Annotation of Two Large Contiguous Regions from the Haemonchus contortus Genome Using RNA-seq and Comparative Analysis with Caenorhabditis elegans 英文参考文献.docVIP

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Annotation of Two Large Contiguous Regions from the Haemonchus contortus Genome Using RNA-seq and Comparative Analysis with Caenorhabditis elegans 英文参考文献.doc

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Annotation of Two Large Contiguous Regions from the Haemonchus contortus Genome Using RNA-seq and Comparative Analysis with Caenorhabditis elegans 英文参考文献

AnnotationofTwoLargeContiguousRegionsfromthe HaemonchuscontortusGenomeUsingRNA-seqand ComparativeAnalysiswithCaenorhabditiselegans RozLaing1,2,MartinHunt1,AnnaV.Protasio1,GarySaunders2,KarenMungall3,StevenLaing2 ,Frank Jackson4,MichaelQuail1,RobinBeech5,MatthewBerriman1,JohnS.Gilleard6* 1Welcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom, 2Faculty of Veterinary Medicine, University of Glasgow, Glasgow, Strathclyde, United Kingdom, 3Genome Sciences Centre, BC Cancer Agency,Vancouver,British Columbia, Canada, 4Moredun ResearchInstitute,Pentlands SciencePark,BushLoan,Penicuik,UnitedKingdom,5InstituteofParasitology,McGillUniversity,SteAnnedeBellevue,Quebec,Canada,6FacultyofVeterinaryMedicine, UniversityofCalgary,Calgary,Alberta,Canada Abstract Thegenomesofnumerousparasiticnematodesarecurrentlybeingsequenced,buttheircomplexityandsize,togetherwith highlevelsofintra-specificsequencevariationandalackofreferencegenomes,makestheirassemblyandannotationa challenging task. Haemonchus contortus is an economically significant parasite of livestock that is widely used for basic researchaswellasforvaccinedevelopmentanddrugdiscovery.Itisoneofmanymedicallyandeconomicallyimportant parasiteswithinthestrongylidnematodegroup.Thisgroupofparasiteshastheclosestphylogeneticrelationshipwiththe modelorganismCaenorhabditiselegans,makingcomparativeanalysisapotentiallypowerfultoolforgenomeannotation and functional studies. To investigate this hypothesis, we sequenced two contiguous fragments from the H. contortus genomeandundertookdetailedannotationandcomparativeanalysiswithC.elegans.TheadultH.contortustranscriptome wassequencedusinganIlluminaplatformandRNA-seqwasusedtoannotatea409kboverlappingBACtilingpathrelating totheXchromosomeanda181kbBACinsertrelatingtochromosomeI.Intotal,40genesand12putativetransposable elements were identified. 97.5% of the annotated genes had detectable homologues in C. elegans of which 60% had putativeorthologues,significan