Extensive genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus , a model gastrointestinal worm
Extensive genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus , a model gastrointestinal worm
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广泛的基因组和转录组变异定义了捻转血矛线虫（一种胃肠道蠕虫模型）的染色体规模组装
DOI：
10.1101/2020.02.18.945246
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发表时间：
2020
期刊：
影响因子：
--
通讯作者：
Doyle S
中科院分区：
文献类型：
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作者：
Doyle S
捻转血矛线虫（Haemonchus contortus）是一种全球性分布的经济上重要的小反刍动物胃肠道病原体，已成为研究包括人类主要病原体在内的更广泛的寄生虫群体的抗蠕虫药抗性和其他寄生虫特异性特征的关键线虫模型。在这里，我们报告使用PacBio长读和OpGen和10X Genomics长分子方法生成高度连续的283.4 Mbp染色体规模的基因组组装，包括MHco3（伊势）.N1分离株的解析性染色体。我们发现秀丽隐杆线虫的染色体内容具有明显的保守性，但基因顺序几乎不保守。短读和长读转录组测序使我们能够在整个寄生虫的生命周期中确定协调的转录调控，并完善我们对顺式和反式剪接的理解。最后，我们提供了一个全面的图片染色体范围内的遗传多样性，在一个单一的隔离和全球。这些数据提供了一个高质量的比较，了解的进化和基因组ofCaillhabditis和其他线虫和扩展的实验易处理性，这种模式寄生线虫在理解蠕虫生物学，药物发现和疫苗开发，以及重要的适应性性状，如耐药性。
Haemonchus contortusis a globally distributed and economically important gastrointestinal pathogen of small ruminants and has become a key nematode model for studying anthelmintic resistance and other parasite-specific traits among a wider group of parasites including major human pathogens. Here, we report using PacBio long-read and OpGen and 10X Genomics long-molecule methods to generate a highly contiguous 283.4 Mbp chromosome-scale genome assembly including a resolved sex chromosome for the MHco3(ISE).N1 isolate. We show a remarkable pattern of conservation of chromosome content withCaenorhabditis elegans, but almost no conservation of gene order. Short and long-read transcriptome sequencing allowed us to define coordinated transcriptional regulation throughout the parasite’s life cycle and refine our understanding ofcis-andtrans-splicing. Finally, we provide a comprehensive picture of chromosome-wide genetic diversity both within a single isolate and globally. These data provide a high-quality comparison for understanding the evolution and genomics ofCaenorhabditisand other nematodes and extend the experimental tractability of this model parasitic nematode in understanding helminth biology, drug discovery and vaccine development, as well as important adaptive traits such as drug resistance.