Genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus, a model gastrointestinal worm.
Genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus, a model gastrointestinal worm.
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DOI：
10.1038/s42003-020-01377-3
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发表时间：
2020-11-09
影响因子：
5.9
通讯作者：
Cotton JA
中科院分区：
文献类型：
--
作者：
Doyle SR;Tracey A;Laing R;Holroyd N;Bartley D;Bazant W;Beasley H;Beech R;Britton C;Brooks K;Chaudhry U;Maitland K;Martinelli A;Noonan JD;Paulini M;Quail MA;Redman E;Rodgers FH;Sallé G;Shabbir MZ;Sankaranarayanan G;Wit J;Howe KL;Sargison N;Devaney E;Berriman M;Gilleard JS;Cotton JA
弯曲Haemonchus tortus是一种分布在全球的小型反刍动物胃肠道病原体，具有重要的经济意义，已成为研究包括主要人类病原体在内的更广泛寄生虫群体的驱虫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、OpGen和10X Genomics的长分子方法生成了一个高度连续的283.4 Mbp染色体尺度的基因组组装，包括MHco3（ISE）的已分解性染色体。N1隔离。我们发现秀丽隐杆线虫的染色体含量有显著的守恒模式，但基因顺序几乎没有守恒。短读和长读转录组测序使我们能够在寄生虫的整个生命周期中定义协调的转录调控，并完善我们对顺式和反式剪接的理解。最后，我们提供了在单个分离物和全球范围内染色体范围遗传多样性的全面图片。这些数据为了解隐杆线虫和其他线虫的进化和基因组学提供了高质量的比较，并扩展了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适应性状（如耐药性）方面的实验可追溯性。Stephen Doyle等人报道了一种关键的寄生线虫模型——扭曲血蜱（Haemonchus contortus）的染色体尺度基因组组装和转录组序列数据。这些数据显示秀丽隐杆线虫的染色体内容几乎完全保存，并使我们深入了解这种重要病原体的转录调控和染色体范围内的遗传多样性。
Haemonchus contortus is 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 with Caenorhabditis 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 of cis- and trans-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 of Caenorhabditis and 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. Stephen Doyle et al. report the chromosome-scale genome assembly and transcriptome sequence data of Haemonchus contortus, a key parasitic nematode model. These data show nearly complete conservation of chromosome content with C. elegans and brings insight into transcriptional regulation and chromosome-wide genetic diversity in this important pathogen.
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影响因子：
3.3
作者：
Doyle SR;Laing R;Bartley DJ;Britton C;Chaudhry U;Gilleard JS;Holroyd N;Mable BK;Maitland K;Morrison AA;Tait A;Tracey A;Berriman M;Devaney E;Cotton JA;Sargison ND
通讯作者：
Sargison ND
DOI：
10.1073/pnas.1312087110
发表时间：
2013-10-01
影响因子：
11.1
作者：
Berkseth, Matt;Ikegami, Kohta;Zarkower, David
通讯作者：
Zarkower, David
影响因子：
48
作者：
Chin, Chen-Shan;Peluso, Paul;Schatz, Michael C.
通讯作者：
Schatz, Michael C.
影响因子：
3.9
作者：
Argimón S;Abudahab K;Goater RJE;Fedosejev A;Bhai J;Glasner C;Feil EJ;Holden MTG;Yeats CA;Grundmann H;Spratt BG;Aanensen DM
通讯作者：
Aanensen DM
影响因子：
7
作者：
Barriere, Antoine;Yang, Shiaw-Pyng;Ruvinsky, Ilya
通讯作者：
Ruvinsky, Ilya