ArticleJournal of molecular evolution2017
Plastome-Wide Nucleotide Substitution Rates Reveal Accelerated Rates in Papilionoideae and Correlations with Genome Features Across Legume Subfamilies.
Article in Journal of molecular evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
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- Evolution of the Araliaceae family involved rapid diversification of the Asian Palmate group and Hydrocotyle specific mutational pressure.Scientific reports · 2023Article
- The complete chloroplast genome of Cicer reticulatum and comparative analysis against relative Cicer species.Scientific reports · 2023Article
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- The complete chloroplast genome of Ulmus mianzhuensis with insights into structural variations, adaptive evolution, and phylogenetic relationships of Ulmus (Ulmaceae).BMC genomics · 2023Article
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- Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris.Scientific reports · 2022Article
- Strong plastid degradation is consistent within sectionEcology and evolution · 2022Article
- Phylogenomic approaches untangle early divergences and complex diversifications of the olive plant family.BMC biology · 2022Article
- The Complete Chloroplast Genome Sequence ofCurrent genomics · 2022Article
- Comparative Chloroplast Genomics of Seven EndangeredFrontiers in plant science · 2022Article
- Variations in genetic diversity in cultivatedFrontiers in plant science · 2022Article
- New plastomes of eight Ipomoea species and four putative hybrids from Eastern Amazon.PloS one · 2022Article
- Phylogenomics and Genetic Diversity ofFrontiers in plant science · 2022Article
- Plastome Structural Evolution and Homoplastic Inversions in Neo-Astragalus (Fabaceae).Genome biology and evolution · 2021Article
- Lineage-Specific Variation in IR Boundary Shift Events, Inversions, and Substitution Rates among CaprifoliaceaeInternational journal of molecular sciences · 2021Article
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9 authors.
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Abstract
This study represents the most comprehensive plastome-wide comparison of nucleotide substitution rates across the three subfamilies of Fabaceae: Caesalpinioideae, Mimosoideae, and Papilionoideae. Caesalpinioid and mimosoid legumes have large, unrearranged plastomes compared with papilionoids, which exhibit varying levels of rearrangement including the loss of the inverted repeat (IR) in the IR-lacking clade (IRLC). Using 71 genes common to 39 legume taxa representing all the three subfamilies, we show that papilionoids consistently have higher nucleotide substitution rates than caesalpinioids and mimosoids, and rates in the IRLC papilionoids are generally higher than those in the IR-containing papilionoids. Unsurprisingly, this pattern was significantly correlated with growth habit as most papilionoids are herbaceous, whereas caesalpinioids and mimosoids are largely woody. Both nonsynonymous (dN) and synonymous (dS) substitution rates were also correlated with several biological features including plastome size and plastomic rearrangements such as the number of inversions and indels. In agreement with previous reports, we found that genes in the IR exhibit between three and fourfold reductions in the substitution rates relative to genes within the large single-copy or small single-copy regions. Furthermore, former IR genes in IR-lacking taxa exhibit accelerated rates compared with genes contained in the IR.
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