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Chromosome-scale genome assembly of the sea louse Caligus rogercresseyi

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posted on 31.01.2020, 19:47 by Cristian Gallardo-Escárate, Valentina Valenzuela-Muñóz, Gustavo Núñez-Acuña, Diego Valenzuela-Miranda, Ana Teresa Goncalves, Ivan Liachko, Bradley Nelson, Steven Roberts, Wesley Warren

Sea lice are marine copepods that contribute to substantial economic loss for salmon aquaculture worldwide. In Chile, Caligus rogercresseyi is the primary species found on Atlantic salmon farms that also impacts native fish species. 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

Funding

funded by the Program for Health Management of Aquaculture, FIE-2015-V014, FONDECYT grant #1180867, and FONDAP grant #15110027, CONICYT-Chile.

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