Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa
Grasscutter (Thryonomys swinderianus) is a large-body old world rodent found in sub-Saharan Africa. The body size and the unique taste of the meat of this major crop pest have made it a target of intense hunting and a potential consideration as a micro-livestock. However, there is insufficient knowl...
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Frontiers Media S.A.
2023-02-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2023.1041103/full |
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| author | Isaac A. Babarinde Isaac A. Babarinde Adeniyi C. Adeola Adeniyi C. Adeola Adeniyi C. Adeola Chabi A. M. S. Djagoun Lotanna M. Nneji Agboola O. Okeyoyin George Niba Ndifor K. Wanzie Ndifor K. Wanzie Ojo C. Oladipo Ayotunde O. Adebambo Semiu F. Bello Said I. Ng’ang’a Wasiu A. Olaniyi Victor M. O. Okoro Babatunde E. Adedeji Omotoso Olatunde Adeola O. Ayoola Adeola O. Ayoola Moise M. Matouke Yun-yu Wang Oscar J. Sanke Saidu O. Oseni Christopher D. Nwani Robert W. Murphy |
| author_facet | Isaac A. Babarinde Isaac A. Babarinde Adeniyi C. Adeola Adeniyi C. Adeola Adeniyi C. Adeola Chabi A. M. S. Djagoun Lotanna M. Nneji Agboola O. Okeyoyin George Niba Ndifor K. Wanzie Ndifor K. Wanzie Ojo C. Oladipo Ayotunde O. Adebambo Semiu F. Bello Said I. Ng’ang’a Wasiu A. Olaniyi Victor M. O. Okoro Babatunde E. Adedeji Omotoso Olatunde Adeola O. Ayoola Adeola O. Ayoola Moise M. Matouke Yun-yu Wang Oscar J. Sanke Saidu O. Oseni Christopher D. Nwani Robert W. Murphy |
| author_sort | Isaac A. Babarinde |
| collection | DOAJ |
| description | Grasscutter (Thryonomys swinderianus) is a large-body old world rodent found in sub-Saharan Africa. The body size and the unique taste of the meat of this major crop pest have made it a target of intense hunting and a potential consideration as a micro-livestock. However, there is insufficient knowledge on the genetic diversity of its populations across African Guinean forests. Herein, we investigated the genetic diversity, population structures and evolutionary history of seven Nigerian wild grasscutter populations together with individuals from Cameroon, Republic of Benin, and Ghana, using five mitochondrial fragments, including D-loop and cytochrome b (CYTB). D-loop haplotype diversity ranged from 0.571 (± 0.149) in Republic of Benin to 0.921 (± 0.013) in Ghana. Within Nigeria, the haplotype diversity ranged from 0.659 (± 0.059) in Cross River to 0.837 (± 0.075) in Ondo subpopulation. The fixation index (FST), haplotype frequency distribution and analysis of molecular variance revealed varying levels of population structures across populations. No significant signature of population contraction was detected in the grasscutter populations. Evolutionary analyses of CYTB suggests that South African population might have diverged from other populations about 6.1 (2.6–10.18, 95% CI) MYA. Taken together, this study reveals the population status and evolutionary history of grasscutter populations in the region. |
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| spelling | doaj.art-f05aa4f2e83a47b68bbf834cc42273622023-02-27T07:39:36ZengFrontiers Media S.A.Frontiers in Genetics1664-80212023-02-011410.3389/fgene.2023.10411031041103Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West AfricaIsaac A. Babarinde0Isaac A. Babarinde1Adeniyi C. Adeola2Adeniyi C. Adeola3Adeniyi C. Adeola4Chabi A. M. S. Djagoun5Lotanna M. Nneji6Agboola O. Okeyoyin7George Niba8Ndifor K. Wanzie9Ndifor K. Wanzie10Ojo C. Oladipo11Ayotunde O. Adebambo12Semiu F. Bello13Said I. Ng’ang’a14Wasiu A. Olaniyi15Victor M. O. Okoro16Babatunde E. Adedeji17Omotoso Olatunde18Adeola O. Ayoola19Adeola O. Ayoola20Moise M. Matouke21Yun-yu Wang22Oscar J. Sanke23Saidu O. Oseni24Christopher D. Nwani25Robert W. Murphy26Shenzhen Key Laboratory of Gene Regulation and Systems Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen, ChinaDepartment of Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, ChinaSino-Africa Joint Research Centre, Chinese Academy of Sciences, Kunming, ChinaCentre for Biotechnology Research, Bayero University, Kano, NigeriaLaboratory of Applied Ecology, Faculty of Agronomic Sciences, University of Abomey-Calavi, Cotonou, BeninDepartment of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, United StatesNational Park Service Headquarters, Federal Capital Territory, Abuja, NigeriaNational Centre for Animal Husbandry and Veterinary Training, Jakiri, North West Region, Cameroon0Department of Zoology, University of Douala, Douala, Cameroon1Department of Zoology, Faculty of Life Sciences, University of Ilorin, Ilorin, Kwara State, Nigeria2Old Oyo National Park, Oyo, Nigeria3Animal Genetics & Biotechnology, Federal University of Agriculture, Abeokuta, Nigeria4Department of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou, ChinaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China5Department of Animal Science, Faculty of Agriculture, Adekunle Ajasin University, Akungba-Akoko, Ondo State, Nigeria6Department of Animal Science and Technology, School of Agriculture and Agricultural Technology, Federal University of Technology, Owerri, Nigeria7Department of Zoology, University of Ibadan, Ibadan, Oyo State, Nigeria7Department of Zoology, University of Ibadan, Ibadan, Oyo State, NigeriaState Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, ChinaSino-Africa Joint Research Centre, Chinese Academy of Sciences, Kunming, China8Department of Fisheries and Aquatic Resources Management, University of Buea, Buea, Cameroon9Wild Forensic Center, Kunming, China0Taraba State Ministry of Agriculture and Natural Resources, Jalingo, Nigeria1Department of Animal Sciences, Faculty of Agriculture, Obafemi Awolowo University, Ile-Ife, Nigeria2Department of Zoology and Environmental Biology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Nigeria3Centre for Biodiversity and Conservation Biology, Royal Ontario Museum, Toronto, ON, CanadaGrasscutter (Thryonomys swinderianus) is a large-body old world rodent found in sub-Saharan Africa. The body size and the unique taste of the meat of this major crop pest have made it a target of intense hunting and a potential consideration as a micro-livestock. However, there is insufficient knowledge on the genetic diversity of its populations across African Guinean forests. Herein, we investigated the genetic diversity, population structures and evolutionary history of seven Nigerian wild grasscutter populations together with individuals from Cameroon, Republic of Benin, and Ghana, using five mitochondrial fragments, including D-loop and cytochrome b (CYTB). D-loop haplotype diversity ranged from 0.571 (± 0.149) in Republic of Benin to 0.921 (± 0.013) in Ghana. Within Nigeria, the haplotype diversity ranged from 0.659 (± 0.059) in Cross River to 0.837 (± 0.075) in Ondo subpopulation. The fixation index (FST), haplotype frequency distribution and analysis of molecular variance revealed varying levels of population structures across populations. No significant signature of population contraction was detected in the grasscutter populations. Evolutionary analyses of CYTB suggests that South African population might have diverged from other populations about 6.1 (2.6–10.18, 95% CI) MYA. Taken together, this study reveals the population status and evolutionary history of grasscutter populations in the region.https://www.frontiersin.org/articles/10.3389/fgene.2023.1041103/fullgenetic diversitypopulation structurelower guinean forestsmitochondrial sequencesThryonomys swinderianus |
| spellingShingle | Isaac A. Babarinde Isaac A. Babarinde Adeniyi C. Adeola Adeniyi C. Adeola Adeniyi C. Adeola Chabi A. M. S. Djagoun Lotanna M. Nneji Agboola O. Okeyoyin George Niba Ndifor K. Wanzie Ndifor K. Wanzie Ojo C. Oladipo Ayotunde O. Adebambo Semiu F. Bello Said I. Ng’ang’a Wasiu A. Olaniyi Victor M. O. Okoro Babatunde E. Adedeji Omotoso Olatunde Adeola O. Ayoola Adeola O. Ayoola Moise M. Matouke Yun-yu Wang Oscar J. Sanke Saidu O. Oseni Christopher D. Nwani Robert W. Murphy Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa Frontiers in Genetics genetic diversity population structure lower guinean forests mitochondrial sequences Thryonomys swinderianus |
| title | Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa |
| title_full | Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa |
| title_fullStr | Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa |
| title_full_unstemmed | Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa |
| title_short | Population structure and evolutionary history of the greater cane rat (Thryonomys swinderianus) from the Guinean Forests of West Africa |
| title_sort | population structure and evolutionary history of the greater cane rat thryonomys swinderianus from the guinean forests of west africa |
| topic | genetic diversity population structure lower guinean forests mitochondrial sequences Thryonomys swinderianus |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2023.1041103/full |
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