Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry
Dispersal of Homo sapiens across the globe during the last 200,000 years was accompanied by adaptation to local climatic conditions, with severe winter temperatures being probably one of the most significant selective forces. The TRPM8 gene codes for a cold-sensing ion channel, and adaptation to low...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2019-08-01
|
| Series: | Frontiers in Genetics |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fgene.2019.00759/full |
| _version_ | 1811197897141649408 |
|---|---|
| author | Alexander V. Igoshin Konstantin V. Gunbin Konstantin V. Gunbin Konstantin V. Gunbin Nikolay S. Yudin Nikolay S. Yudin Mikhail I. Voevoda |
| author_facet | Alexander V. Igoshin Konstantin V. Gunbin Konstantin V. Gunbin Konstantin V. Gunbin Nikolay S. Yudin Nikolay S. Yudin Mikhail I. Voevoda |
| author_sort | Alexander V. Igoshin |
| collection | DOAJ |
| description | Dispersal of Homo sapiens across the globe during the last 200,000 years was accompanied by adaptation to local climatic conditions, with severe winter temperatures being probably one of the most significant selective forces. The TRPM8 gene codes for a cold-sensing ion channel, and adaptation to low temperatures is the major determinant of its molecular evolution. Here, our aim was to search for signatures of cold climate adaptation in TRPM8 gene using a combined data set of 19 populations of East Asian ancestry from the 1000 Genomes Project and Human Genome Diversity Project. As a result, out of a total of 60 markers under study, none showed significant association with the average winter temperatures at the locations of the studied populations considering the multiple testing thresholds. This might suggest that the principal mode of TRPM8 evolution may be different from widespread models, where adaptive alleles are additive, dominant or recessive, at least in populations with the predominant East Asian component. For example, evolution by means of selectively preferable epistatic interactions among amino acids may have taken place. Despite the lack of strong signals of association, however, a very promising single nucleotide polymorphism (SNP) was found. The SNP rs7577262 is considered the best candidate based on its allelic correlations with winter temperatures, signatures of selective sweep and physiological evidences. The second top SNP, rs17862920, may participate in adaptation as well. Additionally, to assist in interpreting the nominal associations, the other markers reached, we performed SNP prioritization based on functional evidences found in literature and on evolutionary conservativeness. |
| first_indexed | 2024-04-12T01:21:52Z |
| format | Article |
| id | doaj.art-9c9b2b0c022941759eab56e333d63246 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-04-12T01:21:52Z |
| publishDate | 2019-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-9c9b2b0c022941759eab56e333d632462022-12-22T03:53:46ZengFrontiers Media S.A.Frontiers in Genetics1664-80212019-08-011010.3389/fgene.2019.00759433670Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian AncestryAlexander V. Igoshin0Konstantin V. Gunbin1Konstantin V. Gunbin2Konstantin V. Gunbin3Nikolay S. Yudin4Nikolay S. Yudin5Mikhail I. Voevoda6Sector of the Genetics of Industrial Microorganisms, The Federal Research Center Institute of Cytology and Genetics, The Siberian Branch, The Russian Academy of Sciences, Novosibirsk, RussiaCenter of Brain Neurobiology and Neurogenetics, The Federal Research Center Institute of Cytology and Genetics, The Siberian Branch, The Russian Academy of Sciences, Novosibirsk, RussiaV. Zelman Institute for Medicine and Psychology Novosibirsk State University, Novosibirsk, RussiaCenter for Mitochondrial Functional Genomics, Institute of Living Systems, Immanuel Kant Baltic Federal University, Kaliningrad, RussiaV. Zelman Institute for Medicine and Psychology Novosibirsk State University, Novosibirsk, RussiaLaboratory of Livestock Molecular Genetics and Breeding, The Federal Research Center Institute of Cytology and Genetics, The Siberian Branch, The Russian Academy of Sciences, Novosibirsk, RussiaLaboratory of Human Molecular Genetics, The Federal Research Center Institute of Cytology and Genetics, The Siberian Branch, The Russian Academy of Sciences, Novosibirsk, RussiaDispersal of Homo sapiens across the globe during the last 200,000 years was accompanied by adaptation to local climatic conditions, with severe winter temperatures being probably one of the most significant selective forces. The TRPM8 gene codes for a cold-sensing ion channel, and adaptation to low temperatures is the major determinant of its molecular evolution. Here, our aim was to search for signatures of cold climate adaptation in TRPM8 gene using a combined data set of 19 populations of East Asian ancestry from the 1000 Genomes Project and Human Genome Diversity Project. As a result, out of a total of 60 markers under study, none showed significant association with the average winter temperatures at the locations of the studied populations considering the multiple testing thresholds. This might suggest that the principal mode of TRPM8 evolution may be different from widespread models, where adaptive alleles are additive, dominant or recessive, at least in populations with the predominant East Asian component. For example, evolution by means of selectively preferable epistatic interactions among amino acids may have taken place. Despite the lack of strong signals of association, however, a very promising single nucleotide polymorphism (SNP) was found. The SNP rs7577262 is considered the best candidate based on its allelic correlations with winter temperatures, signatures of selective sweep and physiological evidences. The second top SNP, rs17862920, may participate in adaptation as well. Additionally, to assist in interpreting the nominal associations, the other markers reached, we performed SNP prioritization based on functional evidences found in literature and on evolutionary conservativeness.https://www.frontiersin.org/article/10.3389/fgene.2019.00759/fullTRPM8environmental correlation analysisSNPcold adaptationEast Asian ancestry |
| spellingShingle | Alexander V. Igoshin Konstantin V. Gunbin Konstantin V. Gunbin Konstantin V. Gunbin Nikolay S. Yudin Nikolay S. Yudin Mikhail I. Voevoda Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry Frontiers in Genetics TRPM8 environmental correlation analysis SNP cold adaptation East Asian ancestry |
| title | Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry |
| title_full | Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry |
| title_fullStr | Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry |
| title_full_unstemmed | Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry |
| title_short | Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry |
| title_sort | searching for signatures of cold climate adaptation in trpm8 gene in populations of east asian ancestry |
| topic | TRPM8 environmental correlation analysis SNP cold adaptation East Asian ancestry |
| url | https://www.frontiersin.org/article/10.3389/fgene.2019.00759/full |
| work_keys_str_mv | AT alexandervigoshin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT konstantinvgunbin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT konstantinvgunbin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT konstantinvgunbin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT nikolaysyudin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT nikolaysyudin searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry AT mikhailivoevoda searchingforsignaturesofcoldclimateadaptationintrpm8geneinpopulationsofeastasianancestry |