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Demographic history and adaptive synonymous and nonsynonymous variants of nuclear genes in Rhododendron oldhamii (Ericaceae)
- Source :
- Scientific Reports, Scientific Reports, Vol 10, Iss 1, Pp 1-15 (2020)
- Publication Year :
- 2020
- Publisher :
- Springer Science and Business Media LLC, 2020.
-
Abstract
- Demographic events are important in shaping the population genetic structure and exon variation can play roles in adaptive divergence. Twelve nuclear genes were used to investigate the species-level phylogeography of Rhododendron oldhamii, test the difference in the average GC content of coding sites and of third codon positions with that of surrounding non-coding regions, and test exon variants associated with environmental variables. Spatial expansion was suggested by R2 index of the aligned intron sequences of all genes of the regional samples and sum of squared deviations statistic of the aligned intron sequences of all genes individually and of all genes of the regional and pooled samples. The level of genetic differentiation was significantly different between regional samples. Significantly lower and higher average GC contents across 94 sequences of the 12 genes at third codon positions of coding sequences than that of surrounding non-coding regions were found. We found seven exon variants associated strongly with environmental variables. Our results demonstrated spatial expansion of R. oldhamii in the late Pleistocene and the optimal third codon position could end in A or T rather than G or C as frequent alleles and could have been important for adaptive divergence in R. oldhamii.
- Subjects :
- 0106 biological sciences
0301 basic medicine
Nonsynonymous substitution
Rhododendron
Nuclear gene
Evolution
Population
lcsh:Medicine
Biology
Genes, Plant
01 natural sciences
Article
03 medical and health sciences
Exon
Genetic drift
Genetic variation
Genetics
lcsh:Science
education
education.field_of_study
Multidisciplinary
lcsh:R
Genetic Drift
Intron
Genetic Variation
Phylogeography
Genetics, Population
030104 developmental biology
Evolutionary biology
lcsh:Q
GC-content
010606 plant biology & botany
Subjects
Details
- ISSN :
- 20452322
- Volume :
- 10
- Database :
- OpenAIRE
- Journal :
- Scientific Reports
- Accession number :
- edsair.doi.dedup.....243bc5920f5e9ed26fcf37c34a20c297