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Detection of selection signatures in farmed coho salmon (Oncorhynchus kisutch) using dense genome-wide information

López, Maria-Eugenia and Cadiz, M. and Rondeau, E. B. and Koop, B. F. and Yanez, J. M. (2021). Detection of selection signatures in farmed coho salmon (Oncorhynchus kisutch) using dense genome-wide information. Scientific Reports. 11 , 9685
[Research article]

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Abstract

Animal domestication and artificial selection give rise to gradual changes at the genomic level in populations. Subsequent footprints of selection, known as selection signatures or selective sweeps, have been traced in the genomes of many animal livestock species by exploiting variation in linkage disequilibrium patterns and/or reduction of genetic diversity. Domestication of most aquatic species is recent in comparison with land animals, and salmonids are one of the most important fish species in aquaculture. Coho salmon (Oncorhynchus kisutch), cultivated primarily in Chile, has been subjected to breeding programs to improve growth, disease resistance traits, and flesh color. This study aimed to identify selection signatures that may be involved in adaptation to culture conditions and traits of productive interest. To do so, individuals of two domestic populations cultured in Chile were genotyped with 200 thousand SNPs, and analyses were conducted using iHS, XP-EHH and CLR. Several signatures of selection on different chromosomal regions were detected across both populations. Some of the identified regions under selection contained genes such anapc2, alad, chp2 and myn, which have been previously associated with body weight in Atlantic salmon, or sec24d and robo1, which have been associated with resistance to Piscirickettsia salmonis in coho salmon. Findings in our study can contribute to an integrated genome-wide map of selection signatures, to help identify the genetic mechanisms of phenotypic diversity in coho salmon.

Authors/Creators:López, Maria-Eugenia and Cadiz, M. and Rondeau, E. B. and Koop, B. F. and Yanez, J. M.
Title:Detection of selection signatures in farmed coho salmon (Oncorhynchus kisutch) using dense genome-wide information
Series Name/Journal:Scientific Reports
Year of publishing :2021
Volume:11
Article number:9685
Number of Pages:13
Publisher:NATURE RESEARCH
ISSN:2045-2322
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Evolutionary Biology
(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Genetics (medical genetics to be 30107 and agricultural genetics to be 40402)
URN:NBN:urn:nbn:se:slu:epsilon-p-112453
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-112453
Additional ID:
Type of IDID
DOI10.1038/s41598-021-86154-w
Web of Science (WoS)000656987300010
ID Code:24668
Faculty:NJ - Fakulteten för naturresurser och jordbruksvetenskap
Department:(NL, NJ) > Department of Aquatic Resources
Deposited By: SLUpub Connector
Deposited On:23 Jun 2021 08:03
Metadata Last Modified:23 Jun 2021 08:11

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