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

PloS One
Jesse D ZiebarthYan Cui

Abstract

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 treatmen...Continue Reading

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Citations

Nov 10, 2012·Theory in Biosciences = Theorie in Den Biowissenschaften·Hong Li
Feb 3, 2016·Nature Communications·Xusheng WangRobert W Williams
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Sep 27, 2016·Yeast·Dawn A Thompson, Francisco A Cubillos

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Methods Mentioned

BETA
ISS
dissections

Software Mentioned

QTL Reaper
BeadStation Studio
GeneNetwork
Illumina

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