In:
PLOS Genetics, Public Library of Science (PLoS), Vol. 18, No. 5 ( 2022-5-31), p. e1010234-
Abstract:
Sprague Dawley ( SD ) rats are among the most widely used outbred laboratory rat populations. Despite this, the genetic characteristics of SD rats have not been clearly described, and SD rats are rarely used for experiments aimed at exploring genotype-phenotype relationships. In order to use SD rats to perform a genome-wide association study ( GWAS ), we collected behavioral data from 4,625 SD rats that were predominantly obtained from two commercial vendors, Charles River Laboratories and Harlan Sprague Dawley Inc. Using double-digest genotyping-by-sequencing ( ddGBS ), we obtained dense, high-quality genotypes at 291,438 SNPs across 4,061 rats. This genetic data allowed us to characterize the variation present in Charles River vs. Harlan SD rats. We found that the two populations are highly diverged (F ST 〉 0.4). Furthermore, even for rats obtained from the same vendor, there was strong population structure across breeding facilities and even between rooms at the same facility. We performed multiple separate GWAS by fitting a linear mixed model that accounted for population structure and using meta-analysis to jointly analyze all cohorts. Our study examined Pavlovian conditioned approach ( PavCA ) behavior, which assesses the propensity for rats to attribute incentive salience to reward-associated cues. We identified 46 significant associations for the various metrics used to define PavCA. The surprising degree of population structure among SD rats from different sources has important implications for their use in both genetic and non-genetic studies.
Type of Medium:
Online Resource
ISSN:
1553-7404
DOI:
10.1371/journal.pgen.1010234
DOI:
10.1371/journal.pgen.1010234.g001
DOI:
10.1371/journal.pgen.1010234.g002
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10.1371/journal.pgen.1010234.g003
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10.1371/journal.pgen.1010234.g004
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10.1371/journal.pgen.1010234.t001
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10.1371/journal.pgen.1010234.s001
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10.1371/journal.pgen.1010234.s002
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10.1371/journal.pgen.1010234.s003
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10.1371/journal.pgen.1010234.s004
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10.1371/journal.pgen.1010234.s005
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10.1371/journal.pgen.1010234.s006
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10.1371/journal.pgen.1010234.s007
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10.1371/journal.pgen.1010234.s008
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10.1371/journal.pgen.1010234.s009
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10.1371/journal.pgen.1010234.s010
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10.1371/journal.pgen.1010234.s011
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10.1371/journal.pgen.1010234.s012
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10.1371/journal.pgen.1010234.s013
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10.1371/journal.pgen.1010234.s014
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10.1371/journal.pgen.1010234.s015
DOI:
10.1371/journal.pgen.1010234.s016
DOI:
10.1371/journal.pgen.1010234.s017
DOI:
10.1371/journal.pgen.1010234.s018
DOI:
10.1371/journal.pgen.1010234.s019
DOI:
10.1371/journal.pgen.1010234.s020
DOI:
10.1371/journal.pgen.1010234.s021
DOI:
10.1371/journal.pgen.1010234.s022
DOI:
10.1371/journal.pgen.1010234.s023
DOI:
10.1371/journal.pgen.1010234.s024
Language:
English
Publisher:
Public Library of Science (PLoS)
Publication Date:
2022
detail.hit.zdb_id:
2186725-2
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