diArk

Metschnikowia bicuspidata Baker2002

noemail@noemail.org (The diArk Team) — 2018-10-15T15:15:46+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Metschnikowia bicuspidata Baker2002 v1 supercontigs
Genomeinfos:	Coverage (100); Contigs (478); GC-Content (51.14%); Bases (10Mbp); Filesize (10.66MB); Version (1.0.0);
Alternative name:	Metschnikowia bicaspidata
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Metschnikowiaceae, Metschnikowia

Komagataella phaffii

noemail@noemail.org (The diArk Team) — 2018-10-15T15:16:35+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Komagataella phaffii v1 contigs
Genomeinfos:	Coverage (-); Contigs (33); GC-Content (41.06%); Bases (9Mbp); Filesize (9.05MB); Version (1.0.0);
Alternative name:
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Phaffomycetaceae, Komagataella

Kluyveromyces marxianus LHW-O

noemail@noemail.org (The diArk Team) — 2018-10-15T15:16:35+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Kluyveromyces marxianus LHW O v1 contigs
Genomeinfos:	Coverage (812); Contigs (479); GC-Content (40.15%); Bases (10Mbp); Filesize (10.47MB); Version (1.0.0);
Alternative name:	Zygosaccharomyces marxianus, Zygorenospora marxiana, Zygofabospora marxiana, Saccharomyces marxianus, Kluyveromyces fragilis, Kluyveromyces cicerisporus, Guilliermondella marxiana, Dekkeromyces marxianus, Candida pseudotropicalis
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Saccharomycetaceae, Kluyveromyces

Wickerhamiella galacta NRRL Y-17645

noemail@noemail.org (The diArk Team) — 2018-04-20T08:47:45+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Wickerhamiella galacta NRRL Y 17645 v1 contigs
Genomeinfos:	Coverage (27.27); Contigs (2137); GC-Content (51.81%); Bases (9Mbp); Filesize (9.58MB); Version (1.0.0);
Alternative name:	Candida apis var. galacta, Candida galacta
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Trichomonascaceae, Wickerhamiella

Zygosaccharomyces kombuchaensis CBS 8849

noemail@noemail.org (The diArk Team) — 2018-04-08T20:48:47+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Zygosaccharomyces kombuchaensis CBS 8849 v1 contigs
Genomeinfos:	Coverage (23); Contigs (480); GC-Content (44.32%); Bases (9Mbp); Filesize (9.73MB); Version (1.0.0);
Alternative name:
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Saccharomycetaceae, Zygosaccharomyces

Hanseniaspora sp. NB-2018a CRUB 1928

noemail@noemail.org (The diArk Team) — 2018-04-09T10:34:11+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Hanseniaspora sp NB 2018a CRUB 1928 v1 contigs
Genomeinfos:	Coverage (29.3); Contigs (338); GC-Content (37.09%); Bases (10Mbp); Filesize (9.88MB); Version (1.0.0);
Alternative name:
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Saccharomycodaceae, Hanseniaspora

Saccharomycodes ludwigii UTAD17

noemail@noemail.org (The diArk Team) — 2018-10-12T11:57:17+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Saccharomycodes ludwigii UTAD17 v1 contigs
Genomeinfos:	Coverage (-); Contigs (1360); GC-Content (31.21%); Bases (10Mbp); Filesize (10.6MB); Version (1.0.0);
Alternative name:	Saccharomycodes ludwigii var. ludwigii
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Saccharomycodaceae, Saccharomycodes

Yarrowia lipolytica NCIM 3590

noemail@noemail.org (The diArk Team) — 2018-10-12T11:55:25+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia lipolytica NCIM 3590 v1 contigs
Genomeinfos:	Coverage (600); Contigs (485); GC-Content (47.12%); Bases (19Mbp); Filesize (19.4MB); Version (1.0.0);
Alternative name:	Mycotorula lipolytica, Endomycopsis lipolytica
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia lipolytica NCIM 3589

noemail@noemail.org (The diArk Team) — 2018-10-12T11:55:25+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia lipolytica NCIM 3589 v1 contigs
Genomeinfos:	Coverage (140); Contigs (375); GC-Content (49.0%); Bases (20Mbp); Filesize (19.83MB); Version (1.0.0);
Alternative name:	Mycotorula lipolytica, Endomycopsis lipolytica
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Galactomyces geotrichum 3C

noemail@noemail.org (The diArk Team) — 2018-08-28T15:03:14+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Galactomyces geotrichum 3C v2 contigs
Genomeinfos:	Coverage (95.44); Contigs (233); GC-Content (47.13%); Bases (41Mbp); Filesize (39.7MB); Version (2.0.0);
Alternative name:	Geotrichum candidus, Dipodascus geotrichum, Galactomyces candidum, Oospora lactis, Endomyces geotrichum
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Galactomyces

Yarrowia porcina

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:28+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia porcina v1 contigs
Genomeinfos:	Coverage (-); Contigs (43); GC-Content (44.31%); Bases (30Mbp); Filesize (29.44MB); Version (1.0.0);
Alternative name:	Yarrowia sp. NCAIM Y.02073, Yarrowia sp. NCAIM Y.02100, Yarrowia sp. NCAIM Y.02101, Yarrowia sp. NCAIM Y.02102, Yarrowia sp. NCAIM Y.02103, Yarrowia sp. NCAIM Y.02104, Yarrowia sp. UFMG-RD131
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Candida osloensis

noemail@noemail.org (The diArk Team) — 2018-08-27T09:58:42+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Candida osloensis v1 contigs
Genomeinfos:	Coverage (-); Contigs (37); GC-Content (50.89%); Bases (23Mbp); Filesize (22.49MB); Version (1.0.0);
Alternative name:	Candida sp. CBS 10145, Candida oslonensis, Candida sp. CBS 10146
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Saccharomycetales incertae sedis, Candida

Yarrowia galli

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:27+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia galli v1 contigs
Genomeinfos:	Coverage (-); Contigs (6); GC-Content (49.26%); Bases (22Mbp); Filesize (22.08MB); Version (1.0.0);
Alternative name:	Yarrowia sp. CN-2014b, Candida galli
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia keelungensis

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:28+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia keelungensis v1 contigs
Genomeinfos:	Coverage (-); Contigs (39); GC-Content (48.22%); Bases (21Mbp); Filesize (20.94MB); Version (1.0.0);
Alternative name:
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia deformans

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:27+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia deformans v1 contigs
Genomeinfos:	Coverage (-); Contigs (42); GC-Content (50.23%); Bases (20Mbp); Filesize (20.43MB); Version (1.0.0);
Alternative name:
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia divulgata

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:27+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia divulgata v1 contigs
Genomeinfos:	Coverage (-); Contigs (19); GC-Content (50.25%); Bases (21Mbp); Filesize (20.55MB); Version (1.0.0);
Alternative name:	fungal yeast sp. F6-17
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia bubula

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:26+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia bubula v1 contigs
Genomeinfos:	Coverage (-); Contigs (28); GC-Content (46.8%); Bases (20Mbp); Filesize (20.22MB); Version (1.0.0);
Alternative name:	Candida sp. NCAIM Y.01998, Yarrowia sp. NCAIM Y.01998
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Candida hollandica

noemail@noemail.org (The diArk Team) — 2018-08-27T09:58:42+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Candida hollandica v1 contigs
Genomeinfos:	Coverage (-); Contigs (18); GC-Content (48.0%); Bases (19Mbp); Filesize (19.41MB); Version (1.0.0);
Alternative name:	Candida sp. CBS 4855
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia alimentaria

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:26+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia alimentaria v1 contigs
Genomeinfos:	Coverage (-); Contigs (11); GC-Content (49.35%); Bases (19Mbp); Filesize (19.18MB); Version (1.0.0);
Alternative name:	Candida alimentaria, Yarrowia sp. CN-2014a, Candida sp. CBS 10149, Candida sp. CBS 10151
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Yarrowia yakushimensis

noemail@noemail.org (The diArk Team) — 2018-08-27T12:27:28+00:00

Project name:	NCBI Fungi Genomes Project by National Center for Biotechnology Information
Genomefile:	Yarrowia yakushimensis v1 contigs
Genomeinfos:	Coverage (-); Contigs (7); GC-Content (48.32%); Bases (18Mbp); Filesize (18.22MB); Version (1.0.0);
Alternative name:	Candida yakushimensis, Candida sp. CBS 10252, Candida sp. CBS 10254
Other names:
Taxonomy:	cellular organisms, Eukaryota, Opisthokonta, Fungi, Dikarya, Ascomycota, saccharomyceta, Saccharomycotina, Saccharomycetes, Saccharomycetales, Dipodascaceae, Yarrowia

Diutina catenulata WY3-10-4

2018-06-27

Genome analysis of the yeast Diutina catenulata, a member of the Debaryomycetaceae/Metschnikowiaceae (CTG-Ser) clade.
PLoS One 13, e0198957.

Pichia kudriavzevii SJP-SNU

noemail@noemail.org (Hong SM, Kwon HJ, Park SJ, Seong WJ, Kim I, Kim JH) — 2018-05-19

Genomic and probiotic characterization of SJP-SNU strain of Pichia kudriavzevii.
AMB Express 8, 80.

Peterozyma xylosa NRRL Y-12939, Nakazawaea wickerhamii NRRL Y-2563, Saturnispora dispora NRRL Y-1447, Candida boidinii NRRL Y-2332, Saccharomycopsis capsularis NRRL Y-17639, Ambrosiozyma philentoma NRRL Y-7523, Citeromyces matritensis NRRL Y-2407

2018-05-16

Evolutionary instability of CUG-Leu in the genetic code of budding yeasts.
Nat Commun 9, 1887.

Metschnikowia fructicola AP47, Metschnikowia fructicola 277

2018-04-19

Genome Sequence, Assembly and Characterization of Two Metschnikowia fructicola Strains Used as Biocontrol Agents of Postharvest Diseases.
Front Microbiol 9, 593.

Wickerhamiella galacta NRRL Y-17645, Zygosaccharomyces kombuchaensis CBS 8849

2018-04-13

Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage.
Elife 7, .

Uroleptopsis citrina UcQD2011

noemail@noemail.org (Zheng W, Wang C, Yan Y, Gao F, Doak TG, Song W) — 2018-04-03

Insights into an Extensively Fragmented Eukaryotic Genome: De Novo Genome Sequencing of the Multinuclear Ciliate Uroleptopsis citrina.
Genome Biol Evol 10, 883-894.

Heterobasidion parviporum 96026

2018-03-28

Intraspecific comparative genomics of isolates of the Norway spruce pathogen (Heterobasidion parviporum) and identification of its potential virulence factors.
BMC Genomics 19, 220.

Mus caroli, Mus pahari

2018-03-23

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes.
Genome Res 28, 448-459.

Fusarium beomiforme NRRL 25174, Fusarium algeriense NRRL 66648, Fusarium algeriense NRRL 66647, Fusarium burgessii NRRL 66654

2018-03-13

Fusarium algeriense, sp. nov., a novel toxigenic crown rot pathogen of durum wheat from Algeria is nested in the Fusarium burgessii species complex.
Mycologia 109, 935-950.

Epichloe bromicola E7626

2018-03-13

Toxin-producing Epichloe bromicola strains symbiotic with the forage grass Elymus dahuricus in China.
Mycologia 109, 847-859.

Hyaena hyaena

2018-03-13

Extended and Continuous Decline in Effective Population Size Results in Low Genomic Diversity in the World's Rarest Hyena Species, the Brown Hyena.
Mol Biol Evol 35, 1225-1237.

Aspergillus arachidicola CBS 117610

noemail@noemail.org (Moore GG, Mack BM, Beltz SB, Puel O) — 2018-03-11

Genome sequence of an aflatoxigenic pathogen of Argentinian peanut, Aspergillus arachidicola.
BMC Genomics 19, 189.

Labrus bergylta

2018-03-08

Loss of stomach, loss of appetite? Sequencing of the ballan wrasse (Labrus bergylta) genome and intestinal transcriptomic profiling illuminate the evolution of loss of stomach function in fish.
BMC Genomics 19, 186.

Magnaporthe oryzae WBKY11, Magnaporthe oryzae WHTQ, Magnaporthe grisea VO107

2018-03-01

Gene Flow between Divergent Cereal- and Grass-Specific Lineages of the Rice Blast Fungus Magnaporthe oryzae.
MBio 9, e01219-17.

Desmodus rotundus

2018-02-21

Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat.
Nat Ecol Evol 2, 659-668.

Santalum album cultivar GKVK-1

2018-02-15

Multi-Omics Driven Assembly and Annotation of the Sandalwood (Santalum album) Genome.
Plant Physiol 176, 2772-2788.

Blattella germanica, Cryptotermes secundus

2018-02-07

Hemimetabolous genomes reveal molecular basis of termite eusociality.
Nat Ecol Evol 2, 557-566.

Planoprotostelium fungivorum

2018-01-30

Multiple Roots of Fruiting Body Formation in Amoebozoa.
Genome Biol Evol 10, 591-606.

Trichoplusia ni

2018-01-30

The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology.
Elife 7, .

NEWS! New diArk publication (2011-09-28)

noemail@noemail.org (The diArk Team) — 2011-09-28T00:00:00Z

We proudly present the new diArk paper. It describes the newest features of diArk and the available data. Furthermore, it compares diArk to related databases and explains, why you should use diArk.

B. Hammesfahr, F. Odronitz, M. Hellkamp & M. Kollmar (2011) diArk 3.0 provides detailed analyses of the ever increasing eukaryotic genome sequencing data. BMC Research Notes 4, 338.

NEWS! New welcome page (2011-03-30)

noemail@noemail.org (The diArk Team) — 2011-03-30T00:00:00Z

diArk's welcome page has been revised. Now, the latest species in the database are shown together with information about the genome type, taxonomy, number of contigs, GC-content, size in Mbp, and the corresponding file size. Also a link is provided directing to the corresponding diArk species page for full information. Try it and visit http://www.diark.org.

NEWS! New function: Sharing your search (2011-03-28)

noemail@noemail.org (The diArk Team) — 2011-03-28T00:00:00Z

Now it is possible to send the result of your search to colleagues and friends. To do that, click the ShareThis icon , which is available in each result tab. By clicking this icon, a small popup window will appear where you can select e.g. Email, Facebook, Twitter, or Google Buzz to send your search. Shared searches will be available on the server for three days.

NEWS! New functions and changes (2010-09-07)

noemail@noemail.org (The diArk Team) — 2010-09-07T00:00:00Z

This is a major update to the database scheme, the web-interface, and the database content. In the Projects search module, it is now possible to search for a reference using an autocompletion text field. In the Genome Files search module, different kind of sequencing methods can be searched for. Furthermore, search results can be filtered by different assembly methods and the corresponding software versions.

In the Projects result view, the work of the sequencing centers and the curators of species home pages is now referenced, if the corresponding work has been published. Of course, every work is still referenced by links to the corresponding webpages.

Many changes were made to the Genome_Files result view. Now, you can also download genomes that are not from NCBI if you accept the license for usage as written by the sequencing centers. You can recognize those files by the download icon with a key in it. Furthermore, you can get a graph with all contigs ordered by their length and the resulting N50 value. This information can be used to judge the quality of the dataset. More sequence information was added to the Seq info. The different sequencing methods are colour-coded, and further information like the types of clone-libraries, sequencing coverage, and methods used to create the assembly can be obtained by clicking on the icon.

In the Sequencing_Stats result view many new statistical analyses are available: all species separated by taxa, total sequenced species by taxa/year, complete and incomplete species/year, total available sequenced species/year (number of species and number of data), genomesize/GC-content (separated by taxa), boxplot of the genomesize of taxa, sequencing method/year, number of publications/year, and total assembled data/year for the major sequencing centres (number of genomes and number of bases). And like everything at diArk, these graphs are computed on-the-fly and only for the selection of your search (therefore it might sometimes take some time). And of course, you can download each of the graphs.

Furthermore, an additional way of searching diArk's data was developed, the so-called Fast_Search. Here, you can search diArk using the most common search options. This search would be most suitable for beginners.

NEWS! New News System (2010-09-06)

noemail@noemail.org (The diArk Team) — 2010-09-06T00:00:00Z

A RSS-Feed is now available to obtain the latest news and changes about diark. The feed includes updates on newly sequenced species as well as new assemblies of already sequenced species. New cDNA/EST projects and publications will not be listed. To stay up-to-date we highly recommend to use diArk's RSS-Feed!