High diversity, inbreeding and a dynamic Pleistocene demographic history revealed by African buffalo genomes

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dc.contributor.authorDe Jager, Deonen_ZA
dc.contributor.authorGlanzmann, Brigitteen_ZA
dc.contributor.authorMoller, Marloen_ZA
dc.contributor.authorHoal, Eileenen_ZA
dc.contributor.authorVan Helden, Paulen_ZA
dc.contributor.authorHarper, Cindyen_ZA
dc.contributor.authorBloomer, Pauletteen_ZA
dc.date.accessioned2021-08-16T13:49:11Z
dc.date.available2021-08-16T13:49:11Z
dc.date.issued2021
dc.descriptionCITATION: De Jager, D., et al. 2021. High diversity, inbreeding and a dynamic Pleistocene demographic history revealed by African buffalo genomes. Scientific Reports, 11:4540, doi:/10.1038/s41598-021-83823-8.
dc.descriptionThe original publication is available at https://www.nature.com
dc.descriptionPublication of this article was funded by the Stellenbosch University Open Access Fund
dc.description.abstractGenomes retain records of demographic changes and evolutionary forces that shape species and populations. Remnant populations of African buffalo (Syncerus caffer) in South Africa, with varied histories, provide an opportunity to investigate signatures left in their genomes by past events, both recent and ancient. Here, we produce 40 low coverage (7.14×) genome sequences of Cape buffalo (S. c. caffer) from four protected areas in South Africa. Genome-wide heterozygosity was the highest for any mammal for which these data are available, while differences in individual inbreeding coefficients reflected the severity of historical bottlenecks and current census sizes in each population. PSMC analysis revealed multiple changes in Ne between approximately one million and 20 thousand years ago, corresponding to paleoclimatic changes and Cape buffalo colonisation of southern Africa. The results of this study have implications for buffalo management and conservation, particularly in the context of the predicted increase in aridity and temperature in southern Africa over the next century as a result of climate change.en_ZA
dc.description.urihttps://www.nature.com/articles/s41598-021-83823-8
dc.description.versionPublisher's version
dc.format.extent15 pages : illustrationsen_ZA
dc.identifier.citationDe Jager, D., et al. 2021. High diversity, inbreeding and a dynamic Pleistocene demographic history revealed by African buffalo genomes. Scientific Reports, 11:4540, doi:/10.1038/s41598-021-83823-8
dc.identifier.issn2045-2322 (online)
dc.identifier.other11:4540, doi:/10.1038/s41598-021-83823-8
dc.identifier.urihttp://hdl.handle.net/10019.1/110857
dc.language.isoen_ZAen_ZA
dc.publisherNature Research (part of Springer Nature)
dc.rights.holderAuthors retain copyright
dc.subjectAfrican buffalo -- Ecologyen_ZA
dc.subjectPleistocene Epochen_ZA
dc.subjectPaleoclimatology -- Pleistoceneen_ZA
dc.subjectBiodiversityen_ZA
dc.subjectInbreedingen_ZA
dc.subjectAnimal geneticsen_ZA
dc.subjectGenomicsen_ZA
dc.subjectAnimal genome mappingen_ZA
dc.subjectDemographic archaeologyen_ZA
dc.subjectClimatic changeen_ZA
dc.titleHigh diversity, inbreeding and a dynamic Pleistocene demographic history revealed by African buffalo genomesen_ZA
dc.typeArticleen_ZA
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