Expression Profiling without Genome Sequence Information in a Non-Model Species, Pandalid Shrimp (Pandalus latirostris), by Next-Generation Sequencing 英文参考文献.docVIP

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Expression Profiling without Genome Sequence Information in a Non-Model Species, Pandalid Shrimp (Pandalus latirostris), by Next-Generation Sequencing 英文参考文献.doc

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Expression Profiling without Genome Sequence Information in a Non-Model Species, Pandalid Shrimp (Pandalus latirostris), by Next-Generation Sequencing 英文参考文献

ExpressionProfilingwithoutGenomeSequence InformationinaNon-ModelSpecies,PandalidShrimp (Pandaluslatirostris),byNext-GenerationSequencing RyoukaKawahara-Miki1,KentaWada2,NorikoAzuma2,SusumuChiba2* 1GenomeResearchCenter,NODAIResearchInstitute,TokyoUniversityofAgriculture,Setagaya-ku,Tokyo,Japan,2FacultyofBioindustry,TokyoUniversityofAgriculture, Abashiri,Hokkaido,Japan Abstract While the study of phenotypic variation is a central theme in evolutionary biology, the genetic approaches available to understanding this variation are usually limited because of a lack of genomic information in non-model organisms. This studyexploredtheutilityofnext-generationsequencing(NGS)technologiesforstudyingphenotypicvariationsbetween2 populationsofanon-modelspecies,theHokkaishrimp(Pandaluslatirostris;Decapoda,Pandalidae).Beforeweperformed transcriptome analyses using NGS, we examined the genetic and phenotypic differentiation between the populations. AnalysesusingmicrosatelliteDNAmarkerssuggestedthatthesepopulationsgeneticallydifferedfromoneanotherandthat geneflowisrestrictedbetweenthem.Moreover,theresultsofour4-yearfieldobservationsindicatedthattheeggtraits varied genetically between the populations. Using mRNA extracted from the ovaries of 5 females in each population of Hokkaishrimp,wethenperformedatranscriptomeanalysisofthe2populations.Atotalof13.66gigabases(Gb)of75-bp readswasobtained.Further,58,804and33,548contigsforthefirstandsecondpopulation,respectively,and47,467contigs forbothpopulationswereproducedbydenovoassembly.Wedetected552sequenceswiththeformerapproachand702 sequences with the later one; both sets of sequences showed greater than twofold differences in the expression levels between the 2 populations. Twenty-nine sequences were found in both approaches and were considered to be differentially expressed genes. Among them, 9 sequences showed significant similarity to functional genes. The present studyshowedadenovoassemblyapproachforthetranscriptomeofanon-modelspeciesusi