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          Institute: MPI für Entwicklungsbiologie     Collection: Abteilung 6 - Molecular Biology (D. Weigel)     Display Documents



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ID: 460670.0, MPI für Entwicklungsbiologie / Abteilung 6 - Molecular Biology (D. Weigel)
Comprehensive analysis of Arabidopsis expression level polymorphisms with simple inheritance
Authors:Plantegenet, S.; Weber, J.; Goldstein, D. R.; Zeller, G.; Nussbaumer, C.; Thomas, J.; Weigel, D.; Harshman, K.; Hardtke, C. S.
Date of Publication (YYYY-MM-DD):2009
Title of Journal:Mol Syst Biol
Volume:5
Start Page:1
End Page:10
Review Status:not specified
Audience:Not Specified
Abstract / Description:In Arabidopsis thaliana, gene expression level polymorphisms (ELPs) between natural accessions that exhibit simple, single locus inheritance are promising quantitative trait locus (QTL) candidates to explain phenotypic variability. It is assumed that such ELPs overwhelmingly represent regulatory element polymorphisms. However, comprehensive genome-wide analyses linking expression level, regulatory sequence and gene structure variation are missing, preventing definite verification of this assumption. Here, we analyzed ELPs observed between the Eil-0 and Lc-0 accessions. Compared with non-variable controls, 5' regulatory sequence variation in the corresponding genes is indeed increased. However, approximately 42% of all the ELP genes also carry major transcription unit deletions in one parent as revealed by genome tiling arrays, representing a >4-fold enrichment over controls. Within the subset of ELPs with simple inheritance, this proportion is even higher and deletions are generally more severe. Similar results were obtained from analyses of the Bay-0 and Sha accessions, using alternative technical approaches. Collectively, our results suggest that drastic structural changes are a major cause for ELPs with simple inheritance, corroborating experimentally observed indel preponderance in cloned Arabidopsis QTL.
Free Keywords:Arabidopsis/*genetics; Base Sequence; Gene Expression Profiling; *Gene Expression Regulation, Plant; Genetic Variation; *Polymorphism, Genetic; Quantitative Trait Loci; Regulatory Sequences, Nucleic Acid
External Publication Status:published
Document Type:Article
Affiliations:MPI für Entwicklungsbiologie/Abteilung 6 - Molekulare Biologie (Detlef Weigel)
External Affiliations:%G eng
Identifiers:ISSN:1744-4292 (Electronic) %R msb200879 [pii] 10.1038/... [ID No:1]
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=... [ID No:2]
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