1
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Identifying the Most Probable Mammal Reservoir Hosts for Monkeypox Virus Based on Ecological Niche Comparisons. Viruses 2023; 15:v15030727. [PMID: 36992436 PMCID: PMC10057484 DOI: 10.3390/v15030727] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 03/07/2023] [Accepted: 03/08/2023] [Indexed: 03/16/2023] Open
Abstract
Previous human cases or epidemics have suggested that Monkeypox virus (MPXV) can be transmitted through contact with animals of African rainforests. Although MPXV has been identified in many mammal species, most are likely secondary hosts, and the reservoir host has yet to be discovered. In this study, we provide the full list of African mammal genera (and species) in which MPXV was previously detected, and predict the geographic distributions of all species of these genera based on museum specimens and an ecological niche modelling (ENM) method. Then, we reconstruct the ecological niche of MPXV using georeferenced data on animal MPXV sequences and human index cases, and conduct overlap analyses with the ecological niches inferred for 99 mammal species, in order to identify the most probable animal reservoir. Our results show that the MPXV niche covers three African rainforests: the Congo Basin, and Upper and Lower Guinean forests. The four mammal species showing the best niche overlap with MPXV are all arboreal rodents, including three squirrels: Funisciurus anerythrus, Funisciurus pyrropus, Heliosciurus rufobrachium, and Graphiurus lorraineus. We conclude that the most probable MPXV reservoir is F. anerythrus based on two niche overlap metrics, the areas of higher probabilities of occurrence, and available data on MPXV detection.
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2
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Wang Z, Huang G, Huang M, Dai Q, Hu Y, Zhou J, Wei F. Global patterns of phylogenetic diversity and transmission of bat coronavirus. SCIENCE CHINA LIFE SCIENCES 2022; 66:861-874. [PMID: 36378474 PMCID: PMC9664035 DOI: 10.1007/s11427-022-2221-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 10/12/2022] [Indexed: 11/16/2022]
Abstract
Bats are reservoirs for multiple coronaviruses (CoVs). However, the phylogenetic diversity and transmission of global bat-borne CoVs remain poorly understood. Here, we performed a Bayesian phylogeographic analysis based on 3,594 bat CoV RdRp gene sequences to study the phylogenetic diversity and transmission of bat-borne CoVs and the underlying driving factors. We found that host-switching events occurred more frequently for α-CoVs than for β-CoVs, and the latter was highly constrained by bat phylogeny. Bat species in the families Molossidae, Rhinolophidae, Miniopteridae, and Vespertilionidae had larger contributions to the cross-species transmission of bat CoVs. Regions of eastern and southern Africa, southern South America, Western Europe, and Southeast Asia were more frequently involved in cross-region transmission events of bat CoVs than other regions. Phylogenetic and geographic distances were the most important factors limiting CoV transmission. Bat taxa and global geographic hotspots associated with bat CoV phylogenetic diversity were identified, and bat species richness, mean annual temperature, global agricultural cropland, and human population density were strongly correlated with the phylogenetic diversity of bat CoVs. These findings provide insight into bat CoV evolution and ecological transmission among bat taxa. The identified hotspots of bat CoV evolution and transmission will guide early warnings of bat-borne CoV zoonotic diseases.
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Affiliation(s)
- Zhilin Wang
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Guangping Huang
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Mingpan Huang
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Qiang Dai
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China
| | - Yibo Hu
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jiang Zhou
- School of Karst Science, Guizhou Normal University, Guiyang, 550000, China
| | - Fuwen Wei
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China.
- University of Chinese Academy of Sciences, Beijing, 100049, China.
- Center for Evolution and Conservation Biology, Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou, 511458, China.
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3
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Veron G, Daniel C, Pagani P, Do Linh San E, Kitchener AC, Hassanin A. A tale of two African mongooses (Carnivora: Herpestidae): differing genetic diversity and geographical structure across a continent. Mamm Biol 2022. [DOI: 10.1007/s42991-022-00321-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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4
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Tanshi I, Obitte BC, Monadjem A, Rossiter SJ, Fisher‐Phelps M, Kingston T. Multiple dimensions of biodiversity in paleotropical hotspots reveal comparable bat diversity. Biotropica 2022. [DOI: 10.1111/btp.13143] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Iroro Tanshi
- Department of Biological Sciences Texas Tech University Lubbock Texas USA
- Department of Biology University of Washington Seattle Washington USA
- Department of Animal and Environmental Biology University of Benin Benin City Nigeria
- Small Mammal Conservation Organization Benin City Nigeria
| | - Benneth C. Obitte
- Department of Biological Sciences Texas Tech University Lubbock Texas USA
- Small Mammal Conservation Organization Benin City Nigeria
| | - Ara Monadjem
- Department of Biological Sciences University of Eswatini Kwaluseni Eswatini
- Department of Zoology & Entomology, Mammal Research Institute University of Pretoria Hatfield South Africa
| | - Stephen J. Rossiter
- School of Biological and Chemical Sciences Queen Mary University of London London UK
| | - Marina Fisher‐Phelps
- Department of Biological Sciences Texas Tech University Lubbock Texas USA
- National Audubon Society Dallas Texas USA
| | - Tigga Kingston
- Department of Biological Sciences Texas Tech University Lubbock Texas USA
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5
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Tanshi I, Obitte BC, Monadjem A, Kingston T. Hidden Afrotropical Bat Diversity in Nigeria: Ten New Country Records from a Biodiversity Hotspot. ACTA CHIROPTEROLOGICA 2022. [DOI: 10.3161/15081109acc2021.23.2.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Iroro Tanshi
- Department of Biological Sciences, Texas Tech University, 2901 Main St., 79409-3131, Lubbock, Texas, USA
| | - Benneth Chigozie Obitte
- Department of Biological Sciences, Texas Tech University, 2901 Main St., 79409-3131, Lubbock, Texas, USA
| | - Ara Monadjem
- All Out Africa Research Unit, Department of Biological Sciences, University of Eswatini, Private Bag 4, Kwaluseni, Eswantini
| | - Tigga Kingston
- Department of Biological Sciences, Texas Tech University, 2901 Main St., 79409-3131, Lubbock, Texas, USA
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6
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Neira-Salamea K, Doumbia J, Hillers A, Sandberger-Loua L, Kouamé NG, Brede C, Schäfer M, Blackburn DC, Barej MF, Rödel MO. A new slippery frog (Amphibia, Conrauidae, Conraua Nieden, 1908) from the Fouta Djallon Highlands, west-central Guinea. ZOOSYST EVOL 2022. [DOI: 10.3897/zse.98.76692] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
We describe a new species of the genus Conraua from the Fouta Djallon Highlands in Guinea. The species is recognised as distinct from nominotypical C. alleni, based on morphological evidence and is supported by a recent species delimitation analysis, based on DNA sequence data. The new species is distinguished from its congeners by the unique combination of the following characters: medium body size, robust limbs, only one instead of two palmar tubercles, the first finger webbed to below the first subarticular tubercle, presence of a lateral line system, indistinct tympanum, two subarticular tubercles on fingers III and IV, venter in adults white with dark brown spots or dark brown with grey or whitish spots. The new species differs from all congeners by more than 6% in the DNA sequence of mitochondrial ribosomal 16S. We discuss isolation in Pliocene and Pleistocene forest refugia as a potential driver of speciation in the C. alleni complex. We also emphasise the importance of conserving the remaining forest fragments in the Fouta Djallon Region for the preservation of both its unique biodiversity and its valuable water sources for local people.
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7
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Jaynes KE, Myers EA, Gvoždík V, Blackburn DC, Portik DM, Greenbaum E, Jongsma GFM, Rödel MO, Badjedjea G, Bamba-Kaya A, Baptista NL, Akuboy JB, Ernst R, Kouete MT, Kusamba C, Masudi FM, McLaughlin PJ, Nneji LM, Onadeko AB, Penner J, Vaz Pinto P, Stuart BL, Tobi E, Zassi-Boulou AG, Leaché AD, Fujita MK, Bell RC. Giant Tree Frog diversification in West and Central Africa: Isolation by physical barriers, climate, and reproductive traits. Mol Ecol 2021; 31:3979-3998. [PMID: 34516675 DOI: 10.1111/mec.16169] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Revised: 07/18/2021] [Accepted: 09/02/2021] [Indexed: 01/25/2023]
Abstract
Secondary sympatry amongst sister lineages is strongly associated with genetic and ecological divergence. This pattern suggests that for closely related species to coexist in secondary sympatry, they must accumulate differences in traits that mediate ecological and/or reproductive isolation. Here, we characterized inter- and intraspecific divergence in three giant tree frog species whose distributions stretch across West and Central Africa. Using genome-wide single-nucleotide polymorphism data, we demonstrated that species-level divergence coincides temporally and geographically with a period of large-scale forest fragmentation during the late Pliocene. Our environmental niche models further supported a dynamic history of climatic suitability and stability, and indicated that all three species occupy distinct environmental niches. We found modest morphological differentiation amongst the species with significant divergence in tympanum diameter and male advertisement call. In addition, we confirmed that two species occur in secondary sympatry in Central Africa but found no evidence of hybridization. These patterns support the hypothesis that cycles of genetic exchange and isolation across West and Central Africa have contributed to globally significant biodiversity. Furthermore, divergence in both ecology and reproductive traits appear to have played important roles in maintaining distinct lineages. At the intraspecific level, we found that climatic refugia, precipitation gradients, marine incursions, and potentially riverine barriers generated phylogeographic structure throughout the Pleistocene and into the Holocene. Further studies examining phenotypic divergence and secondary contact amongst these geographically structured populations may demonstrate how smaller scale and more recent biogeographic barriers contribute to regional diversification.
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Affiliation(s)
- Kyle E Jaynes
- Department of Biology, Adrian College, Michigan, USA.,Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA.,Department of Integrative Biology, W.K. Kellogg Biological Station, Michigan State University, Michigan, USA.,Ecology, Evolution, and Behavior Program, Michigan State University, Michigan, USA
| | - Edward A Myers
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | - Václav Gvoždík
- Institute of Vertebrate Biology, Czech Academy of Sciences, Brno, Czech Republic.,Department of Zoology, National Museum, Prague, Czech Republic
| | - David C Blackburn
- Department of Natural History, Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Daniel M Portik
- Herpetology Department, Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, California, USA
| | - Eli Greenbaum
- Department of Biological Sciences, University of Texas at El Paso, El Paso, Texas, USA
| | - Gregory F M Jongsma
- Department of Natural History, Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,Department of Biology, University of Florida, Florida, USA
| | - Mark-Oliver Rödel
- Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
| | - Gabriel Badjedjea
- Département d'Ecologie et Biodiversité des Ressources Aquatiques, Centre de Surveillance de la Biodiversité, Université de Kisangani, Kisangani, République Démocratique du Congo
| | | | - Ninda L Baptista
- CIBIO/InBio - Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, Campus de Vairão, Vairão, Portugal.,Faculdade de Ciências da, Universidade do Porto, Porto, Portugal.,Instituto Superior de Ciências da Educação da Huíla (ISCED-Huíla), Rua Sarmento Rodrigues, Lubango, Angola
| | - Jeannot B Akuboy
- Département d'Ecologie et Biodiversité des Ressources Terrestres, Centre de Surveillance de la Biodiversité, Université de Kisangani, République Démocratique du Congo, Kisangani
| | - Raffael Ernst
- Museum of Zoology, Senckenberg Natural History Collections Dresden, Dresden, Germany
| | - Marcel T Kouete
- Department of Natural History, Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,School of Natural Resources and Environment, University of Florida, Florida, USA
| | - Chifundera Kusamba
- Laboratoire d'Herpétologie, Département de Biologie, Centre de Recherche en Sciences Naturelles, République Démocratique du Congo, Lwiro
| | - Franck M Masudi
- Département d'Ecologie et Biodiversité des Ressources Terrestres, Centre de Surveillance de la Biodiversité, Université de Kisangani, République Démocratique du Congo, Kisangani
| | - Patrick J McLaughlin
- Bioko Biodiversity Protection Project, Drexel University, Philadelphia, Pennsylvania, USA.,Institute of Conservation Science and Learning, Bristol Zoological Society, Bristol, UK
| | - Lotanna M Nneji
- Department of Ecology and Evolutionary Biology, Princeton University, New Jersey, USA
| | - Abiodun B Onadeko
- Department of Zoology, Faculty of Science, University of Lagos, Lagos, Nigeria
| | - Johannes Penner
- Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany.,Chair of Wildlife Ecology and Wildlife Management, University of Freiburg, Freiburg, Germany
| | - Pedro Vaz Pinto
- CIBIO/InBio - Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, Campus de Vairão, Vairão, Portugal.,Fundação Kissama, Luanda, Angola
| | - Bryan L Stuart
- Section of Research & Collections, North Carolina Museum of Natural Sciences, North Carolina, USA
| | - Elie Tobi
- Gabon Biodiversity Program, Smithsonian Conservation Biology Institute, Gamba, Gabon
| | | | - Adam D Leaché
- Department of Biology & Burke Museum of Natural History and Culture, University of Washington, Seattle, Washington, USA
| | - Matthew K Fujita
- Amphibian and Reptile Diversity Research Center, Department of Biology, University of Texas at Arlington, Arlington, Texas, USA
| | - Rayna C Bell
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA.,Herpetology Department, Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, California, USA
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8
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Neira-Salamea K, Ofori-Boateng C, Kouam NG, Blackburn DC, Segniagbeto GH, Hillers A, Barej MF, Leach AD, Rödel MO. A new critically endangered slippery frog (Amphibia, Conrauidae, Conraua) from the Atewa Range, central Ghana. Zootaxa 2021; 4995:71-95. [PMID: 34186816 DOI: 10.11646/zootaxa.4995.1.4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2021] [Indexed: 11/04/2022]
Abstract
Forty-nine years after the last description of a slippery frog, we describe a seventh species of the genus Conraua. The new Conraua is endemic to the Atewa Range Forest Reserve, central Ghana, and is described based on genetic, bioacoustics, and morphological evidence. Recent molecular phylogenetic and species delimitation analyses support this population as distinct from nominotypical C. derooi in eastern Ghana and adjacent Togo. The new species is sister to C. derooi, from which it differs ~4% in the DNA sequence for mitochondrial ribosomal 16S. Genetic divergences in 16S to other species of Conraua range from 412%. The new species is distinguished morphologically from its congeners, including C. derooi, by the combination of the following characters: medium body size, robust limbs, lateral dermal fringing along edges of fingers, cream ventral color with brown mottling, the presence of a lateral line system, indistinct tympanum, the presence of inner, outer, and middle palmar tubercles, and two subarticular tubercles on fingers III and IV. We compare the advertisement calls of the new species with the calls from C. derooi and find that they differ by duration, frequency modulation, and dominant frequency. We discuss two potential drivers of speciation between C. derooi and the new species, including river barriers and fragmentation of previously more widespread forests in West Africa. Finally, we highlight the importance of the Atewa Range Forest Reserve as a critical conservation area within the Upper Guinean biodiversity hotspot.
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Affiliation(s)
- Karla Neira-Salamea
- Museum für Naturkunde Berlin Leibniz Institute for Evolution and Biodiversity Science, Invalidenstraße 43, 10115 Berlin, German .
| | - Caleb Ofori-Boateng
- CSIR-Forestry Research Institute of Ghana, P. O. Box 63, Fumesua, Kumasi, Ghana. EDGE of Existence Programme, Zoological Society of London, Regent's Park, London NW1 4RY, UK..
| | - N'goran G Kouam
- Université Jean Lorougnon Guédé, UFR Environnement, Laboratoire de Biodiversité et Ecologie Tropicale, Daloa, BP 150, Côte d´Ivoire.
| | - David C Blackburn
- Department of Natural History, Florida Museum of Natural History, University of Florida, Gainesville, Florida 32611, USA .
| | - Gabriel H Segniagbeto
- Laboratory of Ecology and Ecotoxicology, Faculty of Sciences, University of Lomé, BP 6057 Lomé, Togo .
| | - Annika Hillers
- Wild Chimpanzee Foundation (WCF), Liberia Office, FDA Compound, Whein Town, Mount Barclay, Montserrado County, Liberia .
| | - Michael F Barej
- Museum für Naturkunde Berlin Leibniz Institute for Evolution and Biodiversity Science, Invalidenstraße 43, 10115 Berlin, German.
| | - Adam D Leach
- Department of Biology Burke Museum of Natural History and Culture, University of Washington, Seattle, WA, USA .
| | - Mark-Oliver Rödel
- Museum für Naturkunde Berlin Leibniz Institute for Evolution and Biodiversity Science, Invalidenstraße 43, 10115 Berlin, German.
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9
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Liedtke HC, Soler-Navarro DJ, Gomez-Mestre I, Loader SP, Rödel MO. Parallel diversification of the African tree toad genus Nectophryne (Bufonidae). Mol Phylogenet Evol 2021; 162:107184. [PMID: 33932615 DOI: 10.1016/j.ympev.2021.107184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 04/14/2021] [Accepted: 04/26/2021] [Indexed: 10/21/2022]
Abstract
African amphibian diversity remains underestimated with many cryptic lineages awaiting formal description. An important hotspot of amphibian diversification is the Guineo-Congolian rainforest in Central Africa, its richness attributable to present day and ancestral range fragmentation through geological barriers, habitat expansion and contraction, and the presence of steep ecological gradients. The charismatic Nectophryne tree toads present an interesting case study for diversification in this region. The two formally described species comprising this genus show nearly identical geographic distributions extending across most of the Guineo-Congolian rainforest, but show little morphological disparity. Both species harbour extensive genetic diversity warranting taxonomic revisions, and interestingly, when comparing the subclades within each, the two species show remarkably parallel diversification histories, both in terms of timing of phylogenetic splits and their geographic distributions. This indicates that common processes may have shaped the evolutionary history of these lineages.
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Affiliation(s)
- H Christoph Liedtke
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain.
| | - Diego J Soler-Navarro
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain
| | - Ivan Gomez-Mestre
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain
| | - Simon P Loader
- Life Sciences Department, Natural History Museum, London SW7 5BD, UK
| | - Mark-Oliver Rödel
- Museum für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Biodiversity Dynamics, Invalidenstr. 43, Berlin 10115, Germany
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10
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Curaudeau M, Rozzi R, Hassanin A. The genome of the lowland anoa (Bubalus depressicornis) illuminates the origin of river and swamp buffalo. Mol Phylogenet Evol 2021; 161:107170. [PMID: 33798669 DOI: 10.1016/j.ympev.2021.107170] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Revised: 03/12/2021] [Accepted: 03/25/2021] [Indexed: 10/21/2022]
Abstract
Two types of domestic water buffalo are currently recognized: the river buffalo from the Indian subcontinent and Mediterranean countries and the swamp buffalo from China and Southeast Asia. To test the hypothesis of two separate species of water buffalo, we sequenced the genome of the lowland anoa, Bubalus depressicornis, which is a dwarf wild buffalo endemic to Sulawesi, and two genomes of swamp buffalo, and made comparisons with 12 additional genomes. Three genomic data sets were constructed to infer phylogenetic relationships: the mitochondrial genome (15,468 bp; maternal transmission), two concatenated Y-chromosomal genes, AMELY and DDX3Y (20,036 bp; paternal transmission), and a selection of 30 nuclear genes representing all cattle chromosomes (364,887 bp; biparental transmission). The comparisons between our 30 nuclear gene sequences obtained by read mapping and those directly extracted from Bos taurus and Bubalus bubalis genome assemblies show that the mapping approach revealed higher levels of heterozygosity at both nucleotide sites and indels (insertions and deletions) (0.09-0.15%), as well as several sequence errors (0.07%). Our phylogenetic and molecular dating analyses provide strong evidence that the lowland anoa, river buffalo, and swamp buffalo are three distinct taxa which separated rapidly from each other during the Pleistocene epoch. We therefore conclude that two species of domestic water buffalo should be distinguished: Bubalus bubalis for the river buffalo and Bubalus kerabau for the swamp buffalo. The new classification can have deep implications for understanding the evolution and selection of domesticated forms and for the conservation and management of wild buffalo populations in South and Southeast Asia.
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Affiliation(s)
- Manon Curaudeau
- Institut Systématique Evolution Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, 57 rue Cuvier, CP 51, 75005 Paris, France
| | - Roberto Rozzi
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Synthesis Centre for Biodiversity Sciences (sDiv), Puschstr. 4, D-04103 Leipzig, Germany; Museum für Naturkunde, Leibniz-Institut für Evolutions- und Biodiversitätsforschung, 10115 Berlin, Germany
| | - Alexandre Hassanin
- Institut Systématique Evolution Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, 57 rue Cuvier, CP 51, 75005 Paris, France.
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11
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Hassanin A, Veron G, Ropiquet A, Jansen van Vuuren B, Lécu A, Goodman SM, Haider J, Nguyen TT. Evolutionary history of Carnivora (Mammalia, Laurasiatheria) inferred from mitochondrial genomes. PLoS One 2021; 16:e0240770. [PMID: 33591975 PMCID: PMC7886153 DOI: 10.1371/journal.pone.0240770] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Accepted: 01/06/2021] [Indexed: 11/18/2022] Open
Abstract
The order Carnivora, which currently includes 296 species classified into 16 families, is distributed across all continents. The phylogeny and the timing of diversification of members of the order are still a matter of debate. Here, complete mitochondrial genomes were analysed to reconstruct the phylogenetic relationships and to estimate divergence times among species of Carnivora. We assembled 51 new mitogenomes from 13 families, and aligned them with available mitogenomes by selecting only those showing more than 1% of nucleotide divergence and excluding those suspected to be of low-quality or from misidentified taxa. Our final alignment included 220 taxa representing 2,442 mitogenomes. Our analyses led to a robust resolution of suprafamilial and intrafamilial relationships. We identified 21 fossil calibration points to estimate a molecular timescale for carnivorans. According to our divergence time estimates, crown carnivorans appeared during or just after the Early Eocene Climatic Optimum; all major groups of Caniformia (Cynoidea/Arctoidea; Ursidae; Musteloidea/Pinnipedia) diverged from each other during the Eocene, while all major groups of Feliformia (Nandiniidae; Feloidea; Viverroidea) diversified more recently during the Oligocene, with a basal divergence of Nandinia at the Eocene/Oligocene transition; intrafamilial divergences occurred during the Miocene, except for the Procyonidae, as Potos separated from other genera during the Oligocene.
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Affiliation(s)
- Alexandre Hassanin
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, Paris, France
| | - Géraldine Veron
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, Paris, France
| | - Anne Ropiquet
- Faculty of Science and Technology, Department of Natural Sciences, Middlesex University, London, United Kingdom
| | - Bettine Jansen van Vuuren
- Department of Zoology, Centre for Ecological Genomics and Wildlife Conservation, University of Johannesburg, Johannesburg, South Africa
| | - Alexis Lécu
- Parc zoologique de Paris, Muséum national d’Histoire naturelle, Paris, France
| | - Steven M. Goodman
- Field Museum of Natural History, Chicago, IL, United States of America
| | - Jibran Haider
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, Paris, France
- Department of Wildlife Management, Pir Mehr Ali Shah, Arid Agriculture University Rawalpindi, Rawalpindi, Pakistan
- Forest Parks & Wildlife Department Gilgit-Baltistan, Skardu, Pakistan
| | - Trung Thanh Nguyen
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, UA, Paris, France
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12
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Couvreur TL, Dauby G, Blach‐Overgaard A, Deblauwe V, Dessein S, Droissart V, Hardy OJ, Harris DJ, Janssens SB, Ley AC, Mackinder BA, Sonké B, Sosef MS, Stévart T, Svenning J, Wieringa JJ, Faye A, Missoup AD, Tolley KA, Nicolas V, Ntie S, Fluteau F, Robin C, Guillocheau F, Barboni D, Sepulchre P. Tectonics, climate and the diversification of the tropical African terrestrial flora and fauna. Biol Rev Camb Philos Soc 2021; 96:16-51. [PMID: 32924323 PMCID: PMC7821006 DOI: 10.1111/brv.12644] [Citation(s) in RCA: 64] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Revised: 08/07/2020] [Accepted: 08/13/2020] [Indexed: 12/30/2022]
Abstract
Tropical Africa is home to an astonishing biodiversity occurring in a variety of ecosystems. Past climatic change and geological events have impacted the evolution and diversification of this biodiversity. During the last two decades, around 90 dated molecular phylogenies of different clades across animals and plants have been published leading to an increased understanding of the diversification and speciation processes generating tropical African biodiversity. In parallel, extended geological and palaeoclimatic records together with detailed numerical simulations have refined our understanding of past geological and climatic changes in Africa. To date, these important advances have not been reviewed within a common framework. Here, we critically review and synthesize African climate, tectonics and terrestrial biodiversity evolution throughout the Cenozoic to the mid-Pleistocene, drawing on recent advances in Earth and life sciences. We first review six major geo-climatic periods defining tropical African biodiversity diversification by synthesizing 89 dated molecular phylogeny studies. Two major geo-climatic factors impacting the diversification of the sub-Saharan biota are highlighted. First, Africa underwent numerous climatic fluctuations at ancient and more recent timescales, with tectonic, greenhouse gas, and orbital forcing stimulating diversification. Second, increased aridification since the Late Eocene led to important extinction events, but also provided unique diversification opportunities shaping the current tropical African biodiversity landscape. We then review diversification studies of tropical terrestrial animal and plant clades and discuss three major models of speciation: (i) geographic speciation via vicariance (allopatry); (ii) ecological speciation impacted by climate and geological changes, and (iii) genomic speciation via genome duplication. Geographic speciation has been the most widely documented to date and is a common speciation model across tropical Africa. We conclude with four important challenges faced by tropical African biodiversity research: (i) to increase knowledge by gathering basic and fundamental biodiversity information; (ii) to improve modelling of African geophysical evolution throughout the Cenozoic via better constraints and downscaling approaches; (iii) to increase the precision of phylogenetic reconstruction and molecular dating of tropical African clades by using next generation sequencing approaches together with better fossil calibrations; (iv) finally, as done here, to integrate data better from Earth and life sciences by focusing on the interdisciplinary study of the evolution of tropical African biodiversity in a wider geodiversity context.
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Affiliation(s)
| | - Gilles Dauby
- AMAP Lab, IRD, CIRAD, CNRS, INRAUniversity of MontpellierMontpellierFrance
- Laboratoire d'évolution Biologique et Ecologie, Faculté des SciencesUniversité Libre de BruxellesCP160/12, Avenue F.D. Roosevelt 50Brussels1050Belgium
| | - Anne Blach‐Overgaard
- Section for Ecoinformatics & Biodiversity, Department of BiologyAarhus UniversityNy Munkegade 114Aarhus CDK‐8000Denmark
- Center for Biodiversity Dynamics in a Changing World (BIOCHANGE), Department of BiologyAarhus UniversityNy Munkegade 114Aarhus CDK‐8000Denmark
| | - Vincent Deblauwe
- Center for Tropical Research (CTR), Institute of the Environment and SustainabilityUniversity of California, Los Angeles (UCLA)Los AngelesCA90095U.S.A.
- International Institute of Tropical Agriculture (IITA)YaoundéCameroon
| | | | - Vincent Droissart
- AMAP Lab, IRD, CIRAD, CNRS, INRAUniversity of MontpellierMontpellierFrance
- Laboratoire de Botanique Systématique et d'Écologie, École Normale SupérieureUniversité de Yaoundé IPO Box 047YaoundéCameroon
- Herbarium et Bibliothèque de Botanique AfricaineUniversité Libre de BruxellesBoulevard du TriompheBrusselsB‐1050Belgium
- Africa & Madagascar DepartmentMissouri Botanical GardenSt. LouisMOU.S.A.
| | - Oliver J. Hardy
- Laboratoire d'évolution Biologique et Ecologie, Faculté des SciencesUniversité Libre de BruxellesCP160/12, Avenue F.D. Roosevelt 50Brussels1050Belgium
| | - David J. Harris
- Royal Botanic Garden Edinburgh20A Inverleith RowEdinburghU.K.
| | | | - Alexandra C. Ley
- Institut für Geobotanik und Botanischer GartenUniversity Halle‐WittenbergNeuwerk 21Halle06108Germany
| | | | - Bonaventure Sonké
- Laboratoire de Botanique Systématique et d'Écologie, École Normale SupérieureUniversité de Yaoundé IPO Box 047YaoundéCameroon
| | | | - Tariq Stévart
- Herbarium et Bibliothèque de Botanique AfricaineUniversité Libre de BruxellesBoulevard du TriompheBrusselsB‐1050Belgium
- Africa & Madagascar DepartmentMissouri Botanical GardenSt. LouisMOU.S.A.
| | - Jens‐Christian Svenning
- Section for Ecoinformatics & Biodiversity, Department of BiologyAarhus UniversityNy Munkegade 114Aarhus CDK‐8000Denmark
- Center for Biodiversity Dynamics in a Changing World (BIOCHANGE), Department of BiologyAarhus UniversityNy Munkegade 114Aarhus CDK‐8000Denmark
| | - Jan J. Wieringa
- Naturalis Biodiversity CenterDarwinweg 2Leiden2333 CRThe Netherlands
| | - Adama Faye
- Laboratoire National de Recherches sur les Productions Végétales (LNRPV)Institut Sénégalais de Recherches Agricoles (ISRA)Route des Hydrocarbures, Bel Air BP 1386‐ CP18524DakarSenegal
| | - Alain D. Missoup
- Zoology Unit, Laboratory of Biology and Physiology of Animal Organisms, Faculty of ScienceUniversity of DoualaPO Box 24157DoualaCameroon
| | - Krystal A. Tolley
- South African National Biodiversity InstituteKirstenbosch Research CentrePrivate Bag X7, ClaremontCape Town7735South Africa
- School of Animal, Plant and Environmental SciencesUniversity of the WitwatersrandPrivate Bag 3Wits2050South Africa
| | - Violaine Nicolas
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHEUniversité des AntillesCP51, 57 rue CuvierParis75005France
| | - Stéphan Ntie
- Département de Biologie, Faculté des SciencesUniversité des Sciences et Techniques de MasukuFrancevilleBP 941Gabon
| | - Frédiéric Fluteau
- Institut de Physique du Globe de Paris, CNRSUniversité de ParisParisF‐75005France
| | - Cécile Robin
- CNRS, Géosciences Rennes, UMR6118University of RennesRennes35042France
| | | | - Doris Barboni
- CEREGE, Aix‐Marseille University, CNRS, IRD, Collège de France, INRA, Technopole Arbois MéditerranéeBP80Aix‐en‐Provence cedex413545France
| | - Pierre Sepulchre
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA‐CNRS‐UVSQUniversité Paris‐SaclayGif‐sur‐YvetteF‐91191France
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Mamba ML, Dalton DL, Mahlaba TAM, Kropff AS, Monadjem A. Small mammals of a West African hotspot, the Ziama-Wonegizi-Wologizi transfrontier forest landscape. MAMMALIA 2020. [DOI: 10.1515/mammalia-2020-0013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
The Upper Guinea rainforest zone in West Africa is considered a biodiversity hotspot and contains important habitats for threatened and endemic mammals, yet this region remains poorly known particularly for small mammals. The aim of this study was to survey small mammals in a Liberian and Guinean cross-border conservation area, the Ziama-Wonegizi-Wologizi landscape. We recorded a total of 52 small mammal species, including 26 bats, 15 rodents, 10 shrews, one otter-shrew, of which one rodent species was new to science (Colomys sp. nov.). We also documented the first country records of the bats Chaerephon aloysiisabaudiae, Pseudoromicia brunnea and Pipistrellus inexspectatus from Guinea, and the shrews Crocidura douceti and Crocidura grandiceps from Liberia. Furthermore, we recorded the recently described bat Nycticeinops
happoldorum from Wologizi and Ziama, and we documented the presence of Micropotamogale lamottei at Wologizi, which represents the fourth known locality for this globally threatened species. Finally, the forests of Wologizi and Ziama support numerous threatened species. The results of our survey demonstrate the importance of this region for small mammals and support the creation of a transboundary protected area that will encompass the entire forest landscape.
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Affiliation(s)
- Mnqobi L. Mamba
- Department of Biological Sciences , University of Eswatini , Private Bag 4 , Kwaluseni , Eswatini
| | - Desire L. Dalton
- Department of Biological Sciences , University of Eswatini , Private Bag 4 , Kwaluseni , Eswatini
- South African National Biodiversity Institute , P.O. Box 754 , Pretoria , 0001 , South Africa
| | | | - Anna S. Kropff
- South African National Biodiversity Institute , P.O. Box 754 , Pretoria , 0001 , South Africa
| | - Ara Monadjem
- Department of Biological Sciences , University of Eswatini , Private Bag 4 , Kwaluseni , Eswatini
- Department of Zoology and Entomology , Mammal Research Institute, University of Pretoria , Private Bag 20 , Hatfield 0028 , Pretoria , South Africa
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Haran J, Ndzana Abanda RFX, Benoit L, Bakoumé C, Beaudoin-Ollivier L. Multilocus phylogeography of the world populations of Elaeidobius kamerunicus (Coleoptera, Curculionidae), pollinator of the palm Elaeis guineensis. BULLETIN OF ENTOMOLOGICAL RESEARCH 2020; 110:654-662. [PMID: 32381154 DOI: 10.1017/s0007485320000218] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Elaeidobius kamerunicus Faust (Coleoptera, Curculionidae) is one of the specific pollinators on inflorescences of the African oil palm Elaeis guineensis Jacquin. This derelomine weevil is native to tropical Africa. During the late 20th century, it was introduced into all tropical regions where E. guineensis is grown, in order to improve its pollination and fruit set. Despite an overall success, a decline in pollination efficiency has been documented in several regions. In this study, we reconstructed a multilocus phylogeography of the world populations of E. kamerunicus, in order to explore its genetic diversity in its native and introduced ranges. Our results showed that African populations of E. kamerunicus are forming two differentiated mitochondrial clusters in West and central Africa, forming a contact zone along the Cameroon Volcanic Line. The existence of this sharp contact zone along this weak altitudinal barrier suggests that other parameters, such as climate, may be driving the distribution of populations. A differential genetic structure between mitochondrial and nuclear genes, and the strong level of genetic structure of the mitochondrial gene, also suggest sex-biased dispersal in this species, with males dispersing more than females. The genetic structure inferred from Asian and South American populations suggests that they originate from populations of both western and central tropical Africa and that a bottleneck has probably been experienced by these populations.
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Affiliation(s)
- Julien Haran
- CBGP, Univ Montpellier, CIRAD, INRA, IRD, Montpellier SupAgro, Montpellier, France
| | | | - Laure Benoit
- CBGP, Univ Montpellier, CIRAD, INRA, IRD, Montpellier SupAgro, Montpellier, France
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Mongombe AM, Bakwo Fils EM, Tamesse JL. Annotated checklist of bats (Mammalia: Chiroptera) of Mount Cameroon, southwestern Cameroon. ZOOSYSTEMA 2020. [DOI: 10.5252/zoosystema2020v42a24] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Aaron Manga Mongombe
- Department of Biological Sciences; Faculty of Science; University of Maroua, Cameroon, P.O. Box 814, Maroua (Cameroon)
| | - Eric Moise Bakwo Fils
- Department of Biological Sciences; Faculty of Science; University of Maroua, Cameroon, P.O. Box 814, Maroua (Cameroon)
| | - Joseph Lebel Tamesse
- Department of Biological sciences, Higher Teacher's Training College, University of Yaoundé I, P.O Box 812, Yaoundé (Cameroon)
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16
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Moir M, Richards LR, Cherry MI, Rambau RV. Demographic responses of forest-utilizing bats to past climate change in South Africa. Biol J Linn Soc Lond 2020. [DOI: 10.1093/biolinnean/blaa048] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
AbstractHistorical forest contractions may have restricted the distributions of forest-utilizing fauna while providing opportunities for range expansions for open-habitat species. We aimed to test if habitat associations have played an important role in determining population genetic structure and demographic responses of six bats to oscillations in forest extent since the Last Glacial Maximum (LGM). We hypothesized that forest-associated species would display high levels of population structure and past population contractions as their distribution is dependent on fragmented forests. By contrast, habitat generalists would demonstrate low geographical structuring and historical population stability as suitable habitats are widely available. We used mitochondrial DNA to generate genetic diversity and population structure metrics of three forest-associated species and three habitat generalists in South Africa. Neutrality tests and Bayesian skyline plots were used to investigate demographic histories. A forest habitat association did not inform the population genetics of the study species. Rather, species-specific traits of roosting requirements, philopatry to the natal range and dispersal ability informed the observed structure. All species demonstrated population expansions during the Pleistocene, with no apparent decline during the LGM. It appears that the lower climate change footprint and refuge-status of eastern South Africa prevented population declines of insectivorous bats during the LGM.
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Affiliation(s)
- Monika Moir
- Department of Botany and Zoology, Faculty of Natural Sciences, Stellenbosch University, Stellenbosch, South Africa
| | | | - Michael I Cherry
- Department of Botany and Zoology, Faculty of Natural Sciences, Stellenbosch University, Stellenbosch, South Africa
| | - Ramugondo V Rambau
- Department of Botany and Zoology, Faculty of Natural Sciences, Stellenbosch University, Stellenbosch, South Africa
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Hassanin A, Bonillo C, Tshikung D, Pongombo Shongo C, Pourrut X, Kadjo B, Nakouné E, Tu VT, Prié V, Goodman SM. Phylogeny of African fruit bats (Chiroptera, Pteropodidae) based on complete mitochondrial genomes. J ZOOL SYST EVOL RES 2020. [DOI: 10.1111/jzs.12373] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Alexandre Hassanin
- Institut Systématique Evolution Biodiversité (ISYEB) Sorbonne Université MNHN CNRS EPHE Paris France
| | - Céline Bonillo
- Muséum National d'Histoire NaturelleUMS 2700 2AD Paris France
| | - Didier Tshikung
- Faculté de Médecine Vétérinaire Université de Lubumbashi Lubumbashi Democratic Republic of the Congo
| | - Célestin Pongombo Shongo
- Faculté de Médecine Vétérinaire Université de Lubumbashi Lubumbashi Democratic Republic of the Congo
| | - Xavier Pourrut
- Institut de Recherche pour le Développement UR 224 MIVEGEC Marseille France
| | - Blaise Kadjo
- UFR Biosciences Université Félix Houphouet‐Boigny Abidjan Côte d'Ivoire
| | | | - Vuong Tan Tu
- Institute of Ecology and Biological Resources Vietnam Academy of Science and Technology Hanoi Vietnam
| | - Vincent Prié
- Institut Systématique Evolution Biodiversité (ISYEB) Sorbonne Université MNHN CNRS EPHE Paris France
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18
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Petzold A, Hassanin A. A comparative approach for species delimitation based on multiple methods of multi-locus DNA sequence analysis: A case study of the genus Giraffa (Mammalia, Cetartiodactyla). PLoS One 2020; 15:e0217956. [PMID: 32053589 PMCID: PMC7018015 DOI: 10.1371/journal.pone.0217956] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2019] [Accepted: 01/24/2020] [Indexed: 12/25/2022] Open
Abstract
Molecular data are now commonly used in taxonomy for delimiting cryptic species. In the case of giraffes, which were treated as a single species (Giraffa camelopardalis) during half of a century, several molecular studies have suggested a splitting into four to seven species, but the criteria applied for taxonomic delimitation were not fully described. In this study, we have analysed all multi-locus DNA sequences available for giraffes using multispecies coalescent (MSC: *BEAST, BPP and STACEY), population genetic (STRUCTURE, allelic networks, haplotype network and bootstrapping, haplowebs and conspecificity matrix) and phylogenetic (MrBayes, PhyML, SuperTRI) methods to identify the number of species. Our results show that depending on the method chosen, different taxonomic hypotheses, recognizing from two to six species, can be considered for the genus Giraffa. Our results confirm that MSC methods can lead to taxonomic over-splitting, as they delimit geographic structure rather than species. The 3-species hypothesis, which recognizes G. camelopardalis sensu strico A, G. giraffa, and G. tippelskirchi, is highly supported by phylogenetic analyses and also corroborated by most population genetic and MSC analyses. The three species show high levels of nucleotide divergence in both nuclear (0.35-0.51%) and mitochondrial sequences (3-4%), and they are characterised by 7 to 12 exclusive synapomorphies (ES) detected in nine of the 21 nuclear introns analysed for this study. By contrast, other putative species, such as G. peralta, G. reticulata, G. thornicrofti or G. tippelskirchi sensu stricto, do not exhibit any ES in the nuclear genes. A robust mito-nuclear conflict was found for the position and monophyly of G. giraffa and G. tippelskirchi, which is interpreted as the result of a mitochondrial introgression from Masai to southeastern giraffe during the Pleistocene and nuclear gene flow mediated by male dispersal between southern populations (subspecies G. g. giraffa and G. g. angolensis).
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Affiliation(s)
- Alice Petzold
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, Paris, France
- Muséum national d'Histoire naturelle, CP51, Paris, France
| | - Alexandre Hassanin
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Sorbonne Université, MNHN, CNRS, EPHE, Paris, France
- Muséum national d'Histoire naturelle, CP51, Paris, France
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19
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Riesle‐Sbarbaro SA, Amponsah‐Mensah K, de Vries S, Nicolas V, Lalis A, Suu‐Ire R, Cunningham AA, Wood JLN, Sargan DR. The Gambian epauletted fruit bat shows increased genetic divergence in the Ethiopian highlands and in an area of rapid urbanization. Ecol Evol 2018; 8:12803-12820. [PMID: 30619584 PMCID: PMC6308866 DOI: 10.1002/ece3.4709] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Revised: 10/10/2018] [Accepted: 10/11/2018] [Indexed: 12/11/2022] Open
Abstract
The Gambian epauletted fruit bat (Epomophorus gambianus) is an abundant species that roosts in both urban and rural settings. The possible role of E. gambianus as a reservoir host of zoonotic diseases underlines the need to better understand the species movement patterns. So far, neither observational nor phylogenetic studies have identified the dispersal range or behavior of this species. Comparative analyses of mitochondrial and nuclear markers from 20 localities across the known distribution of E. gambianus showed population panmixia, except for the populations in Ethiopia and southern Ghana (Accra and Ve-Golokwati). The Ethiopian population may be ancestral and is highly divergent to the species across the rest of its range, possibly reflecting isolation of an ancient colonization along an east-west axis. Mitochondrial haplotypes in the Accra population display a strong signature of a past bottleneck event; evidence of either an ancient or recent bottleneck using microsatellite data, however, was not detected. Demographic analyses identified population expansion in most of the colonies, except in the female line of descent in the Accra population. The molecular analyses of the colonies from Ethiopia and southern Ghana show gender dispersal bias, with the mitochondrial DNA fixation values over ten times those of the nuclear markers. These findings indicate free mixing of the species across great distances, which should inform future epidemiological studies.
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Affiliation(s)
- Silke A. Riesle‐Sbarbaro
- Department of Veterinary MedicineUniversity of CambridgeCambridgeUK
- Institute of ZoologyZoological Society of London, Regents ParkLondonUK
| | | | - Stefan de Vries
- Department of Veterinary MedicineUniversity of CambridgeCambridgeUK
- Present address:
Poultry Research and DevelopmentMSD Animal HealthBoxmeerThe Netherlands
| | - Violaine Nicolas
- Institut Systématique Evolution Biodiversité (ISYEB)Sorbonne Université, MNHN, CNRS, EPHEParisFrance
| | - Aude Lalis
- Institut Systématique Evolution Biodiversité (ISYEB)Sorbonne Université, MNHN, CNRS, EPHEParisFrance
| | - Richard Suu‐Ire
- Centre for African WetlandsUniversity of GhanaLegon, AccraGhana
- Wildlife Division of the Forestry CommissionAccraGhana
| | | | - James L. N. Wood
- Department of Veterinary MedicineUniversity of CambridgeCambridgeUK
| | - David R. Sargan
- Department of Veterinary MedicineUniversity of CambridgeCambridgeUK
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20
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Taylor PJ, Macdonald A, Goodman SM, Kearney T, Cotterill FPD, Stoffberg S, Monadjem A, Schoeman MC, Guyton J, Naskrecki P, Richards LR. Integrative taxonomy resolves three new cryptic species of small southern African horseshoe bats (Rhinolophus). Zool J Linn Soc 2018. [DOI: 10.1093/zoolinnean/zly024] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
Examination of historical and recent collections of small Rhinolophus bats revealed cryptic taxonomic diversity within southern African populations previously referred to as R. swinnyi Gough, 1908 and R. landeri Martin, 1832. Specimens from Mozambique morphologically referable to R. swinnyi were phylogenetically unrelated to topotypic R. swinnyi from the Eastern Cape Province of South Africa based on cytochrome b sequences and showed distinctive echolocation, baculum and noseleaf characters. Due to their genetic similarity to a previously reported molecular operational taxonomic unit (OTU) from north-eastern South Africa, Zimbabwe and Zambia, we recognize the available synonym (R. rhodesiae Roberts, 1946) to denote this distinct evolutionary species. This new taxon is genetically identical to R. simulator K. Andersen, 1904 based on mtDNA and nuclear DNA sequences but can easily be distinguished on morphological and acoustic grounds. We attribute this genetic similarity to historical introgression, a frequently documented phenomenon in bats. An additional genetically distinct and diminutive taxon in the swinnyi s.l. group (named herein, R. gorongosae sp. nov.) is described from Gorongosa National Park, central Mozambique. Specimens from Mozambique referable based on morphology to R. landeri were distinct from topotypic landeri from West Africa based on mtDNA sequences, and acoustic, noseleaf and baculum characters. This Mozambique population is assigned to the available synonym R. lobatus Peters, 1952.
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Affiliation(s)
- Peter J Taylor
- SARChI Chair on Biodiversity Value & Change and Core Team Member of the Centre for Invasion Biology, School of Mathematical & Natural Sciences, University of Venda, Thohoyandou, South Africa
- School of Life Sciences, University of KwaZulu-Natal, Durban, KwaZulu-Natal, South Africa
| | - Angus Macdonald
- School of Life Sciences, University of KwaZulu-Natal, Durban, KwaZulu-Natal, South Africa
| | - Steven M Goodman
- Field Museum of Natural History, Chicago, IL, USA
- Association Vahatra, Antananarivo, Madagascar
| | - Teresa Kearney
- Ditsong National Museum of Natural History, Pretoria, South Africa
- School of Animal, Plant and Environmental Sciences, University of the Witwatersrand, Wits, South Africa
| | - Fenton P D Cotterill
- Geoecodynamics Research Hub, c/o Department of Botany and Zoology, University of Stellenbosch, Stellenbosch, South Africa
| | - Sam Stoffberg
- Department of Botany and Zoology, University of Stellenbosch, Stellenbosch, South Africa
| | - Ara Monadjem
- All Out Africa Research Unit, Department of Biological Sciences, University of Swaziland, Kwaluseni, Swaziland
- Mammal Research Institute, Department of Zoology & Entomology, University of Pretoria, Pretoria, South Africa
| | - M Corrie Schoeman
- School of Life Sciences, University of KwaZulu-Natal, Durban, KwaZulu-Natal, South Africa
| | - Jennifer Guyton
- Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, USA
| | - Piotr Naskrecki
- Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
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21
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Zimmermann BL, Crivellaro MS, Hauschild CB, Bartholomei-Santos ML, Crandall KA, Pérez-Losada M, Giri F, Collins P, Santos S. Phylogeography reveals unexpectedly low genetic diversity in a widely distributed species: the case of the freshwater crab Aegla platensis (Decapoda: Anomura). Biol J Linn Soc Lond 2018. [DOI: 10.1093/biolinnean/blx166] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Bianca L Zimmermann
- Programa de Pós-graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil
| | - Marcelo S Crivellaro
- Programa de Pós-graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil
| | - Caroline B Hauschild
- Programa de Pós-graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil
| | - Marlise L Bartholomei-Santos
- Programa de Pós-graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil
| | - Keith A Crandall
- Computational Biology Institute, George Washington University, Ashburn, VA, USA
- Department of Invertebrate Zoology, US National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | - Marcos Pérez-Losada
- Computational Biology Institute, George Washington University, Ashburn, VA, USA
- Department of Invertebrate Zoology, US National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
- CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Vairão, Portugal
| | - Federico Giri
- Laboratorio de Macrocrustáceos, Instituto Nacional de Limnología, Consejo Nacional de Investigaciones Científicas y Técnicas, Universidad Nacional del Litoral, Santa Fe, Argentina
| | - Pablo Collins
- Laboratorio de Macrocrustáceos, Instituto Nacional de Limnología, Consejo Nacional de Investigaciones Científicas y Técnicas, Universidad Nacional del Litoral, Santa Fe, Argentina
| | - Sandro Santos
- Programa de Pós-graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil
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Jongsma GF, Barej MF, Barratt CD, Burger M, Conradie W, Ernst R, Greenbaum E, Hirschfeld M, Leaché AD, Penner J, Portik DM, Zassi-Boulou AG, Rödel MO, Blackburn DC. Diversity and biogeography of frogs in the genus Amnirana (Anura: Ranidae) across sub-Saharan Africa. Mol Phylogenet Evol 2018; 120:274-285. [DOI: 10.1016/j.ympev.2017.12.006] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2017] [Revised: 11/30/2017] [Accepted: 12/05/2017] [Indexed: 10/18/2022]
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23
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Bennett KL, Kaddumukasa M, Shija F, Djouaka R, Misinzo G, Lutwama J, Linton YM, Walton C. Comparative phylogeography of Aedes mosquitoes and the role of past climatic change for evolution within Africa. Ecol Evol 2018; 8:3019-3036. [PMID: 29531714 PMCID: PMC5838080 DOI: 10.1002/ece3.3668] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2017] [Revised: 10/26/2017] [Accepted: 10/27/2017] [Indexed: 01/01/2023] Open
Abstract
The study of demographic processes involved in species diversification and evolution ultimately provides explanations for the complex distribution of biodiversity on earth, indicates regions important for the maintenance and generation of biodiversity, and identifies biological units important for conservation or medical consequence. African and forest biota have both received relatively little attention with regard to understanding their diversification, although one possible mechanism is that this has been driven by historical climate change. To investigate this, we implemented a standard population genetics approach along with Approximate Bayesian Computation, using sequence data from two exon-primed intron-crossing (EPIC) nuclear loci and mitochondrial cytochrome oxidase subunit I, to investigate the evolutionary history of five medically important and inherently forest dependent mosquito species of the genus Aedes. By testing different demographic hypotheses, we show that Aedes bromeliae and Aedes lilii fit the same model of lineage diversification, admixture, expansion, and recent population structure previously inferred for Aedes aegypti. In addition, analyses of population structure show that Aedes africanus has undergone lineage diversification and expansion while Aedes hansfordi has been impacted by population expansion within Uganda. This congruence in evolutionary history is likely to relate to historical climate-driven habitat change within Africa during the late Pleistocene and Holocene epoch. We find differences in the population structure of mosquitoes from Tanzania and Uganda compared to Benin and Uganda which could relate to differences in the historical connectivity of forests across the continent. Our findings emphasize the importance of recent climate change in the evolution of African forest biota.
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Affiliation(s)
- Kelly Louise Bennett
- Faculty of Life SciencesComputational Evolutionary Biology GroupUniversity of ManchesterManchesterUK
| | - Martha Kaddumukasa
- Department of Arbovirology, Emerging and Re‐emerging InfectionsUganda Virus Research InstituteEntebbeUganda
- WITS Institute for Malaria ResearchSchool of Pathology Faculty of Health SciencesUniversity of WitwatersrandParktownJohannesburg
| | - Fortunate Shija
- Faculty of Life SciencesComputational Evolutionary Biology GroupUniversity of ManchesterManchesterUK
- Department of Veterinary Microbiology and ParasitologySokoine University of AgricultureMorogoroTanzania
| | - Rousseau Djouaka
- Agro‐Eco‐Health Platform for West and Central AfricaInternational Institute for Tropical AgricultureCotonouRepublic of Benin
| | - Gerald Misinzo
- Agro‐Eco‐Health Platform for West and Central AfricaInternational Institute for Tropical AgricultureCotonouRepublic of Benin
| | - Julius Lutwama
- Department of Arbovirology, Emerging and Re‐emerging InfectionsUganda Virus Research InstituteEntebbeUganda
| | - Yvonne Marie Linton
- Department of EntomologyNational Museum of Natural HistorySmithsonian InstitutionWashingtonDCUSA
- Walter Reed Biosystematics UnitSmithsonian Institution Museum Support CenterSuitlandMDUSA
- Walter Reed Army Institute of ResearchSilver SpringMDUSA
- Uniformed Services University of Health SciencesBethesdaMDUSA
| | - Catherine Walton
- Faculty of Life SciencesComputational Evolutionary Biology GroupUniversity of ManchesterManchesterUK
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24
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Fuchs J, De Swardt DH, Oatley G, Fjeldså J, Bowie RCK. Habitat‐driven diversification, hybridization and cryptic diversity in the Fork‐tailed Drongo (Passeriformes: Dicruridae:
Dicrurus adsimilis
). ZOOL SCR 2018. [DOI: 10.1111/zsc.12274] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Jérôme Fuchs
- Institut de Systématique, Evolution, Biodiversité UMR7205 CNRS MNHN UPMC EPHE Sorbonne Universités, Muséum National d'Histoire Naturelle Paris France
- Museum of Vertebrate Zoology and Department of Integrative Biology University of California Berkeley CA USA
- DST/NRF Centre of Excellence at the Percy FitzPatrick Institute University of Cape Town Rondebosch South Africa
| | | | - Graeme Oatley
- DST/NRF Centre of Excellence at the Percy FitzPatrick Institute University of Cape Town Rondebosch South Africa
- Department of Zoology and Lab of Ornithology Faculty of Science Palacky University Olomouc Czech Republic
| | - Jon Fjeldså
- Center for Macroecology, Evolution and Climate Natural History Museum of Denmark University of Copenhagen Copenhagen Denmark
| | - Rauri C. K. Bowie
- Museum of Vertebrate Zoology and Department of Integrative Biology University of California Berkeley CA USA
- DST/NRF Centre of Excellence at the Percy FitzPatrick Institute University of Cape Town Rondebosch South Africa
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25
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Huntley JW, Harvey JA, Pavia M, Boano G, Voelker G. The systematics and biogeography of the Bearded Greenbuls (Aves: Criniger) reveals the impact of Plio-Pleistocene forest fragmentation on Afro-tropical avian diversity. Zool J Linn Soc 2017. [DOI: 10.1093/zoolinnean/zlx086] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Jerry W Huntley
- Department of Wildlife and Fisheries Sciences, Texas A&M University, TX, USA
| | - Johanna A Harvey
- Department of Wildlife and Fisheries Sciences, Texas A&M University, TX, USA
| | - Marco Pavia
- University of Torino, DST, via Valperga Caluso Torino, Italy
| | - Giovanni Boano
- Museo Civico di Storia Naturale, Cascina Vigna, Carmagnola, Italy
| | - Gary Voelker
- Department of Wildlife and Fisheries Sciences, Texas A&M University, TX, USA
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26
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Ntie S, Davis AR, Hils K, Mickala P, Thomassen HA, Morgan K, Vanthomme H, Gonder MK, Anthony NM. Evaluating the role of Pleistocene refugia, rivers and environmental variation in the diversification of central African duikers (genera Cephalophus and Philantomba). BMC Evol Biol 2017; 17:212. [PMID: 28877669 PMCID: PMC5585889 DOI: 10.1186/s12862-017-1054-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2017] [Accepted: 08/18/2017] [Indexed: 12/29/2022] Open
Abstract
Background This study aims to assess the role that Pleistocene refugia, rivers and local habitat conditions may have played in the evolutionary diversification of three central African duiker species (Cephalophus dorsalis, C. callipygus and Philantomba monticola). Genetic data from geo-referenced feces were collected from a wide range of sites across Central Africa. Historical patterns of population genetic structure were assessed using a ~ 650 bp fragment of the mitochondrial control region and contemporary patterns of genetic differentiation were evaluated using 12 polymorphic microsatellite loci. Results Mitochondrial analyses revealed that populations of C. callipygus and P. monticola in the Gulf of Guinea refugium are distinct from other populations in west central Africa. All three species exhibit signatures of past population expansion across much of the study area consistent with a history of postglacial expansion. There was no strong evidence for a riverine barrier effect in any of the three species, suggesting that duikers can readily cross major rivers. Generalized dissimilarity models (GDM) showed that environmental variation explains most of the nuclear genetic differentiation in both C. callipygus and P. monticola. The forest-savanna transition across central Cameroon and the Plateaux Batéké region in southeastern Gabon show the highest environmentally-associated turnover in genetic variability. A pattern of genetic differentiation was also evident between the coast and forest interior that may reflect differences in precipitation and/or vegetation. Conclusions Findings from this study highlight the historical impact of Pleistocene fragmentation and current influence of environmental variation on genetic structure in duikers. Conservation efforts should therefore target areas that harbor as much environmentally-associated genetic variation as possible in order to maximize species’ capacity to adapt to environmental change. Electronic supplementary material The online version of this article (10.1186/s12862-017-1054-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Stephan Ntie
- Department of Biology, Université des Sciences et Techniques de Masuku, B.P.943, Franceville, Gabon.,Department of Biological Sciences, University of New Orleans, 2000 Lakeshore Drive, New Orleans, LA, 70148, USA
| | - Anne R Davis
- Department of Biological Sciences, University of New Orleans, 2000 Lakeshore Drive, New Orleans, LA, 70148, USA
| | - Katrin Hils
- Cheetah Conservation Fund, P.O. Box 1755, Otjiwarongo, Namibia.,Comparative Zoology, Institute for Evolution and Ecology, University of Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany
| | - Patrick Mickala
- Department of Biology, Université des Sciences et Techniques de Masuku, B.P.943, Franceville, Gabon
| | - Henri A Thomassen
- Comparative Zoology, Institute for Evolution and Ecology, University of Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany
| | - Katy Morgan
- Department of Biological Sciences, University of New Orleans, 2000 Lakeshore Drive, New Orleans, LA, 70148, USA
| | - Hadrien Vanthomme
- Département Ecologie et Gestion de la Biodiversité, Muséum National d'Histoire Naturelle, CNRS UMR 7179, Avenue du Petit Château, 91800, Brunoy, France
| | - Mary K Gonder
- Department of Biology, Drexel University, 3245 Chestnut St., Philadelphia, PA, 19104, USA
| | - Nicola M Anthony
- Department of Biological Sciences, University of New Orleans, 2000 Lakeshore Drive, New Orleans, LA, 70148, USA.
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27
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Bell RC, Parra JL, Badjedjea G, Barej MF, Blackburn DC, Burger M, Channing A, Dehling JM, Greenbaum E, Gvoždík V, Kielgast J, Kusamba C, Lötters S, McLaughlin PJ, Nagy ZT, Rödel M, Portik DM, Stuart BL, VanDerWal J, Zassi‐Boulou AG, Zamudio KR. Idiosyncratic responses to climate‐driven forest fragmentation and marine incursions in reed frogs from Central Africa and the Gulf of Guinea Islands. Mol Ecol 2017; 26:5223-5244. [DOI: 10.1111/mec.14260] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2017] [Revised: 07/03/2017] [Accepted: 07/12/2017] [Indexed: 01/14/2023]
Affiliation(s)
- Rayna C. Bell
- Department of Vertebrate Zoology National Museum of Natural History Smithsonian Institution Washington DC USA
- Museum of Vertebrate Zoology University of California, Berkeley CA USA
- Department of Ecology and Evolutionary Biology Cornell University Ithaca NY USA
| | - Juan L. Parra
- Grupo de Ecología y Evolución de Vertebrados Instituto de Biología Universidad de Antioquia Medellín Colombia
| | - Gabriel Badjedjea
- Département d'Ecologie et Biodiversité des ressources Aquatiques Centre de Surveillance de la Biodiversité Kisangani Democratic Republic of the Congo
| | - Michael F. Barej
- Museum für Naturkunde ‐ Leibniz Institute for Evolution and Biodiversity Science Berlin Germany
| | - David C. Blackburn
- Florida Museum of Natural History University of Florida Gainesville FL USA
- Department of Herpetology California Academy of Sciences San Francisco CA USA
| | - Marius Burger
- African Amphibian Conservation Research Group Unit for Environmental Sciences and Management North‐West University Potchefstroom South Africa
- Flora Fauna & Man, Ecological Services Ltd. Tortola British Virgin Islands
| | - Alan Channing
- Biodiversity and Conservation Biology Department University of the Western Cape Bellville South Africa
| | - Jonas Maximilian Dehling
- Abteilung Biologie Institut für Integrierte Naturwissenschaften Universität Koblenz‐Landau Koblenz Germany
| | - Eli Greenbaum
- Department of Biological Sciences University of Texas at El Paso El Paso TX USA
| | - Václav Gvoždík
- Institute of Vertebrate Biology Czech Academy of Sciences Brno Czech Republic
- Department of Zoology National Museum Prague Czech Republic
| | - Jos Kielgast
- Section of Freshwater Biology Department of Biology University of Copenhagen Copenhagen Denmark
- Center for Macroecology, Evolution and Climate Natural History Museum of Denmark Copenhagen Denmark
| | - Chifundera Kusamba
- Laboratoire d'Herpétologie Département de Biologie Centre de Recherche en Sciences Naturelles Lwiro Democratic Republic of the Congo
| | | | | | - Zoltán T. Nagy
- Museum für Naturkunde ‐ Leibniz Institute for Evolution and Biodiversity Science Berlin Germany
- Royal Belgian Institute of Natural Sciences Brussels Belgium
| | - Mark‐Oliver Rödel
- Museum für Naturkunde ‐ Leibniz Institute for Evolution and Biodiversity Science Berlin Germany
| | - Daniel M. Portik
- Museum of Vertebrate Zoology University of California, Berkeley CA USA
- Department of Biology University of Texas Arlington TX USA
| | | | - Jeremy VanDerWal
- Centre for Tropical Biodiveristy & Climate Change College of Science and Engineering James Cook University Townsville Qld Australia
- Division of Research and Innovation eResearch Centre James Cook University Townsville Qld Australia
| | | | - Kelly R. Zamudio
- Department of Ecology and Evolutionary Biology Cornell University Ithaca NY USA
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28
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Hassanin A, Colombo R, Gembu GC, Merle M, Tu VT, Görföl T, Akawa PM, Csorba G, Kearney T, Monadjem A, Ing RK. Multilocus phylogeny and species delimitation within the genusGlauconycteris(Chiroptera, Vespertilionidae), with the description of a new bat species from the Tshopo Province of the Democratic Republic of the Congo. J ZOOL SYST EVOL RES 2017. [DOI: 10.1111/jzs.12176] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alexandre Hassanin
- Institut de Systématique, Évolution, Biodiversité; Univ Paris 06, MNHN, CNRS; Sorbonne Universités; Muséum National d'Histoire Naturelle; Paris France
- UMS 2700; Muséum national d'Histoire naturelle; Paris France
| | | | - Guy-Crispin Gembu
- Université de Kisangani; Faculté des Sciences; Kisangani République Démocratique du Congo
| | - Marie Merle
- Institut de Systématique, Évolution, Biodiversité; Univ Paris 06, MNHN, CNRS; Sorbonne Universités; Muséum National d'Histoire Naturelle; Paris France
| | - Vuong Tan Tu
- Institut de Systématique, Évolution, Biodiversité; Univ Paris 06, MNHN, CNRS; Sorbonne Universités; Muséum National d'Histoire Naturelle; Paris France
- Institute of Ecology and Biological Resources; Vietnam Academy of Science and Technology; Cau Giay District Hanoi Vietnam
| | | | - Prescott Musaba Akawa
- Université de Kisangani; Faculté des Sciences; Kisangani République Démocratique du Congo
| | | | - Teresa Kearney
- Ditsong National Museum of Natural History; Pretoria South Africa
- School of Animal, Plant and Environmental Sciences; University of the Witwatersrand; Wits South Africa
| | - Ara Monadjem
- Department of Biological Sciences; University of Swaziland; Kwaluseni Swaziland
- Department of Zoology & Entomology; Mammal Research Institute; University of Pretoria; Pretoria South Africa
| | - Ros Kiri Ing
- Institut Langevin, UMR 7587 CNRS; Université Paris Diderot (Paris 7); Paris France
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29
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Tu VT, Hassanin A, Görföl T, Arai S, Fukui D, Thanh HT, Son NT, Furey NM, Csorba G. Integrative taxonomy of the Rhinolophus macrotiscomplex (Chiroptera, Rhinolophidae) in Vietnam and nearby regions. J ZOOL SYST EVOL RES 2017. [DOI: 10.1111/jzs.12169] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Vuong Tan Tu
- Institute of Ecology and Biological Resources; Vietnam Academy of Science and Technology; Cau Giay District Hanoi Vietnam
- Institut de Systématique, Evolution, Biodiversité; ISYEB - UMR 7205 - CNRS; Muséum National d'Histoire Naturelle; Université Paris-6 (UPMC); Sorbonne Universités; Paris France
- Service de Systématique Moléculaire (UMS 2700); Muséum national d'Histoire Naturelle; Paris France
| | - Alexandre Hassanin
- Institut de Systématique, Evolution, Biodiversité; ISYEB - UMR 7205 - CNRS; Muséum National d'Histoire Naturelle; Université Paris-6 (UPMC); Sorbonne Universités; Paris France
- Service de Systématique Moléculaire (UMS 2700); Muséum national d'Histoire Naturelle; Paris France
| | - Tamás Görföl
- Department of Zoology; Hungarian Natural History Museum; Budapest Hungary
| | - Satoru Arai
- Infectious Disease Surveillance Center; National Institute of Infectious Diseases; Tokyo Japan
| | - Dai Fukui
- The University of Tokyo Hokkaido Forest; the University of Tokyo; Furano Hokkaido Japan
| | - Hoang Trung Thanh
- Faculty of Biology; University of Science; Vietnam National University; Thanh Xuan District Hanoi Vietnam
| | - Nguyen Truong Son
- Institute of Ecology and Biological Resources; Vietnam Academy of Science and Technology; Cau Giay District Hanoi Vietnam
| | - Neil M. Furey
- Fauna & Flora International; Cambodia Programme; Chamkarmorn Phnom Penh Cambodia
| | - Gábor Csorba
- Department of Zoology; Hungarian Natural History Museum; Budapest Hungary
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30
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Bat Systematics in the Light of Unconstrained Analyses of a Comprehensive Molecular Supermatrix. J MAMM EVOL 2016. [DOI: 10.1007/s10914-016-9363-8] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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31
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Hassanin A, Nesi N, Marin J, Kadjo B, Pourrut X, Leroy É, Gembu GC, Musaba Akawa P, Ngoagouni C, Nakouné E, Ruedi M, Tshikung D, Pongombo Shongo C, Bonillo C. Comparative phylogeography of African fruit bats (Chiroptera, Pteropodidae) provide new insights into the outbreak of Ebola virus disease in West Africa, 2014–2016. C R Biol 2016; 339:517-528. [DOI: 10.1016/j.crvi.2016.09.005] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2016] [Revised: 09/08/2016] [Accepted: 09/13/2016] [Indexed: 11/30/2022]
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Chaverri G, Garin I, Alberdi A, Jimenez L, Castillo-Salazar C, Aihartza J. Unveiling the Hidden Bat Diversity of a Neotropical Montane Forest. PLoS One 2016; 11:e0162712. [PMID: 27706168 PMCID: PMC5051729 DOI: 10.1371/journal.pone.0162712] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2016] [Accepted: 08/26/2016] [Indexed: 11/18/2022] Open
Abstract
Mountain environments, characterized by high levels of endemism, are at risk of experiencing significant biodiversity loss due to current trends in global warming. While many acknowledge their importance and vulnerability, these ecosystems still remain poorly studied, particularly for taxa that are difficult to sample such as bats. Aiming to estimate the amount of cryptic diversity among bats of a Neotropical montane cloud forest in Talamanca Range-south-east Central America-, we performed a 15-night sampling campaign, which resulted in 90 captured bats belonging to 8 species. We sequenced their mitochondrial cytochrome c oxidase subunit I (COI) and screened their inter- and intraspecific genetic variation. Phylogenetic relations with conspecifics and closely related species from other geographic regions were established using Maximum Likelihood and Bayesian inference methods, as well as median-joining haplotype networks. Mitochondrial lineages highly divergent from hitherto characterized populations (> 9% COI dissimilarity) were found in Myotis oxyotus and Hylonycteris underwoodi. Sturnira burtonlimi and M. keaysi also showed distinct mitochondrial structure with sibling species and/or populations. These results suggest that mountains in the region hold a high degree of endemicity potential that has previously been ignored in bats. They also warn of the high extinction risk montane bats may be facing due to climatic change, particularly in isolated mountain systems like Talamanca Range.
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Affiliation(s)
| | - Inazio Garin
- Dpt. Zoology and Animal Cell Biology, University of The Basque Country UPV/EHU, Leioa, The Basque Country
| | - Antton Alberdi
- Dpt. Zoology and Animal Cell Biology, University of The Basque Country UPV/EHU, Leioa, The Basque Country
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen K, Denmark
| | - Lide Jimenez
- Dpt. Zoology and Animal Cell Biology, University of The Basque Country UPV/EHU, Leioa, The Basque Country
| | | | - Joxerra Aihartza
- Dpt. Zoology and Animal Cell Biology, University of The Basque Country UPV/EHU, Leioa, The Basque Country
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Bennett KL, Shija F, Linton YM, Misinzo G, Kaddumukasa M, Djouaka R, Anyaele O, Harris A, Irish S, Hlaing T, Prakash A, Lutwama J, Walton C. Historical environmental change in Africa drives divergence and admixture ofAedes aegyptimosquitoes: a precursor to successful worldwide colonization? Mol Ecol 2016; 25:4337-54. [DOI: 10.1111/mec.13762] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2015] [Revised: 06/10/2016] [Accepted: 06/22/2016] [Indexed: 12/30/2022]
Affiliation(s)
- Kelly Louise Bennett
- Computational Evolutionary Biology Group; Faculty of Life Sciences; University of Manchester; Manchester UK
| | - Fortunate Shija
- Computational Evolutionary Biology Group; Faculty of Life Sciences; University of Manchester; Manchester UK
- Department of Veterinary Microbiology and Parasitology; Sokoine University of Agriculture; Morogoro Tanzania
| | - Yvonne-Marie Linton
- Walter Reed Biosystematics Unit; Smithsonian Institution Museum Support Center; Suitland MD USA
- Walter Reed Army Institute of Research; Silver Spring MD USA
- Uniformed Services University of Health Sciences; Bethesda MD USA
- Department of Entomology; National Museum of Natural History; Smithsonian Institution; Washington DC USA
| | - Gerald Misinzo
- Department of Veterinary Microbiology and Parasitology; Sokoine University of Agriculture; Morogoro Tanzania
| | - Martha Kaddumukasa
- Department of Arbovirology, Emerging and Re-emerging Infections; Uganda Virus Research Institute; Entebbe Uganda
| | - Rousseau Djouaka
- Agro-Eco-Health Platform for West and Central Africa; International Institute of Tropical Agriculture; Cotonou Republic of Benin
| | - Okorie Anyaele
- Entomology Unit; Department of Zoology; University of Ibadan; Ibadan Nigeria
| | - Angela Harris
- Mosquito Research & Control Unit; Cayman Islands Government; Grand Cayman Cayman Islands
| | - Seth Irish
- London School of Hygiene and Tropical Medicine; London UK
| | - Thaung Hlaing
- Medical Entomology Research Division; Department of Medical Research (Lower Myanmar); Ministry of Health; Yangon Myanmar
| | - Anil Prakash
- National Institute for Research in Environmental Health; Ministry of H & FW Government of India; Bhopal India
| | - Julius Lutwama
- Department of Arbovirology, Emerging and Re-emerging Infections; Uganda Virus Research Institute; Entebbe Uganda
| | - Catherine Walton
- Computational Evolutionary Biology Group; Faculty of Life Sciences; University of Manchester; Manchester UK
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Richards LR, Rambau RV, Goodman SM, Taylor PJ, Schoeman MC, Yang F, Lamb JM. Karyotypic Evolution in Malagasy Flying Foxes (Pteropodidae, Chiroptera) and Their Hipposiderid Relatives as Determined by Comparative Chromosome Painting. Cytogenet Genome Res 2016; 148:185-98. [PMID: 27256929 DOI: 10.1159/000446297] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2016] [Indexed: 11/19/2022] Open
Abstract
Pteropodidae and Hipposideridae are 2 of the 9 chiropteran families that occur on Madagascar. Despite major advancements in the systematic study of the island's bat fauna, few karyotypic data exist for endemic species. We utilized G- and C-banding in combination with chromosome painting with Myotismyotis probes to establish a genome-wide homology among Malagasy species belonging to the families Pteropodidae (Pteropus rufus 2n = 38; Rousettus madagascariensis, 2n = 36), Hipposideridae (Hipposideros commersoni s.s., 2n = 52), and a single South African representative of the Rhinolophidae (Rhinolophus clivosus, 2n = 58). Painting probes of M. myotis detected 26, 28, 28, and 29 regions of homology in R. madagascariensis, P. rufus, H. commersoni s.s, and R. clivosus, respectively. Translocations, pericentric inversions, and heterochromatin additions were responsible for karyotypic differences amongst the Malagasy pteropodids. Comparative chromosome painting revealed a novel pericentric inversion on P. rufus chromosome 4. Chromosomal characters suggest a close evolutionary relationship between Rousettus and Pteropus. H. commersoni s.s. shared several chromosomal characters with extralimital congeners but did not exhibit 2 chromosomal synapomorphies proposed for Hipposideridae. This study provides further insight into the ancestral karyotypes of pteropodid and hipposiderid bats and corroborates certain molecular phylogenetic hypotheses.
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Huntley JW, Voelker G. Cryptic diversity in Afro-tropical lowland forests: The systematics and biogeography of the avian genus Bleda. Mol Phylogenet Evol 2016; 99:297-308. [DOI: 10.1016/j.ympev.2016.04.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2016] [Revised: 03/28/2016] [Accepted: 04/02/2016] [Indexed: 01/18/2023]
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36
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Cunhaalmeida F, Giannini NP, Simmons NB. The Evolutionary History of the African Fruit Bats (Chiroptera: Pteropodidae). ACTA CHIROPTEROLOGICA 2016. [DOI: 10.3161/15081109acc2016.18.1.003] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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37
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López-Wilchis R, Flores-Romero M, Guevara-Chumacero LM, Serrato-Díaz A, Díaz-Larrea J, Salgado-Mejia F, Ibañez C, Salles LO, Juste J. Evolutionary Scenarios Associated with thePteronotus parnelliiCryptic Species-Complex (Chiroptera: Mormoopidae). ACTA CHIROPTEROLOGICA 2016. [DOI: 10.3161/15081109acc2016.18.1.004] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Khwanmunee J, Leelawatwattana L, Prapunpoj P. Gene structure and evolution of transthyretin in the order Chiroptera. Genetica 2015; 144:71-83. [PMID: 26681450 DOI: 10.1007/s10709-015-9879-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2015] [Accepted: 12/13/2015] [Indexed: 11/26/2022]
Abstract
Bats are mammals in the order Chiroptera. Although many extensive morphologic and molecular genetics analyses have been attempted, phylogenetic relationships of bats has not been completely resolved. The paraphyly of microbats is of particular controversy that needs to be confirmed. In this study, we attempted to use the nucleotide sequence of transthyretin (TTR) intron 1 to resolve the relationship among bats. To explore its utility, the complete sequences of TTR gene and intron 1 region of bats in Vespertilionidae: genus Eptesicus (Eptesicus fuscus) and genus Myotis (Myotis brandtii, Myotis davidii, and Myotis lucifugus), and Pteropodidae (Pteropus alecto and Pteropus vampyrus) were extracted from the retrieved sequences, whereas those of Rhinoluphus affinis and Scotophilus kuhlii were amplified and sequenced. The derived overall amino sequences of bat TTRs were found to be very similar to those in other eutherians but differed from those in other classes of vertebrates. However, missing of amino acids from N-terminal or C-terminal region was observed. The phylogenetic analysis of amino acid sequences suggested bat and other eutherian TTRs lineal descent from a single most recent common ancestor which differed from those of non-placental mammals and the other classes of vertebrates. The splicing of bat TTR precursor mRNAs was similar to those of other eutherian but different from those of marsupial, bird, reptile and amphibian. Based on TTR intron 1 sequence, the inferred evolutionary relationship within Chiroptera revealed more closely relatedness of R. affinis to megabats than to microbats. Accordingly, the paraphyly of microbats was suggested.
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Affiliation(s)
- Jiraporn Khwanmunee
- Department of Biochemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand
| | - Ladda Leelawatwattana
- Department of Biochemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand
| | - Porntip Prapunpoj
- Department of Biochemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand.
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Tu VT, Csorba G, Görföl T, Arai S, Son NT, Thanh HT, Hasanin A. Description of a New Species of the GenusAselliscus(Chiroptera, Hipposideridae) from Vietnam. ACTA CHIROPTEROLOGICA 2015. [DOI: 10.3161/15081109acc2015.17.2.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Identification of Diagnostic Mitochondrial DNA Single Nucleotide Polymorphisms Specific to Sumatran Orangutan (Pongo abelii) Populations. HAYATI JOURNAL OF BIOSCIENCES 2015. [DOI: 10.1016/j.hjb.2015.09.002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Hassanin A, Hugot JP, van Vuuren BJ. Comparison of mitochondrial genome sequences of pangolins (Mammalia, Pholidota). C R Biol 2015; 338:260-5. [DOI: 10.1016/j.crvi.2015.02.003] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2014] [Revised: 02/03/2015] [Accepted: 02/05/2015] [Indexed: 11/25/2022]
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