Chromosome-scale genome assembly of the sea louse Caligus rogercresseyi by SMRT sequencing and Hi-C analysis.
Chromosome-scale genome assembly of the sea louse Caligus rogercresseyi by SMRT sequencing and Hi-C analysis.
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DOI：
10.1038/s41597-021-00842-w
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发表时间：
2021-02-11
期刊：
影响因子：
9.8
通讯作者：
Warren W
中科院分区：
文献类型：
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作者：
Gallardo-Escárate C;Valenzuela-Muñoz V;Nuñez-Acuña G;Valenzuela-Miranda D;Gonçalves AT;Escobar-Sepulveda H;Liachko I;Nelson B;Roberts S;Warren W
Caligus roercresseyi，俗称海虱，是一种影响智利三文鱼养殖业的体外寄生桡足类动物，每年造成数亿美元的损失。在这项研究中，我们报道了基于单分子实时测序(SMRT)和邻近连接(Hi-C)分析的海虱(C.roercresseyi)基因组的染色体规模组装。通过对不同生命阶段的转录组进行全序列测定，鉴定出编码RNA和非编码RNA，特别是长的非编码RNA(LncRNAs)和微RNA(MiRNAs)。共注释了23,686个蛋白质编码基因和12,558个非编码RNA。此外，6,308个lncRNAs和5,774个miRNAs在幼虫至成虫阶段具有转录活性。综上所述，该基因组资源对于开发鲑鱼水产养殖业的可持续控制策略是一个有价值的工具。描述上报数据的机器可访问的元数据文件：10.6084/m9.figShar.13186865
Caligus rogercresseyi, commonly known as sea louse, is an ectoparasite copepod that impacts the salmon aquaculture in Chile, causing losses of hundreds of million dollars per year. In this study, we report a chromosome-scale assembly of the sea louse (C. rogercresseyi) genome based on single-molecule real-time sequencing (SMRT) and proximity ligation (Hi-C) analysis. Coding RNAs and non-coding RNAs, and specifically long non-coding RNAs (lncRNAs) and microRNAs (miRNAs) were identified through whole transcriptome sequencing from different life stages. A total of 23,686 protein-coding genes and 12,558 non-coding RNAs were annotated. In addition, 6,308 lncRNAs and 5,774 miRNAs were found to be transcriptionally active from larvae to adult stages. Taken together, this genomic resource for C. rogercresseyi represents a valuable tool to develop sustainable control strategies in the salmon aquaculture industry. Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.13186865