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2015-09

GGGenomeに約110種のゲノムを追加

高速塩基配列 GGGenome に111種のゲノムを追加しました。追加したゲノムは、Ensembl、Ensembl Metazoa、Ensembl Plants、Phytozome が提供するゲノムのうち、まだGGGenomeに入っていなかったもの全てです。ただし、Phytozome については利用制限がついていない “Public” なものだけを追加しました。

今回のアップデートで、GGGenomeで検索できる生物は約210種になりました。とくに、今まで手薄だった植物を大幅に拡充し、60以上の種に対応させることができました。

現在GGGenomeで検索できるゲノムの一覧を、ヘルプページのなかの 検索可能なデータベース一覧 に掲載しました。また、GGGenomeのプルダウンメニューから、生物種や学名などでインクリメンタル検索しながら選択することもできます。

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今回のアップデートで追加したゲノム一覧

SourceGroupSpecies和名学名AssemblyLink to GGGenome
EnsemblMammalAardvarkツチブタOrycteropus aferOryAfe1.0 (May, 2012)OryAfe1.0
EnsemblVertebrateAmazon mollyアマゾンモーリーPoecilia formosaPoecilia_formosa-5.1.2 (Oct, 2013)PoeFor_5.1.2
EnsemblDeuterostomePacific transparent sea squirtユウレイボヤCiona savignyiCSAV 2.0 (Oct, 2005)CSAV2.0
EnsemblVertebrateBlind cave fishブラインドケープテトラAstyanax mexicanusAstMex102 (Apr, 2013)AstMex102
EnsemblVertebrateChinese softshell turtleスッポンPelodiscus sinensisPelSin_1.0 (Oct, 2011)PelSin_1.0
EnsemblMammalCrab-eating macaqueカニクイザルMacaca fascicularisMacFas5.0 (Jun, 2013)MacFas5.0
EnsemblVertebrateDuckマガモAnas platyrhynchosBGI_duck_1.0 (Apr, 2013)BGI_duck_1.0
EnsemblVertebrateFlycatcherシロエリヒタキFicedula albicollisFicAlb_1.4 (Jan, 2012)FicAlb_1.4
EnsemblMammalHamadryas baboonマントヒヒPapio hamadryasPham (Nov, 2008)Pham
EnsemblVertebratePlatyfishサザンプラティフィッシュXiphophorus maculatusXipmac4.4.2 (Jan, 2012)Xipmac4.4.2
EnsemblMammalPrairie voleハタネズミMicrotus ochrogasterMicOch1.0 (Nov, 2012)MicOch1.0
EnsemblMammalSperm whaleマッコウクジラPhyseter macrocephalusPhyMac_2.0.2 (Sep, 2013)PhyMac_2.0.2
EnsemblVertebrateSpotted garスポッテッドガーLepisosteus oculatusLepOcu1 (Dec, 2011)LepOcu1
EnsemblMammalGreen monkeyミドリザルChlorocebus sabaeusChlSab1.1 (Mar, 2014)ChlSab1.1
EnsemblMetazoaInsectPea aphidエンドウヒゲナガアブラムシAcyrthosiphon pisumAcyr_2.0 (Jun, 2010)Acyr_2.0
EnsemblMetazoaInsectYellowfever mosquitoネッタイシマカAedes aegyptiAaegL3 (Dec, 2013)AaegL3
EnsemblMetazoaMetazoaSpongeカイメンAmphimedon queenslandicaAqu1 (Oct, 2010)Aqu1
EnsemblMetazoaInsectMosquitoハマダラカAnopheles darlingiAdarC3 (Jan, 2014)AdarC3
EnsemblMetazoaInsectLeafcutter antハキリアリAtta cephalotesAttacep1.0 (Jul, 2012)Attacep1.0
EnsemblMetazoaInsectSilkwormカイコガBombyx moriASM15162v1 (Feb, 2013)ASM15162v1
EnsemblMetazoaNematodeFilarial nematode wormマレー糸状虫Brugia malayiB_malayi-3.0 (Dec, 2012)B_malayi_3.0
EnsemblMetazoaMetazoaPolychaete wormイトゴカイCapitella teletaCapitella teleta v1.0 (Dec, 2012)Capte_v1.0
EnsemblMetazoaMetazoaPacific oysterマガキCrassostrea gigasoyster_v9 (Sep, 2012)oyster_v9
EnsemblMetazoaInsectSouthern house mosquitoネッタイイエカCulex quinquefasciatusCpipJ2 (Jan, 2007)CpipJ2
EnsemblMetazoaInsectMonarch butterflyオオカバマダラDanaus plexippusDanPle_1.0 (Nov, 2011)DanPle_1.0
EnsemblMetazoaMetazoaWater fleaミジンコDaphnia pulexV1.0 (Feb, 2011)Dappu_V1.0
EnsemblMetazoaInsectMountain pine beetleキクイムシDendroctonus ponderosaeDendPond_male_1.0 (Apr, 2013)DendPond_1.0
EnsemblMetazoaInsectD. willistoni (Fruit fly)ショウジョウバエ属Drosophila willistonidwil_caf1 (Jul, 2008)dwil_caf1
EnsemblMetazoaInsectPostman butterflyドクチョウHeliconius melpomeneHmel1 (Feb, 2012)Hmel1
EnsemblMetazoaMetazoaCalifornian leechヒルHelobdella robustaHelro1 (Dec, 2012)Helro1
EnsemblMetazoaMetazoaBlack-legged tickクロアシマダニIxodes scapularisIscaW1 (Aug, 2007)IscaW1
EnsemblMetazoaNematodeEye wormロア糸状虫Loa loaLoa_loa_V3 (Jan, 2010)Loa_loa_V3
EnsemblMetazoaMetazoaGiant owl limpetカサガイLottia giganteaLotgi1 (Jan, 2013)Lotgi1
EnsemblMetazoaInsectHumpbacked flyクサビノミバエMegaselia scalarisMsca1 (Feb, 2013)Msca1
EnsemblMetazoaInsectGlanville fritillaryグランヴィルヒョウモンモドキMelitaea cinxiaMelCinx1.0 (Jul, 2014)MelCinx1.0
EnsemblMetazoaMetazoaSea walnutムネミオプシス・レイディMnemiopsis leidyiMneLei_Aug2011 (Sep, 2011)MneLei
EnsemblMetazoaInsectParasitic waspキョウソヤドリコバチNasonia vitripennisNvit_2.1 (Nov, 2012)Nvit_2.1
EnsemblMetazoaMetazoaStarlet sea anemoneムシモドキギンチャク科Nematostella vectensisASM20922v1 (Sep, 2007)ASM20922v1
EnsemblMetazoaNematodeO. volvulus (Parasitic nematode)回旋糸状虫Onchocerca volvulusCameroon_v3 (Nov, 2013)Cameroon_v3
EnsemblMetazoaInsectBody louseヒトジラミPediculus humanusPhumU2 (Nov, 2008)PhumU2
EnsemblMetazoaInsectTriatomid bugサシガメRhodnius prolixusRproC1 (Dec, 2010)RproC1
EnsemblMetazoaMetazoaBlood flukeマンソン住血吸虫Schistosoma mansoniASM23792v2 (Apr, 2012)ASM23792v2
EnsemblMetazoaInsectRed imported fire antアカヒアリSolenopsis invictaSi_gnG (Feb, 2011)Si_gnG
EnsemblMetazoaMetazoaEuropean centipedeムカデStrigamia maritimaSmar1 (Feb, 2013)Smar1
EnsemblMetazoaMetazoaTwo-spotted spider miteナミハダニTetranychus urticaeASM23943v1 (Nov, 2011)ASM23943v1
EnsemblMetazoaInsectRed flour beetleコクヌストモドキTribolium castaneumTcas3 (Feb, 2010)Tcas3
EnsemblMetazoaNematodeTrichina worm旋毛虫Trichinella spiralisTspiralis1 (Mar, 2011)Tspiralis1
EnsemblMetazoaMetazoaT. adhaerensセンモウヒラムシTrichoplax adhaerensASM15027v1 (Aug, 2006)ASM15027v1
EnsemblMetazoaInsectDampwood termiteネバダオオシロアリZootermopsis nevadensisZooNev1.0 (Jun, 2014)ZooNev1.0
EnsemblPlantsPlantTausch's goatgrassタルホコムギAegilops tauschiiASM34733v1 (Dec, 2013)ASM34733v1
EnsemblPlantsPlantA. trichopodaアムボレラ・トリコポダAmborella trichopodaAMTR1.0 (Jan, 2014)AMTR1.0
EnsemblPlantsPlantLyre-leaved rock-cressシロイヌナズナ属Arabidopsis lyratav.1.0 (Dec, 2008)Araly_v.1.0
EnsemblPlantsPlantThale cressシロイヌナズナArabidopsis thalianaTAIR10 (Sep, 2010)TAIR10_en
EnsemblPlantsPlantPurple false bromeセイヨウヤマカモジ, ミナトカモジグサBrachypodium distachyonv1.0 (Jan, 2009)Bradi_v1.0
EnsemblPlantsPlantWild cabbageヤセイカンラン, ワイルドキャベツBrassica oleraceav2.1Braol_v2.1
EnsemblPlantsPlantChinese cabbageハクサイBrassica rapaIVFCAASv1 (Aug, 2009)IVFCAASv1
EnsemblPlantsPlantGreen algaeクラミドモナスChlamydomonas reinhardtiiv3.1 (Nov, 2007)Chlre_v3.1
EnsemblPlantsPlantRed algaシアニディオシゾンCyanidioschyzon merolaeASM9120v1 (Nov, 2008)ASM9120v1
EnsemblPlantsPlantSoybeanダイズGlycine maxV1.0 (Jan, 2010)Soybn_V1.0
EnsemblPlantsPlantBarleyオオムギHordeum vulgare082214v1 (Mar, 2012)Horvu_v1
EnsemblPlantsPlantL. perrieriイネ科サヤヌカグサ属Leersia perrieriLperr_V1.4 (Mar, 2014)Lperr_V1.4
EnsemblPlantsPlantBarrel medicタルウマゴヤシMedicago truncatula str. A17MedtrA17_4.0 (Jun, 2014)MedtrA17_4.0
EnsemblPlantsPlantBananaバナナMusa acuminataMA1 (Aug, 2012)MA1
EnsemblPlantsPlantAfrican wild riceイネ・野生種Oryza barthiiObart_v1.0 (Apr, 2014)Obart_v1.0
EnsemblPlantsPlantAfrican wild riceイネ・野生種Oryza brachyanthaOryza_brachyantha.v1.4b (May, 2011)Orybr_v1.4b
EnsemblPlantsPlantAfrican wild riceイネ・野生種Oryza glaberrimaAGI1.1 (May, 2011)AGI1.1
EnsemblPlantsPlantBrazilian wild riceイネ・野生種Oryza glumaepatulaALNU02000000 (Aug, 2013)Orygl
EnsemblPlantsPlantLongstamen riceイネ・野生種Oryza longistaminatav0117-2013Aug (Aug, 2013)Orylo_v0117
EnsemblPlantsPlantAustralian wild riceイネ・野生種Oryza meridionalisOryza_meridionalis_v1.3 (Oct, 2014)Oryme_v1.3
EnsemblPlantsPlantIndian wild riceイネ・野生種Oryza nivaraAWHD00000000 (Aug, 2013)Oryni
EnsemblPlantsPlantRed riceイネ・野生種Oryza punctataAVCL00000000 (Aug, 2013)Orypu
EnsemblPlantsPlantBrownbeard riceイネ・野生種Oryza rufipogonPRJEB4137 (Aug, 2013)PRJEB4137
EnsemblPlantsPlantRiceイネ・インディカ種Oryza sativa IndicaASM465v1 (Jan, 2005)ASM465v1
EnsemblPlantsPlantRiceイネ・ジャポニカ種Oryza sativa JaponicaIRGSP-1.0IRGSP1.0
EnsemblPlantsPlantO. lucimarinusオストレオコッカスOstreococcus lucimarinusASM9206v1 (Jan, 2011)ASM9206v1
EnsemblPlantsPlantMossヒメツリガネゴケPhyscomitrella patensASM242v1 (Jul, 2006)ASM242v1
EnsemblPlantsPlantWestern balsam poplarポプラ, コットンウッドPopulus trichocarpaJGI2.0 (Jan, 2010)Poptr_JGI2.0
EnsemblPlantsPlantPeachモモPrunus persicaPrupe1_0 (Mar, 2013)Prupe1_0
EnsemblPlantsPlantSpikemossイヌタカヒバSelaginella moellendorffiiv1.0 (May, 2011)Selml_v1.0
EnsemblPlantsPlantFoxtail milletアワSetaria italicaJGIv2.0 (Jan, 2012)Setit_JGIv2.0
EnsemblPlantsPlantTomatoトマトSolanum lycopersicum str. Heinz 1706SL2.50 (Oct, 2014)SL2.50
EnsemblPlantsPlantPotatoジャガイモSolanum tuberosumSolTub_3.0 (May, 2011)SolTub_3.0
EnsemblPlantsPlantSorghumモロコシSorghum bicolorSorbi1 (Dec, 2007)Sorbi1
EnsemblPlantsPlantCacaoカカオTheobroma cacaoTheobroma_cacao_20110822 (May, 2014)Thecc_20110822
EnsemblPlantsPlantWheatコムギTriticum aestivumIWGSC1.0+popseq (Nov, 2014)IWGSC1.0
EnsemblPlantsPlantRed wild einkornウラルツコムギTriticum urartuASM34745v1 (Apr, 2013)ASM34745v1
EnsemblPlantsPlantGrapeブドウVitis viniferaIGGP_12x (Jun, 2011)IGGP_12x
EnsemblPlantsPlantMaize, CornトウモロコシZea maysAGPv3 (Apr, 2013)AGPv3
PhytozomePlantMossヒメツリガネゴケPhyscomitrella patensv3.0 (Oct, 2007)Ppatens_251_v3
PhytozomePlantSpikemossイヌタカヒバSelaginella moellendorffiiv1.0 (Dec, 2007)Smoellendorffii_91_v1
PhytozomePlantGreen algaeクラミドモナスChlamydomonas reinhardtiiv5.5 (May, 2014)Creinhardtii_281_v5_5
PhytozomePlantO. lucimarinusオストレオコッカスOstreococcus lucimarinusv2.0 (Jan, 2011)Olucimarinus_231_v2
PhytozomePlantC. grandifloraナズナ属Capsella grandiflorav1.1Cgrandiflora_v1
PhytozomePlantRed shepherd's purseナズナ属Capsella rubellav1.0Crubella_v1
PhytozomePlantPapayaパパイアCarica papayaASGPBv0.4Cpapaya_r.Dec2008
PhytozomePlantC. subellipsoideaコッコミクサ属Coccomyxa subellipsoideav2.0CsubellipsoideaC169_v2.0
PhytozomePlantCucumberキュウリCucumis sativusv1.0Csativus_v1
PhytozomePlantEucalyptusローズガムEucalyptus grandisv2.0Egrandis_v2.0
PhytozomePlantStrawberryエゾヘビイチゴFragaria vescav1.1Fvesca_v1.1
PhytozomePlantCottonワタGossypium raimondiiv2.1Graimondii_v2.0
PhytozomePlantFlaxアマLinum usitatissimumv1.0Lusitatissimum_BGIv1.0
PhytozomePlantAppleリンゴMalus domesticav1.0Mdomestica_v1.0
PhytozomePlantCassavaキャッサバManihot esculentav6.1Mesculenta_v6
PhytozomePlantPicoplanktonic green algaミクロモナスMicromonas pusillav3.0MpusillaCCMP1545_v3.0
PhytozomePlantPicoplanktonic green algaミクロモナスMicromonas pusillav3.0MpusillaRCC299_v3.0
PhytozomePlantMonkey flowerミムルスMimulus guttatusv2.0Mguttatus_v2.0
PhytozomePlantRiceイネOryza sativav7.0Osativa_v7.0
PhytozomePlantPeachハナモモPrunus persicav2.1Ppersica_v2.0
PhytozomePlantCastor beanトウゴマRicinus communisv0.1Rcommunis_TIGR.0.1
PhytozomePlantGiant duckweedウキクサSpirodela polyrhizav2Spolyrhiza_v1
PhytozomePlantGreen algaボルボックスVolvox carteriv2.0Vcarteri_v2

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