ArticleJournal of molecular evolution2004
Likelihood analysis of the chalcone synthase genes suggests the role of positive selection in morning glories (Ipomoea).
Article in Journal of molecular evolution, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed, 24 citations in OpenAlex.
- Chalcone-Synthase-EncodingMolecules (Basel, Switzerland) · 2024Article
- The Complete Chloroplast Genomes of SixFrontiers in plant science · 2018Article
- Imbalanced positive selection maintains the functional divergence of duplicated DIHYDROKAEMPFEROL 4-REDUCTASE genes.Scientific reports · 2016Article
- Elevated gene expression in chalcone synthase enzyme suggests an increased production of flavonoids in skin and synchronized red cell cultures of North American native grape berries.DNA and cell biology · 2012Article
- Dynamic programming procedure for searching optimal models to estimate substitution rates based on the maximum-likelihood method.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Differential stepwise evolution of SARS coronavirus functional proteins in different host species.BMC evolutionary biology · 2009Article
- Bioinformatics in China: a personal perspective.PLoS computational biology · 2008Review
- A systematic search for positive selection in higher plants (Embryophytes).BMC plant biology · 2006Article
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Chalcone synthase (CHS) is a key enzyme in the biosynthesis of flavonoides, which are important for the pigmentation of flowers and act as attractants to pollinators. Genes encoding CHS constitute a multigene family in which the copy number varies among plant species and functional divergence appears to have occurred repeatedly. In morning glories (Ipomoea), five functional CHS genes (A-E) have been described. Phylogenetic analysis of the Ipomoea CHS gene family revealed that CHS A, B, and C experienced accelerated rates of amino acid substitution relative to CHS D and E. To examine whether the CHS genes of the morning glories underwent adaptive evolution, maximum-likelihood models of codon substitution were used to analyze the functional sequences in the Ipomoea CHS gene family. These models used the nonsynonymous/synonymous rate ratio (omega = d(N)/ d(S)) as an indicator of selective pressure and allowed the ratio to vary among lineages or sites. Likelihood ratio test suggested significant variation in selection pressure among amino acid sites, with a small proportion of them detected to be under positive selection along the branches ancestral to CHS A, B, and C. Positive Darwinian selection appears to have promoted the divergence of subfamily ABC and subfamily DE and is at least partially responsible for a rate increase following gene duplication.
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