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Non-additive genetic components contribute significantly to population-wide gene expression variation

Gene expression variation, an essential step between genomic variation and phenotypic landscape, is collectively controlled by local (cis) and distant (trans) regulatory changes. Nevertheless, how these regulatory elements differentially influence the heritability of expression traits remains unclea...

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Autores principales: Tsouris, Andreas, Brach, Gauthier, Schacherer, Joseph, Hou, Jing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10401925/
https://www.ncbi.nlm.nih.gov/pubmed/37546809
http://dx.doi.org/10.1101/2023.07.21.550013
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author Tsouris, Andreas
Brach, Gauthier
Schacherer, Joseph
Hou, Jing
author_facet Tsouris, Andreas
Brach, Gauthier
Schacherer, Joseph
Hou, Jing
author_sort Tsouris, Andreas
collection PubMed
description Gene expression variation, an essential step between genomic variation and phenotypic landscape, is collectively controlled by local (cis) and distant (trans) regulatory changes. Nevertheless, how these regulatory elements differentially influence the heritability of expression traits remains unclear. Here, we bridge this gap by analyzing the transcriptomes of a large diallel panel consisting of 323 unique hybrids originated from genetically divergent yeast isolates. We estimated the broad- and narrow-sense heritability across 5,087 transcript abundance traits and showed that non-additive components account for 36% of the phenotypic variance on average. By comparing allelic expression ratios in the hybrid and the corresponding parental pair, we identified regulatory changes in 25% of all cases, with a majority acting in trans. We further showed that trans-regulation could underlie coordinated expression variation across highly connected genes, resulting in significantly higher non-additive variance and most likely in some of the missing heritability of gene expression traits.
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spelling pubmed-104019252023-08-05 Non-additive genetic components contribute significantly to population-wide gene expression variation Tsouris, Andreas Brach, Gauthier Schacherer, Joseph Hou, Jing bioRxiv Article Gene expression variation, an essential step between genomic variation and phenotypic landscape, is collectively controlled by local (cis) and distant (trans) regulatory changes. Nevertheless, how these regulatory elements differentially influence the heritability of expression traits remains unclear. Here, we bridge this gap by analyzing the transcriptomes of a large diallel panel consisting of 323 unique hybrids originated from genetically divergent yeast isolates. We estimated the broad- and narrow-sense heritability across 5,087 transcript abundance traits and showed that non-additive components account for 36% of the phenotypic variance on average. By comparing allelic expression ratios in the hybrid and the corresponding parental pair, we identified regulatory changes in 25% of all cases, with a majority acting in trans. We further showed that trans-regulation could underlie coordinated expression variation across highly connected genes, resulting in significantly higher non-additive variance and most likely in some of the missing heritability of gene expression traits. Cold Spring Harbor Laboratory 2023-07-25 /pmc/articles/PMC10401925/ /pubmed/37546809 http://dx.doi.org/10.1101/2023.07.21.550013 Text en https://creativecommons.org/licenses/by-nc-nd/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator.
spellingShingle Article
Tsouris, Andreas
Brach, Gauthier
Schacherer, Joseph
Hou, Jing
Non-additive genetic components contribute significantly to population-wide gene expression variation
title Non-additive genetic components contribute significantly to population-wide gene expression variation
title_full Non-additive genetic components contribute significantly to population-wide gene expression variation
title_fullStr Non-additive genetic components contribute significantly to population-wide gene expression variation
title_full_unstemmed Non-additive genetic components contribute significantly to population-wide gene expression variation
title_short Non-additive genetic components contribute significantly to population-wide gene expression variation
title_sort non-additive genetic components contribute significantly to population-wide gene expression variation
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10401925/
https://www.ncbi.nlm.nih.gov/pubmed/37546809
http://dx.doi.org/10.1101/2023.07.21.550013
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