Treatment- and population-dependent activity patterns of behavioral and expression QTLs.

Genetic control of gene expression and higher-order phenotypes is almost invariably dependent on environment and experimental conditions. We use two families of recombinant inbred strains of mice (LXS and BXD) to study treatment- and genotype-dependent control of hippocampal gene expression and beha...

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Autores principales:	Jesse D Ziebarth, Melloni N Cook, Xusheng Wang, Robert W Williams, Lu Lu, Yan Cui
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/80ea68498bb64f48af3131e52e8e04b5
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spelling	oai:doaj.org-article:80ea68498bb64f48af3131e52e8e04b52021-11-18T07:27:56ZTreatment- and population-dependent activity patterns of behavioral and expression QTLs.1932-620310.1371/journal.pone.0031805https://doaj.org/article/80ea68498bb64f48af3131e52e8e04b52012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22359631/?tool=EBIhttps://doaj.org/toc/1932-6203Genetic control of gene expression and higher-order phenotypes is almost invariably dependent on environment and experimental conditions. We use two families of recombinant inbred strains of mice (LXS and BXD) to study treatment- and genotype-dependent control of hippocampal gene expression and behavioral phenotypes. We analyzed responses to all combinations of two experimental perturbations, ethanol and restraint stress, in both families, allowing for comparisons across 8 combinations of treatment and population. We introduce the concept of QTL activity patterns to characterize how associations between genomic loci and traits vary across treatments. We identified several significant behavioral QTLs and many expression QTLs (eQTLs). The behavioral QTLs are highly dependent on treatment and population. We classified eQTLs into three groups: cis-eQTLs (expression variation that maps to within 5 Mb of the cognate gene), syntenic trans-eQTLs (the gene and the QTL are on the same chromosome but not within 5 Mb), and non-syntenic trans-eQTLs (the gene and the QTL are on different chromosomes). We found that most non-syntenic trans-eQTLs were treatment-specific whereas both classes of syntenic eQTLs were more conserved across treatments. We also found there was a correlation between regions along the genome enriched for eQTLs and SNPs that were conserved across the LXS and BXD families. Genes with eQTLs that co-localized with the behavioral QTLs and displayed similar QTL activity patterns were identified as potential candidate genes associated with the phenotypes, yielding identification of novel genes as well as genes that have been previously associated with responses to ethanol.Jesse D ZiebarthMelloni N CookXusheng WangRobert W WilliamsLu LuYan CuiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 2, p e31805 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jesse D Ziebarth Melloni N Cook Xusheng Wang Robert W Williams Lu Lu Yan Cui Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
description	Genetic control of gene expression and higher-order phenotypes is almost invariably dependent on environment and experimental conditions. We use two families of recombinant inbred strains of mice (LXS and BXD) to study treatment- and genotype-dependent control of hippocampal gene expression and behavioral phenotypes. We analyzed responses to all combinations of two experimental perturbations, ethanol and restraint stress, in both families, allowing for comparisons across 8 combinations of treatment and population. We introduce the concept of QTL activity patterns to characterize how associations between genomic loci and traits vary across treatments. We identified several significant behavioral QTLs and many expression QTLs (eQTLs). The behavioral QTLs are highly dependent on treatment and population. We classified eQTLs into three groups: cis-eQTLs (expression variation that maps to within 5 Mb of the cognate gene), syntenic trans-eQTLs (the gene and the QTL are on the same chromosome but not within 5 Mb), and non-syntenic trans-eQTLs (the gene and the QTL are on different chromosomes). We found that most non-syntenic trans-eQTLs were treatment-specific whereas both classes of syntenic eQTLs were more conserved across treatments. We also found there was a correlation between regions along the genome enriched for eQTLs and SNPs that were conserved across the LXS and BXD families. Genes with eQTLs that co-localized with the behavioral QTLs and displayed similar QTL activity patterns were identified as potential candidate genes associated with the phenotypes, yielding identification of novel genes as well as genes that have been previously associated with responses to ethanol.
format	article
author	Jesse D Ziebarth Melloni N Cook Xusheng Wang Robert W Williams Lu Lu Yan Cui
author_facet	Jesse D Ziebarth Melloni N Cook Xusheng Wang Robert W Williams Lu Lu Yan Cui
author_sort	Jesse D Ziebarth
title	Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
title_short	Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
title_full	Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
title_fullStr	Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
title_full_unstemmed	Treatment- and population-dependent activity patterns of behavioral and expression QTLs.
title_sort	treatment- and population-dependent activity patterns of behavioral and expression qtls.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/80ea68498bb64f48af3131e52e8e04b5
work_keys_str_mv	AT jessedziebarth treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls AT mellonincook treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls AT xushengwang treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls AT robertwwilliams treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls AT lulu treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls AT yancui treatmentandpopulationdependentactivitypatternsofbehavioralandexpressionqtls
_version_	1718423420940582912

Treatment- and population-dependent activity patterns of behavioral and expression QTLs.

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