CattleTickBase: An integrated Internet-based bioinformatics resource for Rhipicephalus (Boophilus) microplus
CattleTickBase: An integrated Internet-based bioinformatics resource for Rhipicephalus (Boophilus) microplus
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DOI：
10.1016/j.ijpara.2011.11.006
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发表时间：
2012-02-01
影响因子：
4
通讯作者：
Lew-Tabor, Ala E.
中科院分区：
文献类型：
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作者：
Bellgard, Matthew I.;Moolhuijzen, Paula M.;Lew-Tabor, Ala E.
Rhipicephalus microplus基因组庞大且结构复杂，这使得组装基因组序列变得困难，而且为所需的生物信息学提供资源的成本很高。有鉴于此，一个由国际合作者组成的联盟成立，以汇集资源开始对该基因组进行测序。我们已经获得了基因组DNA，并将其组装成重叠群，这些重叠群代表了来自R.microplus基因组的基因富集区的超过1.8千兆碱基对的DNA。我们还有几个数据集，其中包含该联盟进行的一些基因表达实验的转录序列。开发了一个网上资源，使科学界能够访问我们的数据集，并通过一个名为Yabi的网上生物信息学环境进行分析。集合的生物信息学资源被称为CattleTickBase。我们的联盟已经获得了基因组和转录序列数据，覆盖了微乳杆菌基因组基因编码区的大约0.9倍。Yabi工具将在微乳杆菌基因组测序过程中方便访问和操作牛壁虱基因组序列数据。在此过程中，CattleTickBase资源将继续更新。由爱思唯尔有限公司代表澳大利亚寄生虫学学会出版。
The Rhipicephalus micro plus genome is large and complex in structure, making it difficult to assemble a genome sequence and costly to resource the required bioinformatics. In light of this, a consortium of international collaborators was formed to pool resources to begin sequencing this genome. We have acquired and assembled genomic DNA into contigs that represent over 1.8 Gigabase pairs of DNA from gene-enriched regions of the R. micro plus genome. We also have several datasets containing transcript sequences from a number of gene expression experiments conducted by the consortium. A web-based resource was developed to enable the scientific community to access our datasets and conduct analysis through a web-based bioinformatics environment called YABI. The collective bioinformatics resource is termed CattleTickBase. Our consortium has acquired genomic and transcriptomic sequence data at approximately 0.9X coverage of the gene-coding regions of the R. microplus genome. The YABI tool will facilitate access and manipulation of cattle tick genome sequence data as the genome sequencing of R. microplus proceeds. During this process the CattleTickBase resource will continue to be updated. Published by Elsevier Ltd. on behalf of Australian Society for Parasitology Inc.