Genetic diversity and structure in wild Robusta coffee (Coffea canephora A. Froehner) populations in Yangambi (DR Congo) and their relation with forest disturbance
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| Titel: | Genetic diversity and structure in wild Robusta coffee (Coffea canephora A. Froehner) populations in Yangambi (DR Congo) and their relation with forest disturbance |
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| Autoren: | Depecker, Jonas, Verleysen, Lauren, Asimonyio, Justin A, Hatangi, Yves, Kambale, Jean-Léon, Mwanga Mwanga, Ithe, Ebele, Tshimi, Dhed'a, Benoit, Bawin, Yves, Staelens, Ariane, Stoffelen, Piet, Ruttink, Tom, Vandelook, Filip, Honnay, Olivier, Tumaini Hatangi, Yves |
| Weitere Verfasser: | FWO - Fonds Wetenschappelijk Onderzoek Vlaanderen, Foundation for the promotion of biodiversity research in Africa |
| Quelle: | Heredity. 130:145-153 |
| Verlagsinformationen: | Cold Spring Harbor Laboratory, 2022. |
| Publikationsjahr: | 2022 |
| Schlagwörter: | 0301 basic medicine, TROPICAL FORESTS, ALLELIC RICHNESS, Environmental Sciences & Ecology, Coffea, SOFTWARE, Forests, ANTHROPOGENIC DISTURBANCE, Coffee, Genetic diversity, 3105 Genetics, 03 medical and health sciences, 0603 Evolutionary Biology, Agriculture & agronomie, wild Robusta coffee, forest disturbance, Humans, Yangambi, TREE, 3104 Evolutionary biology, Genetics & Heredity, Evolutionary Biology, 0604 Genetics, 0303 health sciences, Science & Technology, GLOBAL PATTERNS, PIERRE, Ecology, Genetic Variation, 15. Life on land, Agriculture & agronomy, Life sciences, DIFFERENTIATION, Sciences du vivant, Democratic Republic of the Congo, BIODIVERSITY, Life Sciences & Biomedicine, PARENTAGE |
| Beschreibung: | Degradation and regeneration of tropical forests can strongly affect gene flow in understorey species, resulting in genetic erosion and changes in genetic structure. Yet, these processes remain poorly studied in tropical Africa. Coffea canephora is an economically important species, found in the understorey of tropical rainforests of Central and West Africa, and the genetic diversity harboured in its wild populations is vital for sustainable coffee production worldwide. Here, we aimed to quantify genetic diversity, genetic structure, and pedigree relations in wild C. canephora populations, and we investigated associations between these descriptors and forest disturbance and regeneration. Therefore, we sampled 256 C. canephora individuals within 24 plots across three forest categories in Yangambi (DR Congo), and used genotyping-by-sequencing to identify 18 894 SNPs. Overall, we found high genetic diversity, and no evidence of genetic erosion in C. canephora in disturbed old-growth forest, as compared to undisturbed old-growth forest. Additionally, an overall heterozygosity excess was found in all populations, which was expected for a self-incompatible species. Genetic structure was mainly a result of isolation-by-distance, reflecting geographical location, with low to moderate relatedness at finer scales. Populations in regrowth forest had lower allelic richness than populations in old-growth forest and were characterised by a lower inter-individual relatedness and a lack of isolation-by-distance, suggesting that they originated from different neighbouring populations and were subject to founder effects. Wild Robusta coffee populations in the study area still harbour high levels of genetic diversity, yet careful monitoring of their response to ongoing forest degradation remains required. |
| Publikationsart: | Article |
| ISSN: | 1365-2540 0018-067X |
| DOI: | 10.1101/2022.10.07.511267 |
| DOI: | 10.1038/s41437-022-00588-0 |
| Zugangs-URL: | https://pubmed.ncbi.nlm.nih.gov/36596880 |
| Rights: | Springer Nature TDM |
| Dokumentencode: | edsair.doi.dedup.....75a58e4bb9400a8ce5dbd06446a8672c |
| Datenbank: | OpenAIRE |
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Nájsť tento článok vo Web of Science | Abstract: | Degradation and regeneration of tropical forests can strongly affect gene flow in understorey species, resulting in genetic erosion and changes in genetic structure. Yet, these processes remain poorly studied in tropical Africa. Coffea canephora is an economically important species, found in the understorey of tropical rainforests of Central and West Africa, and the genetic diversity harboured in its wild populations is vital for sustainable coffee production worldwide. Here, we aimed to quantify genetic diversity, genetic structure, and pedigree relations in wild C. canephora populations, and we investigated associations between these descriptors and forest disturbance and regeneration. Therefore, we sampled 256 C. canephora individuals within 24 plots across three forest categories in Yangambi (DR Congo), and used genotyping-by-sequencing to identify 18 894 SNPs. Overall, we found high genetic diversity, and no evidence of genetic erosion in C. canephora in disturbed old-growth forest, as compared to undisturbed old-growth forest. Additionally, an overall heterozygosity excess was found in all populations, which was expected for a self-incompatible species. Genetic structure was mainly a result of isolation-by-distance, reflecting geographical location, with low to moderate relatedness at finer scales. Populations in regrowth forest had lower allelic richness than populations in old-growth forest and were characterised by a lower inter-individual relatedness and a lack of isolation-by-distance, suggesting that they originated from different neighbouring populations and were subject to founder effects. Wild Robusta coffee populations in the study area still harbour high levels of genetic diversity, yet careful monitoring of their response to ongoing forest degradation remains required. |
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| ISSN: | 13652540 0018067X |
| DOI: | 10.1101/2022.10.07.511267 |