基于 PacBio 测序的淡色库蚊（双翅目：蚊科）基因组草图组装
A Draft Genome Assembly of Culex pipiens pallens (Diptera: Culicidae) Using PacBio Sequencing.
机构信息
Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, Shandong First Medical University (Shandong Academy of Medical Sciences), Tai'an, China.
Shandong Institute of Parasitic Diseases, Shandong First Medical University (Shandong Academy of Medical Sciences), Jining, China.
出版信息
Genome Biol Evol. 2021 Mar 1;13(3). doi: 10.1093/gbe/evab005.
The Northern house mosquito, Culex pipiens pallens, serves as important temperate vectors of several diseases, particularly the epidemic encephalitis and lymphatic filariasis. Reference genome of the Cx. pipiens pallens is helpful to understand its genomic basis underlying the complexity of mosquito biology. Using 142 Gb (∼250×) of the PacBio long reads, we assembled a draft genome of 567.56 Mb. The assembly includes 1,714 contigs with a N50 length of 0.84 Mb and a Benchmarking Universal Single-Copy Orthologs (BUSCO) completeness of 95.6% (n = 1,367). We masked 60.63% (344.11 Mb) of the genome as repetitive elements and identified 2,032 noncoding RNAs. A total of 18,122 protein-coding genes captured a 94.1% of BUSCO gene set. Gene family evolution and function enrichment analyses revealed that significantly expanded gene families mainly involved in immunity, gustatory and olfactory chemosensation, and DNA replication/repair.
北方家蚊，库蚊属，是几种疾病的重要温带媒介，特别是流行性乙型脑炎和淋巴丝虫病。Cx. pipiens pallens 的参考基因组有助于了解其基因组基础，这是蚊子生物学复杂性的基础。我们使用了 142Gb（约 250×）的 PacBio 长读长，组装了一个 567.56Mb 的基因组草图。该组装包含 1714 个 contigs，N50 长度为 0.84Mb，基准通用单拷贝同源物（BUSCO）的完整性为 95.6%（n=1367）。我们将基因组的 60.63%（344.11Mb）掩蔽为重复元件，并鉴定了 2032 个非编码 RNA。总共捕获了 18122 个蛋白质编码基因，占 BUSCO 基因集的 94.1%。基因家族进化和功能富集分析表明，显著扩张的基因家族主要涉及免疫、味觉和嗅觉化学感觉以及 DNA 复制/修复。
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