SPELL - Nematode

Citation	Li Y, Alvarez OA, Gutteling EW, Tijsterman M, Fu J, Riksen JA, Hazendonk E, Prins P, Plasterk RH, Jansen RC, Breitling R, Kammenga JE. Mapping determinants of gene expression plasticity by genetical genomics in C. elegans. PLoS Genet, 2006.
PubMed ID	17196041
Short Description	Mapping determinants of gene expression plasticity by genetical genomics in C. elegans. GEO Record: GSE5395 Platform: GPL4038 Download gene-centric, log2 transformed data: WBPaper00028962.ce.mr.csv
# of Conditions	80
Full Description	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 degrees C and 24 degrees 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 degrees 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. Experimental Details: WBPaper00028962:C25_Y82_16C WBPaper00028962:C25_Y82_24C WBPaper00028962:D1_W120_16C WBPaper00028962:D1_W120_24C WBPaper00028962:D25_G36_16C WBPaper00028962:D25_G36_24C WBPaper00028962:D49_Y25_16C WBPaper00028962:D49_Y25_24C WBPaper00028962:D73_J25_16C WBPaper00028962:D73_J25_24C WBPaper00028962:E33_M50_16C WBPaper00028962:E33_M50_24C WBPaper00028962:E49_W77_16C WBPaper00028962:E49_W77_24C WBPaper00028962:F1_G33_16C WBPaper00028962:F1_G33_24C WBPaper00028962:F25_F83_16C WBPaper00028962:F25_W89_24C WBPaper00028962:F32_L49_16C WBPaper00028962:F32_L49_24C WBPaper00028962:F49_L33_16C WBPaper00028962:F49_L33_24C WBPaper00028962:F73_L25_16C WBPaper00028962:F73_L25_24C WBPaper00028962:G1_W39_16C WBPaper00028962:G1_W39_24C WBPaper00028962:G25_W15_16C WBPaper00028962:G25_W15_24C WBPaper00028962:H74_W105_16C WBPaper00028962:H74_W105_24C WBPaper00028962:K1_W44_16C WBPaper00028962:K1_W44_24C WBPaper00028962:K33_Y71_16C WBPaper00028962:K33_Y71_24C WBPaper00028962:K73_M54_16C WBPaper00028962:K73_M54_24C WBPaper00028962:M1_Y21_16C WBPaper00028962:M1_Y21_24C WBPaper00028962:M29_W1_16C WBPaper00028962:M29_W1_24C WBPaper00028962:M52_E65_16C WBPaper00028962:M52_E65_24C WBPaper00028962:M53_M49_16C WBPaper00028962:M53_M49_24C WBPaper00028962:N1_E73_16C WBPaper00028962:N1_E73_24C WBPaper00028962:N24_Y10_16C WBPaper00028962:N24_Y10_24C WBPaper00028962:W106_K25_16C WBPaper00028962:W106_K25_24C WBPaper00028962:W109_Y30_16C WBPaper00028962:W109_Y30_24C WBPaper00028962:W19_E1_16C WBPaper00028962:W19_E1_24C WBPaper00028962:W45_L1_16C WBPaper00028962:W45_L1_24C WBPaper00028962:W56_M29_16C WBPaper00028962:W56_M29_24C WBPaper00028962:W71_M33_16C WBPaper00028962:W71_M33_24C WBPaper00028962:W7_Y60_16C WBPaper00028962:W7_Y60_24C WBPaper00028962:W87_W82_16C WBPaper00028962:W87_W82_24C WBPaper00028962:W89_K49_16C WBPaper00028962:W89_K49_24C WBPaper00028962:W93_J33_16C WBPaper00028962:W93_J33_24C WBPaper00028962:Y112_W103_16C WBPaper00028962:Y112_W103_24C WBPaper00028962:Y17_Y72_16C WBPaper00028962:Y17_Y72_24C WBPaper00028962:Y1_M25_16C WBPaper00028962:Y1_M25_24C WBPaper00028962:Y35_W91_16C WBPaper00028962:Y35_W91_24C WBPaper00028962:Y4_W69_16C WBPaper00028962:Y4_W69_24C WBPaper00028962:Y82_E25_16C WBPaper00028962:Y82_E25_24C.
Tags	Method: microarray, Species: Caenorhabditis elegans, Topic: natural variant