Genomic survey of the ectoparasitic mite Varroa destructor, a major pest of the honey bee Apis mellifera.
Genomic survey of the ectoparasitic mite Varroa destructor, a major pest of the honey bee Apis mellifera.
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DOI：
10.1186/1471-2164-11-602
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发表时间：
2010-10-25
期刊：
影响因子：
4.4
通讯作者：
Evans JD
中科院分区：
文献类型：
--
作者：
Cornman SR;Schatz MC;Johnston SJ;Chen YP;Pettis J;Hunt G;Bourgeois L;Elsik C;Anderson D;Grozinger CM;Evans JD
外寄生螨狄斯瓦螨（Varroa destructor）已经成为国内蜜蜂（Apis mellifera）的主要害虫。在这里，我们提出了一个初步调查的V. destructor基因组进行，以促进我们的了解瓦螨生物学，并确定螨控制的新途径。该序列调查为瓦螨属-蜜蜂相互作用的分子和群体遗传学分析提供了直接资源，并为全面的瓦螨属基因组计划确定了未来的挑战。通过流式细胞术估计基因组大小为565 Mbp，大于大多数测序的昆虫，但相对于一些其他阿卡里适度。采用454焦磷酸测序法，对约1，000只螨的合并基因组DNA进行测序，覆盖率为4.3×。将2.4 Gbp的测序读段组装成184，094个重叠群，其中N50为2，262 bp，过滤后总计294 Mbp的序列。在这些重叠群中的13，031个上鉴定出与其他真核生物基因组具有同源性的基因序列，总计31.3 Mbp。在V. destructor和其他四种节肢动物基因组中保守的蛋白质序列块的比对表明，相对于蜱肩硬蜱，该螨谱系内的序列差异更高。在序列调查中鉴定了许多可能与破坏弧菌相关的微生物，包括源自放线菌目的一种或多种细菌物种的~300 Kbp序列。通过PCR检测证实了这种细菌在个体螨中的存在，但因螨的年龄和性别而异。调查中还发现了一种与杆状病毒科有关的新型病毒的片段。单核苷酸多态性（SNPs）的发生率为6.2 × 10- 5/bp，与该物种的历史人口学和生活史相一致。这项调查为研究界提供了通用工具，并为研究瓦螨的生物学和防治提供了新的方向。瓦螨属基因组资源的持续开发将为代表性不足的节肢动物的比较基因组学带来布恩，并将进一步增强蜜蜂及其相关病原体作为研究宿主-病原体相互作用的模型系统。
The ectoparasitic mite Varroa destructor has emerged as the primary pest of domestic honey bees (Apis mellifera). Here we present an initial survey of the V. destructor genome carried out to advance our understanding of Varroa biology and to identify new avenues for mite control. This sequence survey provides immediate resources for molecular and population-genetic analyses of Varroa-Apis interactions and defines the challenges ahead for a comprehensive Varroa genome project. The genome size was estimated by flow cytometry to be 565 Mbp, larger than most sequenced insects but modest relative to some other Acari. Genomic DNA pooled from ~1,000 mites was sequenced to 4.3× coverage with 454 pyrosequencing. The 2.4 Gbp of sequencing reads were assembled into 184,094 contigs with an N50 of 2,262 bp, totaling 294 Mbp of sequence after filtering. Genic sequences with homology to other eukaryotic genomes were identified on 13,031 of these contigs, totaling 31.3 Mbp. Alignment of protein sequence blocks conserved among V. destructor and four other arthropod genomes indicated a higher level of sequence divergence within this mite lineage relative to the tick Ixodes scapularis. A number of microbes potentially associated with V. destructor were identified in the sequence survey, including ~300 Kbp of sequence deriving from one or more bacterial species of the Actinomycetales. The presence of this bacterium was confirmed in individual mites by PCR assay, but varied significantly by age and sex of mites. Fragments of a novel virus related to the Baculoviridae were also identified in the survey. The rate of single nucleotide polymorphisms (SNPs) in the pooled mites was estimated to be 6.2 × 10-5per bp, a low rate consistent with the historical demography and life history of the species. This survey has provided general tools for the research community and novel directions for investigating the biology and control of Varroa mites. Ongoing development of Varroa genomic resources will be a boon for comparative genomics of under-represented arthropods, and will further enhance the honey bee and its associated pathogens as a model system for studying host-pathogen interactions.
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DOI：
10.1093/bioinformatics/8.3.275
发表时间：
1992-06-01
期刊：
COMPUTER APPLICATIONS IN THE BIOSCIENCES
影响因子：
--
作者：
JONES, DT;TAYLOR, WR;THORNTON, JM
通讯作者：
THORNTON, JM
影响因子：
1.7
作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
通讯作者：
Walichiewicz, J
影响因子：
2.2
作者：
Jeyaprakash, Ayyamperumal;Hoy, Marjorie A.
通讯作者：
Hoy, Marjorie A.
DOI：
10.1073/pnas.0906970106
发表时间：
2009-09-01
影响因子：
11.1
作者：
Johnson, Reed M.;Evans, Jay D.;Berenbaum, May R.
通讯作者：
Berenbaum, May R.
影响因子：
4.4
作者：
Highfield, Andrea C.;El Nagar, Aliya;Schroeder, Declan C.
通讯作者：
Schroeder, Declan C.