Mapping Determinants of Gene Expression Plasticity by Genetical Genomics in C. elegans

Autor: Ritsert C. Jansen, Rainer Breitling, Olga Alda Álvarez, Pjotr Prins, Esther Hazendonk, Marcel Tijsterman, Ronald H.A. Plasterk, Yang Li, Jan E. Kammenga, Joost A. G. Riksen, Jingyuan Fu, Evert W Gutteling
Přispěvatelé: Groningen Biomolecular Sciences and Biotechnology, Bioinformatics, Groningen Institute for Gastro Intestinal Genetics and Immunology (3GI), Faculty of Science and Engineering, Center for Liver, Digestive and Metabolic Diseases (CLDM), Hubrecht Institute for Developmental Biology and Stem Cell Research
Rok vydání: 2006
Předmět:
Cancer Research
Gene regulatory network
NATURAL VARIATION
yeast
natural variation
GeneralLiterature_REFERENCE(e.g.
dictionaries
encyclopedias
glossaries)
Genetics (clinical)
Regulation of gene expression
Genetics
QUANTITATIVE TRAIT LOCI
Ecology
Temperature
PE&RC
PRI Biometris
Regulatory sequence
ComputingMethodologies_DOCUMENTANDTEXTPROCESSING
MAP
reveals
Research Article
Genotype
lcsh:QH426-470
dna microarray
Quantitative trait locus
Biology
DNA MICROARRAY
Gene mapping
map
REVEALS
Genetic variation
Animals
YEAST
RNA
Messenger
Caenorhabditis elegans
Laboratorium voor Nematologie
Molecular Biology
Gene
POLYMORPHISMS
Ecology
Evolution
Behavior and Systematics
Polymorphism
Genetic
IDENTIFICATION
Computational Biology
Epistasis
Genetic
Genetics and Genomics
caenorhabditis-elegans
lcsh:Genetics
Gene Expression Regulation
quantitative trait loci
Expression quantitative trait loci
Caenorhabditis
identification
Laboratory of Nematology
polymorphisms
CAENORHABDITIS-ELEGANS
Mathematics
Zdroj: PLoS Genetics, Vol 2, Iss 12, p e222 (2006)
Plos Genetics, 2(12)
PLoS Genetics
Plos Genetics 2 (2006) 12
PLoS genetics, 2(12):222, 2155-2161. PUBLIC LIBRARY SCIENCE
PLoS Genetics, 2(12). Public Library of Science
ISSN: 1553-7404
1553-7390
Popis: Recent genetical genomics studies have provided intimate views on gene regulatory networks. Gene expression variations between genetically different individuals have been mapped to the causal regulatory regions, termed expression quantitative trait loci. Whether the environment-induced plastic response of gene expression also shows heritable difference has not yet been studied. Here we show that differential expression induced by temperatures of 16 °C and 24 °C has a strong genetic component in Caenorhabditis elegans recombinant inbred strains derived from a cross between strains CB4856 (Hawaii) and N2 (Bristol). No less than 59% of 308 trans-acting genes showed a significant eQTL-by-environment interaction, here termed plasticity quantitative trait loci. In contrast, only 8% of an estimated 188 cis-acting genes showed such interaction. This indicates that heritable differences in plastic responses of gene expression are largely regulated in trans. This regulation is spread over many different regulators. However, for one group of trans-genes we found prominent evidence for a common master regulator: a transband of 66 coregulated genes appeared at 24 °C. Our results suggest widespread genetic variation of differential expression responses to environmental impacts and demonstrate the potential of genetical genomics for mapping the molecular determinants of phenotypic plasticity.
Synopsis It is widely documented that environmental changes will induce differential expression of genes, yet it is unknown how these patterns of environment-induced expression plasticity are inherited and how they differ between genetically divergent individuals of a biological species. In this paper the authors used recombinant inbred lines of the nematode worm C. elegans that were derived from parental lines originally collected in Bristol (United Kingdom) and Hawaii, and measured genome-wide gene expression at two different temperatures. Using statistical analysis tools developed for quantitative trait locus mapping, they found genes with genetically determined differences in their plastic response to temperature changes. A majority of them were found to be regulated by genes at a different genome position (regulated in trans). A striking observation was a group of 66 genes that share a common potential regulator and may be related to differences in fertility plasticity. These results show that differential responses of different genotypes to environmental changes are widespread. Because all species are subjected to environmental change, both at individual and evolutionary time scales, the authors' work calls for studying the heritable component of plasticity of gene regulation in other organisms to enhance understanding of the environmental forces that drive evolutionary adaptation.
Databáze: OpenAIRE
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