Exceptionally high rates of positive selection on the rbcL gene in the genus Ilex (Aquifoliaceae)
Yao,Xin1,2; Tan,Yun-hong1,2,3; Yang,Jun-bo4; Wang,Yan5; Corlett,Richard T.1,2; Manen,Jean-Fran?ois6
Corresponding AuthorYao,Xin( ; Corlett,Richard T.( ; Manen,Jean-Fran?ois(
Source PublicationBMC Evolutionary Biology
AbstractAbstractBackgroundThe genus Ilex (Aquifoliaceae) has a near-cosmopolitan distribution in mesic habitats from tropical to temperate lowlands and in alpine forests. It has a high rate of hybridization and plastid capture, and comprises four geographically structured plastid groups. A previous study showed that the plastid rbcL gene, coding for the large subunit of Rubisco, has a particularly high rate of non-synonymous substitutions in Ilex, when compared with other plant lineages. This suggests a strong positive selection on rbcL, involved in yet unknown adaptations. We therefore investigated positive selection on rbcL in 240 Ilex sequences from across the global range.ResultsThe rbcL gene shows a much higher rate of positive selection in Ilex than in any other plant lineage studied so far (>?3000 species) by tests in both PAML and SLR. Most positively selected residues are on the surface of the folded large subunit, suggesting interaction with other subunits and associated chaperones, and coevolution between positively selected residues is prevalent, indicating compensatory mutations to recover molecular stability. Coevolution between positively selected sites to restore global stability is common.ConclusionsThis study has confirmed the predicted high incidence of positively selected residues in rbcL in Ilex, and shown that this is higher than in any other plant lineage studied so far. The causes and consequences of this high incidence are unclear, but it is probably associated with the similarly high incidence of hybridization and introgression in Ilex, even between distantly related lineages, resulting in large cytonuclear discordance in the phylogenies.
KeywordRubisco Positive selection PALM Environmental adaptation Molecular adaptation
Indexed BySCI ; SCI
WOS IDBMC:10.1186/s12862-019-1521-1
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Document Type期刊论文
Corresponding AuthorYao,Xin; Corlett,Richard T.; Manen,Jean-Fran?ois
Recommended Citation
GB/T 7714
Yao,Xin,Tan,Yun-hong,Yang,Jun-bo,et al. Exceptionally high rates of positive selection on the rbcL gene in the genus Ilex (Aquifoliaceae)[J]. BMC Evolutionary Biology,2019,19(1):13.
APA Yao,Xin,Tan,Yun-hong,Yang,Jun-bo,Wang,Yan,Corlett,Richard T.,&Manen,Jean-Fran?ois.(2019).Exceptionally high rates of positive selection on the rbcL gene in the genus Ilex (Aquifoliaceae).BMC Evolutionary Biology,19(1),13.
MLA Yao,Xin,et al."Exceptionally high rates of positive selection on the rbcL gene in the genus Ilex (Aquifoliaceae)".BMC Evolutionary Biology 19.1(2019):13.
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