Genomic evidence of adaptive evolution in the reptilian SOCS gene family
The suppressor of the cytokine signaling (SOCS) family of proteins play an essential role in inhibiting cytokine receptor signaling by regulating immune signal pathways. Although SOCS gene functions have been examined extensively, no comprehensive study has been performed on this gene family’s molec...
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| Format: | Article |
| Language: | English |
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PeerJ Inc.
2021-06-01
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| Series: | PeerJ |
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| Online Access: | https://peerj.com/articles/11677.pdf |
| _version_ | 1827605485672464384 |
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| author | Tian Xia Lei Zhang Guolei Sun Xiufeng Yang Honghai Zhang |
| author_facet | Tian Xia Lei Zhang Guolei Sun Xiufeng Yang Honghai Zhang |
| author_sort | Tian Xia |
| collection | DOAJ |
| description | The suppressor of the cytokine signaling (SOCS) family of proteins play an essential role in inhibiting cytokine receptor signaling by regulating immune signal pathways. Although SOCS gene functions have been examined extensively, no comprehensive study has been performed on this gene family’s molecular evolution in reptiles. In this study, we identified eight canonical SOCS genes using recently-published reptilian genomes. We used phylogenetic analysis to determine that the SOCS genes had highly conserved evolutionary dynamics that we classified into two types. We identified positive SOCS4 selection signals in whole reptile lineages and SOCS2 selection signals in the crocodilian lineage. Selective pressure analyses using the branch model and Z-test revealed that these genes were under different negative selection pressures compared to reptile lineages. We also concluded that the nature of selection pressure varies across different reptile lineages on SOCS3, and the crocodilian lineage has experienced rapid evolution. Our results may provide a theoretical foundation for further analyses of reptilian SOCS genes’ functional and molecular mechanisms, as well as their roles in reptile growth and development. |
| first_indexed | 2024-03-09T06:22:25Z |
| format | Article |
| id | doaj.art-059d0c3bbb0540498e1a1dda9c9d442e |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:22:25Z |
| publishDate | 2021-06-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-059d0c3bbb0540498e1a1dda9c9d442e2023-12-03T11:33:22ZengPeerJ Inc.PeerJ2167-83592021-06-019e1167710.7717/peerj.11677Genomic evidence of adaptive evolution in the reptilian SOCS gene familyTian XiaLei ZhangGuolei SunXiufeng YangHonghai ZhangThe suppressor of the cytokine signaling (SOCS) family of proteins play an essential role in inhibiting cytokine receptor signaling by regulating immune signal pathways. Although SOCS gene functions have been examined extensively, no comprehensive study has been performed on this gene family’s molecular evolution in reptiles. In this study, we identified eight canonical SOCS genes using recently-published reptilian genomes. We used phylogenetic analysis to determine that the SOCS genes had highly conserved evolutionary dynamics that we classified into two types. We identified positive SOCS4 selection signals in whole reptile lineages and SOCS2 selection signals in the crocodilian lineage. Selective pressure analyses using the branch model and Z-test revealed that these genes were under different negative selection pressures compared to reptile lineages. We also concluded that the nature of selection pressure varies across different reptile lineages on SOCS3, and the crocodilian lineage has experienced rapid evolution. Our results may provide a theoretical foundation for further analyses of reptilian SOCS genes’ functional and molecular mechanisms, as well as their roles in reptile growth and development.https://peerj.com/articles/11677.pdfSOCS gene familyPAMLReptilesAdaptive evolution |
| spellingShingle | Tian Xia Lei Zhang Guolei Sun Xiufeng Yang Honghai Zhang Genomic evidence of adaptive evolution in the reptilian SOCS gene family PeerJ SOCS gene family PAML Reptiles Adaptive evolution |
| title | Genomic evidence of adaptive evolution in the reptilian SOCS gene family |
| title_full | Genomic evidence of adaptive evolution in the reptilian SOCS gene family |
| title_fullStr | Genomic evidence of adaptive evolution in the reptilian SOCS gene family |
| title_full_unstemmed | Genomic evidence of adaptive evolution in the reptilian SOCS gene family |
| title_short | Genomic evidence of adaptive evolution in the reptilian SOCS gene family |
| title_sort | genomic evidence of adaptive evolution in the reptilian socs gene family |
| topic | SOCS gene family PAML Reptiles Adaptive evolution |
| url | https://peerj.com/articles/11677.pdf |
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