Whole Genome Sequence of the Parasitoid Wasp Microplitis demolitor That Harbors an Endogenous Virus Mutualist.
Whole Genome Sequence of the Parasitoid Wasp Microplitis demolitor That Harbors an Endogenous Virus Mutualist.
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DOI：
10.1534/g3.118.200308
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发表时间：
2018-08-30
期刊：
影响因子：
--
通讯作者：
Strand MR
中科院分区：
文献类型：
--
作者：
Burke GR;Walden KKO;Whitfield JB;Robertson HM;Strand MR
毁卵侧沟茧蜂（Microplitis demolitor）是一种寄生蜂，主要用于防治鳞翅目幼虫，也是研究茧病毒属共生病毒功能和进化的模式昆虫。在这里，我们介绍了M。Demolitor基因组（组装版本2.0），基因组大小为241 Mb，N50支架和重叠群大小分别为1.1 Mb和14 Kb。使用RNA-Seq数据和病毒来源基因的手动注释，我们产生了一个高质量的基因集，其中包括18，586个真核生物和171个病毒来源的蛋白质编码基因。茧病毒是具有不寻常基因组结构的dsDNA病毒，其中病毒基因组整合到黄蜂基因组中，并且由两种不同的组分组成：扩增、环化并包装成病毒体以通过产卵输出到黄蜂宿主中的前病毒片段;和复制基因。该基因组组装揭示了至少两个支架含有裸病毒样基因和前病毒片段，表明这些组分中的至少一些在单个染色体上的基因组中彼此接近。更新的汇编和注释可在几个公开访问的数据库中获得;包括国家生物技术信息中心和Ag数据共享。此外，所有原始序列数据可用于M. demolitor已被整合，并可在i5 k工作区进行可视化。这个全基因组组装和注释代表了唯一的基因组规模的，注释的装配从寄生蜂的谱系，具有关联与bracoviruses（“microgastraid复合体”），提供了重要的基线知识的架构增选病毒共生体基因组。
Microplitis demolitor (Hymenoptera: Braconidae) is a parasitoid used as a biological control agent to control larval-stage Lepidoptera and serves as a model for studying the function and evolution of symbiotic viruses in the genus Bracovirus. Here we present the M. demolitor genome (assembly version 2.0), with a genome size of 241 Mb, and a N50 scaffold and contig size of 1.1 Mb and 14 Kb, respectively. Using RNA-Seq data and manual annotation of genes of viral origin, we produced a high-quality gene set that includes 18,586 eukaryotic and 171 virus-derived protein-coding genes. Bracoviruses are dsDNA viruses with unusual genome architecture, in which the viral genome is integrated into the wasp genome and is comprised of two distinct components: proviral segments that are amplified, circularized, and packaged into virions for export into the wasp’s host via oviposition; and replication genes. This genome assembly revealed that at least two scaffolds contain both nudivirus-like genes and proviral segments, demonstrating that at least some of these components are near each other in the genome on a single chromosome. The updated assembly and annotation are available in several publicly accessible databases; including the National Center for Biotechnology Information and the Ag Data Commons. In addition, all raw sequence data available for M. demolitor have been consolidated and are available for visualization at the i5k Workspace. This whole genome assembly and annotation represents the only genome-scale, annotated assembly from the lineage of parasitoid wasps that has associations with bracoviruses (the ‘microgastroid complex’), providing important baseline knowledge about the architecture of co-opted virus symbiont genomes.
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影响因子：
12.3
作者：
Desjardins, Christopher A.;Gundersen-Rindal, Dawn E.;Hostetler, Jessica B.;Tallon, Luke J.;Fadrosh, Douglas W.;Fuester, Roger W.;Pedroni, Monica J.;Haas, Brian J.;Schatz, Michael C.;Jones, Kristine M.;Crabtree, Jonathan;Forberger, Heather;Nene, Vishvanath
通讯作者：
Nene, Vishvanath
影响因子：
6.7
作者：
Burke GR;Thomas SA;Eum JH;Strand MR
通讯作者：
Strand MR
DOI：
10.1534/g3.117.040741
发表时间：
2017-08-07
期刊：
G3 (Bethesda, Md.)
影响因子：
--
作者：
Geib SM;Liang GH;Murphy TD;Sim SB
通讯作者：
Sim SB
影响因子：
3.8
作者：
Annaheim, Marc;Lanzrein, Beatrice
通讯作者：
Lanzrein, Beatrice
影响因子：
5.8
作者：
Simao, Felipe A.;Waterhouse, Robert M.;Zdobnov, Evgeny M.
通讯作者：
Zdobnov, Evgeny M.