First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach 英文参考文献.docVIP

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First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach 英文参考文献.doc

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First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach 英文参考文献

FirstSurveyoftheWheatChromosome5AComposition throughaNextGenerationSequencingApproach NicolaVitulo1,AlessandroAlbiero1,2,ClaudioForcato1,DavideCampagna1,FrancescaDalPero2 ,Paolo Bagnaresi3,MorenoColaiacovo3,PrimettaFaccioli3,AntonellaLamontanara3,HanaSimkovaˇ ′4 ,Marie Kubala′kova′4,GaetanoPerrotta5,PaoloFacella5,LoredanaLopez5,MarcoPietrella6,GiulioGianese7, JaroslavDolezˇel4,GiovanniGiuliano6,LuigiCattivelli3*,GiorgioValle1,A.MicheleStanca3 1CRIBIBiotechnologyCenter,UniversityofPadova,Padova,Italy,2Bmr-genomicssrl,Padova,Italy,3CRAGenomicsResearchCentre,Fiorenzuolad’Arda,Italy,4Centreof theRegionHana′forBiotechnologicalandAgriculturalResearch,InstituteofExperimentalBotany,Olomouc,CzechRepublic,5ENEA,TRISAIAResearchCenter,Rotondella, Italy,6ENEA,CASACCIAResearchCenter,Rome,Italy,7YlichronSrl,Rome,Italy Abstract Wheatisoneoftheworld’smostimportantcropsandischaracterizedbyalargepolyploidgenome.Onewaytoreduce genomecomplexityistoisolatesinglechromosomesusingflowcytometry.LowcoverageDNAsequencingcanprovidea snapshot of individual chromosomes, allowing a fast characterization of their main features and comparison with other genomes.Weusedmassivelyparallel454pyrosequencingtoobtaina2xcoverageofwheatchromosome5A.Theresulting sequence assembly was used to identify TEs, genes and miRNAs, as well as to infer a virtual gene order based on the synteny with other grass genomes. Repetitive elements account for more than 75% of the genome. Gene content was estimatedconsideringnon-redundantreadsshowingatleastonematchtoESTsorproteins.Theresultsindicatethatthe codingfractionrepresents1.08%and1.3%oftheshortandlongarmrespectively,projectingthenumberofgenesofthe whole chromosome to approximately 5,000. 195 candidate miRNA precursors belonging to 16 miRNA families were identified.The5Ageneswereusedtosearchforsyntenicrelationshipsbetweengrassgenomes.Theshortarmisclosely related to Brachypodium chromosome 4, sorghum chromosome 8 and rice chromosome 12; the long arm to regions of