual Hand2 ensures lasting positional memory.

The unexpected discovery and why it matters

Interestingly, Otsuki and colleagues were able to rewire anterior-posterior memory, but only during regeneration and in one direction: anterior cells can stably acquire posterior identity when placed in posterior zones (or upon transient Shh signalling), but the opposite leads to defective limb regeneration.

The results presented by Otsuki and colleagues represent an important step forward in the understanding and manipulation of organ regeneration, and future studies into therapeutic applications in humans will benefit from this important work.

References

1. Otsuki, L., Plattner, S. A., Taniguchi-Sugiura, Y., Falcon, F. & Tanaka, E. M. Molecular basis of positional memory in limb regeneration. Nature 1–9 (2025) doi:10.1038/s41586-025-09036-5.

2. Wu, S. Y. C. & Whited, J. L. How axolotl cells ‘remember’ development to rebuild a lost limb. Nature d41586-025-01447–8 (2025) doi:10.1038/d41586-025-01447-8.

The post Limb regeneration guide for axolotls appeared first on the Node.

Previously, I’ve been busy travelling back to February 2011, March 2013, April 2014, May 2016, June 2013 and July 2013.

After so much travelling, my time machine is getting a bit unpredictable… in case I accidentally get stuck in the past, I’m afraid this post will be the very last time I’ll be time travelling. What a journey it’s been! If you’d like to do some time travelling yourself, you can do so using the Node’s search and filter function.

The post The Node Time Machine – August 2010 appeared first on the Node.

The preprints this month are hosted on bioRxiv – use these links below to get to the section you want:

Developmental biology

• Patterning & signalling
• Morphogenesis & mechanics
• Genes & genomes
• Stem cells, regeneration & disease modelling
• Plant development
• Environment, evolution and development

Cell Biology

Modelling

Tools & Resources

Research practice and education

Developmental biology

| Patterning & signalling

Deconstructing the common anteroposterior organisation of adult bilaterian guts
Stefano Davide Vianello,  Ching-Yi Lin, Wahyu Cristine Pinem, Han-Ru Li,  Kun-Lung Li, Grace Sonia,  Shu-Hua Lee, Szu-Kai Wu,  Vincent Laudet,  Yi-Hsien Su,  Jr-Kai Yu,  Stephan Q. Schneider

Alizarin red perturbs skeletal patterning and biomineralization via Catalase inhibition
Abigail E. Descoteaux, Marko Radulovic, Mayank Ghogale, Santhan Chandragiri, Deema Abayawardena, Bikram D. Shrestha, Athula H. Wikramanayake,  Vivek N. Prakash,  Cynthia A. Bradham

Spatiotemporal Coordination of Guidance Cues Directs Multipolar Migration During Retinal Lamination
Jaakko I Lehtimäki,  Jingtao Lilue,  Mario Del Rosario,  Elisa Nerli,  Ricardo Henriques,  Caren Norden

Retinoic acid-responsive hox genes in hoxba and hoxbb clusters direct pharyngeal pouch formation in zebrafish
Sohju Toyama, Nanami Hamano, Junpei Imagawa, Takumi Sugawara, Renka Fujii, Morimichi Kikuci, Yuki Kawabe, Akinori Kawamura

Regulation of mRNA polyadenylation governs mammalian body plan formation in gastruloids
David Taborsky, Fabiola Valdivia-Francia, Neguin Ranjbar, Laura Llop-Grau, Clara Duré, Umesh Ghoshdastider, Peter F. Renz, Ramona Weber, Merve Yigit, Aleksei Mironov, Katie Hyams, Stefano Vianello, Mihaela Zavolan, Matthias P. Lutolf, Ataman Sendoel

Temporal coordination of tissue transformation, olfactory sensory neural development and central axon projections through morphogens
Shao-Chieh Chen, Tsai-Ming Lu, Chun-Ting Lin, Iris Low, Ya-Hui Chou

Dual Bmp-negative feedback loops modulate both AER and ZPA function to buffer and constrain postaxial digit number
Rashmi Patel, Susan Mackem

A hormonally regulated gating mechanism controls EMT timing to ensure progenitor cell specification occurs prior to epithelial breakdown
Andrew T Plygawko, Jamie Adams, Zack Richards, Kyra Campbell

The Calcium Pump ATP2B1/PMCA1 Regulates CNS Vascular Development by Facilitating Norrin- and WNT7A/B-induced Frizzled4 signaling
Ha-Neul Jo, Elizabeth Kiffmeyer, Chi Zhang, Lingling Zhang, Emmanuel Odame, Quynh Chau Dinh, Jacklyn Levey, Miranda Howe, Kyle J. Roux, Klaus-Dieter Fischer, Zhe Chen, Harald J. Junge

Hedgehog and Bmp signaling pathways play opposing roles during establishment of the cardiac inflow tract in zebrafish
Rhea-Comfort A. Robertson, Hannah G. Knight, Catherine Lipovsky, Jie Ren, Neil C. Chi, Deborah Yelon

A pivotal role for Wnt antagonists in constraining Wnt activity to promote digit joint specification
Bau-Lin Huang, Sean Davis, Eiki Koyama, Maurizio Pacifici, Susan Mackem

The neurotrophin DNT-2 regulates cell survival and connectivity via the Toll-2 receptor during visual system development of Drosophila
Naser Alshamsi, Francisca Rojo-Cortés, Bangfu Zhu, Samaher Fahy, Guiyi Li, Anna Lassota, Marta Moreira, Alicia Hidalgo

Gradient of Wnt signaling facilitates Mef2 heterogeneity and limits commitment of the developmental muscle progenitor pool
Laura Schütze, Maria Jelena Musillo, Bilyana Popova, Natalja Engel, Verena Holzwarth, Milena Lucia Hild, Anna Geissdorf, Jennifer Nadine Gross, Ingrid Lohmann, Josephine Bageritz

Dynamic Functional Pathway Development in Type 1 Spinal Interneurons: Stage-specific roles of retinoic acid activity
Dina Rekler, Sarah Kagan, Noa Rachel Krutous, Gilgi Friedlander, Chaya Kalcheim

Quantifying bristle cell organization in Drosophila melanogaster using spatial clustering features
Wisdom K. Attipoe, Audrey Neighmond, Oakley Waters, S.H Dinuka Sewwandi De Silva, Ginger L. Hunter, Emmanuel Asante-Asamani

Socially regulated developmental plasticity in the color pattern of an anemonefish
Laurie J. Mitchell, Saori Miura, Youjung Han, Jann Zwahlen, Camille A. Sautereau, Bruno Frédérich, Vincent Laudet

A novel function for Prdm12 during neural crest migration reveals a link between Wnt and N-cadherin
Subham Seal, Cécile Milet, Chenxi Zhou, Anne-Hélène Monsoro-Burq

A neurovascular template guides the spatial and functional compartmentalization of the adrenal gland
Alessia Motta, Santo Diprima, Aurora Badaloni, Ganesh Parameshwar Bhat, Elena Ioannou, Chiara Malpighi, Ilaria Brambilla, Chiara Saulle, Alessandro Sessa, Christiana Ruhrberg, Dario Bonanomi

Essential regulation of heparan sulfate proteoglycan signalling controls cell behaviour to support cardiac development
Andia N. Redpath, Irina-Elena Lupu, Louis Haffreingue, Quang Dang, Ian R. McCracken, Tamara Carsana, Toin H. van Kuppevelt, Joaquim Miguel Vieira, Nicola Smart

Nuclear rerouting of paracrine Fgf3 in source cells represses target genes to pattern morphogen responses
Sevi Durdu, Murat Iskar, Alicia Roig-Merino, Elisa Gallo, Ezgi Karaca, Andreas Kunze, Erika Donà, Peer Bork, Dirk Schübeler, Darren Gilmour

| Morphogenesis & mechanics

Three-Dimensional-Mapping of Smooth Muscle Morphogenesis in the Vertebrate Gastrointestinal Tract
Salomé Ruiz Demoulin,  Amandine Falco,  Norbert Chauvet,  Pascal de Santa Barbara,  Sandrine Faure

Mechanical Coordination of Intestinal Cell Extrusion by Supracellular 3D Force Patterns
Marija Matejčić, Meng Wang, Elia López Serrano, Carlos Pérez-González, Ronja Houtekamer, Gerardo Ceada, Pere Roca-Cusachs, Martijn Gloerich,  Xavier Trepat

Long-range chemical signalling in vivo is regulated by mechanical signals
Eva K. Pillai, Sudipta Mukherjee, Niklas Gampl, Ross J. McGinn, Katrin A. Mooslehner, Julia M. Becker, Alex Winkel, Amelia J. Thompson,  Kristian Franze

A protocadherin mediates cell-cell adhesion and integrity of the oral placode in the tunicate Ciona
Sriikhar Vedurupaka, Bita Jadali, Christopher J. Johnson,  Alberto Stolfi, Sydney Popsuj

Three-Dimensional Mechanical Cooperativity Optimises Epithelial Wound Healing
Shu En Lim, Pablo Vicente-Munuera, Robert J. Tetley, Martin Zhang, José J. Muñoz, Yanlan Mao

Transient versican expression is required for β1-Integrin accumulation during podocyte layer morphogenesis in amphibian developing kidney
Isabelle Buisson, Jean-François Riou, Muriel Umbhauer, Ronan Le Bouffant, Valérie Bello

Basal Cell-Contact Dynamics Influence Tissue Packing in a Proliferating Mammalian Epithelium
Subramanian P. Ramanathan, Tanmoy Sarkar, Matej Krajnc, Rosemary Mwithiga, Azize Cerci, Chongbei Zhao, Matthew C. Gibson

Molecular dynamics of the matrisome across sea anemone life history
B. Gideon Bergheim, Alison G. Cole, Mandy Rettel, Frank Stein, Stefan Redl, Michael W. Hess, Aissam Ikmi, Suat Özbek

A role for Myosin in triggering and executing amnioserosa cell delaminations during dorsal closure
Nicole Gorfinkiel, Yanara Ferrer, Jon Recalde, Javier Gutiérrez, Guillermo Sáez

Dynamic interactions between epithelial skin cells and a sensory cavity sculpt the growing olfactory orifice
Gordillo Pi Clara, Cabrera Mélody, Gilles Jean-François, Bardet Pierre-Luc, Eschstruth Alexis, Bonnet Isabelle, Breau Marie Anne, Baraban Marion

| Genes & genomes

KMT2C and KMT2D regulate skeletal development through stage-specific epigenetic control of chondrogenesis
Gabrielle Quickstad, Dimitrios V. Bikas, Sara Vardabasso, Karl B. Shpargel

Single-oocyte transcriptional profile of early-stage human oocytes reveals differentially expressed genes in the primordial and transitioning stages
J. H. Machlin, D. F. Hannum, A. S.K. Jones, T. Schissel, K. Potocsky, E. E. Marsh, S. Hammoud, V. Padmanabhan, J.Z. Li,  A. Shikanov

Nucleation-dependent propagation of Polycomb modifications emerges during the Drosophila maternal to zygotic transition
Natalie Gonzaga-Saavedra,  Eleanor A. Degen,  Isabella V. Soluri,  Corinne Croslyn,  Shelby A. Blythe

Transcriptome comparison between the cultured and in vivo Chick Primordial Germ Cells by SMART-seq-based single cell RNA sequencing
Yoshiki Hayashi, Atsushi Doi, Hiroko Iikawa, Hirokazu Kimijima, Yutaka Suzuki, Akinori Kanai, Hideki Hirakawa,  Daisuke Saito

Early transcriptional divergence underlies cell fate bias in bovine embryos
Koyama Hinata, Daisuke Mashiko, Masahiro Kaneda, Atchalalt Khurchabilig,  Satoshi Sugimura

Disruption of hemocyte differentiation and distribution in Drosophila Ptr23c mutants
Cristina Parada,  María Constanza Silvera, Tabaré de los Campos,  Rafael Cantera,  Carmen Bolatto,  Daniel Prieto

An Epigenomic Roadmap Primes Non-Growing Oocytes for Maturation and Early Embryogenesis
Mengwen Hu,  Yasuhisa Munakata,  Yu-Han Yeh, Han Wang,  Neil Hunter, Richard M. Schultz,  Satoshi H. Namekawa

FLYWCH transcription factors act in a LIN-42/Period autoregulatory loop during gonad migration in C. elegans
Brian Kinney, Jason Menjivar-Hernandez, Fred Koitz, Dmitry Grinevich, Madonna Baselios,  Christopher M. Hammell,  Kacy Lynn Gordon

Conserved roles of GATA4 and its target gene TBX2 in regulation of human cardiogenesis
Nicola Graham, Pavel Kirilenko, Ilya Patrushev, Ewan D. Fowler, Peter Kille, Michael Gilchrist, Nick D.L. Owens,  Branko Latinkic

Single-nucleotide Resolution Epitranscriptomic Profiling Uncovers Dynamic m6A Regulation in Bovine Preimplantation Development
Rajan Iyyappan, Yichi Niu, Ming Hao, Kinga Pajdzik, Noah R. Rakestraw, Piyush K. Jain, Chuan He,  Chenghang Zong,  Zongliang Jiang

Predicting disease-overarching therapeutic approaches for Congenital Disorders of Glycosylation using multi-OMICS
I.J.J. Muffels, R. Budhraja, R. Shah, S. Radenkovic, E. Morava, T Kozicz

Genetic variation reveals a homeotic long noncoding RNA that modulates human hematopoietic stem cells
Peng Lyu, Gaurav Agarwal, Chun-Jie Guo, Tianyi Ye, Chen Weng, Mateusz Antoszewski, Samantha Joubran,  Alexis Caulier, Michael Poeschla,  Vijay G. Sankaran

Novel Fluorescent and Photoconvertible Fusions Reveal Dorsal Activator Dynamics
Meghan A. Turner, Nicholas M. Gravina, Bruno Moretti, Sadia Dima, Gabriella Martini, Greg Reeves, Hernan G. Garcia

Genetic lineage tracing identifies intermediate mesoderm as a novel contributor to mammalian kidney lymphatics
Daniyal J Jafree, Lauren G Russell, Athanasia Stathopoulou, Christopher J Rowan, Andrew T White, Charlotte O’Riordan, Maria Kolatsi-Joannou, Karen L Price, Sarah Ivins, Liam A Ridge, Catherine Roberts, Jennie C Chandler, Laura Wilson, Dale Moulding, Julie Siegenthaler, Adrian S Woolf, Paul R Riley, Christiana Ruhrberg, Peter J Scambler, Norman D Rosenblum, David A Long

The CFII components PCF11 and Cbc change subnuclear localization as cells differentiate in the male germ line adult stem cell lineage
Iliana Nava, Margaret T. Fuller, Lorenzo Gallicchio

PRDM paralogs are required for Meckel’s cartilage formation during mandibular bone development
Qootsvenma Denipah-Cook, Bryanna V. Saxton, Kristin B. Artinger, Lomeli C. Shull

SOX9 is part of a combinatorial marker that reveals early development and embryological origins of the mouse brown adipose tissue depots
Ava E. Brent, Rika Chan, Vaishnavi Sirkay, Brian R. Morton, Jennifer H. Mansfield

Single-cell spatial mapping reveals reproducible cell type organization and spatially-dependent gene expression in gastruloids
Catherine G. Triandafillou, Pranav Sompalle, Yael Heyman, Arjun Raj

The SMARCA5–DMRT1 Pioneer Complex Establishes Epigenetic Priming to Direct Male Germline Development
Yuka Kitamura, Yasuhisa Munakata, Hironori Abe, Mengwen Hu, Satoyo Oya, Shanmathi Murugesan, Mahnoor Rizwan, Shawna P. Katz, David J. Picketts, Richard M. Schultz, Satoshi H. Namekawa

Developmental analysis of the cone photoreceptor-less little skate retina
Chetan C. Rangachar, Denice D. Moran, Mark M. Emerson

Lower-order methylation states underlie the maintenance and re-establishment of Polycomb modifications in Drosophila embryogenesis
Eleanor A. Degen, Natalie Gonzaga-Saavedra, Shelby A. Blythe

DAXX governs the silencing of LINE1 during spermatogenesis in mice
Zejia Li, Chaoyang Xiong, Jin Shen, Chen Tan, Dupeng Ma, Jun Chen, Rong Liu, Qi Sun, Weihao Gong, Wenming Yuan, Mengya Huang, Li Huang, Yueqiu Tan, Guohong Li, Mengcheng Luo

Polycomb Repressive-Deubiquitinase Complex Safeguards Oocyte Epigenome and Female Fertility by Restraining Polycomb Activity
Jinwen Kang, Peiyao Liu, Shoko Ichimura, Lauryn Cook, Zhiyuan Chen

Nuclear RNA cap-chaperones eIF4E and NCBP2 govern distinct fates for 1000s of mRNAs uncovering an unexpected regulatory point in gene expression
Jean-Clement Mars, Caleb M. Embree, Biljana-Culjkovic-Kraljacic, Aidan W.B. Carlile, Patrick Gendron, Katherine L.B. Borden

Maternal CENP-C restores centromere symmetry in mammalian zygotes to ensure proper chromosome segregation
Catherine A. Tower, Gabriel Manske, Emily L. Ferrell, Dilara N. Anbarci, Kelsey Jorgensen, Binbin Ma, Mansour Aboelenain, Rajesh Ranjan, Saikat Chakraborty, Lindsay Moritz, Arunika Das, Michele Boiani, Ben E. Black, Shawn Chavez, Erica E. Marsh, Ariella Shikanov, Karen Schindler, Xin Chen, Saher Sue Hammoud

The Dream and MEC NuRD Complexes reinforce SPR-5/MET-2 maternal reprogramming to maintain the germline-soma distinction
Sindy R. Chavez, Jazmin Dozier, Saahj P. Gosrani, Sandra K. Nguyen, Jovan S. Brockett, Sarah D. Blancher, Sydney L. Morgan-Benitez, Juan D. Rodriguez, Onur Birol, Monica N. Reeves, Karen L. Schmeichel, David J. Katz, Brandon S. Carpenter

Loss of CTLH component MAEA impairs DNA repair and replication and leads to developmental delay
Soren H. Hough, Satpal S. Jhujh, Samah W. Awwad, Simon Lam, John C. Thomas, Oliver Lewis, Thorsten Mosler, Aldo S. Bader, Lauren E. Bartik, Shane McKee, Shivarajan M. Amudhavalli, Estelle Colin, Nadirah Damseh, Emma Clement, Pilar Cacheiro, Anirban Majumdar, Damian Smedley, Isabelle Thiffault, Guido Zagnoli Vieira, Rimma Belotserkovskaya, Stephen J. Smerdon, Petra Beli, Yaron Galanty, Christopher J. Carnie, Grant S. Stewart, Stephen P. Jackson

Approximate Bayesian computation supports a high incidence of chromosomal mosaicism in blastocyst-stage human embryos
Qingya Yang, Sara A. Carioscia, Matthew Isada, Rajiv C. McCoy

| Stem cells, regeneration & disease modelling

MYCBP interacts with Sakura and Otu and is essential for germline stem cell renewal and differentiation and oogenesis
Azali Azlan,  Ryuya Fukunaga

From Development to Regeneration: Insights into Flight Muscle Adaptations from Bat Muscle Cell Lines
Fengyan Deng,  Valentina Peña, Pedro Morales-Sosa,  Andrea Bernal-Rivera, Bowen Yang, Shengping Huang, Sonia Ghosh, Maria Katt, Luciana Castellano, Cindy Maddera,  Zulin Yu,  Nicolas Rohner,  Chongbei Zhao,  Jasmin Camacho

Genetics of growth rate in induced pluripotent stem cells
Brian N. Lee,  Henry J. Taylor, Filippo Cipriani,  Narisu Narisu,  Catherine C. Robertson, Amy J. Swift,  Neelam Sinha, Tingfen Yan,  Lori L. Bonnycastle, Nathan Dale, Annie Butt, Hemant Parsaud,  Stefan Semrau, NYSCF Global Stem Cell Array Team, GENESiPS Consortium, iPSCORE Consortium,  Joshua W. Knowles,  Ivan Carcamo-Orive,  Agnieszka D’Antonio-Chronowska,  Kelly A. Frazer,  Leslie G. Biesecker,  Scott Noggle,  Michael R. Erdos,  Daniel Paull,  Francis S. Collins,  D. Leland Taylor

Epidermal Stem Cells Control Periderm Injury Repair via Matrix-Driven Specialization of Intercellular Junctions
Helen Mengze He, Liana C. Boraas, Jon M. Bell, Xiangyu Gong, Sophia L. Iannaccone, Zhang Wen, Michael Mak, Marina Carlson, Kaelyn Sumigray, Stefania Nicoli

Two parallel lineage-committed progenitors contribute to the developing brain
Carolyn E. Dundes, Rayyan T. Jokhai, Hadia Ahsan, Rachel S. Kang, Rachel E.A. Salomon-Shulman, Arjun Rajan, Yoon Seok Kim, Liam J. Stanton, Christine Xu, Stephanie Do, Brennan D. McDonald, José Miguel Andrade López, Hugo A. Urrutia, Hannah Greenfeld, Alicia Wong, Yimiao Qu, Andrew S. Petkovic, Yi Miao,  K. Christopher Garcia, Michelle Monje, Daniel E. Wagner,  Marianne E. Bronner, Christopher J. Lowe,  Kyle M. Loh

An organoid model of the menstrual cycle reveals the role of the luminal epithelium in regeneration of the human endometrium
Konstantina Nikolakopoulou,  Weand Ybañez,  Lhéanna Klaeylé,  Lisa Frugoli,  Hans-Rudolf Hotz,  Charlotte Soneson,  Margherita Yayoi Turco

Thrombin-preconditioned Mesenchymal Stem Cell-Derived Exosomes For Wound Healing in vitro and in vivo
Liu Yang, Minming Lou, Hongwei Wang, Shuo Zhang,  Jie Ma

ASD mutations in the ciliary gene CEP41 impact development of projection neurons and interneurons in a human cortical organoid model
Kerstin Hasenpusch-Theil, Alexandra Lesayova, Zrinko Kozic, Mariana Beltran, Grace Wilson,  Neil C Henderson,  Owen Dando, Thomas Theil

Fetal reversion from diverse lineages sustains the intestinal stem cell pool and confers stress resilience
Sakura Kirino, Fumiya Uefune, Kensuke Miyake, Nobuhiko Ogasawara, Sakurako Kobayashi, Satoshi Watanabe, Yui Hiraguri, Go Ito, Keiichi Akahoshi, Daisuke Ban, Johan H. van Es,  Hans Clevers, Mamoru Watanabe,  Ryuichi Okamoto,  Shiro Yui

Stem cells actively suppress regenerative plasticity in human colon
Joris H. Hageman, Defne Yalcin, Julian R. Buissant des Amorie, Sascha R. Brunner, Thomas A. Kluiver, Aleksandra Balwierz, Franziska L. Langner, Maria C. Puschhof, Yannik Bollen, Thanasis Margaritis, Hugo J.G. Snippert

Gastruloid patterning reflects division of labor among biased stem cell clones
Vinay Ayyappan, Catherine Triandafillou, Kavitha Sarma, Arjun Raj

Single-cell spatial mapping reveals reproducible cell type organization and spatially-dependent gene expression in gastruloids
Catherine G Triandafillou, Pranav Sompalle, Yael Heyman, Arjun Raj

Juxtaposition of human pluripotent stem cells with amnion-like cells is sufficient to trigger primitive streak formation
Xiangyu Kong, Anastasiia Nemashkalo, M Cecilia Guerra, Miguel Angel Ortiz-Salazar, Elena Camacho-Aguilar,  Aryeh Warmflash

Her9 is required for the migration, differentiation, and survival of neural crest cells
Cagney E. Coomer, Sumanth Manohar, Evelyn M. Turnbaugh, Ann C. Morris

Wnt5a gain- and loss-of-function present distinctly in craniofacial bone
Claire J. Houchen, Portia Hahn Leat, Cassandra Delich, Jocelyn Vang, Sara Haggard, Joseph L. Roberts, Hicham Drissi, Erin E. Bumann

The CPEB ortholog Orb2 regulates brain size through the TRIM-NHL RNA-binding protein, Brain tumor
Taylor Hailstock, Joseph Buehler, Beverly V. Robinson, Timothy C.H. Low, Yuqing Hua, Temitope H. Adebambo, Jack Govaerts, Todd A. Schoborg, Howard D. Lipshitz, Dorothy A. Lerit

HSD17B7 is required for Auditory Function by Regulating Cholesterol Synthesis in Sensory Hair Cells
Yuqian Shen, Ziyang Wang, Xun Wang, Fuping Qian, Mingjun Zhong, Xin Wang, Jing Cheng, Dong Liu

Primary cilia and BBS4 are required for postnatal pituitary development
Kathryn M. Brewer, Katlyn K. Brewer, Nicholas C. Richardson, Jeremy F. Reiter, Nicolas F. Berbari, Mia J. Konjikusic

Single Cell RNA Sequencing and Spatial Profiling Identify Mechanisms of Neonatal Brain Hemorrhage Development and Resolution
Santiago A. Forero, Zhihua Chen, Ali Pirani, Arpan De, Zachary Wise, John E. Morales, Joseph H. McCarty

Identification and Characterization of Adult Islet Pancridia Cells Capable of Differentiating into Islet Organoids
Carly M. Darden, Jayachandra Kuncha, Jeffrey T. Kirkland, Jordan Mattke, Srividya Vasu, Bashoo Naziruddin, Michael C. Lawrence

DNAH14 deficiency impairs sperm motility by reducing flagellar beat amplitude
Yawen Liu, Yanan Zhao, Yali Qiu, Jiaxin Zeng, Haifeng Xu, Bingbing Wu, Xiang Tang, Liying Wang, Wei Li, Chao Liu

Developmental wave of programmed ganglion cell death in human retinal organoids
Tara Brooks, Yuna K. Park, Anne Vielle, Michael Ha, Katia Del Rio-Tsonis, Michael L. Robinson, M. Natalia Vergara

Expression of mutant TIE2 p.L914F during mouse development causes embryonic lethality and defects in vascular remodeling
Lindsay J Bischoff, Sandra Schrenk, Kara Soroko, Elisa Boscolo

Cell Cycle Arrest of a ‘Zippering’ Epithelial Cell Cluster Shapes the Face and is Disrupted in Craniofacial Disorders
T. Qu, B.H. Chacón, L. Faure, M. Losa, R. Hernández-Martínez, K. Robinson, A. Jones, S. Lisgo, J. De Anda, M. Risolino, G. Panagiotakos, E.J. Leslie-Clarkson, I. Adameyko, L. Selleri

Postnatal Abrogation of VEGFR2 Blocks Terminal Cap2 Differentiation by Preventing the Developmental Progression from a Capillary Intermediate Cell State
Daoqin Zhang, Carsten Knutsen, David J. Stroud, Cristina M. Alvira

JAG2-related muscular dystrophy and Notch signaling dysfunction in muscle stem cells
Nam Chul Kim, Minoru Tanaka, Isabelle Draper, Hannah R. Littel, Mekala Gunasekaran, Johnnie Turner, Natalya M. Wells, Qasim Mujteba, Yoko Asakura, Peter B. Kang, Atsushi Asakura

Retinal pigment epithelium-derived PD-L1 reprograms microglial cells and protects against retinal degeneration in mouse models of experimental AMD and genetic retinitis pigmentosa
Zhongyuan Su, Jing Wang, Qinghua Lai, Zhenhang Wang, Pingping Liu, Zhiyan Tang, Hang Yu, Yu Chen, Xiaoyin Ma, Ling Hou

Fibroblast depletion reveals mammalian epithelial resilience across neonatal and adult stages
Isabella M. Gaeta, Shuangshuang Du, Clémentine Villeneuve, David G. Gonzalez, Catherine Matte-Martone, Smirthy Ganesan, Deandra Simpson, Jessica L Moore, Chen Yuan Kam, Sara Gallini, Haoyang Wei, Fabien Bertillot, Dagmar Zeuschner, Lauren E. Gonzalez, Kaelyn D Sumigray, Sara A Wickström, Valentina Greco

Multilayered molecular and cellular mechanisms underlying intestinal epithelial regeneration
Dong Woo Seo, Seungsoo Kim, Hoibin Jeong, Mi Hyeon Cho, Ming Gyeong Lee, Jea Hwa Jang, Jun-Seok Lee, Sang-Hyun Choi, Dong-Hoon Kim, Jungmin Choi, Yong Taek Jeong

| Plant development

Ligand-induced ubiquitination regulates endocytosis and homeostasis of the ERECTA receptor kinase for stomatal development
Liangliang Chen,  Minh Huy Vu, Alicia M. Cochran,  Crystal F. Ying,  Keiko U. Torii

Pathogenic fungus exploits the lateral root regulators to induce pluripotency in maize shoots
Mamoona Khan, Nithya Nagarajan, Kathrin Schneewolf, Caroline Marcon, Danning Wang, Frank Hochholdinger, Peng Yu,  Armin Djamei

Interaction of Wnt and SHH gradients synchronizes cell cycle exit and differentiation
Ruiqi Li, Yiqun Jiang, Sarah Platt, Kevin A. Peterson, Hainan Lam, Sarah Van, Chae Ho Lim, Jonathan Levinsohn, Eva-Larue Barber, David Wang, M. Mark Taketo, Yuval Kluger, Peggy Myung

Coordinated regulation of trichome morphogenesis and flavonoid pathway by a MYB–HDZIP–JAZ module in banana (Musa sp.)
Samar Singh,  Shivi Tyagi, Prashant Misra,  Ashutosh Pandey

The proximal proteome of FLOWERING LOCUS T LIKE 1 during rice panicle development suggests cell-to-cell mobility features
Daniele Chirivì,  Giulia Ave Bono,  Jeroen de Keijzer,  Ludovico Dreni,  Franco Faoro,  Francesca Giaume,  Cristina Ferrándiz,  Fabio Fornara,  Camilla Betti

Photoperiodic effects on early plant development in everbearing and seasonal flowering strawberry
Stephan David, Gabriela Ficová,  Leo F.M. Marcelis,  Julian C. Verdonk

Shedding light on the embryo:endosperm balance diversity that pseudogamy can achieve in the polyploid apomictic Psidium cattleyanum (Myrtaceae, Myrteae)
Claudia Da Luz-Graña, Magdalena Vaio, Joerg Fuchs, Alejandra Borges, Gabriela Speroni

Overcoming extensive redundancy in the arabidopsis TREHALOSE-6-PHOSPHATE PHOSPHATASE gene family reveals connections to development and iron homeostasis
Tara Skopelitis, Kyle W Swentowsky, Alexander Goldshmidt, Regina Feil,  John E. Lunn,  David Jackson

Optimized LC-MS method for simultaneous polyamine profiling and ADC/ODC activity quantification and evidence that ADCs are indispensable for flower development in tomato
Erin Samantha Ritchie, Edda von-Roepenack-Lahaye, Dennis Perrett, Dousheng Wu, Thomas Lahaye

Brassinosteroids mediate proper coordination of sepal elongation
Byron Rusnak,  Lilijana Oliver, Kyle Procopio,  Adrienne Roeder

Fragaria ananassa DAM4 expression correlates with vegetative growth during endodormancy breaking
Stephan David, Philippe Kersten, Xiren Cao,  Leo F.M. Marcelis,  Julian C Verdonk

Loss of Nucleotide Sugar Transporter (AtNST) gene function in the Golgi membranes impairs pollen development and embryo sac progression in Arabidopsis thaliana
Rimpy Diman, Pinninti Malathi, Ramamurthy Srinivasan, Shripad Ramchandra Bhat, Sreenivasulu Yelam

De novo meristem development in Marchantia requires light and an apical auxin minimum
Eva-Sophie Wallner, Natalie Edelbacher, Liam Dolan

Sex-Specific Ethylene Responses Drive Floral Sexual Plasticity in Cannabis
Adrian S. Monthony, Julien Roy, Maxime de Ronne, Olivia Carlson, Susan J. Murch, Davoud Torkamaneh

ARABIDOPSIS Bsister and SEEDSTICK MADS-box transcription factors modulate maternal nutrient flow for seed development in Arabidopsis
Camilla Banfi, Nicola Babolin, Chiara Astori, Chiara Mizzotti, Rosario Vega-Léon, Giulia Leo, Ueli Grossniklaus, Matthew R. Tucker, Fabrizio Araniti, Riccardo Aiese Cigliano, Walter Sanseverino, Ignacio Ezquer, Jose M. Muino, Kerstin Kauffman, Maurizio Di Marzo, Lucia Colombo

Comparative Proteomic Profiling of Receptor Kinase Signaling Reveals Key Trafficking Components Enforcing Plant Stomatal Development
Pengfei Bai, Minh Huy Vu, Chiaki Komatsu, Ophelia Papoulas, Kazuo Ebine, Akira Nozawa, Tatsuya Sawasaki, Takashi Ueda, Edward M. Marcotte, Keiko U. Torii

WALLFLOWER, an Arabidopsis receptor-like kinase, is polarized in root epidermal cells where it represses cell elongation impacting root waving
Patricio Pérez-Henríquez, Jessica N. Toth, Cecilia Rodriguez-Furlan, Rachel E. De La Torre, Jaimie M. Van Norman

Brassinosteroid controls leaf air space patterning non-cell autonomously by promoting epidermal growth
James M. Fitzsimons, Ana B. Rock, Richard L. De Falbe, Samantha Fox, Chris D. Whitewoods

| Environment, evolution and development

Gamete release in Ciona robusta: roles of gonadotropin-releasing hormone and the photoreception system
Tomohiro Osugi,  Shin Matsubara,  Akira Shiraishi, Azumi Wada, Yuki Miyamoto,  Issei S. Shimada, Yasunori Sasakura,  Takehiro G. Kusakabe,  Honoo Satake

Establishment, conservation, and innovation of dorsal determination mechanisms during the evolution of vertebrate paired appendages
M. Brent Hawkins,  Sofía Zdral,  Silvia Naranjo, Miguel Juliá, Manuel Sánchez-Martín,  Jacob M. Daane,  Nicolas Cumplido,  David Jandzik,  Daniel M. Medeiros,  Sarah K. McMenamin,  Matthew P. Harris,  Juan J. Tena,  Marian A. Ros

Genetic mapping in the red mason bee Osmia bicornis implicates ANTSR as an ancient sex-determining locus in bees and ants
Tilman Rönneburg, Demetris Taliadoros, Anna Olsson, Sara Magnusson, Linn Huser, Muhammad Nafiz Ikhwan Bin Nor Fuad, Turid Everitt, Giselle C. Martín-Hernández, Björn Cederberg, Robert J. Paxton, Karsten Seidelmann,  Matthew T. Webster

Evolutionary dynamics of the vertebrate Wnt gene repertoire
Lily G. Fogg,  Maxime Policarpo,  Walter Salzburger

Developmental system drift in the patterning of the arthropod tarsus
Benjamin C. Klementz,  Sophie M. Neu,  Ethan M. Laumer,  Emily V.W. Setton,  Isaac A. Hinne,  Austen A. Barnett, Max Hämmerle,  Georg Brenneis,  Monika Gulia-Nuss,  Prashant P. Sharma

Maternal high-fat/high-sugar diet has short-term dental effects and long-term sex-specific skeletal effects on adult offspring mice
Mohamed G. Hassan, Kyle Koester, Natalia S. Harasymowicz, Arin K. Oestreich, Kelle H. Moley,  Farshid Guilak, Erica L. Scheller

Nuclear Hormone Receptor NHR-49/HNF4α Couples Fertility Regulation to Resource Allocation and Longevity in C. elegans
Sharada Gopal, Amaresh Chaturbedi, Tej Ramachandrula, John OuYang, Rebecca Rodell, Siu Sylvia Lee

Glycogen metabolism in mouse embryonic Sertoli cells sustains the germ line through the lactate shuttle
Martín A. Estermann, Joseph Sheheen, Sara A. Grimm, Boris Tezak, Yu-Ying Chen, Tsuyoshi Morita, Humphrey H.C. Yao, Blanche Capel

SPEECHLESS duplication in grasses expands potential for environmental regulation of stomatal development
Joel M. Erberich, Britney Bennett, Dominique C. Bergmann

Neural crest cell biology shapes lizard skull evolution across evolutionary time scales
Quentin Horta-Lacueva, Tobias Uller, Morris Flecks, Mariam Gabelaia, Christy Anna Hipsley, Martin Kirchner, Johannes Müller, Nathalie Feiner

Cell Biology

Autism-associated oxysterol regulates GABAergic neurogenesis and subtype fates
Maria Cruz-Santos, Ethan Kidd, Zongze Li, Daniel Cabezas De La Fuent, Sara Davies, Ngoc-Nga Vinh, Marija Fjodorova,  Meng Li

Tumour-driven lipid accumulation in oenocytes reflects systemic lipid alterations
Chang Liu, Sofya Golenkina,  Louise Y Cheng

Physical and functional interaction of Lrrc56 and Odad3 controls deployment of axonemal dyneins in vertebrate multiciliated cells
Nayeli G. Reyes-Nava,  Chanjae Lee,  Ophelia Papoulas,  Juyeon Hong,  Edward M. Marcotte,  John B. Wallingford

A non-canonical role for Jagged1 in endothelial mechanotransduction
Freddy Suarez Rodriguez,  Noora Virtanen,  Elmeri Kiviluoto,  Rob C. H. Driessen,  Feihu Zhao,  Carlijn V. C. Bouten,  Oscar M. J. A. Stassen,  Cecilia M. Sahlgren

Single-cell dissection of cervix and placenta reveal both novel and overlapping cell types
Margot van Riel, Lore Lannoo, Anne Pexsters, Olga Tsuiko, Ilse Parijs, Irene Claes, Thierry Voet, Dirk Timmerman,  Joris R. Vermeesch

Renin Cells Drive Kidney Neurovascular Development and Arterial Remodeling when Renin Activity is Deficient
Manako Yamaguchi,  Hiroki Yamaguchi,  Jason P. Smith,  Lucas Ferreira de Almeida,  Daisuke Matsuoka, Alexandre G. Martini,  Sara M Wilmsen, Sijie Hao,  Kazuki Tainaka,  Silvia Medrano,  Maria Luisa S. Sequeira Lopez,  R. Ariel Gomez

Deletion of the scavenger receptor Scarb1 in osteoblast progenitors and myeloid cells does not affect bone mass
Michela Palmieri, Teenamol E Joseph, Horacio Gomez-Acevedo,  Ha-Neui Kim, Stavros C Manolagas, Charles A O’Brien,  Elena Ambrogini

A Novel Mouse Model Reveals a Role for Mitochondria in Early Lineage Specification and Gastrulation
Mona Ahmed, Niyati Gadepalli, Gayathri PS,  Anjana Badrinarayanan,  Raj K Ladher

Somatic cells compartmentalise their metabolism to sustain germ cell survival
Diego Sainz de la Maza, Holly Jefferson, Celine I. Brucker, Sonia Paoli, Marc Amoyel

Electron transport chain complex I and mitochondrial fusion regulate ROS for differentiation in Drosophila neural stem cells
Rahul Kumar Verma, Atharva Bhingare, Dnyanesh Dubal, Richa Rikhy

Two Spag6 genes control sperm formation and male fertility in mice
Yunhao Liu, Wei Li, Tao Li, Cheng Zheng, Changmin Niu, Alain Schmitt, Yi Tian Yap, Mohammad Abdulghani, Shuiqiao Yuan, Christian Melander, Jerome F Strauss III, Aminata Toure, Ling Zhang, Zhibing Zhang

Chromosome Ageing Occurs at the Primordial Follicle Stage in both Mouse and Human Oocytes
Matilda Bui, Apiwat Moolnangdeaw, Hannes Becher, Shelagh Boyle, Vlastimil Srsen, Yvonne L. Odey, Richard A. Anderson, Evelyn E. Telfer, Ian R. Adams

Dicer is essential for proper maturation, composition, and function in the postnatal retina
Seoyoung Kang, Daniel Larbi, Eik Bruns, Konstantin Hahne, Alireza Khodadadi-Jamayran, Chaitra Sreenivasaiah, Mariana Lima Carneiro, Monica Andrade, Khulan Batsuuri, Shaoheng Chen, Julia Jager, Suresh Viswanathan, Brian S. Clark, Stefanie G. Wohl

The Drosophila ovarian terminal filament imports molecules needed to produce lipid droplets, the fusome, and functional germ cells
Bhawana Maurya, Allan C Spradling

Partial coupling of the proliferation and differentiation programs during C. elegans intestine development
Joris Dieng, Harpreet Singh, Grégoire Michaux, Anne Pacquelet

Early female germline development in Xenopus laevis: stem cells, nurse cells and germline cysts
Asya Davidian, Allan C Spradling

Cytoplasmic localization of the mRNA encoding actin regulator, Serendipity-α, promotes adherens junction assembly and nuclear repositioning
Tejas Mahadevan, Lauren Renee Figard, Hasan Seede, Poonam Sehgal, Yuncong Geng, Kevin McDonald, Ido Golding, Anna Marie Sokac

The chicken retrovirus-like gene ENS-1/ERNI and its LTR Soprano are involved in primordial germ cell development
Yuya Okuzaki, Akane Kawaguchi, Yumi Ozaki, Takeo Uemura, Daisuke Saito, Ken-ichi Nishijima

The rupture and independent extension of sister membranes in C. elegans embryos
Jingjing Liang, Tingrui Huang, Xun Huang, Mei Ding

The Rho effector ARHGAP18 coordinates a Hippo pathway feedback loop through YAP and Merlin to regulate the cytoskeleton and epithelial cell polarity
Emma C. Murray, Gillian M. Hodge, Khanh Pham, Leighton S. Lee, Cameron A.R. Mitchell, Yongho Bae, Andrew T. Lombardo

Opposing roles for lipocalins and a CD36 family scavenger receptor in apical extracellular matrix-dependent protection of narrow tube integrity
Alexandra C. Belfi, Sage G. Aviles, Rachel Forman-Rubinsky, Hasreet K. Gill, Jennifer D. Cohen, Aleksandra Nawrocka, Axelle Bourez, Pierre van Antwerpen, Patrick Laurent, Meera V. Sundaram

Chromosomes remain individualized through interphase in embryos of the tardigrade Hypsibius exemplaris
Lillian D. Papell, Adriana N. Coke, Bailey N. de Jesus, Clayton J. Harry, Pu Zhang, Bob Goldstein

Hbs and Rst adhesion molecules provide a regional code that regulates cell elimination during epithelial remodelling
Miguel Ferreira-Pinto, Mario Aguilar-Aragon, Christa Rhiner, Eduardo Moreno

SRSF12 is a primate-specific splicing factor that induces a tissue-specific gene expression program
Jimmy Ly, Sarah L. Cady, Ekaterina Khalizeva, Sofia Haug, Iain M. Cheeseman

Homer condensates orchestrate YAP-Wnt signaling crosstalk downstream of the Crumbs polarity complex
Siti Maryam J M Yatim, Linda Jiabao Woo, Yuhong Chen, Barbara Hübner, Alexander Ludwig

Microtubule curling as an efficient readout to uncover fundamental concepts of axonal cell biology
André Voelzmann, Milli Owens, Robin Beaven, William Cairns, Abigail Elliot, Sheng-Hui Feng, Catarina Goncalves-Pimentel, Ines Hahn, Ella Jones, Kodie Norris, Thomas Murphy, Yu-Ting Liew, Lydia Lorenzo-Cisneros, Judith Fuelle, Liliana M. Pinho-Correia, Yue Qu, Natalia, Tarunima Sharma, Sánchez-Soriano, Andreas Prokop

Modelling

A mathematical framework for human neutrophil state transitions inferred from single-cell RNA sequence data
Gustaf Wigerblad, Jonathan Carruthers, Sumanta Ray, Thomas Finnie, Grant Lythe, Carmen Molina-París, Saumyadipta Pyne, Mariana J. Kaplan

Molecular noise modulates transitions in the cell-fate differentiation landscape
Y. Liu, A. Zanca, M.P.H. Stumpf, L. Ham

Directed cell migration is a versatile mechanism for rapid developmental pattern formation
Chengyou Yu, Malte Mederacke, Roman Vetter, Dagmar Iber

Tools & Resources

Quantitative high-resolution imaging of mouse nephron formation to study Wnt signaling dynamics
Nobuko Tsuchida-Straeten, Simon Hammer,  Aliaksandr Halavatyi,  Christian Tischer, Gislene Pereira,  Matias Simons

Cell atlas of the developing human meninges reveals a dura origin of meningioma
Elin Vinsland, Sergio Marco Salas, Ivana Kapustová, Lijuan Hu, Simone Webb, Xiaofei Li, Xiaoling He, Mats Nilsson, Muzlifah Haniffa, Roger Barker, Oscar Persson, David R. Raleigh, Erik Sundström, Peter Lönnerberg,  Sten Linnarsson

Protocol combining RNA interference and regeneration assays in planarian embryos
Ennis W. Deihl, Clare L. T. Booth, Erin L. Davies

A genetic model for development, physiology and behavior of zebrafish larvae devoid of catecholamines
Susana Paredes-Zúñiga, Rebecca Peters, Kristine Østevold, Gerard Arrey, Dennis Frank, Johannes Oswald, Florian Veit, Theresa Schredelseker, Jochen Holzschuh, Wolfgang Driever

Mapping mesenchymal diversity in the developing human intestine and organoids
Kelli F. Johnson, Xiangning Dong, Yu-Hwai Tsai, Angeline Wu, Sydney G. Clark, Sha Huang, Rachel K. Zwick, Ian Glass, Katherine D. Walton, Ophir D. Klein, Jason R. Spence

Cryopreservation of Sea Urchin (Lytechinus pictus) Embryos and Development Through Metamorphosis
Victor D. Vacquier, Amro Hamdoun

SlimVar for rapid in vivo single-molecule tracking of chromatin regulators in plants
Alex L. Payne-Dwyer, Geng-Jen Jang, Caroline Dean, Mark C. Leake

Research practice & education

A retrospective analysis of 400 publications reveals patterns of irreproducibility across an entire life sciences research field
Joseph Lemaitre, Désirée Popelka,  Blandine Ribotta,  Hannah Westlake,  Sveta Chakrabarti, Li Xiaoxue,  Mark A. Hanson,  Haobo Jiang,  Francesca Di Cara,  Estee Kurant,  Fabrice David,  Bruno Lemaitre

Gender imbalances of retraction prevalence among highly cited authors and among all authors
Stefania Boccia,  Antonio Cristiano,  Angelo Maria Pezzullo,  Jeroen Baas,  Guillaume Roberge,  John P.A. Ioannidis

Most science is published from countries lacking in democracy and freedom of press
John P.A. Ioannidis, Jeroen Baas

Addressing cultural and knowledge barriers to enable preclinical sex inclusive research
Brianna N. Gaskill,  Benjamin Phillips, Jonathan Ho, Holly Rafferty, Oladele Olajide Onada, Andrew Rooney,  Amrita Ahluwalia,  Natasha A. Karp

U.S. Visa Bureaucracy and Its Burdens Among Early Career Scholars
Michel Nofal, Raquel Ferrer-Espada, Payel Ganguly, Mayank Chugh

The Intergenerational Classroom: A Case Study Integrating Undergraduate and Lifelong Learning Curricula for Biology Education
Julie Earles, Bethany Stanhope, Kristen Robbins, Alex C. Keene

Absolute and Relative Declines in National Institutes of Health (NIH) Funded Basic Science Publications
Michael S Lauer

The post July in preprints appeared first on the Node.

Previously, I’ve been busy travelling back to February 2011, March 2013, April 2014, May 2016 and June 2013 to have a look around the Node. It’s now July, and I enjoyed my time travelling back to June of 2013 so much that I decided to stay behind until the end of July…

The post The Node Time Machine – July 2013 appeared first on the Node.

The preprints this month are hosted on bioRxiv and arXiv – use these links below to get to the section you want:

Developmental biology

• Patterning & signalling
• Morphogenesis & mechanics
• Genes & genomes
• Stem cells, regeneration & disease modelling
• Plant development
• Environment, evolution and development

Cell Biology

Modelling

Tools & Resources

Developmental biology

| Patterning & signalling

FGF receptor modulates planar cell polarity in the neuroectoderm via Vangl2 tyrosine phosphorylation

Ilya Chuykin,Sergei Y. Sokol

Retinal Calcium Waves Coordinate Uniform Tissue Patterning of the Drosophila Eye

Ben Jiwon Choi, Yen-Chung Chen,Claude Desplan

Wnt11 Positively Regulates Neonatal Cardiomyocyte Maturation at the Interphase of Life via Frizzled 4 Receptor

Xuedong Kang, Joan Moci, Charlotte Wolf,Marlin Touma

Lifelong development of zebrafish gills: Asymmetries in early vascular patterning predict adult gill architecture

Mathieu Preußner, Anna Mertens, Marion Basoglu,Virginie Lecaudey

Sp Transcription Factors Establish the Signaling Environment in the Neuromesodermal Progenitor Niche During Axial Elongation

Ravindra B. Chalamalasetty, Haley Tran, Ryan Kelly, Samuel Kuo,Mark W. Kennedy,Moonsup Lee, Sara Thomas,Nikolaos Mandalos,Vishal Koparde,Francisco Pereira Lobo,Terry P. Yamaguchi

A closed feedback between tissue phase transitions and morphogen gradients drives patterning dynamics

Camilla Autorino,Diana Khoromskaia,Louise Harari, Elisa Floris, Harry Booth,Cristina Pallares-Cartes, Vesta Petrasiunaite,Michael Dorrity,Bernat Corominas-Murtra,Zena Hadjivasiliou,Nicoletta I. Petridou

Direct cell-to-cell transport of Hedgehog morphogen is aided by the diffusible carrier Shifted/DmWif1

Carlos Jiménez-Jiménez,Gustavo Aguilar,Clara Fernández-Pardo,Markus Affolter,Isabel Guerrero

The anti-neural role of BMP signaling is a side effect of its global function in dorsoventral patterning

Paul Knabl, June F. Ordoñez,Juan Daniel Montenegro Cabrera,Tim Wollesen,Grigory Genikhovich

A novel self-organizing embryonic stem cell system reveals the role of Wnt signaling parameters in anterior-posterior patterning of the nervous system

Siqi Du,Aryeh Warmflash

Mapping early patterning events in human neural development using an in-vitro microfluidic stem cell model

Gaurav Singh Rathore, Matias Ankjær, Pedro Rifes, Erno Hänninen, Fátima Sanchís Calleja, Charlotte Rusimbi, Janko Kajtez, Amalie Holm Nygaard, Louise Saviø Piilgaard, Ugne Dubonyte, Zehra Abay-Nørgaard, Jens Bager Christensen, Kristoffer Lihme Egerod, J. Gray Camp, Tune H Pers, Barbara Treutlein, Agnete Kirkeby

Rapid transcriptional response to a dynamic morphogen by time integration

Susanna E. Brantley, Jacqueline Janssen, Anna Chao, Massimo Vergassola, Shelby A. Blythe,Stefano Di Talia

Desert Hedgehog mediates stem Leydig cell differentiation through Ptch2/Gli1/Sf1 signaling axis

Changle Zhao, Yongxun Chen, Lei Liu, Xiang Liu, Hesheng Xiao, Feilong Wang, Qin Huang, Xiangyan Dai, Wenjing Tao, Deshou Wang,Jing Wei

GATA6 Mediates Endoderm and Mesoderm Progenitor Fate Driven by WNT and NODAL Signaling

Miriam Gordillo, Rebecca Wu, Kelly M. Banks, Neranjan de Silva,Todd Evans

TFAP2A+ embryonic progenitor cells undergo fate diversification to give rise to human amnion, germline, and mesoderm

Auriana Arabpour, Jonathan Adam DiRusso, Qiu Ya Wu, Mark Larsen, Young Sun Hwang, Elsie Jacobson, Thi Xuan Ai Pham, Nicole Agranonik, Megan Sparrow, Vernon Leander Monteiro, Zenya Rebecca Bian, Nicolas Pelaez-Restrepo, Antuca Callejas-Marin,Vincent Pasque,Kathrin Plath, Amander T. Clark

An advanced head-to-tail mouse embryo model with hypoxia-mediated neural patterning

Anastasios Balaskas,Isabelle Kraus, Hatice Ö. Özgüldez,Persia Akbari Omgba,René Buschow,Adriano Bolondi,Idan Berlad,Jacob H. Hanna,Helene Kretzmer,Aydan Bulut-Karslioğlu

YAP1 and QSER1 are Key Modulators of Embryonic Signaling Pathways in the Mammalian Epiblast

Elizabeth Abraham, Thomas Roule, Aidan Douglas, Emily Megill, Olivia M. Pericak, Jordan E. Howe, Carmen Choya-Foces, Joanne F. Garbincius, Henry M. Cohen, Paula Roig-Flórez, Mikel Zubillaga, Mark D. Andrake, Seonhee Kim, John W. Elrod, Naiara Akizu, Conchi Estaras

| Morphogenesis & mechanics

In vivo nuclear envelope adaptation during cell migration across confining embryonic tissue environments

Hanna-Maria Häkkinen,Soraya Villaseca, Zain Alhashem, Szymon Chomiczewski, Maxime Desevedavy, Solene Leleux, Atrin Hamidzadeh, Filomena Gallo, Dina El-Zohiry, Victor Petre,Elena Scarpa

Embryonic development of C. elegans sense organs

Leland R. Wexler,Irina Kolotuev,Maxwell G. Heiman

Transient epithelial mimicry reconciles stemness and regional specification in neural crest cells of avian beaks

Carmen Sánchez Moreno,Alexander V. Badyaev

A method for analysing tissue motion and deformation during mammalian organogenesis

Morena Raiola, Isaac Esteban,Kenzo Ivanovitch, Miquel Sendra,Miguel Torres

Mechanosensitive localization of Diversin highlights its function in vertebrate morphogenesis and planar cell polarity

Satheeja Santhi Velayudhan, Chih-Wen Chu, Keiji Itoh,Sergei Y. Sokol

Stiffness sensing fuels matrix-driven metabolic reboot for kidney repair and regeneration

Yuan Gui, Yuanyuan Wang, Wenxue Li, Jia-Jun Liu, Kelly Zheng, Jianzhong Li, Henry Wells Schaffer, Cameron Jones, Samantha Mae Mallari,Yanbao Yu, Silvia Liu,Yansheng Liu,Dong Zhou

Quantitative live imaging reveals PRICKLE1 controls junctional neural tube morphogenesis independent of Planar Cell Polarity

Jian Xiong Wang,Yanina D. Alvarez,Siew Zhuan Tan,Samara N. Ranie,Samantha J. Stehbens,Melanie D. White

Resilience in zebrafish embryoids

Svetlana Jovanic, Julia Eckert, Thierry Savy,Nadine Peyrieras

Maternal exercise rescues fetal akinesia-impaired joint and bone development

Christopher J. Panebianco, Yuming Huang,Nidal Khatib,Devin C. Gottlieb,Maha Essaidi,Saima Ahmed,Nathaniel A. Dyment,Rebecca A. Simmons,Joel D. Boerckel,Niamh C. Nowlan

| Genes & genomes

piRNAs are abundant in the early embryo of the crustacean Parhyale hawaiensis

Llilians Calvo,Tom Pettini,Guillem Ylla,Matthew Ronshaugen,Sam Griffiths-Jones

Exon-skipping and genetic compensation due to biallelic mutations in the neurodevelopmental disease gene LNPK

Rose M. Doss, Sara A. Wirth, Jonathan W. Pitsch, Caroline M. Dias, Andrea L. Gropman, Martin W. Breuss

WAGO-1 is a sexually dimorphic Argonaute protein required for proper germ granule structure and gametogenesis

Acadia L. DiNardo, Nicole A. Kurhanewicz, Hannah R. Wilson, Veronica Berg,Diana E. Libuda

prdm1a drives a fate switch between hair cells of different mechanosensory organs

Jeremy E Sandler, Ya-Yin Tsai, Shiyuan Chen, Logan Sabin, Mark E. Lush, Abhinav Sur, Elizabeth Ellis, Nhung TT Tran, Malcolm Cook, Allison R Scott, Jonathan S. Kniss,Jeffrey A. Farrell, Tatjana Piotrowski

Contributions of m6A RNA methylation to germline development in the planarian Schmidtea mediterranea

Junichi Tasaki,Labib Rouhana

Cell fate specification during respiratory development requires ARID1A-containing canonical BAF complex activity

Hyunwook Lee, Abigail Jaquish, Sharlene Fernandes, Barbara Zhao, Amber Elitz, Kathleen Cook, Sarah Trovillion,Natalia Bottasso-Arias, Simon J. Y. Han, Samantha Goodwin, Nicholas X. Russell,Amanda L. Zacharias, Samantha A. Brugmann,Jeffrey A. Whitsett,Debora Sinner, Xin Sun, Daniel T. Swarr,William J. Zacharias

Molecular profiling of bovine primordial germ cell specification and migration onset reveals a conserved program in bilaminar disc embryos

Carly Guiltinan,Ramon C. Botigelli,Rachel B. Arcanjo,Juliana I. Candelaria, Lawrence F. Lanzon, Justin M. Smith, Gloria Becerra-Cortes,Anna C. Denicol

Neuronal migration induces DNA damage in developing brain

Zhejing Zhang, Andres Canela, Peilin Zou, Takahiro Furuta, Noriko Takeda, Takumi Kawaue,Naotaka Nakazawa, Mai Saeki, Masaki Utsunomiya, Junko Kurisu, Fumiyoshi Ishidate, Hiroyuki Sasanuma,Yusuke Kishi, Mineko Kengaku

Loss of Meiotic Double Strand Breaks Triggers Recruitment of Recombination-independent Pro-crossover Factors in C. elegans Spermatogenesis

JoAnne Engebrecht,Aashna Calidas,Qianyan Li,Angel Ruiz, Pranav Padture, Consuelo Barroso, Enrique Martinez-Perez,Nicola Silva

Single-cell omics reveal distinct gene regulatory dynamics underpinning embryonic and extraembryonic lineage functions during pig blastocyst development

Adrien Dufour,Marie-Noëlle Rossignol, Patrick Manceau, Yoann Bailly,Stéphane Ferchaud,Marie-José Mercat,Ali G Turhan,Sarah Djebali,Sylvain Foissac,Jérôme Artus,Hervé Acloque

Major waves of H2A.Z incorporation during mouse oogenesis

Madeleine Fosslie, Erkut Ilaslan, Trine Skuland, Adeel Manaf, Mirra Louise Cicilie Soegaard, Marie Indahl, Maria Vera-Rodriguez, Rajikala Suganthan, Ingunn Jermstad, Shaista Khanam, Knut Tomas Dalen,Ragnhild Eskeland, Michel Choudalakis, Magnar Bjoras, Peter Zoltan Fedorcsak, Gareth David Greggains, Mika Zagrobelny,John Arne Dahl,Mads Lerdrup

Somatic gene repression ensures physical segregation of germline and soma in Drosophila embryos

Miho Asaoka, Mizuki Kayama, Tomoki Kawagoe,Makoto Hayashi, Shumpei Morita,Satoru Kobayashi

Core microRNAs regulate neural crest delamination and condensation in the developing trigeminal ganglion

Rocío B. Marquez,Estefanía Sánchez Vázquez,Andrés M. Alonso, Yanel E Bernardi,Emilio M. Santillan,Peter Lwigale,Luisa Cochella,Marianne E. Bronner,Pablo H. Strobl-Mazzulla

A porcine germ cell depletion model to investigate the role of germ cells in gonadal development

Chi-Hun Park, Young-Hee Jeoung, Sai Goutham Reddy Yeddula, JiTao Wang, Bhanu P. Telugu

Transgenerational effects induced by thiacloprid in Anterior prostate tissue are associated with alterations in DNA methylation at developmental genes

Ouzna Dali, Chaima Diba Lahmidi, Tayeb Mohammed Belkhir, Theo De Gestas, Christine Kervarrec, Pierre-Yves Kernanec,Fatima Smagulova

The eutherian-specific histone H3.4 promotes germ cell development and reproductive fitness

Pavel A. Komarov, Philipp Bammer,Ching-Yeu Liang,Hans-Rudolf Hotz,Grigorios Fanourgakis,Sunwoo Chun,Hubertus Kohler,Tim-Oliver Buchholz,Jean-Francois Spetz,Antoine H.F.M Peters

Slit1 -a MET target gene in the embryonic limbs, prevents premature differentiation during mammalian myogenesis

Masum Saini,Jyoti Jadhav,Giulio Cossu,Sam J. Mathew

A short conserved sequence in the HOT region of the C. elegans dlg-1 gene largely recapitulates its transcriptional behavior during embryogenesis

Cristina Tocchini, Palmer Bassett,Susan E. Mango

Single oocyte full-length isoform sequencing unveils the impact of transposable elements on RNA diversity and stability during oocyte maturation

Yuqian Wang, Wei Wang, Yujun Liu, Yiming He, Hongyu Song, Ming Yang, Nan Wang, Xiaomeng Wang, Ling Ding, Ying Kuo, Yuwen Xiu, Zhengrong Du, Lu Chen, Ying Lian, Qiang Liu, Liying Yan, Jie Qiao, Peng Yuan

Due-B Is dispensable for early development and genome duplication in vertebrates

Courtney G. Sansam,Emily A. Masser,Duane Goins,Christopher L. Sansam

| Stem cells, regeneration & disease modelling

iPSC-derived skeletal muscle spheroids for Duchenne Muscular Dystrophy modeling

Joyce Esposito,Felipe de Souza Leite,Igor Neves Barbosa,Thaís Maria da Mata Martins, Giovanna Gonçalves de Oliveira Olberg,Ziad Al Tanoury,Kayque Alves Telles-Silva,Mayana Cristina da Silva Pardo,Tatiana Jazedje,Raul Hernandes Bortolin,Mario Hiroyuki Hirata,Olivier Pourquié,Mayana Zatz

A window of cell cycle plasticity enables imperfect regeneration of an adult postmitotic organ in Drosophila

Navyashree A Ramesh,Laura Buttitta

TGF-beta coordinates changes in Keratin gene expression during complex tissue regeneration

Dipak D Meshram, Yuchang Liu, Molly Worth, Changqing Zhang,Tom J. Carney, Henry H. Roehl

Heterogeneity of Sox2-expressing cells in mouse pituitary and their roles in postnatal gonadotroph differentiation

Kosara Smiljanic,Stephanie Constantin,Naseratun Nessa,Stanko S. Stojilkovic

WNT signaling in human pluripotent stem cells promotes HDAC2-dependent epigenetic programs and development of retinoic acid-responsive mesoderm

Bao Q. Thai, Stephanie A. Luff, Jared M. Churko, Jonathan N. Young, Christopher M. Sturgeon,Deepta Bhattacharya

SWI/SNF ATPase Brahma and Notch signaling collaborate with CBP/p300 to regulate neural stem cell apoptosis in Drosophila larval central nervous system

Punam Bala,Viswadica Prakki,Rohit Joshi

Modeling Post-Gastrula Development via Bidirectional Pluripotent Stem Cells

Kuisheng Liu, Zihui Yan, Dandan Bai, Rui Jiang, Yan Bi, Xiangjun Ma, Jiani Xiang, Yifan Sheng, Baoxing Dong, Zhiyuan Ning, Shanru Yi, Yingdong Liu, Xinyi Lei, Yanping Jia, Yan Zhang, Yalin Zhang, Yanhe Li, Chenxiang Xi, Shanyao Liu, Shuyi Liu, Jiayu Chen, Jiqing Yin, Xiaochen Kou, Yanhong Zhao, Hong Wang, Yixuan Wang, Ke Wei, Wenqiang Liu,Shaorong Gao

Primitive Hepatoblasts Driving Early Liver Development

Kentaro Iwasawa, Hiroyuki Koike, Hasan Al Reza, Yuka Milton, Keishi Kishimoto, Konrad Thorner, Marissa Granitto, Norikazu Saiki, Connie Santangelo, Kathryn Glaser, Masaki Kimura, Alexander Bondoc, Hee-Wong Lim, Mitsuru Morimoto, Makiko Iwafuchi, James M. Wells, Aaron M. Zorn,Takanori Takebe

Neural crest induction requires SALL4-mediated BAF recruitment to lineage specific enhancers

Martina Demurtas, Samantha M. Barnada, Emma van Domselaar, Zoe H. Mitchell, Laura Deelen,Marco Trizzino

Nephron segmentation and patterning in kidney organoids can be modulated by distinct FGF subfamily members

Allara K. Zylberberg,Emma I. Scully,Pei Xuan Er, Hannah Baric, Michelle Scurr,Mian Xie,Thanushi Peiris,Sara E. Howden,Kynan T. Lawlor,Melissa H. Little

ATP2B1 expression identifies human hematopoietic stem cells across ontogeny with superior repopulation and self-renewal capacity

Angelica Varesi, Murtaza S. Nagree, Isabella Di Biasio, Andy G.X. Zeng, Sayyam Shah, Hyerin Kim, Michael Zhang, Alex Murison, John E. Dick,Stephanie Z. Xie

ankrd1a consistently marks cardiomyocytes bordering the injury or scar area and affects their dedifferentiation during zebrafish heart regeneration after cryoinjury

Srdjan Boskovic,Mirjana Novkovic,

Asperous coordinates regenerative timing by regulating damage-induced WNT Signaling

Si Cave,Manashi Sonowal,Chloe Van Hazel,Petra Fromme,Robin E. Harris

The generation of viable, structurally integrated human-mouse chimaeras through enhanced hPSCs proliferation

Hideyuki Sato,Ayaka Yanagida, Mariko Kasai,Naoaki Mizuno,Eiji Mizutani, Hiromi Yamamoto,Satoko Ishii, Taro Hihara,Kazuto Yamazaki, Ayuko Uchikura, Kazuaki Nakano, Masashi Ito,Hiroshi Nagashima,Hideki Masaki,Hiromitsu Nakauchi

Advanced human iPSC-based modelling of LMNA-related congenital muscular dystrophy enables development of targeted genetic therapies for muscle laminopathies

Daniel P. Moore, Heather B. Steele-Stallard, Luca Pinton, Valentina Maria Lionello, Lucia Rossi, Artadokht Aghaeipour, Salma Jalal, Cherry Tsz Yan Wong, Angela Clara-Hwang, Gisèle Bonne, Peter S. Zammit,Francesco Saverio Tedesco

An iMSC-Based iPSC Model for Osteogenesis Imperfecta: A Platform for Disease Modeling and Drug Screening

Ashis Kumar, Vignesh Kumar, Agnes Selina, Vrisha Madhuri, Vasanth Thamodaran

| Plant development

Maternal control of RNA decay safeguards embryo development

Gerardo Del Toro-De León, Maria Sofia Trenti, Varsha Vasudevan, Ursula Krause,Claudia Köhler

Redesigning petal shape, size, and color in soybean reveals unexpected phenotypes for floral organ development

Nicole Szeluga, Noor AlBader, Samantha Pelletier, Kylie Weis, Arielle Johnson, Noah Fahlgren,Mikhaela Neequaye, Gus Vogt, Ryan DelPercio,Patricia Baldrich, Kelsey J.R.P. Byers,Blake C. Meyers,Margaret H. Frank

FLOE1 maintains cellular viscosity in rehydrating Arabidopsis embryos

Sterling Field, John F. Ramirez, Yanniv Dorone, Jack A. Cox, Thomas C. Boothby,Seung Y. Rhee

Analysis of Wheat Spike Morphological Traits Using 2D Imaging

Fujun Sun, Shusong Zheng, Zongyang Li, Qi Gao, Ni Jiang

Cytokinin overcomes spikelet-driven inhibition of tillering in wheat and barley by delaying meristem development

Alex Wakeman,Tom Bennett

FERONIA defines intact tissue boundaries through cuticle development

Gayeon Kim, Jeongho Choi, Ryeo Jin Kim, Eunkyoo Oh, Seung Yong Shin, Hyun-Soon Kim, Hye Sun Cho, Mi Chung Suh, Hyo-Jun Lee

Urbanization drives genetic and plastic responses of the spotted jewelweed flower morphology

Jerome Burkiewicz, Julie Carvalho, Sophie Caporgno,Joelle Lafond, Celine Devaux, Etienne Normandin, Simon Joly

Pre-meiotic H1.1 degradation is essential for Arabidopsis gametogenesis

Yanru Li,Danli Fei, Jasmin Schubert,Kinga Rutowicz,Zuzanna Kaczmarska, Alberto Linares,Alejandro Giraldo Fonseca,Sylvain Bischof,Ueli Grossniklaus,Célia Baroux

Gene regulatory network analysis of somatic embryogenesis identifies morphogenic genes that increase maize transformation frequency

Jim Renema,Svitlana Lukicheva, Isabelle Verwaerde,Stijn Aesaert,Griet Coussens,Jolien De Block,Carolin Grones,Thomas Eekhout,Bert De Rybel,Rhoda A.T. Brew-Appiah, Christopher A. Bagley,Lennart Hoengenaert,Klaas Vandepoele,Laurens Pauwels

Arabidopsis RabGDIs are essential for the asymmetric division of zygotes and embryonic patterning

Gui-Min Yin, Ya-Nan Wu, Weiqi Wang, Shan-Shan Dun, Sha Li, Liwen Jiang, Zi-zhen Liang,Yan Zhang,Feng Xiong

Antagonistic and Synergistic Roles of Tomato AFP3 Isoforms in Hormonal Regulation and Development

Ylenia Vittozzi,Louise Petri, Maurizio J. Chiurazzi, Purificación Lisón,Carmen Grech Hernández, Adity Majee, Naveen Shankar, Meike Burow,Stephan Wenkel

Lf2 is a knotted homeobox regulator that modulates leaflet number in soybean

Chancelor B. Clark,Denise Caldwell, Qiang Zhu, Dominic Provancal, Austin C. Edwards, Qijian Song, Charles V. Quigley,Anjali S. Iyer-Pascuzzi, Jianxin Ma

| Environment, evolution and development

Projected warming disrupts embryonic development and hatch timing in Antarctic fish

Margaret Streeter,Nathalie R. Le François,Thomas Desvignes, Jacob Grondin,John H. Postlethwait,H. William Detrich III,Jacob M. Daane

Developmental system drift in dorsoventral patterning is linked to transitions to autonomous development in Annelida

Allan M. Carrillo-Baltodano,Emmanuel Haillot,Steffanie Mutiara Meha, Imran Luqman, Artenis Pashaj, Yun-Ju Lee,Tsai-Ming Lu,David E. K. Ferrier,Stephan Q. Schneider,José M. Martín-Durán

A tardigrade cytochrome P450 perturbs Drosophila melanogaster development

Caitlyn L Perry, Charles Robin

Cellular and transcriptional trajectories of neural fate specification in sea anemone uncover two modes of adult neurogenesis

Flora Plessier,Heather Marlow

Differential fates of vertebrate Kazald gene quartet, from ancestral roles in skeletogenesis and regeneration to putative innovations in fish and birds

Sean D. Keeley,Rita Aires,Belfran Alcides Carbonell Medina,Claudia Marcela Arenas-Gómez,Alejandra Cristina López-Delgado,Jean Paul Delgado,Franziska Knopf,Shigehiro Kuraku,Tatiana Sandoval-Guzmán

Wound-induced eyespots on butterfly wings at the intersection of immune response and pigmentation development

Maria Adelina Jerónimo,Ana Rita Garizo,Guilherme W Atencio,David Duneau,Patrícia Beldade

Developmental plasticity of hermaphrodite sperm production across environments in Caenorhabditis elegans

Clotilde Gimond,Nausicaa Poullet,Anne Vielle, Emilie Demoinet,Christian Braendle

The evolution of gene regulatory programs controlling gonadal development in primates

Nils Trost,Amir Fallahshahroudi,Ioannis Sarropoulos,Céline Schneider,Julia Schmidt,Noe Mbengue, Eva Wolff, Charis Drummer,Robert Frömel,Steven Lisgo,Florent Murat,Mari Sepp,Margarida Cardoso-Moreira,Rüdiger Behr,Henrik Kaessmann

On wing pattern and wing shape evolution in Giant Silk Moths: Lessons from wing development in Luna and Polyphemus Moths

Andrei Sourakov

Cell Biology

Biological characteristics of rabbit KLF12 and its regulation of proliferation and apoptosis of ovarian granulosa cells

Jiawei Cai, Bohao Zhao, Zhiyuan Bao, Yunpeng Li, Xiaoman Han, Yang Chen,Xinsheng Wu

Multimodal Validation of the Existence of Transitional Cerebellar Progenitors in the Human Fetal Cerebellum

Zaili Luo, Mingyang Xia, Feng Zhang, Dazhuan Xin, Rohit Rao, Karrie M. Kiang, Kalen Berry, Yu Xiong, Hongqi Liu, Yifeng Lin, Ming Hu, Mei Xin, Jie Ma, Hao Li, Michael D. Taylor, Wenhao Zhou, Q. Richard Lu

Post-replicative initial expression of the cell fate regulator PAX6 during neuroectoderm differentiation

Song Hu, Rongao Kou, Zhuojie Su, Guanchen Li, Shutao Qi, Yanxiao Zhang, Haifeng Wang, Ling-Ling Chen, Hongtao Yu

TGF-β serves as a critical signaling determinant of liver progenitor cell fate and function

Chenhao Tong, Tao Lin, Han Wang, Carolina De La Torre, Hui Liu, Chen Shao, Seddik Hammad, Roman Liebe, Matthias P Ebert, Huiguo Ding, Steven Dooley, Hong-Lei Weng

The Sphingosine-1-phosphate pathway is differentially activated in human gestational tissuesv

Magdaleena Naemi Mbadhi, Hideji Fujiwara, Ruth Gill, Kaci T. Mitchum, Cici Lin,Nandini Raghuraman,Antonina I. Frolova

Redistribution of fragmented mitochondria ensure symmetric organelle partitioning and faithful chromosome segregation in mitotic mouse zygotes

Haruna Gekko, Ruri Nomura, Daiki Kuzuhara, Masato Kaneyasu, Genpei Koseki, Deepak Adhikari, Yasuyuki Mio, John Carroll, Tomohiro Kono, Hiroaki Funahashi,Takuya Wakai

“PDGFRα is required for postnatal cerebral perivascular fibroblast development”

Hannah E. Jones, Kelsey A. Abrams,Katherine A. Fantauzzo,Julie A. Siegenthaler

Aberrant placental structure is corrected with repeated nanoparticle-mediated IGF1 treatments in a guinea pig model of fetal growth restriction

Baylea N. Davenport,Rebecca L. Wilson, Alyssa A. Williams, Jaimi A. Gray, Edward L. Stanley, Helen N. Jones

Pcbp1 orchestrates amino acid metabolism burst during the naïve-to-primed pluripotency transition

E. I. Bakhmet,E. V. Potapenko,O. Y. Shuvalov,A. A. Lobov,E. A. Repkin,N. E. Vorobyeva, A. N. Korablev,A. S. Zinovyeva, A. A. Kuzmin,N. D. Aksenov,A. T. Kopylov,G. Wu,H. R. Schöler,A. N. Tomilin

Electron tomography reveals mitochondrial network and cristae remodelling during cell differentiation in the human placenta

Siddharth Acharya,Eric Hanssen,Veronica B. Botha, Tia M. Smith,Sahan Jayatissa, Zlatan Trifunovic,Lucy A. Bartho,John E. Schjenken,Tu’uhevaha J. Kaitu’u-Lino,Anthony V. Perkins,Joanna L. James,Kirsty G. Pringle,James C. Bouwer,Roger Smith,Joshua J. Fisher

Developmental coordination of mitochondrial dynamics and membrane remodeling drives organelle morphogenesis

H Aravind, Vivek Kumar, Manish Jaiswal

Patched regulates cell cycle and tissue architecture in C. elegans gonad

Johanna Farley, Madeleine Schwalbe, Fredrik Forsberg, Aqilah Amran,Sandeep Gopal

Cross-species insemination reveals mouse sperm ability to enter and cross the fish micropyle

Suma Garibova, Eva Stickler, Fatima Al Ali, Maha A Abdulla, Abbirami Sathappan,Sahar Da’as, Lilian Ghanem, M Nadhir Djekidel, Rick Portman,Matteo A Avella

Juvenile hormone degradation enzymes have shared and unique requirements in Drosophila development

Harry Siegel,Creehan Healy,Krystal Goyins,Amina Jumamyradova, Jie Ying,Alexey A Soshnev,Rebecca F Spokony,Lacy J Barton

MEIOC prevents continued mitotic cycling and promotes meiotic entry during mouse oogenesis

Esther G. Ushuhuda, Jenniluyn T. Nguyen, Natalie G. Pfaltzgraff, Matthew Kofron,Maria M. Mikedis

Toll receptors mediate tissue intrinsic surveillance against aberrant cells by detecting cell fate aberrations

Anna Frey,Laurin Ernst,Friedericke Fischer,Lale Alpar, Yohanns Bellaïche,Anne-Kathrin Classen

Quantitative Proteomics Links Mitochondrial Dysfunction to Metabolic Changes and Epithelial Differentiation Defects in Hyperoxia-Exposed Neonatal Airway Cells

Abhrajit Ganguly, Cynthia M Carter, Aristides Rivera Negron, Hua Zhong, Alvaro Moreira, Matthew S. Walters, Lynette K Rogers, Y S Prakash, Trent E Tipple, Arlan Richardson

Stc1-expressing myofibroblasts are a developmentally distinct lineage cleared through intrinsic apoptosis in the neonatal lung

Melinda E. Snitow, Sylvia N. Michki, Fatima N. Chaudhry, Rachna Dherwani, Jeremy B. Katzen, David B. Frank, Jarod A. Zepp

The microcephaly protein Abnormal Spindle has an essential role in symmetrically dividing neural precursors to promote brain growth and development

Shalini Chakraborty, Jack Govaerts, Abigail Hawke, Matthew Werbelow,Todd Schoborg

Taurine Transporter SLC6A6 Expression Promotes Mesenchymal Stromal Cell Function

Christina M. Kaszuba, Sonali Sharma, Benjamin J. Rodems, Cameron D. Baker, Palomi Schacht, Takashi Ito, Kyle P. Jerreld, Chen Yu, Edgardo I. Franco, Emily R. Quarato, Francisco A. Chaves, Jane L. Liesveld, Laura M. Calvi, Hani A. Awad, Roman A. Eliseev,Jeevisha Bajaj

Protein kinase C inhibitor suppresses 2-cell stage development and perinuclear vesicle formation in mouse zygotes

Toru Suzuki, Yuriko Sakamaki

Dolutegravir Developmental Toxicity is Mitigated by Magnesium and Folate in Zebrafish Embryos

Robert M Cabrera, Ahmed Mohamed, Ryoko Minowa, Katheryn A Neugebauer,Daniel A Gorelick

Stay or Stray: Lpar1 regulates neutrophil retention and epidermal homeostasis in early zebrafish development

Shih-Chi Li, Yu-Chi Lin,Chung-Der Hsiao,Shyh-Jye Lee

The Luminal Ring Protein C2CD3 Acts as a Radial In-to-Out Organizer of the Distal Centriole and Appendages

Eloïse Bertiaux, Vincent Louvel, Caitlyn L. McCafferty, Hugo van den Hoek, Umut Batman, Souradip Mukherjee,Lorène Bournonville, Olivier Mercey, Isabelle Mean, Adrian Müller, Philippe Van der Stappen, Garrison Buss, Jean Daraspe,Christel Genoud, Tim Stearns,Benjamin D. Engel,Virginie Hamel,Paul Guichard

Modelling

BlastDiffusion: A Latent Diffusion Model for Generating Synthetic Embryo Images to Address Data Scarcity in In Vitro Fertilization

Alejandro Golfe, Natalia P. García-de-la-puente, Adrián Colomer, Valery Naranjo

Emergence of cellular nematic order is a conserved feature of gastrulation in animal embryos

Xin Li, Robert J. Huebner, Margot L.K. Williams, Jessica Sawyer, Mark Peifer, John B. Wallingford, D. Thirumalai

Generative epigenetic landscapes map the topology and topography of cell fates

Victoria Mochulska,Paul François

Tools & Resources

A cell atlas of the developing human outflow tract of the heart and its adult derivatives

Rotem Leshem, Syed Murtuza Baker, Joshua Mallen, Lu Wang, John Dark, Andrew D Sharrocks, Karen Piper Hanley, Neil A Hanley, Magnus Rattray, Simon D Bamforth, Nicoletta Bobola

A new resource of clonal pluripotent human stem cell lines exhibiting inter- and intra-embryo consistency and variability

Stanley E. Strawbridge,Lawrence E. Bates, Connor Ross, Kenneth A. Jones,Takuya Azami,Tim Lohoff,Maike Paramor, Vicki Murray,Ana Luíza Cidral, James Clarke,Maria Rostovskaya, Ge Guo,Jennifer Nichols

Electroporation-Based Gene Delivery and Whole-Organoid Imaging in Human Retinal Organoids

Keevon Flohr, Michael Janecek, Lingyun Wang, Vicente Valle, Shaohua Pi, Rui T. Peixoto, Susana da Silva

Scalable expansion and hepatic zone maturation of hepatic progenitor cells from human pluripotent stem cells

Shinichiro Ogawa, Mina Ogawa, Jeff C Liu, Abolfazl Dadvar, Britney Tian, Xinyuan Zhao, Ian Fernandes, Kentaro Minegishi, Kenichiro Takase, Yuichiro Higuchi,Hiroshi Suemizu,Ian McGilvray,Sonya MacParland,Gary Bader

Long-term ex ovo culture of Caenorhabditis elegans embryos

Clover Ann Stubbert, Cherry Soe,Pavak Kirit Shah

Derivation of human post-mitotic cardiomyocytes from tetraploid iPSCs

Ittetsu Nakajima, Mitsuyoshi Shimane, Grace Holmstrom, Yuichiro Miyaoka

FOXM1 Inhibition Promotes Polyploidization and Metabolic Maturation in Human iPSC-Derived Hepatocytes by Modulating the Wnt/β-Catenin Pathway

Kayque Alves Telles-Silva, Lara Pacheco, Sabrina Komatsu, Fernanda Chianca, Gustavo Chagas, Gabrielly Cristine Martins, Maria Gridina, Daria Panchenko, Valdemir Melechco Carvalho, Elia G. Caldini, Veniamin S. Fishman,Michelle Arkin, Ernesto Goulart, Mayana Zatz

Major transitions in early coral development: novel insights enabled by visualisation of a comprehensive transcriptomic dataset for Acropora millepora

Ramona Brunner, Mila Grinblat, Aurelie Moya, Sylvain Foret, David C Hayward, Bruno Lapeyre, Eldon E Ball,Ira Cooke,David J Miller

A method for creating custom 3D-printed molds to facilitate zebrafish imaging studies, including of cardiac development

James Christian Miller, Prashanna Koirala, Maria Fernanda Argote de la Torre, Marjan Farsi, Jaret Lieberth, Rabina Shrestha,Joshua Bloomekatz

The post June in preprints appeared first on the Node.

Previously, I’ve been busy travelling back to February 2011, March 2013, April 2014 and May 2016 to have a look around the Node. It’s been really fun peeking around the archives. This June, let’s jump back to 2013…

The post The Node Time Machine – June 2013 appeared first on the Node.

Previously, I travelled back to February 2011, March 2013 and April 2014 to have a look around the Node. Luckily, I didn’t get lost along the timeline and managed to get back to the present day. But now I’m itching for another adventure. So this time, let’s fasten our seat belts and turn the dial to May 2016…

The post The Node Time Machine – May 2016 appeared first on the Node.