Natural selection and repeated patterns of molecular evolution following allopatric divergence
Although geographic isolation is a leading driver of speciation, the tempo and pattern of divergence at the genomic level remain unclear. We examine genome-wide divergence of putatively single-copy orthologous genes (POGs) in 20 allopatric species/variety pairs from diverse angiosperm clades, with 1...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
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eLife Sciences Publications Ltd
2019-08-01
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| Series: | eLife |
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| Online Access: | https://elifesciences.org/articles/45199 |
| _version_ | 1811201336017944576 |
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| author | Yibo Dong Shichao Chen Shifeng Cheng Wenbin Zhou Qing Ma Zhiduan Chen Cheng-Xin Fu Xin Liu Yun-peng Zhao Pamela S Soltis Gane Ka-Shu Wong Douglas E Soltis Qiu-Yun(Jenny) Xiang |
| author_facet | Yibo Dong Shichao Chen Shifeng Cheng Wenbin Zhou Qing Ma Zhiduan Chen Cheng-Xin Fu Xin Liu Yun-peng Zhao Pamela S Soltis Gane Ka-Shu Wong Douglas E Soltis Qiu-Yun(Jenny) Xiang |
| author_sort | Yibo Dong |
| collection | DOAJ |
| description | Although geographic isolation is a leading driver of speciation, the tempo and pattern of divergence at the genomic level remain unclear. We examine genome-wide divergence of putatively single-copy orthologous genes (POGs) in 20 allopatric species/variety pairs from diverse angiosperm clades, with 16 pairs reflecting the classic eastern Asia-eastern North America floristic disjunction. In each pair, >90% of POGs are under purifying selection, and <10% are under positive selection. A set of POGs are under strong positive selection, 14 of which are shared by 10–15 pairs, and one shared by all pairs; 15 POGs are annotated to biological processes responding to various stimuli. The relative abundance of POGs under different selective forces exhibits a repeated pattern among pairs despite an ~10 million-year difference in divergence time. Species divergence times are positively correlated with abundance of POGs under moderate purifying selection, but negatively correlated with abundance of POGs under strong purifying selection. |
| first_indexed | 2024-04-12T02:19:05Z |
| format | Article |
| id | doaj.art-850f2d289eb04bbb8c3ac3c43a41b5ce |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-04-12T02:19:05Z |
| publishDate | 2019-08-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-850f2d289eb04bbb8c3ac3c43a41b5ce2022-12-22T03:52:10ZengeLife Sciences Publications LtdeLife2050-084X2019-08-01810.7554/eLife.45199Natural selection and repeated patterns of molecular evolution following allopatric divergenceYibo Dong0Shichao Chen1https://orcid.org/0000-0002-7160-4245Shifeng Cheng2Wenbin Zhou3Qing Ma4Zhiduan Chen5Cheng-Xin Fu6Xin Liu7Yun-peng Zhao8Pamela S Soltis9Gane Ka-Shu Wong10Douglas E Soltis11Qiu-Yun(Jenny) Xiang12https://orcid.org/0000-0002-9016-0678Department of Plant and Microbial Biology, North Carolina State University, Raleigh, United States; Plant Biology Division, Noble Research Institute, Ardmore, United StatesFlorida Museum of Natural History, University of Florida, Gainesville, United States; Department of Biology, University of Florida, Gainesville, United States; School of Life Sciences and Technology, Tongji University, Shanghai, ChinaBeijing Genomics Institute, Shenzhen, ChinaDepartment of Plant and Microbial Biology, North Carolina State University, Raleigh, United StatesDepartment of Plant and Microbial Biology, North Carolina State University, Raleigh, United StatesState Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing, ChinaLaboratory of Systematic & Evolutionary Botany and Biodiversity, College of Life Sciences, Zhejiang University, Hangzhou, ChinaBeijing Genomics Institute, Shenzhen, ChinaLaboratory of Systematic & Evolutionary Botany and Biodiversity, College of Life Sciences, Zhejiang University, Hangzhou, ChinaFlorida Museum of Natural History, University of Florida, Gainesville, United StatesBeijing Genomics Institute, Shenzhen, China; Department of Biological Sciences, University of Alberta, Edmonton, Canada; Department of Medicine, University of Alberta, Edmonton, CanadaFlorida Museum of Natural History, University of Florida, Gainesville, United States; Department of Biology, University of Florida, Gainesville, United StatesDepartment of Plant and Microbial Biology, North Carolina State University, Raleigh, United StatesAlthough geographic isolation is a leading driver of speciation, the tempo and pattern of divergence at the genomic level remain unclear. We examine genome-wide divergence of putatively single-copy orthologous genes (POGs) in 20 allopatric species/variety pairs from diverse angiosperm clades, with 16 pairs reflecting the classic eastern Asia-eastern North America floristic disjunction. In each pair, >90% of POGs are under purifying selection, and <10% are under positive selection. A set of POGs are under strong positive selection, 14 of which are shared by 10–15 pairs, and one shared by all pairs; 15 POGs are annotated to biological processes responding to various stimuli. The relative abundance of POGs under different selective forces exhibits a repeated pattern among pairs despite an ~10 million-year difference in divergence time. Species divergence times are positively correlated with abundance of POGs under moderate purifying selection, but negatively correlated with abundance of POGs under strong purifying selection.https://elifesciences.org/articles/45199genetic divergenceallopatric/geographic speciationtranscriptome sequencingeastern Asia-eastern North America floristic disjunctionmolecular evolutionpositive selection |
| spellingShingle | Yibo Dong Shichao Chen Shifeng Cheng Wenbin Zhou Qing Ma Zhiduan Chen Cheng-Xin Fu Xin Liu Yun-peng Zhao Pamela S Soltis Gane Ka-Shu Wong Douglas E Soltis Qiu-Yun(Jenny) Xiang Natural selection and repeated patterns of molecular evolution following allopatric divergence eLife genetic divergence allopatric/geographic speciation transcriptome sequencing eastern Asia-eastern North America floristic disjunction molecular evolution positive selection |
| title | Natural selection and repeated patterns of molecular evolution following allopatric divergence |
| title_full | Natural selection and repeated patterns of molecular evolution following allopatric divergence |
| title_fullStr | Natural selection and repeated patterns of molecular evolution following allopatric divergence |
| title_full_unstemmed | Natural selection and repeated patterns of molecular evolution following allopatric divergence |
| title_short | Natural selection and repeated patterns of molecular evolution following allopatric divergence |
| title_sort | natural selection and repeated patterns of molecular evolution following allopatric divergence |
| topic | genetic divergence allopatric/geographic speciation transcriptome sequencing eastern Asia-eastern North America floristic disjunction molecular evolution positive selection |
| url | https://elifesciences.org/articles/45199 |
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