ArticleThe Plant cell2005
Allele-specific assay reveals functional variation in the chalcone synthase promoter of Arabidopsis thaliana that is compatible with neutral evolution.
Article in The Plant cell, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 52 citations in OpenAlex.
- Natural variation in expression of a plant immune receptor mediates elicitor sensitivity.PloS one · 2026Article
- Natural variation in expression of a plant immune receptor mediates elicitor sensitivity.bioRxiv : the preprint server for biology · 2025Article
- Map-based cloning revealed BhAPRR2 gene regulating the black peel formation of mature fruit in wax gourd (Benincasa hispida).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Transcriptome Analysis and Intraspecific Variation in Spanish Fir (International journal of molecular sciences · 2022Article
- CompensatoryEvolution letters · 2019Article
- Divergence of annual and perennial species in the Brassicaceae and the contribution of cis-acting variation at FLC orthologues.Molecular ecology · 2017Article
- Differential fine-tuning of gene expression regulation in coffee leaves by CcDREB1D promoter haplotypes under water deficit.Journal of experimental botany · 2017Article
- Different Alleles of a Gene Encoding Leucoanthocyanidin Reductase (PaLAR3) Influence Resistance against the Fungus Heterobasidion parviporum in Picea abies.Plant physiology · 2016Article
- Social environment influences the relationship between genotype and gene expression in wild baboons.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Article
- Evolutionary and functional analyses of cytochrome P4501A promoter polymorphisms in natural populations.Molecular ecology · 2011Article
- Allele-specific gene expression in a wild nonhuman primate population.Molecular ecology · 2011Article
- Cryptic variation between species and the basis of hybrid performance.PLoS biology · 2010Article
- Assessing the influence of adjacent gene orientation on the evolution of gene upstream regions in Arabidopsis thaliana.Genetics · 2010Article
- Key considerations for measuring allelic expression on a genomic scale using high-throughput sequencing.Molecular ecology · 2010Article
- Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation.Molecular biology and evolution · 2009Article
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- Gametophytically alloplasmic CMS line of rice (Oryza sativa L.) with variant orfH79 haplotype corresponds to specific fertility restorer.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- The new mutation theory of phenotypic evolution.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Recombinational micro-evolution of functionally different metallothionein promoter alleles from Orchesella cincta.BMC evolutionary biology · 2007Article
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4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Promoters are thought to play a major role in adaptive evolution, yet little is known about the regulatory diversity within species, where microevolutionary processes take place. To investigate the potential for evolutionary change in the promoter of a gene, we examined nucleotide and functional variation of the Chalcone Synthase (CHS) cis-regulatory region in Arabidopsis thaliana. CHS is the branch point enzyme of a biosynthetic pathway that leads to the production of secondary metabolites influencing the interaction between the plant and its environment. We found that nucleotide diversity in the intergenic region encompassing the CHS promoter (pi=0.003) is compatible with neutral expectations. To quantify functional variation specifically as a result of cis-regulation of CHS mRNA levels, we developed an assay using F1 individuals in which distinct promoter alleles are compared within a common trans-regulatory background. We examined functional cis-regulatory variation in response to different stimuli representing a variety of CHS transcriptional environments (dark, light, and insect feeding). We observed extensive functional variation, some of which appeared to be independent of the trans-regulatory background. Comparison of functional and nucleotide diversity suggested a candidate point mutation that may explain cis-regulatory differences in light response. Our results indicate that functional changes in promoters can arise from a few mutations, pointing to promoter regions as a fundamental determinant of functional genetic variation.
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