| Citation | Coolon JD, Jones KL, Todd TC, Carr BC, Herman MA. Caenorhabditis elegans genomic response to soil bacteria predicts environment-specific genetic effects on life history traits. PLoS Genet, 2009. |
| PubMed ID | 19503598 |
| Short Description | Caenorhabditis elegans genomic response to soil bacteria predicts environment-specific genetic effects on life history traits. GEO Record: GSE15923 Platform: GPL5883 Download gene-centric, log2 transformed data: WBPaper00033444.ce.mr.csv |
| # of Conditions | 36 |
Full Description
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With the post-genomic era came a dramatic increase in high-throughput technologies, of which transcriptional profiling by microarrays was one of the most popular. One application of this technology is to identify genes that are differentially expressed in response to different environmental conditions. These experiments are constructed under the assumption that the differentially expressed genes are functionally important in the environment where they are induced. However, whether differential expression is predictive of functional importance has yet to be tested. Here we have addressed this expectation by employing Caenorhabditis elegans as a model for the interaction of native soil nematode taxa and soil bacteria. Using transcriptional profiling, we identified candidate genes regulated in response to different bacteria isolated in association with grassland nematodes or from grassland soils. Many of the regulated candidate genes are predicted to affect metabolism and innate immunity suggesting similar genes could influence nematode community dynamics in natural systems. Using mutations that inactivate 21 of the identified genes, we showed that most contribute to lifespan and/or fitness in a given bacterial environment. Although these bacteria may not be natural food sources for C. elegans, we show that changes in food source, as can occur in environmental disturbance, can have a large effect on gene expression, with important consequences for fitness. Moreover, we used regression analysis to demonstrate that for many genes the degree of differential gene expression between two bacterial environments predicted the magnitude of the effect of the loss of gene function on life history traits in those environments. Experimental Details: WBPaper00033444:105_rep2_P_vs_M WBPaper00033444:111_rep2_P_vs_B WBPaper00033444:112_rep2_M_vs_B WBPaper00033444:114_rep2_E_vs_P WBPaper00033444:13228210_rep2_E_vs_M WBPaper00033444:13228212_rep2_B_vs_E WBPaper00033444:1319585_rep3_M_vs_E WBPaper00033444:13198581_rep3_E_vs_B WBPaper00033444:13201463_rep3_M_vs_P WBPaper00033444:13201466_rep3_B_vs_P WBPaper00033444:13228207_rep3_B_vs_M WBPaper00033444:13228208_rep3_P_vs_E WBPaper00033444:13201460_rep3_M_vs_B WBPaper00033444:13201473_rep4_B_vs_E WBPaper00033444:13201474_rep4_P_vs_M WBPaper00033444:13201475_rep4_P_vs_B WBPaper00033444:13201476_rep4_E_vs_M WBPaper00033444:13228201_rep4_E_vs_P WBPaper00033444:13201477_rep5_M_vs_E WBPaper00033444:13201478_rep5_P_vs_E WBPaper00033444:13201479_rep5_M_vs_P WBPaper00033444:13201481_rep5_E_vs_B WBPaper00033444:13201482_rep5_B_vs_M WBPaper00033444:13228209_rep5_B_vs_P WBPaper00033444:13228202_rep6_E_vs_P WBPaper00033444:13228204_rep6_B_vs_E WBPaper00033444:13228206_rep6_M_vs_B WBPaper00033444:13288434_rep6_P_vs_M WBPaper00033444:13288436_rep6_M_vs_E WBPaper00033444:13288437_rep6_B_vs_P WBPaper00033444:13228205_rep7_B_vs_M WBPaper00033444:13288438_rep7_P_vs_E WBPaper00033444:13288439_rep7_E_vs_B WBPaper00033444:13288440_rep7_M_vs_P WBPaper00033444:13288441_rep7_E_vs_M WBPaper00033444:13288442_rep7_P_vs_B. |
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