NDLI: Expression quantitative trait locus mapping across water availability environments reveals contrasting associations with genomic features in Arabidopsis.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Lowry, David B. Logan, Tierney L. Santuari, Luca Hardtke, Christian S. Richards, James H. DeRose-Wilson, Leah J. McKay, John K. Sen, Saunak Juenger, Thomas E.
Description	Author Affiliation: Lowry DB ( Department of Integrative Biology and Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas 78712.)
Abstract	The regulation of gene expression is crucial for an organism's development and response to stress, and an understanding of the evolution of gene expression is of fundamental importance to basic and applied biology. To improve this understanding, we conducted expression quantitative trait locus (eQTL) mapping in the Tsu-1 (Tsushima, Japan) × Kas-1 (Kashmir, India) recombinant inbred line population of Arabidopsis thaliana across soil drying treatments. We then used genome resequencing data to evaluate whether genomic features (promoter polymorphism, recombination rate, gene length, and gene density) are associated with genes responding to the environment (E) or with genes with genetic variation (G) in gene expression in the form of eQTLs. We identified thousands of genes that responded to soil drying and hundreds of main-effect eQTLs. However, we identified very few statistically significant eQTLs that interacted with the soil drying treatment (GxE eQTL). Analysis of genome resequencing data revealed associations of several genomic features with G and E genes. In general, E genes had lower promoter diversity and local recombination rates. By contrast, genes with eQTLs (G) had significantly greater promoter diversity and were located in genomic regions with higher recombination. These results suggest that genomic architecture may play an important a role in the evolution of gene expression.
File Format	HTM / HTML
ISSN	10404651
e-ISSN	1531298X
DOI	10.1105/tpc.113.115352
Journal	THE PLANT CELL ONLINE
Issue Number	9
Volume Number	25
Language	English
Publisher	American Society of Plant Biologists
Publisher Date	2013-09-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Discipline Botany Arabidopsis Genetics Gene Expression Regulation, Plant Genetic Variation Genome, Plant Genomics Quantitative Trait Loci Physiology Chromosome Mapping Droughts Gene Expression Genetic Association Studies Phenotype Promoter Regions, Genetic Stress, Physiological Research Support, U.s. Gov't, Non-p.h.s.
Content Type	Text
Resource Type	Article
Subject	Cell Biology Plant Science

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