Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes
Spatial range expansion during population colonization is characterized by demographic events that may have significant effects on the efficiency of natural selection. Population genetics suggests that genetic drift brought by small effective population size (Ne) may undermine the efficiency of sele...
| Main Authors: | , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Wiley
2018
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/96568 |
| _version_ | 1855525920114212864 |
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| author | Jianhai Chen Pan Ni Thuy Nhien Tran Thi Kamaldinov, E.V. Petukhovm V.L. Han Jianlin Xiangdong Liu Šprem, N. Shuhong Zhao |
| author_browse | Han Jianlin Jianhai Chen Kamaldinov, E.V. Pan Ni Petukhovm V.L. Shuhong Zhao Thuy Nhien Tran Thi Xiangdong Liu Šprem, N. |
| author_facet | Jianhai Chen Pan Ni Thuy Nhien Tran Thi Kamaldinov, E.V. Petukhovm V.L. Han Jianlin Xiangdong Liu Šprem, N. Shuhong Zhao |
| author_sort | Jianhai Chen |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Spatial range expansion during population colonization is characterized by demographic events that may have significant effects on the efficiency of natural selection. Population genetics suggests that genetic drift brought by small effective population size (Ne) may undermine the efficiency of selection, leading to a faster accumulation of nonsynonymous mutations. However, it is still unknown whether this effect might be balanced or even reversed by strong selective constraints. Here, we used wild boars and local domestic pigs from tropical (Vietnam) and subarctic region (Siberia) as animal model to evaluate the effects of functional constraints and genetic drift on shaping molecular evolution. The likelihood‐ratio test revealed that Siberian clade evolved significantly different from Vietnamese clades. Different datasets consistently showed that Siberian wild boars had lower Ka/Ks ratios than Vietnamese samples. The potential role of positive selection for branches with higher Ka/Ks was evaluated using branch‐site model comparison. No signal of positive selection was found for the higher Ka/Ks in Vietnamese clades, suggesting the interclade difference was mainly due to the reduction in Ka/Ks for Siberian samples. This conclusion was further confirmed by the result from a larger sample size, among which wild boars from northern Asia (subarctic and nearby region) had lower Ka/Ks than those from southern Asia (temperate and tropical region). The lower Ka/Ks might be due to either stronger functional constraints, which prevent nonsynonymous mutations from accumulating in subarctic wild boars, or larger Ne in Siberian wild boars, which can boost the efficacy of purifying selection to remove functional mutations. The latter possibility was further ruled out by the Bayesian skyline plot analysis, which revealed that historical Ne of Siberian wild boars was smaller than that of Vietnamese wild boars. Altogether, these results suggest stronger functional constraints acting on mitogenomes of subarctic wild boars, which may provide new insights into their local adaptation of cold resistance. |
| format | Journal Article |
| id | CGSpace96568 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace965682024-05-01T08:17:29Z Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes Jianhai Chen Pan Ni Thuy Nhien Tran Thi Kamaldinov, E.V. Petukhovm V.L. Han Jianlin Xiangdong Liu Šprem, N. Shuhong Zhao research population Spatial range expansion during population colonization is characterized by demographic events that may have significant effects on the efficiency of natural selection. Population genetics suggests that genetic drift brought by small effective population size (Ne) may undermine the efficiency of selection, leading to a faster accumulation of nonsynonymous mutations. However, it is still unknown whether this effect might be balanced or even reversed by strong selective constraints. Here, we used wild boars and local domestic pigs from tropical (Vietnam) and subarctic region (Siberia) as animal model to evaluate the effects of functional constraints and genetic drift on shaping molecular evolution. The likelihood‐ratio test revealed that Siberian clade evolved significantly different from Vietnamese clades. Different datasets consistently showed that Siberian wild boars had lower Ka/Ks ratios than Vietnamese samples. The potential role of positive selection for branches with higher Ka/Ks was evaluated using branch‐site model comparison. No signal of positive selection was found for the higher Ka/Ks in Vietnamese clades, suggesting the interclade difference was mainly due to the reduction in Ka/Ks for Siberian samples. This conclusion was further confirmed by the result from a larger sample size, among which wild boars from northern Asia (subarctic and nearby region) had lower Ka/Ks than those from southern Asia (temperate and tropical region). The lower Ka/Ks might be due to either stronger functional constraints, which prevent nonsynonymous mutations from accumulating in subarctic wild boars, or larger Ne in Siberian wild boars, which can boost the efficacy of purifying selection to remove functional mutations. The latter possibility was further ruled out by the Bayesian skyline plot analysis, which revealed that historical Ne of Siberian wild boars was smaller than that of Vietnamese wild boars. Altogether, these results suggest stronger functional constraints acting on mitogenomes of subarctic wild boars, which may provide new insights into their local adaptation of cold resistance. 2018-08 2018-08-15T14:50:23Z 2018-08-15T14:50:23Z Journal Article https://hdl.handle.net/10568/96568 en Open Access Wiley Jianhai Chen, Pan Ni, Thuy Nhien Tran Thi, Kamaldinov, E.V., Petukhovm V.L., Jianlin Han, Xiangdong Liu, Šprem, N. and Shuhong Zhao. 2018. Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes. Ecology and Evolution 8:8102–8114. |
| spellingShingle | research population Jianhai Chen Pan Ni Thuy Nhien Tran Thi Kamaldinov, E.V. Petukhovm V.L. Han Jianlin Xiangdong Liu Šprem, N. Shuhong Zhao Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title | Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title_full | Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title_fullStr | Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title_full_unstemmed | Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title_short | Selective constraints in cold‐region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| title_sort | selective constraints in cold region wild boars may defuse the effects of small effective population size on molecular evolution of mitogenomes |
| topic | research population |
| url | https://hdl.handle.net/10568/96568 |
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