IIb-RAD-sequencing coupled with random forest classification indicates regional population structuring and sex-specific differentiation in salmon lice (

Overview
TitleIIb-RAD-sequencing coupled with random forest classification indicates regional population structuring and sex-specific differentiation in salmon lice (
AuthorsGuragain P, Båtnes AS, Zobolas J, Olsen Y, Bones AM, Winge P
TypeJournal Article
Journal NameEcology and evolution
Volume12
Issue4
Year2022
Page(s)e8809
CitationGuragain P, Båtnes AS, Zobolas J, Olsen Y, Bones AM, Winge P. IIb-RAD-sequencing coupled with random forest classification indicates regional population structuring and sex-specific differentiation in salmon lice (. Ecology and evolution. 2022 Apr; 12(4):e8809.

Abstract

The aquaculture industry has been dealing with salmon lice problems forming serious threats to salmonid farming. Several treatment approaches have been used to control the parasite. Treatment effectiveness must be optimized, and the systematic genetic differences between subpopulations must be studied to monitor louse species and enhance targeted control measures. We have used IIb-RAD sequencing in tandem with a random forest classification algorithm to detect the regional genetic structure of the Norwegian salmon lice and identify important markers for sex differentiation of this species. We identified 19,428 single nucleotide polymorphisms (SNPs) from 95 individuals of salmon lice. These SNPs, however, were not able to distinguish the differential structure of lice populations. Using the random forest algorithm, we selected 91 SNPs important for geographical classification and 14 SNPs important for sex classification. The geographically important SNP data substantially improved the genetic understanding of the population structure and classified regional demographic clusters along the Norwegian coast. We also uncovered SNP markers that could help determine the sex of the salmon louse. A large portion of the SNPs identified to be under directional selection was also ranked highly important by random forest. According to our findings, there is a regional population structure of salmon lice associated with the geographical location along the Norwegian coastline.

Author Details
Additional information about authors:
Details
1Prashanna Guragain
2Anna Solvang Båtnes
3John Zobolas
4Yngvar Olsen
5Atle M Bones
6Per Winge
Properties
Additional details for this publication include:
Property NameValue
Publication ModelElectronic-eCollection
ISSN2045-7758
pISSN2045-7758
Publication Date2022 Apr
Journal AbbreviationEcol Evol
DOI10.1002/ece3.8809
Elocation10.1002/ece3.8809
Copyright© 2022 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountryEngland
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PMID: PMID:35414904