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1、Vol447
2、7June2007
3、doi:10.1038/nature05846LETTERSThemedakadraftgenomeandinsightsintovertebrategenomeevolution121111MasahiroKasahara*,KiyoshiNaruse*,ShinSasaki*,YoichiroNakatani*,WeiQu,BudrulAhsan,111122TomoyukiYamada,YukinobuNagayasu,KoichiroDoi,YasuhiroKasai,TomokoJindo,Dai
4、sukeKobayashi,2333,455AtsukoShimada,AtsushiToyoda,YokoKuroki,AsaoFujiyama,TakashiSasaki,AtsushiShimizu,556666ShuichiAsakawa,NobuyoshiShimizu,Shin-ichiHashimoto,JunYang,YongjunLee,KoujiMatsushima,782,9999SumioSugano,MitsuruSakaizumi,TakanoriNarita,KazukoOhishi,ShinobuHaga,F
5、umikoOhta,999992HisayoNomoto,KeikoNogata,TomomiMorishita,TomokoEndo,TadasuShin-I,HiroyukiTakeda,19ShinichiMorishita&YujiKoharaTeleostscomprisemorethanhalfofallvertebratespeciesandhaveToconstructultracontigs,thescaffoldswereintegratedwiththe1adaptedtoavarietyofmarineandfres
6、hwaterhabitats.Theirgen-medakageneticmapbyusingSNPmarkers.Forthispurpose,weomeevolutionanddiversificationareimportantsubjectsforthefurtherobtainedabout2.8-foldcoverageofshotgunreadsfromunderstandingofvertebrateevolution.AlthoughdraftgenomeanotherinbredstrainHNI(refs9,10),w
7、hichisderivedfromthe2,3sequencesoftwopufferfisheshavebeenpublished,analysisofnorthernJapanesepopulation.ThereadswereassembledbyRAMENmorefishgenomesisdesirable.Herewereportahigh-qualitydrafttoscaffoldscovering648Mb.AligningtheHNIcontigswiththeHd-11genomesequenceofasmallegg-
8、layingfreshwaterteleost,medakarRgenomeusingBLASTZ,weidentified16.4millionSNPsaswell(Oryziaslatipes).MedakaisnativetoEastAsiaandanexcellentas1.40millioninsertionsand1.45milliondeletionsinnon-repetitivemodelsystemforawiderangeofbiology,includingecotoxicology,regions(Suppleme
9、ntaryTable2).Weselected2,401SNPsandgen-4–67carcinogenesis,sexdeterminationanddevelopmentalgenetics.eticallymappedthemontomedakachromosomesusingabackcrossIntheassembledmedakagenome(700megabases),whichislesspanelbetweenthetwostrains.Wherepossible,atleastoneSNPthanhalfoftheze
10、brafishgenome,wepredicted20,141genes,markerwasselectedineachHd-rRscaffoldofgreaterthan60K
