Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs 英文参考文献.docVIP

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Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs 英文参考文献.doc

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Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs 英文参考文献

Sequencing,Mapping,andAnalysisof27,455Maize Full-LengthcDNAs CarolSoderlund1*,AnneDescour1,DaveKudrna2,MatthewBomhoff1,LomaxBoyd1,JenniferCurrie2, AngelinaAngelova2,KristiCollura2,MarinaWissotski2,ElizabethAshley2,DarrenMorrow3 ,John Fernandes3,VirginiaWalbot3,YeisooYu2* 1BIO5 Institute, University of Arizona, Tucson, Arizona, United States of America, 2Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson,Arizona,UnitedStatesofAmerica,3DepartmentofBiology,StanfordUniversity,Stanford,California,UnitedStatesofAmerica Abstract Full-lengthcDNA(FLcDNA)sequencingestablishesthepreciseprimarystructureofindividualgenetranscripts.Fromtwo libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The averagetranscriptlengthwas1.44kbincluding218basesand321basesof59and39UTR,respectively,with8.6%ofthe FLcDNAsencodingpredictedproteinsoffewerthan100aminoacids.Approximately94%oftheFLcDNAswerestringently mappedtothemaizegenome.Althoughnearlytwo-thirdsofthisgenomeiscomposedoftransposableelements(TEs),only 5.6%oftheFLcDNAscontainedTEsequencesincodingorUTRregions.Approximately7.2%oftheFLcDNAsareputative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis, or poplar annotated genes. A strict FLcDNA assemblygenerated24,467non-redundantsequences,ofwhich88%havenon-maizeproteinmatches.TheFLcDNAswere alsoassembledwith41,759FLcDNAsinGenBankfromotherprojects,wheresemi-strictparameterswereusedtoidentify 13,368potentiallyuniquenon-redundantsequencesfromthisproject.Thelibraries,ESTs,andFLcDNAsequencesproduced fromthisprojectarepubliclyavailable.TheannotatedESTandFLcDNAassembliesareavailablethroughthemaizeFLcDNA webresource(). Citation: Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, et al. (2009) Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length c