Transcriptomic analysis of the housefly (Musca domestica) larva using massively parallel pyrosequencing
Transcriptomic analysis of the housefly (Musca domestica) larva using massively parallel pyrosequencing
复制标题
使用大规模并行焦磷酸测序对家蝇幼虫进行转录组分析
DOI：
10.1007/s11033-011-0939-3
复制
发表时间：
2012-02-01
影响因子：
2.8
通讯作者：
Priya, T. A. Jose
中科院分区：
文献类型：
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作者：
Liu, Fengsong;Tang, Ting;Priya, T. A. Jose
为了探索家蝇的转录组并识别独特的序列，我们在Roche 454-FLX平台上使用大规模并行焦磷酸测序来生成这种苍蝇的大量EST数据集。结果，我们总共获得了249，555个EST，平均阅读长度为373 bp。这些读段被组装成13，206个重叠群和20，556个单例。使用Swissprot和Nr数据库的BlastX搜索，我们能够将4，814个重叠群和8，166个单元素识别为独特序列。随后，对注释序列进行GO分析，搜索结果显示大多数查询序列可分配给某些基因本体论术语。此外，通过KEGG进行功能分类和通路分配，总共将2，164个独特序列定位到184个KEGG通路中。作为首次大规模RNA测序的尝试，通过对转录组的研究，可以为进一步研究功能基因组学奠定基础。
To explore the transcriptome ofMusca domesticalarvae and to identify unique sequences, we used massively parallel pyrosequencing on the Roche 454-FLX platform to generate a substantial EST dataset of this fly. As a result, we obtained a total of 249,555 ESTs with an average read length of 373 bp. These reads were assembled into 13,206 contigs and 20,556 singletons. Using BlastX searches of the Swissprot and Nr databases, we were able to identify 4,814 contigs and 8,166 singletons as unique sequences. Subsequently, the annotated sequences were subjected to GO analysis and the search results showed a majority of the query sequences were assignable to certain gene ontology terms. In addition, functional classification and pathway assignment were performed by KEGG and 2,164 unique sequences were mapped into 184 KEGG pathways in total. As the first attempt on large-scale RNA sequencing ofM. domestica, this general picture of the transcriptome can establish a fundamental resource for further research on functional genomics.