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Article: Population transcriptomics reveals weak parallel genetic basis in repeated marine and freshwater divergence in nine-spined sticklebacks
Title | Population transcriptomics reveals weak parallel genetic basis in repeated marine and freshwater divergence in nine-spined sticklebacks |
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Authors | |
Keywords | genetic parallelism SNP expression divergence RNA-seq Gasterosteidae |
Issue Date | 2020 |
Citation | Molecular Ecology, 2020, v. 29, n. 9, p. 1642-1656 How to Cite? |
Abstract | © 2020 John Wiley & Sons Ltd. The degree to which adaptation to similar selection pressures is underlain by parallel versus non-parallel genetic changes is a topic of broad interest in contemporary evolutionary biology. Sticklebacks provide opportunities to characterize and compare the genetic underpinnings of repeated marine-freshwater divergences at both intra- and interspecific levels. While the degree of genetic parallelism in repeated marine-freshwater divergences has been frequently studied in the three-spined stickleback (Gasterosteus aculeatus), much less is known about this in other stickleback species. Using a population transcriptomic approach, we identified both genetic and gene expression variations associated with marine-freshwater divergence in the nine-spined stickleback (Pungitius pungitius). Specifically, we used a genome-wide association study approach, and found that ~1% of the total 173,491 identified SNPs showed marine-freshwater ecotypic differentiation. A total of 861 genes were identified to have SNPs associated with marine-freshwater divergence, but only 12 of these genes have also been reported as candidates associated with marine-freshwater divergence in the three-spined stickleback. Hence, our results indicate a low degree of interspecific genetic parallelism in marine-freshwater divergence. Moreover, 1,578 genes in the brain and 1,050 genes in the liver were differentially expressed between marine and freshwater nine-spined sticklebacks, ~5% of which have also been identified as candidates associated with marine-freshwater divergence in the three-spined stickleback. However, only few of these (e.g., CLDND1) appear to have been involved in repeated marine-freshwater divergence in nine-spined sticklebacks. Taken together, the results indicate a low degree of genetic parallelism in repeated marine-freshwater divergence both at intra- and interspecific levels. |
Persistent Identifier | http://hdl.handle.net/10722/292159 |
ISSN | 2021 Impact Factor: 6.622 2020 SCImago Journal Rankings: 2.619 |
ISI Accession Number ID |
DC Field | Value | Language |
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dc.contributor.author | Wang, Yingnan | - |
dc.contributor.author | Zhao, Yongxin | - |
dc.contributor.author | Wang, Yu | - |
dc.contributor.author | Li, Zitong | - |
dc.contributor.author | Guo, Baocheng | - |
dc.contributor.author | Merilä, Juha | - |
dc.date.accessioned | 2020-11-17T14:55:53Z | - |
dc.date.available | 2020-11-17T14:55:53Z | - |
dc.date.issued | 2020 | - |
dc.identifier.citation | Molecular Ecology, 2020, v. 29, n. 9, p. 1642-1656 | - |
dc.identifier.issn | 0962-1083 | - |
dc.identifier.uri | http://hdl.handle.net/10722/292159 | - |
dc.description.abstract | © 2020 John Wiley & Sons Ltd. The degree to which adaptation to similar selection pressures is underlain by parallel versus non-parallel genetic changes is a topic of broad interest in contemporary evolutionary biology. Sticklebacks provide opportunities to characterize and compare the genetic underpinnings of repeated marine-freshwater divergences at both intra- and interspecific levels. While the degree of genetic parallelism in repeated marine-freshwater divergences has been frequently studied in the three-spined stickleback (Gasterosteus aculeatus), much less is known about this in other stickleback species. Using a population transcriptomic approach, we identified both genetic and gene expression variations associated with marine-freshwater divergence in the nine-spined stickleback (Pungitius pungitius). Specifically, we used a genome-wide association study approach, and found that ~1% of the total 173,491 identified SNPs showed marine-freshwater ecotypic differentiation. A total of 861 genes were identified to have SNPs associated with marine-freshwater divergence, but only 12 of these genes have also been reported as candidates associated with marine-freshwater divergence in the three-spined stickleback. Hence, our results indicate a low degree of interspecific genetic parallelism in marine-freshwater divergence. Moreover, 1,578 genes in the brain and 1,050 genes in the liver were differentially expressed between marine and freshwater nine-spined sticklebacks, ~5% of which have also been identified as candidates associated with marine-freshwater divergence in the three-spined stickleback. However, only few of these (e.g., CLDND1) appear to have been involved in repeated marine-freshwater divergence in nine-spined sticklebacks. Taken together, the results indicate a low degree of genetic parallelism in repeated marine-freshwater divergence both at intra- and interspecific levels. | - |
dc.language | eng | - |
dc.relation.ispartof | Molecular Ecology | - |
dc.rights | This is the peer reviewed version of the following article: Molecular Ecology, 2020, v. 29, n. 9, p. 1642-1656, which has been published in final form at https://doi.org/10.1111/mec.15435. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Use of Self-Archived Versions. | - |
dc.subject | genetic parallelism | - |
dc.subject | SNP | - |
dc.subject | expression divergence | - |
dc.subject | RNA-seq | - |
dc.subject | Gasterosteidae | - |
dc.title | Population transcriptomics reveals weak parallel genetic basis in repeated marine and freshwater divergence in nine-spined sticklebacks | - |
dc.type | Article | - |
dc.description.nature | postprint | - |
dc.identifier.doi | 10.1111/mec.15435 | - |
dc.identifier.pmid | 32285491 | - |
dc.identifier.scopus | eid_2-s2.0-85084585408 | - |
dc.identifier.hkuros | 325021 | - |
dc.identifier.volume | 29 | - |
dc.identifier.issue | 9 | - |
dc.identifier.spage | 1642 | - |
dc.identifier.epage | 1656 | - |
dc.identifier.eissn | 1365-294X | - |
dc.identifier.isi | WOS:000532818500001 | - |
dc.identifier.issnl | 0962-1083 | - |