摘要
应用新一代高通量测序技术Roche 454对大口黑鲈(Micropterus salmoides)北方亚种和佛罗里达亚种进行转录组测序并建立ESTs数据库,结果得到北方亚种ESTs序列468 671条,佛罗里达亚种ESTs序列332 322条,两亚种ESTs序列的平均长度分别为306.5bp和304.4bp。将得到的高质量序列进行拼接,大口黑鲈北方亚种和佛罗里达亚种共得到contig序列总数分别为42 056条和35 743条,平均长度分别为612.6bp和588.2bp。将大口黑鲈北方亚种和佛罗里达亚种的数据库合并,通过与蛋白数据库比对后,共78 938条EST序列被注释,根据Gene Ontology(GO)信息,对序列按照分子功能、细胞组成、生物学过程进行分类。通过对大口黑鲈合并的EST库信息进行大通量SSR和SNP位点的发掘,发现了含SSRs和SNPs的序列分别为25 469和8 547条。从EST数据库中随机选取75条contigs进行北方亚种和佛罗里达亚种的序列比较,结果表明两个亚种EST序列同源性为99.2%。
In this study,Roche 454 high-throughput technology was used to conduct transcriptome sequencing and establish ESTs database of the largemouth bass northern subspecies and Florida subspecies.The results showed that a total of 468 671 and 332 322 ESTs were generated from northern subspecies and Florida subspecies.The average length was 306.5 bp and 304.4 bp,respectively.Assembly of the largemouth bass northern subspecies and Florida subspecies＇ high quality ESTs resulted in 42 056 and 35 743 contigs.The average length was 612.6 bp and 588.2 bp,respectively.EST database of largemouth bass northern subspecies and Florida subspecies was merged and then compared with known protein databases.78 938 EST sequences in total were annotated.By exploring the merged largemouth bass EST library,over 25 469 and 8 547 putative SSRs and SNPs were identified.Comparison of the northern subspecies and Florida subspecies sequence was made by randomly selecting 75 contigs from the EST database.Results showed that EST sequences of the two subspecies homology were 99.2%.
出处
《上海海洋大学学报》
CAS
CSCD
北大核心
2012年第6期945-950,共6页
Journal of Shanghai Ocean University
基金
农业部"948"项目(2010-G12)
农业部公益性行业科研专项(200903045)
国家科技支撑计划项目(2012BAD26B03)
