A quick update on this site to report we are continuing to sequence genomes at a fast pace due to the efforts of the DOE JGI’s work and collaborating labs preparing DNA and RNA. The number of genomes in the Mycocosm system is now more than 1000 and the 1KFG project has contributed many hundred to this effort. We are working phylogenetic and comparative genomic papers to describe more of what can be learned from these data about the evolution and biology of fungi.
All posts by Jason Stajich
1KFG updates – another 100 genomes
We’ve been busy preparing DNA/RNA samples and data analsyes and bad about blogging about the data release progress — but see linked below the last 100 genomes released by JGI from 1KFG and other fungal projects over the last 9 months. There are more than 800 genomes in the JGI Mycocosm resource (counting a few that are about to be released as public).
Publications using these data are published or in press and will write a more complete summary in the coming months.
- 2017-04-07 Phyllosticta capitalensis CBS 128856 v1.0
- 2017-03-31 Yarrowia lipolytica FKP355 v1.0
- 2017-03-29 Lecythophora sp. AK0013 v1.0
- 2017-03-27 Lactifluus subvellereus BPL653 v1.0
- 2017-03-27 Multifurca ochricompacta BPL690 v1.0
- 2017-03-27 Russula compacta BPL669 v1.0
- 2017-03-27 Lobaria pulmonaria Scotland v1.0
- 2017-03-27 Mycena capillaripes Frankland 9286 v1.0
- 2017-03-27 Terfezia claveryi T7 v1.0
- 2017-03-13 Panaeolus papilionaceus CIRM-BRFM 715 v1.0
- 2017-03-13 Vuilleminia comedens VcCUCC2015_SSI6 v1.0
- 2017-03-13 Pycnoporus cinnabarinus CIRM-BRFM 50 v1.0
- 2017-03-13 Cladorrhinum bulbillosum DJ3 v1.0
- 2017-03-11 Phyllosticta citrichinaensis CBS 130529 v1.0
- 2017-03-10 Rhodosporidium toruloides APA 2687 v1.0
- 2017-03-10 Bisporella sp. PMI_857 v1.0
- 2017-03-10 Cytidiella melzeri FP 102339 v1.0
- 2017-03-01 Cunninghamella echinulata NRRL 1382 v1.0
- 2017-03-01 Cokeromyces recurvatus NRRL 2243 v1.0
- 2017-03-01 Exophiala alcalophila J33 v1.0
- 2017-03-01 Rhodotorula sp. J31 v1.0
- 2017-03-01 Rhodosporidium toruloides ATCC26217 v1.0
- 2017-03-01 Rhodotorula mucilaginosa ATCC58901 v1.0
- 2017-03-01 Circinella umbellata NRRL1351 v1.0
- 2017-03-01 Exophiala alcalophila ATCC 48519 v1.0
- 2017-03-01 Fennellomyces sp. T-0311 v1.0
- 2017-03-01 Pilaira anomala RSA1997 v1.0
- 2017-03-01 Rhodotorula glutinis v1.0
- 2017-03-01 Chytridium lagenaria Arg66 v1.0
- 2017-02-27 Irpex lacteus CCBAS Fr. 238 617/93 v1.0
- 2017-02-20 Phyllosticta citribraziliensis CBS 100098 v1.0
- 2017-02-14 Colletotrichum cereale CBS 129662 v1.0
- 2017-02-13 Trichophaea hybrida UTF0779 v1.0
- 2017-02-10 Climacocystis borealis CliBor001 v1.0
- 2017-02-10 Syncephalis fuscata S228 v1.0
- 2017-02-08 Gilbertella persicaria var. persicaria CBS 190.32-T v1.0
- 2017-02-03 Pavlovales sp. CCMP2436 v1.0
- 2017-02-03 Cryptophyceae sp. CCMP2293 v1.0
- 2017-02-03 Ochromonadaceae sp. CCMP2298 v1.0
- 2017-02-03 Pelagophyceae sp. CCMP2097 v1.0
- 2017-02-01 Coniella sp v1.0
- 2017-01-30 Clitocybe gibba IJFM A808 v1.0
- 2017-01-12 Entophlyctis helioformis JEL805 v1.0
- 2017-01-12 Radiomyces spectabilis NRRL 2753 v1.0
- 2017-01-12 Spinellus fusiger NRRL 22323 v1.0
- 2016-12-22 Aspergillus uvarum CBS 121591 v1.0
- 2016-12-22 Russula brevipes BPL707 v1.0
- 2016-12-22 Aspergillus sclerotiicarbonarius CBS 121057 v1.0
- 2016-12-22 Aspergillus homomorphus CBS 101889 v1.0
- 2016-12-22 Aspergillus fijiensis CBS 313.89 v1.0
- 2016-11-21 Umbelopsis sp. nov. AD052 v1.0
- 2016-11-21 Chytriomyces sp. MP 71 v1.0
- 2016-11-21 Blastocladiella britannica v1.0
- 2016-11-21 Syncephalis plumigaleata NRRL S24 v1.0
- 2016-11-17 Russula dissimulans BPL704 v1.0
- 2016-11-17 Gloeopeniophorella convolvens OM19405 v1.0
- 2016-11-11 Coccodinium bartschii CBS 121709 v1.0
- 2016-11-06 Massariosphaeria phaeospora CBS 611.86 v1.0
- 2016-11-06 Delphinella strobiligena CBS 735.71 v1.0
- 2016-10-17 Purpureocillium sp. UdeA0106 v1.0
- 2016-10-14 Mortierella multidivaricata RSA 2152 T v1.0
- 2016-10-10 Phascolomyces articulosus v1.0
- 2016-10-10 Kockovaella imperatae NRRL Y-17943 v1.0
- 2016-10-10 Lophiotrema nucula CBS 627.86 v1.0
- 2016-10-10 Scytinostroma sp. KUC9335 v1.0
- 2016-10-10 Auriculariopsis ampla NL-1724 v1.0
- 2016-10-10 Pholiota alnicola AH 47727 v1.0
- 2016-09-30 Mycena galopus ATCC-62051 v1.0
- 2016-09-29 Globomyces pollinis-pini Arg68 v1.0
- 2016-09-27 Absidia padenii NRRL 2977 v1.0
- 2016-09-27 Mucor cordense RSA 1222 v1.0
- 2016-09-27 Gongronella butleri v1.0
- 2016-09-26 Panellus stipticus LUM v1.0
- 2016-09-26 Wickerhamiella domercqiae NRRL Y-6692 v1.0
- 2016-09-09 Colletotrichum phormii CBS102054 v1.0
- 2016-08-31 Porodaedalea chrysoloma FP-135951 v1.0
- 2016-08-31 Gymnopilus junonius AH 44721 v1.0
- 2016-08-24 Zychaea mexicana v1.0
- 2016-08-11 Catenaria anguillulae PL171 v2.0
- 2016-08-06 Neocallimastix californiae v1.0
- 2016-08-06 Anaeromyces robustus v1.0
- 2016-08-06 Piromyces finnis v3.0
- 2016-08-05 Hypoxylon sp. EC38 v3.0
- 2016-07-28 Cyathus striatus AH 40144 v1.0
- 2016-07-14 Tuber borchii Tbo3840 v1.0
- 2016-07-14 Oudemansiella mucida CBS 558.79 v1.0
- 2016-07-14 Xenasmatella vaga CBS212.54 v1.0
- 2016-07-11 Mucor heterogamus NRRL 1489 v1.0
- 2016-07-11 Mycotypha africana NRRL 2978 v1.0
- 2016-07-08 Sclerogaster hysterangioides SCL2.BST v1.0
- 2016-07-08 Lactarius quietus S23C v1.0
- 2016-07-08 Bolbitius vitellinus SZMC-NL-1974 v1.0
- 2016-07-08 Porodaedalea niemelaei PN71-100-IP13 v1.0
- 2016-07-07 Hydnopolyporus fimbriatus CBS384.51 v1.0
- 2016-07-07 Anomoporia bombycina ATCC 64506 v1.0
- 2016-06-30 Symbiochloris reticulata Spain v1.0
- 2016-06-29 Xylaria hypoxylon OSC100004 v1.0
- 2016-06-27 Rickenella fibula HBK330-10 v1.0
- 2016-06-27 Gautieria morchelliformis GMNE.BST v1.0
- 2016-06-23 Cerinomyces ceraceus ATCC 56525 v1.0
Lots of new 1KFG genomes
Too many genomes to count and list and go into detail. See JGI recent releases here
I’ll highlight that 3 Neocallimastigomycota genomes from early diverging lineages have been released including updated assemblies and annotations.
Several Mucoromycota and related genomes from the Zygolife project were also released.
JGI public genome releases late 2015 – Jan 2016
Here are the most recently released fungal genomes at JGI through the 1KFG project and others. A lot of Basidiomycetes and a few species from the Zygolife project are these rolled out.
- 2016-01-25 Paxillus rubicundulus Ve08.2h10 v2.0
- 2016-01-25 Crucibulum laeve CBS 166.37 v1.0
- 2016-01-25 Fibulobasidium inconspicuum Phaff89-39 v1.0
- 2016-01-22 Lepista nuda CBS 247.69 v1.0
- 2016-01-22 Crepidotus variabilis CBS 506.95 v1.0
- 2016-01-22 Kalaharituber pfeilii F3 v1.0
- 2016-01-22 Suillus americanus EM31 v1.0
- 2016-01-13 Leptodontium sp. PMI_412 v1.0
- 2016-01-13 Coprinellus pellucidus v1.0
- 2016-01-04 Coprinopsis marcescibilis CBS121175 v1.0
- 2016-01-04 Pluteus cervinus NL-1719 v1.0
- 2015-12-23 Pterula gracilis CBS309.79 v1.0
- 2015-12-22 Arthroascus fermentans 17710 v1.0
- 2015-12-21 Microdochium bolleyi J235TASD1 v1.0
- 2015-12-07 Dentipellis sp. KUC8613 v1.0
- 2015-12-07 Zygoascus hellenicus Y-7136 v1.0
- 2015-12-04 Suillus brevipes Sb2 v2.0
- 2015-11-18 Coprinellus micaceus FP101781 v2.0
- 2015-11-12 Micromonas pusilla CCMP1545
- 2015-11-12 Micromonas commoda NOUM17 (RCC 299)
- 2015-11-09 Linderina pennispora ATCC 12442 v1.0
- 2015-11-04 Armillaria ostoyae 28-4 v1.0
- 2015-10-28 Basidiobolus meristosporus CBS 931.73 v1.0
- 2015-10-23 Suillus luteus UH-Slu-Lm8-n1 v2.0
- 2015-10-23 Laccaria amethystina LaAM-08-1 v2.0
- 2015-10-23 Suillus decipiens EM49 v1.0
- 2015-10-22 Sebacina vermifera ssp. bescii v1.0
Latest public genome releases
Here’s a snapshot of the last set of Genome releases for 1KFG and JGI projects taken from JGI release page.
- 2015-09-25 Morchella importuna SCYDJ1-A1 v1.0
- 2015-09-23 Heliocybe sulcata OMC1185 v1.0
- 2015-09-23 Lentinellus vulpinus AHS73672-sp v1.0
- 2015-09-21 Pleurotus eryngii ATCC 90797 v1.0
- 2015-09-21 Meredithblackwellia eburnea MCA 4105 v1.0
- 2015-09-21 Naohidea sebacea CBS 8477 (P95) v1.0
- 2015-08-28 Microthyrium microscopicum CBS 115976 v1.0
- 2015-08-17 Setosphaeria turcica NY001 v1.0
- 2015-07-27 Lizonia empirigonia CBS 542.76 v1.0
- 2015-07-10 Suillus granulatus EM37 v1.0
- 2015-07-10 Ceratobasidium sp. (anastomosis group I, AG-I) v1.0
- 2015-06-30 Rhizopus microsporus ATCC11559 v1.0
- 2015-06-26 Colletotrichum caudatum CBS131602 v1.0
- 2015-06-26 Setomelanomma holmii CBS 110217 v1.0
- 2015-06-26 Rhizodiscina lignyota CBS 133067 v1.0
- 2015-06-26 Rutstroemia firma CBS 115.86 v1.0
- 2015-06-26 Torpedospora radiata JK5252C v1.0
- 2015-06-26 Melanospora tiffanyae F1KG0001 v1.0
- 2015-06-26 Trametopsis cervina CIRM-BRFM 1824 v1.0
- 2015-06-26 Myceliophthora heterothallica CBS 203.75 v1.0
- 2015-06-26 Corollospora maritima CBS 119819 v2.0
- 2015-06-26 Plectosphaerella cucumerina DS2psM2a2 v1.0
- 2015-06-22 Decorospora gaudefroyi v1.0
- 2015-06-15 Peniophora sp. CONTA v1.0
- 2015-06-15 Polyporus brumalis BRFM 1820 v1.0
- 2015-06-15 Lollipopaia minuta P26; CBS 116597 v1.0
- 2015-06-05 Suillus hirtellus EM16 v1.0
- 2015-06-05 Onnia scaura P-53A v1.0
- 2015-06-05 Paxillus ammoniavirescens Pou09.2 v1.0
- 2015-06-01 Septobasidium sp. PNB30-8B v1.0
- 2015-05-22 Hydnum rufescens UP504 v2.0
- 2015-05-22 Thelephora ganbajun P2 v1.0
- 2015-05-22 Xerocomus badius 84.06 v1.0
- 2015-05-18 Hyalopycnis blepharistoma ATCC 48560 v1.0
- 2015-05-15 Sympodiomyces attinorum NRRL Y-27639 v1.0
- 2015-05-14 Ceraceosorus sp. MCA 4658 v1.0
- 2015-05-05 Acaromyces ingoldii MCA 4198 v1.0
- 2015-05-01 Rhizopus microsporus var. microsporus ATCC52814 v1.0
- 2015-04-28 Caulochytrium protostelioides ATCC52028 Single Cell Standard Draft
- 2015-04-28 Acephala macrosclerotiorum EW76-UTF0540 v1.0
- 2015-04-24 Clonostachys rosea CBS125111 v1.0
- 2015-04-24 Mutinus elegans ME.BST v1.0
- 2015-04-22 Trametes cingulata BRFM 1805 v1.0
- 2015-04-22 Sarcoscypha coccinea ATCC 58028 v1.0
- 2015-03-20 Phialocephala scopiformis 5WS22E1 v1.0
- 2015-03-06 Loramyces juncicola 46458 v1.0
- 2015-03-06 Trichosporon chiarellii MYA-4694 v1.0
- 2015-03-06 Chionosphaera apobasidialis 52639 v1.0
- 2015-03-06 Bimuria novae-zelandiae CBS 107.79 v1.0
- 2015-03-02 Pyrenochaeta sp. DS3sAY3a v1.0
1KFG@Asilomar
See many of you at Fungal Genetics@Asilomar next week or the JGI user meeting the following week. We are formulating some action plans for more sampling and also preparing a first dataset of 300 genomes for analysis and release. Will prepare update notes from the meetings and the current and future plans for sequencing through the JGI CSP and affiliated projects.
Pseudovirgaria hyperparasitica genome released
1KFG is pleased to announce the public release of the genome of Pseudovirgaria hyperparasitica CBS 121739 P. hyperparasitica is part of an unclassified group of Dothideomycetes (Ascomycota; Dothideomycetes) and its phylogenetic position will be evaluated as part of phylogenomic analyses in the 1KFG project.
Pseudovirgaria hyperparasitica was contributed to the 1KFG project by Pedro Crous and Manfred Binder at CBS-KNAW. As always, please contact the PIs associated with unpublished 1KFG genomes for permission prior to the use of any data in publications.
Tothia fuscella genome released
1KFG is pleased to announce the public release of the genome of Tothia fuscella CBS 130266 T. fuscella is classified in the family Microthyriaceae (Ascomycota; Dothideomycetes;Microthyriales), and is currently the first completed genome for the family and one of two targeted – the other is Microthyrium microscopicum which is nearing completion at JGI as well.
Tothia fuscella was contributed to the 1KFG project by Pedro Crous and Manfred Binder at CBS-KNAW. As always, please contact the PIs associated with unpublished 1KFG genomes for permission prior to the use of any data in publications.
Clathrospora elynae genome released
1KFG is pleased to announce the public release of the genome of Clathrospora elynae CBS 161.51. C. elynae is classified in the family Diademaceae (Ascomycota; Dothideomycetes;Pleosporales), and is currently one of two targeted completed genomes from this family.
Clathrospora elynae was contributed to the 1KFG project by Pedro Crous and Manfred Binder at CBS-KNAW. As always, please contact the PIs associated with unpublished 1KFG genomes for permission prior to the use of any data in publications.
Verruculina enalia genome released
1KFG is pleased to announce the public release of the genome of Verruculina enalia CBS 304.66. V. enalia is classified in the family Didymosphaeriaceae (Ascomycota; Dothideomycetes;Pleosporales), and is currently the only completed genome from this family and one of two targeted for the family.
Verruculina enalia was contributed to the 1KFG project by Pedro Crous and Manfred Binder at CBS-KNAW. As always, please contact the PIs associated with unpublished 1KFG genomes for permission prior to the use of any data in publications.
