ArticleBMC evolutionary biology2005
Rate variation in parasitic plants: correlated and uncorrelated patterns among plastid genes of different function.
Article in BMC evolutionary biology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Variations and reduction of plastome are associated with the evolution of parasitism in Convolvulaceae.Plant molecular biology · 2024Article
- Plastid Genomes of Five Species of Riverweeds (Podostemaceae): Structural Organization and Comparative Analysis in Malpighiales.Frontiers in plant science · 2019Article
- Marker Development for Phylogenomics: The Case of Orobanchaceae, a Plant Family with Contrasting Nutritional Modes.Frontiers in plant science · 2017Article
- Testing the Hypothesis of Multiple Origins of Holoparasitism in Orobanchaceae: Phylogenetic Evidence from the Last Two Unplaced Holoparasitic Genera,Frontiers in plant science · 2017Article
- Mechanistic model of evolutionary rate variation en route to a nonphotosynthetic lifestyle in plants.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Complete Plastid Genome of the Recent Holoparasite Lathraea squamaria Reveals Earliest Stages of Plastome Reduction in Orobanchaceae.PloS one · 2016Article
- The Highly Reduced Plastome of Mycoheterotrophic Sciaphila (Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection.Genome biology and evolution · 2015Article
- Changes in base composition bias of nuclear and mitochondrial genes in lice (Insecta: Psocodea).Genetica · 2013Article
- Mechanisms of functional and physical genome reduction in photosynthetic and nonphotosynthetic parasitic plants of the broomrape family.The Plant cell · 2013Article
- Parasitic plants have increased rates of molecular evolution across all three genomes.BMC evolutionary biology · 2013Article
- Rate heterogeneity in six protein-coding genes from the holoparasite Balanophora (Balanophoraceae) and other taxa of Santalales.Annals of botany · 2012Article
- Rate accelerations in nuclear 18S rDNA of mycoheterotrophic and parasitic angiosperms.Journal of plant research · 2011Article
- Rampant gene loss in the underground orchid Rhizanthella gardneri highlights evolutionary constraints on plastid genomes.Molecular biology and evolution · 2011Article
- On the brink of holoparasitism: plastome evolution in dwarf mistletoes (Arceuthobium, Viscaceae).Journal of molecular evolution · 2009Article
- Distribution and evolution of pseudogenes, gene losses, and a gene rearrangement in the plastid genome of the nonphotosynthetic liverwort, Aneura mirabilis (Metzgeriales, Jungermanniopsida).Journal of molecular evolution · 2008Article
- A plastid gene phylogeny of the non-photosynthetic parasitic Orobanche (Orobanchaceae) and related genera.Journal of plant research · 2008Article
- Evaluating evolutionary constraint on the rapidly evolving gene matK using protein composition.Journal of molecular evolution · 2008Article
- Widespread positive selection in the photosynthetic Rubisco enzyme.BMC evolutionary biology · 2007Article
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Abstract
backgroundThe analysis of synonymous and nonsynonymous rates of DNA change can help in the choice among competing explanations for rate variation, such as differences in constraint, mutation rate, or the strength of genetic drift. Nonphotosynthetic plants of the Orobanchaceae have increased rates of DNA change. In this study 38 taxa of Orobanchaceae and relatives were used and 3 plastid genes were sequenced for each taxon.
resultsPhylogenetic reconstructions of relative rates of sequence evolution for three plastid genes (rbcL, matK and rps2) show significant rate heterogeneity among lineages and among genes. Many of the non-photosynthetic plants have increases in both synonymous and nonsynonymous rates, indicating that both (1) selection is relaxed, and (2) there has been a change in the rate at which mutations are entering the population in these species. However, rate increases are not always immediate upon loss of photosynthesis. Overall there is a poor correlation of synonymous and nonsynonymous rates. There is, however, a strong correlation of synonymous rates across the 3 genes studied and the lineage-speccific pattern for each gene is strikingly similar. This indicates that the causes of synonymous rate variation are affecting the whole plastid genome in a similar way. There is a weaker correlation across genes for nonsynonymous rates. Here the picture is more complex, as could be expected if there are many causes of variation, differing from taxon to taxon and gene to gene.
conclusionsThe distinctive pattern of rate increases in Orobanchaceae has at least two causes. It is clear that there is a relaxation of constraint in many (though not all) non-photosynthetic lineages. However, there is also some force affecting synonymous sites as well. At this point, it is not possible to tell whether it is generation time, speciation rate, mutation rate, DNA repair efficiency or some combination of these factors.
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