OMA Browser Jul2024 out: 31th release with 2,927 genomes

We have released a new version of the OMA Browser. It is the 31th release covering now 2,927 genomes. As usually we provide updated HOGs, OMA Groups and gene centric orthology predictions across all domains of life, with updated crosslinks to the latest UniProtKB, RefSeq and Ensembl ids and up-to-date Gene Ontology annotations.

We also updated the ancestral gene ontology function annotations and the reconstructed ancestral synteny.

New genomes

In this release we added the following new genomes:

• 1 new Mammals
• Panthera leo (Lion)
• 10 new Other vertebrates
• Dicentrarchus labrax (European seabass)
• Cyprinus carpio carpio
• Lacerta agilis (Sand lizard)
• Sceloporus undulatus (Eastern fence lizard)
• Pantherophis guttatus (Corn snake)
• Thamnophis elegans (Western terrestrial garter snake)
• Naja naja (Indian cobra)
• Crotalus tigris (Tiger rattlesnake)
• Protobothrops mucrosquamatus (Taiwan habu)
• Python bivittatus (Burmese python)
• 3 new Insects
• Hermetia illucens (Black soldier fly)
• Dufourea novaeangliae (Sweat bee)
• Acromyrmex echinatior (Panamanian leafcutter ant)
• 14 new Other arthropotes
• Blomia tropicalis (Mite)
• Dermatophagoides pteronyssinus (European house dust mite)
• Panonychus citri (Citrus red mite)
• Haemaphysalis longicornis (Bush tick)
• Ixodes persulcatus (Taiga tick)
• Dermacentor andersoni (Rocky mountain wood tick)
• Dermacentor silvarum (Tick)
• Rhipicephalus microplus (Cattle tick)
• Rhipicephalus sanguineus (Brown dog tick)
• Argiope bruennichi (Wasp spider)
• Caerostris extrusa (Bark spider)
• Parasteatoda tepidariorum (Common house spider)
• Centruroides sculpturatus (Arizona bark scorpion)
• Hyalella azteca (Amphipod)
• 18 new Other Metazoa
• Litomosoides sigmodontis (Filarial nematode worm)
• Trichinella britovi (Parasitic roundworm)
• Mya arenaria (Soft-shell clam)
• Mercenaria mercenaria (Northern quahog)
• Tegillarca granosa (Malaysian cockle)
• Ostrea edulis (Native oyster)
• Pecten maximus (King scallop)
• Pomacea canaliculata (Golden apple snail)
• Physella acuta (Acute bladder snail)
• Biomphalaria glabrata (Bloodfluke planorb)
• Biomphalaria pfeifferi (Bloodfluke planorb)
• Bulinus truncatus (Freshwater snail)
• Aplysia californica (California sea hare)
• Gigantopelta aegis (Deep sea snail)
• Patella vulgata (Common limpet)
• Haliotis rufescens (California red abalone)
• Exaiptasia diaphana (Tropical sea anemone)
• Pocillopora damicornis (Cauliflower coral)
• 17 new Plants
• Klebsormidium nitens (Green alga)
• Ceratopteris richardii (Triangle waterfern)
• Marsilea vestita (Hairy water-clover)
• Ginkgo biloba (Ginkgo)
• Welwitschia mirabilis (Tree tumbo)
• Taxus chinensis (Chinese yew)
• Persea americana (Avocado)
• Annona cherimola (Custard apple)
• Magnolia sinica
• Aristolochia fimbriata (White veined hardy Dutchman's pipe vine)
• Nelumbo nucifera (Sacred lotus)
• Macadamia integrifolia (Macadamia nut)
• Macleaya cordata
• Tetracentron sinense
• Ricinus communis (Castor bean)
• Nymphaea colorata (pocket water lily)
• Diphasiastrum complanatum (Issler's clubmoss)
• 14 new Protists
• Acanthamoeba castellanii str. Neff
• Entamoeba invadens IP1
• Naegleria fowleri (Brain eating amoeba)
• Diacronema lutheri (Unicellular marine alga)
• Anaeramoeba ignava
• Porphyridium purpureum (Red alga)
• Plasmodium yoelii
• Theileria orientalis strain Shintoku
• Neospora caninum (strain Liverpool)
• Paramecium octaurelia
• Paramecium primaurelia
• Polarella glacialis (Dinoflagellate)
• Perkinsus olseni
• Cafeteria roenbergensis (Marine flagellate)

Updated genomes

In this release we updated the following genomes to with new assemblies and gene annotations:

• Borrelia turicatae (strain 91E135)
• Trypanosoma vivax (strain Y486)
• Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
• Salmo salar (Atlantic salmon)
• Sarcoptes scabiei (Itch mite)
• Tetranychus urticae (Two-spotted spider mite)
• Ixodes scapularis (Black-legged tick)
• Crassostrea gigas (Pacific oyster)
• Octopus bimaculoides (California two-spotted octopus)
• Plasmodium malariae
• Babesia bovis
• Populus trichocarpa (Western balsam poplar)

OMA Browser Jul2023 out: 30th release with 2,851 genomes and many new features

We have released a new version of the OMA Browser. It is the 30th release covering now 2,851 genomes. As usually we provide updated HOGs, OMA Groups and gene centric orthology predictions across all domains of life, with updated crosslinks to the latest UniProtKB, RefSeq and Ensembl ids and up-to-date Gene Ontology annotations.

This release contains many new features: We now provide ancestral gene ontology function annotations, compute (ancestral) GO enrichment analysis and display ancestral synteny reconstruction.

New genomes

In this release we added the following new genomes:

 

• 3 new Insects
• Bactrocera dorsalis (Oriental fruit fly)
• Aedes albopictus (Asian tiger mosquito)
• Trichogramma pretiosum (Parasitoid wasp)
• 2 new Other Metazoa
• Priapulus caudatus (Priapulid worm)
• Echinococcus granulosus (Hydatid tapeworm)
• 2 new Plants
• Aegilops tauschii subsp. strangulata (Goatgrass)
• Cajanus cajan (Pigeon pea)
• 11 new Fungi
• Neolecta irregularis (strain DAH-3)
• Aspergillus parasiticus
• Xylona heveae (strain CBS 132557 / TC161)
• Zymoseptoria tritici (strain CBS 115943 / IPO323) (Speckled leaf blotch fungus)
• Glarea lozoyensis (strain ATCC 20868 / MF5171)
• Metarhizium rileyi (strain RCEF 4871)
• Purpureocillium lilacinum
• Thanatephorus cucumeris (strain AG1-IA) (Rice sheath blight fungus)
• Pycnoporus cinnabarinus (Cinnabar-red polypore)
• Spraguea lophii (strain 42_110) (Microsporidian parasite)
• Mucor circinelloides f. circinelloides (strain 1006PhL) (Mucormycosis agent)
• 5 new Protists
• Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)
• Tieghemostelium lacteum (Slime mold)
• Thecamonas trahens ATCC 50062
• Leptomonas pyrrhocoris (Firebug parasite)
• Plasmodium gallinaceum
• 1 new Proteobacteria
• Mariprofundus aestuarium
• 1 new Firmicutes
• Firmicutes bacterium Bu12
• 3 new Actinobacteriota
• Actinobacteria bacterium CROMO_BS_222_8
• Actinobacteria bacterium MAG-41
• Actinobacteria bacterium Dino_bin11
• 261 new Other Bacteria
• bacterium Zod_Metabat.1143
• Candidatus Cloacimonetes bacterium 4572_55
• Calditrichaeota bacterium co234_bin30
• candidate division LCP-89 bacterium B3_LCP
• Calditrichaeota bacterium SuakinDeep_MAG45_3
• bacterium BS750m-G18
• bacterium Aved_18-Q3-R54-62_MAXAC.418
• Gemmatimonadetes bacterium ARS69
• Candidatus Abyssubacteria bacterium SURF_5
• bacterium (candidate division B38) B3_B38
• bacterium HR11 HRbin11
• Sulfidibacter corallicola
• Acidobacteria bacterium Mor1
• Holophagales bacterium EsbW_18-Q3-R4-48_BAT3C.4_cln
• Acidobacteria bacterium s2_autometa_2-0
• Luteitalea pratensis
• Candidatus Aerophobetes bacterium Ae_b3b
• Abitibacteriaceae bacterium CP_BM_RX_R8_36
• Armatimonas rosea
• Fimbriimonas ginsengisoli
• Armatimonadetes bacterium AS09scLD_344
• Armatimonadetes bacterium NC_groundwater_1868_Pr3_B-0.1um_69_17
• Armatimonadetes bacterium Ch1
• Abditibacteriota bacterium RGIG7931
• Atribacter laminatus
• Candidatus Atribacteria bacterium AS21ysBPME_310
• Candidatus Coatesbacteria bacterium Zod_Metabat.233
• bacterium BMS3Abin14
• candidate division KSB1 bacterium BS750m-G25
• Candidatus Omnitrophica bacterium BS750m-G34
• Ignavibacteriales bacterium CG07_land_8_20_14_0_80_59_12
• Bacteroidetes bacterium MAG_11
• Chlorobi bacterium Kalu_18-Q3-R12-55_MAXAC.169
• Candidatus Kryptobacter tengchongensis JGI-3
• Ignavibacteria bacterium Vibo_18-Q3-R45-57_BATAC.435
• Ignavibacteriales bacterium NC_groundwater_1911_Pr3_S2p5_40_15
• Bdellovibrionales bacterium SZAS-2
• Deltaproteobacteria bacterium NC_groundwater_823_Pr1_B-0.1um_55_34
• Candidatus Micrarchaeota archaeon B47_G15
• Fluviispira sanaruensis
• Deltaproteobacteria bacterium UWPOB_DELTA4
• Bdellovibrionales bacterium SZAS-4
• Deltaproteobacteria bacterium RIFOXYA12_FULL_61_11 none
• bacterium new MAG-396
• Deltaproteobacteria bacterium GWA2_38_16 none
• Candidatus Bipolaricaulis sibiricus Ch78
• Candidatus Omnitrophica bacterium Modern_marine.mb.319
• Elusimicrobia bacterium HGW-Elusimicrobia-2
• Elusimicrobia bacterium Zod_Metabat.862
• Deltaproteobacteria bacterium M_MetaBat.58
• Nitrospirae bacterium CG2_30_70_394
• bacterium MAG_59
• candidate division CSSED10-310 bacterium Zod_Metabat.419
• Candidatus Schekmanbacteria bacterium NC_groundwater_415_Ag_B-0.1um_66_15
• bacterium Zod_Metabat.886
• Caldithrix abyssi
• bacterium HR19 HRbin19
• Chloroflexi bacterium NC_groundwater_1535_Pr4_S-0.65um_62_11
• Chloroflexi bacterium FW602_bin.22
• Ktedonosporobacter rubrisoli
• Chloroflexi bacterium MAG002
• Chloroflexi bacterium SB0661_bin_6
• Chloroflexi bacterium RRmetagenome_bin17
• Chloroflexi bacterium Baikal-deep-G117
• bacterium BIN46
• Candidatus Obscuribacter sp. Fred_18-Q3-R57-64_MAXAC.356
• Firmicutes bacterium AS04akNAM_72
• bacterium AS04akNAM_5
• Candidatus Delongbacteria bacterium ZodW_Metabat.17
• bacterium AalE_18-Q3-R2-46_BAT3C.1_cln
• Syntrophaceae bacterium UWMA-0184
• Dissulfurirhabdus thermomarina
• Deltaproteobacteria bacterium GWC2_55_46
• Deltaproteobacteria bacterium NC_groundwater_360_Ag_B-0.1um_69_10
• Deltaproteobacteria bacterium NC_groundwater_1540_Pr4_S-0.65um_55_10
• Proteobacteria bacterium C1.bin.36
• Proteobacteria bacterium SpSt-1152
• Desulfobacterales bacterium NC_groundwater_1491_Pr4_B-0.1um_43_5
• Candidatus Zymogeniaceaea bacterium Zod_Metabat.1292
• Deltaproteobacteria bacterium NC_groundwater_25_Pr7_B-0.1um_64_59
• Candidatus Anaeroferrophillus wilburensis Zod_Metabat.940
• Candidatus Dadabacteria bacterium MH-Pat-all_metabat2_32
• Deltaproteobacteria bacterium NC_groundwater_1648_Pr3_B-0.1um_61_38
• Candidatus Edwardsbacteria bacterium RifOxyA12_full_54_48 none
• Candidatus Eisenbacteria bacterium Fred_18-Q3-R57-64_MAXAC.354
• Elusimicrobia bacterium Zod_Metabat.39
• Candidatus Eremiobacteraeota bacterium CP_BM_RX_R8_7
• Armatimonadetes bacterium NC_groundwater_315_Ag_B-0.1um_31_7
• Armatimonadetes bacterium NC_groundwater_316_Ag_B-0.1um_55_8
• Candidatus Eremiobacteraeota bacterium SCN18_25_8_15_R3_B_62_28
• candidate division FCPU426 bacterium Zod_Metabat.219
• Myxococcales bacterium AS27yjCOA_30
• Candidatus Fermentibacteria bacterium Zod_Metabat.355
• Candidatus Raymondbacteria bacterium RIFOXYA2_FULL_49_16 none
• Firmicutes bacterium Ch29
• Carboxydocella thermautotrophica
• Thermanaerosceptrum fracticalcis
• Clostridia bacterium zrk5
• Clostridia bacterium AS04akNAM_38
• Dethiobacter alkaliphilus
• Alkalicella caledoniensis
• Firmicutes bacterium Bu02
• Firmicutes bacterium NC_groundwater_661_Ag_B-0.1um_63_60
• Clostridiales bacterium RBS10-35
• Firmicutes bacterium AS08sgBPME_412
• Limnochorda pilosa
• Firmicutes bacterium AS04akNAM_86
• Hydrogenispora ethanolica
• Firmicutes bacterium GB_MAG18_067
• PVC group bacterium (ex Bugula neritina AB1) AB1-3
• Candidatus Glassbacteria bacterium RIFCSPLOWO2_12_FULL_58_11 none
• Gemmatimonadetes bacterium ARS67
• Candidatus Goldbacteria bacterium HGW-Goldbacteria-1
• candidate division WS2 bacterium BS5B28
• Candidatus Hydrogenedens sp. RI_113
• Candidatus Dadabacteria bacterium J088
• Gemmatimonadetes bacterium SB0661_bin_27
• Candidatus Eisenbacteria bacterium Zod_Metabat.137
• Verrucomicrobia bacterium Zod_Metabat.1268
• bacterium MAG-57
• Nitrospirae bacterium NC_groundwater_240_Ag_S-0.2um_61_13
• Candidatus Tectomicrobia bacterium NC_groundwater_717_Ag_S-0.2um_59_8
• Candidatus Tectomicrobia bacterium NC_groundwater_748_Ag_S-0.65um_67_15
• Chlamydiae bacterium NC_groundwater_60_Pr7_S-0.65um_42_121
• Candidatus Desantisbacteria bacterium NC_groundwater_1497_Pr4_B-0.1um_33_3
• Candidatus Aureabacteria bacterium Zod_Metabat.1054
• Candidatus Coatesbacteria bacterium Zod_Metabat.53
• Oligoflexia bacterium Zod_Metabat.617
• Candidatus Dependentiae bacterium Go_SlDig_bin_425
• Candidatus Delongbacteria bacterium Go_SlDig_bin_59
• bacterium Modern_marine.mb.62
• bacterium BMS3Bbin03
• Calditrichaeota bacterium CLD2
• bacterium Fred_18-Q3-R57-64_MAXAC.288
• Candidatus Latescibacteria bacterium B68_G9
• Candidatus Latescibacteria bacterium Zod_Metabat.481
• Candidatus Latescibacteria bacterium UWMA-0219
• Candidatus Latescibacteria bacterium ADurb.Bin168
• Gemmatimonadetes bacterium RS821
• Candidatus Lindowbacteria bacterium RIFCSPLOWO2_12_FULL_62_27 none
• Candidatus Margulisbacteria bacterium RAAC_38_40
• Candidatus Termititenax aidoneus NkOx7-01
• candidate division WOR-1 bacterium RIFOXYB2_FULL_45_9 none
• Candidatus Marinimicrobia bacterium BS150m-G59
• Candidatus Marinimicrobia bacterium SuakinDeep_MAGBODY_4
• Candidatus Marinimicrobia bacterium MT.SAG.2
• Candidatus Marinimicrobia bacterium SI036_bin79
• Candidatus Mcinerneyibacteriota bacterium ZodW_Metabat.255
• Candidatus Methylomirabilis oxyfera none
• Candidatus Vecturithrix granuli none
• Candidatus Muirbacterium halophilum BM706
• Myxococcales bacterium AS27yjCOA_137
• Persicimonas caeni
• Deltaproteobacteria bacterium M_MaxBin.025
• Deltaproteobacteria bacterium NC_groundwater_736_Ag_S-0.65um_62_10
• Deltaproteobacteria bacterium NC_groundwater_1656_Pr3_B-0.1um_70_40
• Deltaproteobacteria bacterium Zod_Metabat.937
• Myxococcales bacterium SURF_8
• Deltaproteobacteria bacterium NC_groundwater_1649_Pr3_B-0.1um_64_26
• Myxococcales bacterium EAC29
• Deltaproteobacteria bacterium NP119
• Deltaproteobacteria bacterium NC_groundwater_80_Ag_B-0.1um_71_39
• Deltaproteobacteria bacterium Fred_18-Q3-R57-64_BATAC.308
• Deltaproteobacteria bacterium NC_groundwater_1655_Pr3_B-0.1um_70_22
• Deltaproteobacteria bacterium M1803
• Deltaproteobacteria bacterium Fred_18-Q3-R57-64_BAT3C.701
• candidate division NPL-UPA2 bacterium Unc8
• Nitrospinae bacterium NC_groundwater_1753_Pr3_B-0.1um_50_18
• Nitrospinae bacterium nPCRbin9
• Nitrospinae bacterium NC_groundwater_1503_Pr4_B-0.1um_56_23
• Nitrospinae bacterium NC_groundwater_948_Pr1_S-0.2um_39_25
• Nitrospinae bacterium RIFCSPLOWO2_12_FULL_45_22 none
• Nitrospirae bacterium NC_groundwater_1760_Pr3_B-0.1um_42_52
• Nitrospirae bacterium NC_groundwater_1776_Pr3_B-0.1um_70_102
• Nitrospirae bacterium NC_groundwater_891_Pr1_S2p5_65_34
• Nitrospirae bacterium NC_groundwater_1774_Pr3_B-0.1um_61_24
• bacterium H5_UNCL2
• Candidatus Omnitrophica bacterium B17_G2
• Candidatus Omnitrophica bacterium NC_groundwater_666_Ag_B-0.1um_57_48
• candidate division WWE3 bacterium W9_Combined_metabat1_117
• Candidatus Kerfeldbacteria bacterium NC_groundwater_1953_Pr3_S-0.2um_48_12
• Candidatus Andersenbacteria bacterium NC_groundwater_813_Pr1_B-0.1um_46_36
• candidate division CPR2 bacterium GW2011_GWC2_39_35 none
• bacterium CG_4_10_14_0_2_um_filter_33_32
• candidate division CPR3 bacterium GWF2_35_18 none
• bacterium Kalu_18-Q3-R12-55_BAT3C.2_fly
• bacterium (Candidatus Torokbacteria) CG_4_10_14_0_2_um_filter_35_8
• Candidatus Peregrinibacteria bacterium Lyne_18-Q3-R50-59_MAXAC.411_cln
• Patescibacteria group bacterium MM_PC_MetaG.mb.169
• Candidatus Pacebacteria bacterium LF-bin-483
• Candidatus Microgenomates bacterium NC_groundwater_396_Ag_B-0.1um_42_16
• Candidatus Gracilibacteria bacterium 28_42_T64
• Patescibacteria group bacterium Modern_marine.mb.211
• candidate division Kazan bacterium GW2011_GWA1_50_15 none
• Candidatus Roizmanbacteria bacterium Kalu_18-Q3-R12-55_MAXAC.194_uni
• Candidatus Niyogibacteria bacterium NC_groundwater_707_Ag_S-0.2um_45_26
• Patescibacteria group bacterium Baikal-deep-G193
• Patescibacteria group bacterium E44_bin74
• Berkelbacteria bacterium GW2011_GWE1_39_12 none
• candidate division WWE3 bacterium RAAC2_WWE3_1
• Planctomycetes bacterium B129_G9
• Planctomycetes bacterium B143_G9
• Planctomycetes bacterium Aved_18-Q3-R54-62_MAXAC.457
• Kuenenia stuttgartiensis
• Planctomycetes bacterium E44_bin39
• Planctomycetes bacterium J058
• Planctomycetes bacterium SRT547
• Planctomycetes bacterium NC_groundwater_38_Pr7_B-0.1um_65_11
• Planctomycetes bacterium NC_groundwater_1472_Ag_S-0.65um_69_29
• Planctomycetes bacterium NC_groundwater_1474_Ag_S-0.65um_73_34
• Planctomycetes bacterium Zod_Metabat.792
• Planctomycetes bacterium NC_groundwater_1801_Pr3_B-0.1um_50_33
• Planctomycetes bacterium NC_groundwater_288_Ag_S-0.65um_63_14
• Planctomycetes bacterium H5_PLA8
• Planctomycetes bacterium Poly30
• Planctomycetes bacterium NAT2
• Planctomycetes bacterium Fred_18-Q3-R57-64_MAXAC.456
• Candidatus Poribacteria bacterium Bin_402
• Candidatus Poribacteria bacterium PCPOR2b
• bacterium Zod_Metabat.1116
• candidate division Zixibacteria bacterium A-C077
• Candidatus Coatesbacteria bacterium Bin_172
• Candidatus Riflebacteria bacterium nHGRbin4
• candidate division KSB1 bacterium B21_G16
• bacterium Zod_Metabat.896
• Candidatus Acididesulfobacter guangdongensis AP2
• Candidatus Schekmanbacteria bacterium NC_groundwater_1829_Pr3_B-0.1um_41_52
• Spirochaetes bacterium Zod_Metabat.958
• Brevinema andersonii
• Spirochaetes bacterium GWE1_32_154 none
• Spirochaetales bacterium AS27yjCOA_89
• Spirochaetes bacterium Zod_Metabat.1289
• Spirochaetes bacterium COTS27
• Spirochaetes bacterium Go_SlDig_bin_244
• Candidatus Sumerlaea chitinivorans BY40
• candidate division TA06 bacterium E44_bin18
• candidate division Zixibacteria bacterium SM23_81
• Candidatus Entotheonella factor none
• Thermodesulfobium acidiphilum
• Deltaproteobacteria bacterium EsbW_18-Q3-R4-48_MAXAC.279_cln
• Chlamydiae bacterium AS06rmzACSIP_427
• bacterium RGIG7520
• Nitrospinaceae bacterium SI073_bin188
• Candidatus Hydrogenedentes bacterium J006
• Candidatus Desantisbacteria bacterium CG2_30_40_21
• bacterium OS_PC_MetaG.mb.171
• bacterium UBA9088
• bacterium UBA9089
• bacterium ADurb.Bin236
• Candidatus Cloacimonetes bacterium NORP72
• bacterium KR13_S3.mb.88
• bacterium SP4379
• Candidatus Eisenbacteria bacterium M_DeepCast_400m_m1_028
• Pontiella desulfatans
• candidate division TA06 bacterium 32_111
• Candidatus Cloacimonetes bacterium E29_bin43
• candidate division WOR-3 bacterium Zod_Metabat.912
• candidate division WOR-3 bacterium Zod_Metabat.145
• candidate division WOR-3 bacterium Ch92
• bacterium ADurb.Bin243
• candidate division Zixibacteria bacterium RBG-1 none
• 19 new Archaea
• Candidatus Altiarchaeales archaeon Bin_400
• Odinarchaeota archaeon (strain LCB_4)
• Nanoarchaeota archaeon KR13_N2.mb.113
• Thermococci archaeon B88_G9
• Candidatus Methanoliparum thermophilum NM1a
• Candidatus Methanohalarchaeum thermophilum HMET1
• Methanophagales archaeon G37ANME1
• Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21
• Candidatus Fermentimicrarchaeum limneticum Sv326
• Candidatus Altiarchaeota archaeon DPANNHV_H2.bin.121
• Thermoplasmata archaeon B1_G16
• Thermoplasmatales archaeon MAG-13
• Candidatus Thermoplasmatota archaeon Zod_Metabat.400
• Candidatus Thalassarchaeum sp. BS30m-G33
• Euryarchaeota archaeon NC_groundwater_1308_Ag_S-0.2um_62_92
• Thaumarchaeota archaeon SJ3.Bin56
• Candidatus Methanosuratus subterraneum Ch88
• archaeon B48_G17
• Euryarchaeota archaeon ARS1358

• Gallus gallus (Chicken)

OMA Browser Nov2022 is out: 29th release with 2564 species across all domains of life

We have released a new version of the OMA Browser. It is the 29th release covering now 2,564 complete genomes. As usually we provide updated HOGs, OMA Groups and gene centric orthology predictions across all domains of life, with updated crosslinks to the latest UniProtKB, RefSeq and Ensembl ids and up-to-date Gene Ontology annotations.

New genomes

In this release we added the following new genomes:

• 3 new Mammals
• Tachyglossus aculeatus (Short-beaked echidna)
• Cebus imitator (Panamanian white-faced capuchin)
• Ceratotherium simum simum (Southern white rhinoceros)
• 4 new Birds
• Haliaeetus leucocephalus (Bald eagle)
• Falco tinnunculus (Common kestrel)
• Corvus moneduloides (New Caledonian crow)
• Tyto alba (Barn owl)
• 6 new Other vertebrates
• Scyliorhinus torazame (Cloudy catshark)
• Chiloscyllium punctatum (Brownbanded bambooshark)
• Crocodylus porosus (Saltwater crocodile)
• Salvator merianae (Argentine black and white tegu)
• Varanus komodoensis (Komodo dragon)
• Bufo bufo (European toad)
• 6 new Insects
• Helicoverpa armigera (Cotton bollworm)
• Vanessa tameamea (New Caledonian crow)
• Papilio machaon (Old World swallowtail butterfly)
• Anopheles stephensi (Indo-Pakistan malaria mosquito)
• Anopheles sinensis (Mosquito)
• Cimex lectularius (Bed bug)
• 3 new Other arthropotes
• Varroa destructor (Honeybee mite)
• Stegodyphus mimosarum (African social velvet spider)
• Tigriopus californicus (Marine copepod)
• 9 new Plants
• Chara braunii (Braun's stonewort)
• Triticum turgidum subsp. durum (Durum wheat)
• Miscanthus sinensis (Japanese silver grass)
• Setaria viridis (Green bristlegrass)
• Beta vulgaris subsp. vulgaris (Beet)
• Kalanchoe fedtschenkoi (Lavender scallops)
• Erythranthe guttata (Yellow monkey flower)
• Quercus lobata (Valley oak)
• Eutrema salsugineum (Saltwater cress)
• 29 new Fungi
• Aspergillus brasiliensis (strain CBS 101740 / IMI 381727 / IBT 21946)
• Aspergillus novofumigatus (strain IBT 16806)
• Aspergillus aculeatus (strain ATCC 16872 / CBS 172.66 / WB 5094)
• Aspergillus calidoustus
• Aspergillus violaceofuscus (strain CBS 115571)
• Petromyces alliaceus
• Penicillium roqueforti (strain FM164)
• Trichophyton rubrum (strain ATCC MYA-4607 / CBS 118892) (Athlete's foot fungus)
• Coccidioides posadasii (strain RMSCC 757 / Silveira) (Valley fever fungus)
• Uncinocarpus reesii (strain UAMH 1704)
• Aureobasidium subglaciale (strain EXF-2481)
• Baudoinia panamericana (strain UAMH 10762) (Angels' share fungus)
• Uncinula necator (Grape powdery mildew)
• Scytalidium lignicola (Hyphomycete)
• Cordyceps confragosa
• Fusarium culmorum
• Pseudallescheria apiosperma
• Ophiostoma piceae (strain UAMH 11346) (Sap stain fungus)
• Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
• Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799)
• Rosellinia necatrix (White root-rot fungus)
• Diutina rugosa (Yeast)
• Spizellomyces punctatus (strain DAOM BR117)
• Enterocytozoon bieneusi (strain H348) (Microsporidian parasite)
• Nosema bombycis (strain CQ1 / CVCC 102059) (Microsporidian parasite)
• Vittaforma corneae (strain ATCC 50505) (Microsporidian parasite)
• Edhazardia aedis (strain USNM 41457) (Microsporidian parasite)
• Nematocida parisii (strain ERTm3) (Nematode killer fungus)
• Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371) (Nematode killer fungus)
• 9 new Protists
• Trypanosoma rangeli
• Plasmodium relictum
• Plasmodium falciparum (isolate Camp / Malaysia)
• Plasmodium falciparum (isolate HB3)
• Plasmodium cynomolgi (strain B)
• Plasmodium gonderi
• Symbiodinium microadriaticum (Dinoflagellate)
• Globisporangium ultimum (strain ATCC 200006 / CBS 805.95 / DAOM BR144)
• Saprolegnia diclina (strain VS20)

Updated genomes

the following species were updated for this release.

• Takifugu rubripes (Japanese pufferfish)
• Xiphophorus maculatus (Southern platyfish)
• Oreochromis niloticus (Nile tilapia)
• Gadus morhua (Atlantic cod)
• Esox lucius (Northern pike)
• Danio rerio (Zebrafish)
• Ornithorhynchus anatinus (Duckbill platypus)
• Dipodomys ordii (Ord's kangaroo rat)
• Cavia porcellus (Guinea pig)
• Rattus norvegicus (Rat)
• Macaca mulatta (Rhesus macaque)
• Papio anubis (Olive baboon)
• Gorilla gorilla gorilla (Western lowland gorilla)
• Pongo abelii (Sumatran orangutan)
• Nomascus leucogenys (Northern white-cheeked gibbon)
• Callithrix jacchus (White-tufted-ear marmoset)
• Carlito syrichta (Philippine tarsier)
• Felis catus (Cat)
• Equus caballus (Horse)
• Monodelphis domestica (Gray short-tailed opossum)
• Taeniopygia guttata (Zebra finch)
• Xenopus tropicalis (Western clawed frog)
• Tribolium castaneum (Red flour beetle)
• Drosophila melanogaster (Fruit fly)
• Musa acuminata subsp. malaccensis (Wild banana)

OMA Browser Dec2021 is out! 28th release with 2496 complete genomes

We have released a new update of the OMA Browser. It is the 28th release covering now 2,496 complete genomes. As usually we provide updated HOGs, OMA Groups and gene centric orthology predictions across all domains of life, with updated crosslinks to the latest UniProtKB, RefSeq and Ensembl ids and up-to-date Gene Ontology annotations.

New genomes

In this release we added the following new genomes:

• 5 new mammals
• Bos indicus x Bos taurus (Hybrid cattle)
• Balaenoptera musculus (Blue whale)
• Suricata suricatta (Meerkat)
• Rhinolophus ferrumequinum (Greater horseshoe bat)
• Vombatus ursinus (Common wombat)
• 4 new birds
• Phasianus colchicus (Common pheasant)
• Chloebia gouldiae (Gouldian finch)
• Strigops habroptila (Kakapo)
• Athene cunicularia (Burrowing owl)
• 12 new fishes and snakes
  
• Callorhinchus milii (Ghost shark)
• Echeneis naucrates (Live sharksucker)
• Sparus aurata (Gilthead sea bream)
• Oryzias javanicus (Javanese ricefish)
• Gambusia affinis (Western mosquitofish)
• Salarias fasciatus (Jewelled blenny)
• Oreochromis aureus (Israeli tilapia)
• Salmo trutta (Brown trout)
• Electrophorus electricus (Electric eel)
• Sinocyclocheilus grahami (Dianchi golden-line fish)
• Podarcis muralis (Wall lizard)
• Pseudonaja textilis (Eastern brown snake)
• 12 new non-vertebrata animals
• Patiria miniata (Bat star)
• Lytechinus variegatus (Green sea urchin)
• Toxocara canis (Canine roundworm)
• Wuchereria bancrofti
• Necator americanus (Human hookworm)
• Angiostrongylus costaricensis (Nematode worm)
• Haemonchus contortus (Barber pole worm)
• Haemonchus placei (Barber's pole worm)
• Nippostrongylus brasiliensis (Rat hookworm)
• Romanomermis culicivorax (Nematode worm)
• Echinococcus multilocularis (Fox tapeworm)
• Taenia multiceps (Coenurus tapeworm)
• 7 new plants
• Asparagus officinalis (Garden asparagus)
• Papaver somniferum (Opium poppy)
• Cannabis sativa (Hemp)
• Prunus dulcis (Almond)
• Rosa chinensis (China rose)
• Eucalyptus grandis (Flooded gum)
• Citrus clementina (Clementine)
• 21 new fungi
• Pneumocystis murina (strain B123) (Mouse pneumocystis pneumonia agent)
• Aspergillus tubingensis (strain CBS 134.48)
• Penicillium digitatum (strain PHI26 / CECT 20796) (Green mold)
• Epicoccum nigrum (Soil fungus)
• Verticillium alfalfae (strain VaMs.102 / ATCC MYA-4576 / FGSC 10136) (Verticillium wilt of alfalfa)
• Fusarium vanettenii (strain ATCC MYA-4622 / CBS 123669 / FGSC 9596 / NRRL 45880 / 77-13-4)
• Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) (Soil fungus)
• Candida maltosa (strain Xu316) (Yeast)
• Clavispora lusitaniae (strain ATCC 42720) (Yeast)
• Eremothecium cymbalariae (strain CBS 270.75 / DBVPG 7215 / KCTC 17166 / NRRL Y-17582) (Yeast)
• Gloeophyllum trabeum (strain ATCC 11539 / FP-39264 / Madison 617) (Brown rot fungus)
• Armillaria ostoyae (Armillaria root rot fungus)
• Serpula lacrymans var. lacrymans (strain S7.3) (Dry rot fungus)
• Dacryopinax primogenitus (strain DJM 731) (Brown rot fungus)
• Trichosporon asahii var. asahii (strain CBS 8904) (Yeast)
• Rhodosporidium toruloides (Yeast)
• Kalmanozyma brasiliensis (strain GHG001) (Yeast)
• Wallemia mellicola (strain ATCC MYA-4683 / CBS 633.66)
• Allomyces macrogynus (strain ATCC 38327)
• Rhizopus microsporus
• Conidiobolus coronatus (strain ATCC 28846 / CBS 209.66 / NRRL 28638)
• 3 new proteobacteria
• Ideonella sakaiensis (strain NBRC 110686 / TISTR 2288 / 201-F6)
• Legionella spiritensis
• Desulfatibacillum aliphaticivorans
• 6 new other bacteria
• Streptomyces netropsis
• Niabella drilacis (strain DSM 25811 / CCM 8410 / LMG 26954 / E90)
• Roseivirga ehrenbergii (strain DSM 102268 / JCM 13514 / KCTC 12282 / NCIMB 14502 / KMM 6017)
• Formosa agariphila (strain DSM 15362 / KCTC 12365 / LMG 23005 / KMM 3901)
• Chryseobacterium sp. (strain P1-3)
• Flavobacteria bacterium (strain MS024-2A)
• 2 new Archaea
• Halorubrum vacuolatum
• Caldiarchaeum subterraneum  

Updated genomes

Additionally we updated the following genomes:

• Branchiostoma floridae (Florida lancelet)
• Mus musculus (Mouse)
• Hypsibius dujardini (Water bear)