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Mottaghinia S, Stenzel S, Tsangaras K, Nikolaidis N, Laue M, Müller K, Hölscher H, Löber U, McEwen GK, Donnellan SC, Rowe KC, Aplin KP, Goffinet C, Greenwood AD. A recent gibbon ape leukemia virus germline integration in a rodent from New Guinea. Proc Natl Acad Sci U S A 2024; 121:e2220392121. [PMID: 38305758 PMCID: PMC10861895 DOI: 10.1073/pnas.2220392121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Accepted: 11/30/2023] [Indexed: 02/03/2024] Open
Abstract
Germline colonization by retroviruses results in the formation of endogenous retroviruses (ERVs). Most colonization's occurred millions of years ago. However, in the Australo-Papuan region (Australia and New Guinea), several recent germline colonization events have been discovered. The Wallace Line separates much of Southeast Asia from the Australo-Papuan region restricting faunal and pathogen dispersion. West of the Wallace Line, gibbon ape leukemia viruses (GALVs) have been isolated from captive gibbons. Two microbat species from China appear to have been infected naturally. East of Wallace's Line, the woolly monkey virus (a GALV) and the closely related koala retrovirus (KoRV) have been detected in eutherians and marsupials in the Australo-Papuan region, often vertically transmitted. The detected vertically transmitted GALV-like viruses in Australo-Papuan fauna compared to sporadic horizontal transmission in Southeast Asia and China suggest the GALV-KoRV clade originates in the former region and further models of early-stage genome colonization may be found. We screened 278 samples, seven bat and one rodent family endemic to the Australo-Papuan region and bat and rodent species found on both sides of the Wallace Line. We identified two rodents (Melomys) from Australia and Papua New Guinea and no bat species harboring GALV-like retroviruses. Melomys leucogaster from New Guinea harbored a genomically complete replication-competent retrovirus with a shared integration site among individuals. The integration was only present in some individuals of the species indicating this retrovirus is at the earliest stages of germline colonization of the Melomys genome, providing a new small wild mammal model of early-stage genome colonization.
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Affiliation(s)
- Saba Mottaghinia
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin10315, Germany
- Centre International de Recherche en Infectiologie, Université de Lyon, Inserm, U1111, Université Claude Bernard Lyon 1, CNRS, UMR5308, École Nationale Supérieure de Lyon, LyonF-69007, France
| | - Saskia Stenzel
- Institute of Virology Charité–Universitätsmedizin Berlin, BerlinD-10117, Germany
- Department of Tropical Disease Biology, Liverpool School of Tropical Medicine, LiverpoolL3 5QA, United Kingdom
| | - Kyriakos Tsangaras
- Department of Life and Health Sciences, University of Nicosia, NicosiaCY-2417, Cyprus
| | - Nikolas Nikolaidis
- Department of Biological Science, Center for Applied Biotechnology Studies, and Center for Computational and Applied Mathematics, College of Natural Sciences and Mathematics, California State University Fullerton, Fullerton, CA92834-6850
| | - Michael Laue
- Advanced Light and Electron Microscopy (ZBS 4), Centre for Biological Threats and Special Pathogens, Robert Koch Institute, BerlinD-13353, Germany
| | - Karin Müller
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin10315, Germany
| | - Henriette Hölscher
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin10315, Germany
| | - Ulrike Löber
- Max-Delbrük Center for Molecular Medicine Helmholtz Association, Berlin13125, Germany
| | - Gayle K. McEwen
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin10315, Germany
| | | | - Kevin C. Rowe
- Sciences Department, Museums Victoria, Melbourne, VIC3001, Australia
| | - Ken P. Aplin
- South Australian Museum, North Terrace, Adelaide SA5000, Australia
| | - Christine Goffinet
- Institute of Virology Charité–Universitätsmedizin Berlin, BerlinD-10117, Germany
- Department of Tropical Disease Biology, Liverpool School of Tropical Medicine, LiverpoolL3 5QA, United Kingdom
| | - Alex D. Greenwood
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin10315, Germany
- School of Veterinary Medicine, Freie Universität Berlin, Berlin14163, Germany
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Liu W, Hao Y, Song X, Ma L, Li J, He J, Bu Y, Niu H. Exploring the endangerment mechanisms of Hipposideros pomona based on molecular phylogeographic methods. Ecol Evol 2023; 13:e10653. [PMID: 37869444 PMCID: PMC10587739 DOI: 10.1002/ece3.10653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2023] [Revised: 09/21/2023] [Accepted: 10/11/2023] [Indexed: 10/24/2023] Open
Abstract
The endangerment mechanisms of various species are a focus of studies on biodiversity and conservation biology. Hipposideros pomona is an endangered species, but the reasons behind its endangerment remain unclear. We investigated the endangerment mechanisms of H. pomona using mitochondrial DNA, nuclear DNA, and microsatellite loci markers. The results showed that the nucleotide diversity of mitochondria DNA and heterozygosity of microsatellite markers were high (π = 0.04615, H O = 0.7115), whereas the nucleotide diversity of the nuclear genes was low (THY: π = 0.00508, SORBS2: π = 0.00677, ACOX2: π = 0.00462, COPS7A: π = 0.00679). The phylogenetic tree and median-joining network based on mitochondrial DNA sequences clustered the species into three clades, namely North Vietnam-Fujian, Myanmar-West Yunnan, and Laos-Hainan clades. However, joint analysis of nuclear genes did not exhibit clustering. Analysis of molecular variance revealed a strong population genetic structure; IMa2 analysis did not reveal significant gene flow between all groups (p > .05), and isolation-by-distance analysis revealed a significant positive correlation between genetic and geographic distances (p < .05). The mismatch distribution analysis, neutral test, and Bayesian skyline plots revealed that the H. pomona population were relatively stable and exhibited a contraction trend. The results implied that H. pomona exhibits female philopatry and male-biased dispersal. The Hengduan Mountains could have acted as a geographical barrier for gene flow between the North Vietnam-Fujian clade and the Myanmar-West Yunnan clade, whereas the Qiongzhou Strait may have limited interaction between the Hainan populations and other clades. The warm climate during the second interglacial Quaternary period (c. 0.33 Mya) could have been responsible for species differentiation, whereas the cold climate during the late Quaternary last glacial maximum (c. 10 ka BP) might have caused the overall contraction of species. The lack of significant gene flow in nuclear microsatellite loci markers among the different populations investigated reflects recent habitat fragmentation due to anthropogenic activities; thus, on-site conservation of the species and restoration of gene flow corridors among populations need immediate implementation.
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Affiliation(s)
- Wei Liu
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Yan Hao
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Xinhang Song
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Liqun Ma
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Jing Li
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Jingying He
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Yanzhen Bu
- College of Life SciencesHenan Normal UniversityXinxiangChina
| | - Hongxing Niu
- College of Life SciencesHenan Normal UniversityXinxiangChina
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Wongwaiyut P, Karapan S, Saekong P, Francis CM, Guillén-Servent A, Senawi J, Khan FAA, Bates PJJ, Jantarit S, Soisook P. Solving the taxonomic identity of Hipposideros cineraceus sensu lato (Chiroptera: Hipposideridae) in the Thai-Malay Peninsula, with the description of a new species. Zootaxa 2023; 5277:401-442. [PMID: 37518310 DOI: 10.11646/zootaxa.5277.3.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Indexed: 08/01/2023]
Abstract
A new species of small Hipposideros in the bicolor group is described based on specimens from Thailand and Malaysia. It can be distinguished from other small Hipposideros in Southeast Asia by a combination of external, craniodental, and bacular morphology, as well as echolocation call frequency. The new species has a distinct rounded swelling on the internarial septum of the noseleaf, with a forearm length of 35.3-42.6 mm, greatest skull length of 15.94-17.90 mm, and a call frequency of maximum energy of 132.3-144.0 kHz. Although clearly different in morphology, the new species forms a sister clade with H. kunzi and H. bicolor in the phylogenetic trees based on mitochondrial DNA. In addition, this study reports echolocation and genetic data, with a confirmed record of H. einnaythu from Thailand for the first time. The new species most closely resembles H. einnaythu. However, it differs in the details of the noseleaf and craniodental morphology, and it has a genetic distance of 9.6% and 10.4% based on mitochondrial COI and ND2, respectively. It is currently documented from five localities: two in peninsular Thailand, at Hala Forest in Yala Province, and Phru To Daeng Swamp Forest in Narathiwat Province, one from peninsular Malaysia at Krau Wildlife Reserve in Pahang, and another two in Sabah, Malaysian Borneo at Gunung Kinabalu, and near Madai Caves. However, it is likely that many previous records of "H. cineraceus" from Borneo refer to this species. Most records of the species are from lowland evergreen rainforest, though one record from Sabah was at 1800m. The roosting sites for this new species are currently unknown. Future research with a combination of data such as genetics, echolocation and morphology would be necessary to further determine the species geographic distribution in Southeast Asia.
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Affiliation(s)
- Phutita Wongwaiyut
- Division of Biological Science; Faculty of Science; Prince of Songkla University; Hat Yai; Songkhla; Thailand; 90110..
| | - Sunate Karapan
- Halabala Wildlife Research Station; Wildlife Research Division; Wildlife Conservation Bureau; Department of National Parks; Wildlife and Plant Conservation; Wang; Narathiwat; Thailand; 90160.
| | - Puchit Saekong
- Halabala Wildlife Research Station; Wildlife Research Division; Wildlife Conservation Bureau; Department of National Parks; Wildlife and Plant Conservation; Wang; Narathiwat; Thailand; 90160.
| | - Charles M Francis
- Canadian Wildlife Service; Environment and Climate Change Canada; Ottawa; Ontario; Canada; K1A 0H3..
| | - Antonio Guillén-Servent
- Instituto de Ecología; A.C.; Ctra. Antigua a Coatepec #351; El Haya; 91073 Xalapa; Veracruz; México..
| | - Juliana Senawi
- Department of Biological Sciences and Biotechnology; Faculty of Science and Technology; Universiti Kebangsaan Malaysia; 43600 Bangi; Selangor; Malaysia.; Museum of Zoology; The Natural History Museum; Faculty of Science and Technology; Universiti Kebangsaan Malaysia; 43600 Bangi; Selangor; Malaysia; Langkawi Research Centre; Tuanku Abdul Halim Mu'adzam Shah Campus; Universiti Kebangsaan Malaysia; Jalan Teluk Yu; Teluk Burau; 07100 Langkawi; Kedah; Malaysia..
| | - Faisal Ali Anwarali Khan
- Faculty of Resource Science and Technology; Universiti Malaysia Sarawak; 94300 Kota Samarahan; Sarawak; Malaysia..
| | - Paul J J Bates
- Harrison Institute; Bowerwood House; 15 St. Botolph's Road; Sevenoaks; Kent; TN13 3AQ; United Kingdom..
| | - Sopark Jantarit
- Excellence Center for Biodiversity of Peninsular Thailand; Faculty of Science; Prince of Songkla University; Hat Yai; Songkhla; Thailand; 90110..
| | - Pipat Soisook
- Princess Maha Chakri Sirindhorn Natural History Museum; Prince of Songkla University; Hat Yai; Songkhla; Thailand; 90110..
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Kundu S, Kamalakannan M, Mukherjee T, Banerjee D, Kim HW. Genetic Characterization and Insular Habitat Enveloping of Endangered Leaf-Nosed Bat, Hipposideros nicobarulae (Mammalia: Chiroptera) in India: Phylogenetic Inference and Conservation Implication. Genes (Basel) 2023; 14:genes14030765. [PMID: 36981035 PMCID: PMC10048616 DOI: 10.3390/genes14030765] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 03/16/2023] [Accepted: 03/20/2023] [Indexed: 03/30/2023] Open
Abstract
The Nicobar leaf-nosed Bat (Hipposideros nicobarulae) was described in the early 20th century; however, its systematic classification has been debated for over 100 years. This endangered and endemic species has achieved species status through morphological data in the last 10 years. However, the genetic information and phylogenetic relationships of H. nicobarulae remain neglected. The generated mitochondrial cytochrome b gene (mtCytb) sequences (438 bp) of H. nicobarulae contains 53.42-53.65% AT composition and 1.82% variable sites. The studied species, H. nicobarulae maintains an 8.1% to 22.6% genetic distance from other Hipposideros species. The genetic divergence estimated in this study is congruent with the concept of gene speciation in bats. The Bayesian and Maximum-Likelihood phylogenies clearly discriminated all Hipposideros species and showed a sister relationship between H. nicobarulae and H. cf. antricola. Current mtCytb-based investigations of H. nicobarulae have confirmed the species status at the molecular level. Further, the MaxEnt-based species distribution modelling illustrates the most suitable habitat of H. nicobarulae (294 km2), of which the majority (171 km2) is located on Great Nicobar Island. The present study suggests rigorous sampling across the range, taxonomic coverage, the generation of multiple molecular markers (mitochondrial and nuclear), as well as more ecological information, which will help in understanding population genetic structure, habitat suitability, and the implementation of appropriate conservation action plans for H. nicobarulae and other Hipposideros species.
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Affiliation(s)
- Shantanu Kundu
- Department of Marine Biology, Pukyong National University, Busan 48513, Republic of Korea
| | | | - Tanoy Mukherjee
- Agricultural and Ecological Research Unit, Indian Statistical Institute, Kolkata 700108, India
| | - Dhriti Banerjee
- Western Ghat Regional Centre, Zoological Survey of India, Kozhikode 673006, India
- Zoological Survey of India, M Block, New Alipore, Kolkata 700053, India
| | - Hyun-Woo Kim
- Department of Marine Biology, Pukyong National University, Busan 48513, Republic of Korea
- Marine Integrated Biomedical Technology Center, National Key Research Institutes in Universities, Pukyong National University, Busan 48513, Republic of Korea
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Tanalgo KC, Oliveira HFM, Hughes AC. Mapping global conservation priorities and habitat vulnerabilities for cave-dwelling bats in a changing world. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 843:156909. [PMID: 35753458 DOI: 10.1016/j.scitotenv.2022.156909] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 06/19/2022] [Accepted: 06/19/2022] [Indexed: 06/15/2023]
Abstract
Research and media attention is disproportionately focused on taxa and ecosystems perceived as charismatic, while other equally diverse systems such as caves and subterranean ecosystems are often neglected in biodiversity assessments and prioritisations. Highlighting the urgent need for protection, an especially large fraction of cave endemic species may be undescribed. Yet these more challenging systems are also vulnerable, with karsts for example losing a considerable proportion of their area each year. Bats are keystone to cave ecosystems making them potential surrogates to understand cave diversity patterns and identify conservation priorities. On a global scale, almost half (48 %) of known bat species use caves for parts of their life histories, with 32 % endemic to a single country, and 15 % currently threatened. We combined global analysis of cave bats from the IUCN spatial data with site-specific analysis of 1930 bat caves from 46 countries to develop global priorities for the conservation of the most vulnerable subterranean ecosystems. Globally, 28 % of caves showed high bat diversity and were highly threatened. The highest regional concentration of conservation priority caves was in the Palearctic and tropical regions (except the Afrotropical, which requires more intensive cave data sampling). Our results further highlight the importance of prioritising bat caves by incorporating locally collected data and optimising parameter selection (i.e., appropriate landscape features and threats). Finally, to protect and conserve these ecosystems it is crucial that we use frameworks such as this to identify priorities in species and habitat-level and map vulnerable underground habitats with the highest biodiversity and distinctiveness.
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Affiliation(s)
- Krizler C Tanalgo
- Landscape Ecology Group, Center for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Yunnan, PR China; Center for Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Yunnan, PR China; International College of the University Chinese Academy of Sciences, Beijing, PR China; Zukunftskolleg and the Centre for Advanced Study of Collective Behaviour, University of Konstanz, Universitätsstrasse 10, Baden-Württemberg, Konstanz, Germany; Ecology and Conservation Research Laboratory (Eco/Con Lab), Department of Biological Sciences, College of Science and Mathematics, University of Southern Mindanao, Kabacan, North Cotabato, Philippines.
| | | | - Alice Catherine Hughes
- Landscape Ecology Group, Center for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Yunnan, PR China; Center for Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Yunnan, PR China; International College of the University Chinese Academy of Sciences, Beijing, PR China; School of Biological Sciences, The University of Hong Kong, Hong Kong Special Administrative Region.
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Furey NM, Tu VT, Hitch AT, Pimsai A, Kimashalen C, Vuthy B, Raksmey Y, Sarak C, Borthwick SA, Ch'ng L, Sinly S, Csorba G, Saveng I, Smith GJD, Dany C, Mendenhall IH. First Records of Seemingly Rare Bats (Mammalia: Chiroptera) in Cambodia, with a Revised Checklist of Species for the Country. ACTA CHIROPTEROLOGICA 2022. [DOI: 10.3161/15081109acc2021.23.2.005] [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)
- Neil M. Furey
- Fauna & Flora International (Cambodia), PO Box 1380, No. 19, Street 360, Boeng Keng Kong 1, Phnom Penh, 12000, Cambodia
| | - Vuong T. Tu
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, No. 18, Hoang Quoc Viet Road, Cau Giay District, Hanoi, Vietnam
| | - Alan T. Hitch
- Museum of Wildlife and Fish Biology, Department of Wildlife, Fish, and Conservation Biology, University of California at Davis, Davis, CA 95616, USA
| | - Awatsaya Pimsai
- Harrison Institute, Bowerwood House, 15 St Botolph's Road, Sevenoaks, Kent, TN13 3AQ, United Kingdom
| | - Chor Kimashalen
- Forestry Administration, No. 40, Preah Norodom Boulevard (41), Phnom Penh, Cambodia
| | - Buor Vuthy
- Forestry Administration, No. 40, Preah Norodom Boulevard (41), Phnom Penh, Cambodia
| | - Yim Raksmey
- Centre for Biodiversity Conservation, Room 415, Department of Biology, Faculty of Science, Royal University of Phnom Penh, Confederation of Russia Boulevard, Phnom Penh, Cambodia
| | - Chheang Sarak
- Centre for Biodiversity Conservation, Room 415, Department of Biology, Faculty of Science, Royal University of Phnom Penh, Confederation of Russia Boulevard, Phnom Penh, Cambodia
| | - Sophie A. Borthwick
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, 8 College Road, 169857, Singapore
| | - Lena Ch'ng
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, 8 College Road, 169857, Singapore
| | - Say Sinly
- Forestry Administration, No. 40, Preah Norodom Boulevard (41), Phnom Penh, Cambodia
| | - Gábor Csorba
- Department of Zoology, Hungarian Natural History Museum, Baross u. 13, H-1088 Budapest, Hungary
| | - Ith Saveng
- Centre for Biodiversity Conservation, Room 415, Department of Biology, Faculty of Science, Royal University of Phnom Penh, Confederation of Russia Boulevard, Phnom Penh, Cambodia
| | - Gavin J. D. Smith
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, 8 College Road, 169857, Singapore
| | - Chheang Dany
- Forestry Administration, No. 40, Preah Norodom Boulevard (41), Phnom Penh, Cambodia
| | - Ian H. Mendenhall
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, 8 College Road, 169857, Singapore
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Stephens K, Alexander GJ, Makhubo BG, Telford NS, Tolley KA. Mistaken identity: challenges with specimen identification for morphologically conservative skinks (Trachylepis) leads to taxonomic error. AFR J HERPETOL 2022. [DOI: 10.1080/21564574.2021.2019838] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Kirstin Stephens
- South African National Biodiversity Institute, Kirstenbosch Research Centre, Cape Town, South Africa
| | - Graham J Alexander
- Animal, Plant and Environmental Sciences, University of the Witwatersrand, Johannesburg, South Africa
| | - Buyisile G Makhubo
- School of Life Sciences, University of KwaZulu-Natal, Durban, South Africa
| | - Nicolas S Telford
- South African National Biodiversity Institute, Kirstenbosch Research Centre, Cape Town, South Africa
| | - Krystal A Tolley
- South African National Biodiversity Institute, Kirstenbosch Research Centre, Cape Town, South Africa
- Animal, Plant and Environmental Sciences, University of the Witwatersrand, Johannesburg, South Africa
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Chiropteran (Chiroptera; Mammalia) taxonomy in light of modern methods and approaches. RUSSIAN JOURNAL OF THERIOLOGY 2021. [DOI: 10.15298/rusjtheriol.20.2.01] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Hending D, Drew H, Holderied MW. Habitat Use of Constant Frequency Echolocating Bats in North-West Madagascar with Acoustic Evidence for a Possible New Species. ACTA CHIROPTEROLOGICA 2021. [DOI: 10.3161/15081109acc2021.23.1.012] [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)
- Daniel Hending
- School of Biological Sciences, University of Bristol, Bristol BS8 1TQ, United Kingdom
| | - Helen Drew
- School of Biological Sciences, University of Bristol, Bristol BS8 1TQ, United Kingdom
| | - Marc W. Holderied
- School of Biological Sciences, University of Bristol, Bristol BS8 1TQ, United Kingdom
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Not the Cryptic Species: Diversity of Hipposideros gentilis (Chiroptera: Hipposideridae) in Indochina. DIVERSITY 2021. [DOI: 10.3390/d13050218] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
We present here the result of phylogenetic analysis for Vietnamese Hipposideros gentilis specimens using 7 nuclear genes and one mitochondrial gene. The complex distribution of divergent mitochondrial DNA lineages contradicts, at least in part, nuclear and morphological data. The most likely explanation for this discordance is the historical hybridization between ancestral populations of H. gentilis and H. rotalis/H. khaokhouayensis. Our data supports the species status of H. gentilis, while only partially corroborating its previously proposed subspecies delimitation. We suggest the lowland forest populations from south Vietnam may correspond to their own subspecies. At the same time, the close phylogenetic relationship and morphological similarity of mountain forms from south and central Vietnam to the north Vietnamese populations make doubtful the subspecies status of H. gentilis sinensis.
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Genetic Introgression and Morphological Variation in Naked-Back Bats (Chiroptera: Mormoopidae: Pteronotus Species) along Their Contact Zone in Central America. DIVERSITY 2021. [DOI: 10.3390/d13050194] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Two sibling bare-backed bat species (Pteronotus fulvus and P. gymnonotus) have been traditionally differentiated by their size. However, intermediate specimens between the two species have been found in sympatric populations along southern Mexico and it has been suggested that they may be the outcome of a hybridization process between the two species. We used one mitochondrial (COI), three nuclear markers (PRKCL, STAT5A and RAG2) and 13 microsatellites to explore the evolutionary relationships between these two species and elucidate whether the intermediate morphotypes correspond to hybrid individuals. These markers have been analyzed in sympatric and allopatric populations of the two species plus the closely related species Pteronotus davyi. We confirmed the species-level differentiation of the three lineages (P. fulvus, P. davyi and P. gymnonotus), but the phylogenetic hypotheses suggested by the nuclear and mitochondrial markers were discordant. We confirm that the discordance between markers is due to genetic introgression through the mitochondrial capture of P. fulvus in P. gymnonotus populations. Such introgression was found in all P. gymnonotus specimens across its sympatric distribution range (Mexico to Costa Rica) and is related to expansion/retraction species distribution pulses associated with changes in forest distribution during the Quaternary climate cycles. Microsatellite analyses showed contemporary genetic contact between the two sympatric species and 3.0% of the samples studied were identified as hybrids. In conclusion, we found a historical and asymmetric genetic introgression (through mitochondrial capture) of P. fulvus into P. gymnonotus in Mexico and Central America and a limited contemporary gene exchange between the two species. However, no relationship was found between hybridization and the intermediate-sized specimens from southern Mexico, which might likely result from a clinal variation with latitude. These results confirm the need for caution when using forearm size to identify these species in the field and when differentiating them in the laboratory based on mitochondrial DNA alone.
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Yusefovich AP, Artyushin IV, Raspopova AA, Bannikova AA, Kruskop SV. An Attempt to Reconstruct the Phylogeny of the Hipposideros Leaf-nosed Bats Based on Nuclear Gene Markers. DOKLADY BIOLOGICAL SCIENCES : PROCEEDINGS OF THE ACADEMY OF SCIENCES OF THE USSR, BIOLOGICAL SCIENCES SECTIONS 2020; 493:136-140. [PMID: 32894429 DOI: 10.1134/s0012496620040109] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2020] [Revised: 04/14/2020] [Accepted: 04/15/2020] [Indexed: 11/22/2022]
Abstract
The genus Hipposideros is one of the largest bat genera. The latest research on its Asian representatives has been done only with mitochondrial or sole nuclear markers. In the present study we compare the results of phylogenetic reconstructions, based on mitochondrial, on single nuclear genes and on multiple nuclear markers analyzed using the MRP algorithm (Matrix representation with parsimony) for representative species from all the main species groups. MRP analysis provides the most supported and well-interpretable phylogeny. Our data indicate monophyly of the large Asian leaf-nosed bats which suggests they are an independent taxon of the subgenus rank, as well as monophyly of several species complexes which are paraphyletic according to mtDNA analysis.
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Affiliation(s)
- A P Yusefovich
- Biological Faculty, Moscow State University, Moscow, Russia
| | - I V Artyushin
- Biological Faculty, Moscow State University, Moscow, Russia
| | - A A Raspopova
- Biological Faculty, Moscow State University, Moscow, Russia
| | - A A Bannikova
- Biological Faculty, Moscow State University, Moscow, Russia
| | - S V Kruskop
- Zoological Museum, Moscow State University, Moscow, Russia.
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Mason VC, Helgen KM, Murphy WJ. Comparative Phylogeography of Forest-Dependent Mammals Reveals Paleo-Forest Corridors throughout Sundaland. J Hered 2020; 110:158-172. [PMID: 30247638 DOI: 10.1093/jhered/esy046] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2018] [Accepted: 08/27/2018] [Indexed: 11/13/2022] Open
Abstract
The evolutionary history of the colugo, a gliding arboreal mammal distributed throughout Sundaland, was influenced by the location of and connections between forest habitats. By comparing colugo phylogenetic patterns, species ecology, sample distributions, and times of divergence to those of other Sundaic taxa with different life-history traits and dispersal capabilities, we inferred the probable distribution of paleo-forest corridors and their influence on observed biogeographic patterns. We identified a consistent pattern of early diversification between east and west Bornean lineages in colugos, lesser mouse deer, and Sunda pangolins, but not in greater mouse deer. This deep east-west split within Borneo has not been commonly described in mammals. Colugos on West Borneo diverged from colugos in Peninsular Malaysia and Sumatra in the late Pliocene, however most other mammalian populations distributed across these same geographic regions diverged from a common ancestor more recently in the Pleistocene. Low genetic divergence between colugos on large landmasses and their neighboring satellite islands indicated that past forest distributions were recently much larger than present refugial distributions. Our analysis of colugo evolutionary history reconstructs Borneo as the most likely ancestral area of origin for Sunda colugos, and suggests that forests present during the middle Pliocene within the Sunda Shelf were more evergreen and contiguous, while forests were more fragmented, transient, seasonal, or with lower density canopies in the Pleistocene.
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Affiliation(s)
- Victor C Mason
- Department of Veterinary Integrative Biosciences, Interdisciplinary Program in Genetics, Texas A&M University, College Station, TX.,Victor C. Mason is now at Department of Clinical Veterinary Medicine, Swiss Institute of Equine Medicine, Vetsuisse Faculty, University of Bern, Länggassstrasse, Bern, Switzerland
| | - Kristofer M Helgen
- School of Biological Sciences, Environment Institute, and Centre for Applied Conservation Science, University of Adelaide, Adelaide, SA, Australia
| | - William J Murphy
- Department of Veterinary Integrative Biosciences, Interdisciplinary Program in Genetics, Texas A&M University, College Station, TX
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Patterson BD, Webala PW, Lavery TH, Agwanda BR, Goodman SM, Peterhans JCK, Demos TC. Evolutionary relationships and population genetics of the Afrotropical leaf-nosed bats (Chiroptera, Hipposideridae). Zookeys 2020; 929:117-161. [PMID: 32390744 PMCID: PMC7197329 DOI: 10.3897/zookeys.929.50240] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Accepted: 03/16/2020] [Indexed: 11/29/2022] Open
Abstract
The Old World leaf-nosed bats (Hipposideridae) are aerial and gleaning insectivores that occur throughout the Paleotropics. Both their taxonomic and phylogenetic histories are confused. Until recently, the family included genera now allocated to the Rhinonycteridae and was recognized as a subfamily of Rhinolophidae. Evidence that Hipposideridae diverged from both Rhinolophidae and Rhinonycteridae in the Eocene confirmed their family rank, but their intrafamilial relationships remain poorly resolved. We examined genetic variation in the Afrotropical hipposiderids Doryrhina, Hipposideros, and Macronycteris using relatively dense taxon-sampling throughout East Africa and neighboring regions. Variation in both mitochondrial (cyt-b) and four nuclear intron sequences (ACOX2, COPS, ROGDI, STAT5) were analyzed using both maximum likelihood and Bayesian inference methods. We used intron sequences and the lineage delimitation method BPP—a multilocus, multi-species coalescent approach—on supported mitochondrial clades to identify those acting as independent evolutionary lineages. The program StarBEAST was used on the intron sequences to produce a species tree of the sampled Afrotropical hipposiderids. All genetic analyses strongly support generic monophyly, with Doryrhina and Macronycteris as Afrotropical sister genera distinct from a Paleotropical Hipposideros; mitochondrial analyses interpose the genera Aselliscus, Coelops, and Asellia between these clades. Mitochondrial analyses also suggest at least two separate colonizations of Africa by Asian groups of Hipposideros, but the actual number and direction of faunal interchanges will hinge on placement of the unsampled African-Arabian species H.megalotis. Mitochondrial sequences further identify a large number of geographically structured clades within species of all three genera. However, in sharp contrast to this pattern, the four nuclear introns fail to distinguish many of these groups and their geographic structuring disappears. Various distinctive mitochondrial clades are consolidated in the intron-based gene trees and delimitation analyses, calling into question their evolutionary independence or else indicating their very recent divergence. At the same time, there is now compelling genetic evidence in both mitochondrial and nuclear sequences for several additional unnamed species among the Afrotropical Hipposideros. Conflicting appraisals of differentiation among the Afrotropical hipposiderids based on mitochondrial and nuclear loci must be adjudicated by large-scale integrative analyses of echolocation calls, quantitative morphology, and geometric morphometrics. Integrative analyses will also help to resolve the challenging taxonomic issues posed by the diversification of the many lineages associated with H.caffer and H.ruber.
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Affiliation(s)
- Bruce D Patterson
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago IL 60605, USA Field Museum of Natural History Chicago United States of America
| | - Paul W Webala
- Department of Forestry and Wildlife Management, Maasai Mara University, Narok, Kenya Maasai Mara University Narok Kenya
| | - Tyrone H Lavery
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago IL 60605, USA Field Museum of Natural History Chicago United States of America.,Threatened Species Recovery Hub, Fenner School of Environment and Society, The Australian National University, Canberra, ACT, Australia The Australian National University Canberra Australia
| | - Bernard R Agwanda
- Mammalogy Section, National Museums of Kenya, Nairobi, Kenya National Museums of Kenya Nairobi Kenya
| | - Steven M Goodman
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago IL 60605, USA Field Museum of Natural History Chicago United States of America.,Association Vahatra, BP 3972, Antananarivo 101, Madagascar National Museums of Kenya Antananarivo Madagascar
| | - Julian C Kerbis Peterhans
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago IL 60605, USA Field Museum of Natural History Chicago United States of America.,College of Arts and Sciences, Roosevelt University, Chicago, IL, 60605, USA Roosevelt University Chicago United States of America
| | - Terrence C Demos
- Negaunee Integrative Research Center, Field Museum of Natural History, Chicago IL 60605, USA Field Museum of Natural History Chicago United States of America
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15
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Dar TH, Kamalakannan M, Venkatraman C, Chandra K. New record of Hipposideros speoris (Chiroptera: Hipposideridae) from Myanmar hidden in the National Zoological Collections of the Zoological Survey of India. MAMMALIA 2018. [DOI: 10.1515/mammalia-2018-0110] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Hipposideros speoris is a small-sized leaf-nosed bat and was thought to be restricted to India and Sri Lanka. Based on a single museum specimen preserved in alcohol housed in the National Zoological Collections of the Zoological Survey of India, we report and confirm the presence of H. speoris for the first time in Pyay, Myanmar.
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Affiliation(s)
- Tauseef Hamid Dar
- Zoological Survey of India , M- Block, New Alipore , Kolkata 700053, West Bengal , India
| | - Manokaran Kamalakannan
- Zoological Survey of India , M- Block, New Alipore , Kolkata 700053, West Bengal , India
| | | | - Kailash Chandra
- Zoological Survey of India , M- Block, New Alipore , Kolkata 700053, West Bengal , India
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16
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Saha A, Feeroz MM, Hasan MK. Andersen’s leaf-nosed bat (Hipposideros pomona) is still living in the Chittagong Hill Tracts, Bangladesh. MAMMALIA 2018. [DOI: 10.1515/mammalia-2017-0027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
We report the recent record of Andersen’s leaf-nosed bat, Hipposideros pomona (Andersen 1918) from a narrow cave in the south-east corner of the Chittagong Hill Tracts (CHT), Bangladesh. The identification was based on morphometric analysis along with dentition structure. This recent finding speaks to the existence of H. pomona in Bangladesh and extends the range of this species over South Asia.
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17
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Bats of the Philippine Islands—A review of research directions and relevance to national-level priorities and targets. Mamm Biol 2018. [DOI: 10.1016/j.mambio.2018.03.005] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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18
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Murray SW, Khan FAA, Kingston T, Zubaid A, Campbell P. A New Species in the Hipposideros bicolor Group (Chiroptera: Hipposideridae) from Peninsular Malaysia. ACTA CHIROPTEROLOGICA 2018. [DOI: 10.3161/15081109acc2018.20.1.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Susan W. Murray
- Center for Ecology and Conservation Biology, Department of Biology, Boston University, Boston MA 02215, USA
| | - Faisal A. A. Khan
- Faculty of Resource Science and Technology, Universiti Malaysia Sarawak, 94300 Kota Samarahan, Sarawak, Malaysia
| | - Tigga Kingston
- Department of Biological Sciences, Texas Tech University, Lubbock TX 79409, USA
| | - Akbar Zubaid
- Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, Selangor, Malaysia
| | - Polly Campbell
- Department of Integrative Biology, Oklahoma State University, Stillwater OK 74078, USA
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19
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Lim VC, Ramli R, Bhassu S, Wilson JJ. A checklist of the bats of Peninsular Malaysia and progress towards a DNA barcode reference library. PLoS One 2017; 12:e0179555. [PMID: 28742835 PMCID: PMC5526618 DOI: 10.1371/journal.pone.0179555] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Accepted: 05/30/2017] [Indexed: 11/18/2022] Open
Abstract
Several published checklists of bat species have covered Peninsular Malaysia as part of a broader region and/or in combination with other mammal groups. Other researchers have produced comprehensive checklists for specific localities within the peninsula. To our knowledge, a comprehensive checklist of bats specifically for the entire geopolitical region of Peninsular Malaysia has never been published, yet knowing which species are present in Peninsular Malaysia and their distributions across the region are crucial in developing suitable conservation plans. Our literature search revealed that 110 bat species have been documented in Peninsular Malaysia; 105 species have precise locality records while five species lack recent and/or precise locality records. We retrieved 18 species from records dated before the year 2000 and seven species have only ever been recorded once. Our search of Barcode of Life Datasystems (BOLD) found that 86 (of the 110) species have public records of which 48 species have public DNA barcodes available from bats sampled in Peninsular Malaysia. Based on Neighbour-Joining tree analyses and the allocation of DNA barcodes to Barcode Index Number system (BINs) by BOLD, several DNA barcodes recorded under the same species name are likely to represent distinct taxa. We discuss these cases in detail and highlight the importance of further surveys to determine the occurences and resolve the taxonomy of particular bat species in Peninsular Malaysia, with implications for conservation priorities.
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Affiliation(s)
- Voon-Ching Lim
- Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia
| | - Rosli Ramli
- Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia
| | - Subha Bhassu
- Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia
| | - John-James Wilson
- International College Beijing, China Agricultural University, Beijing, P. R. China
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20
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Foley NM, Goodman SM, Whelan CV, Puechmaille SJ, Teeling E. Towards Navigating the Minotaur's Labyrinth: Cryptic Diversity and Taxonomic Revision within the Speciose Genus Hipposideros (Hipposideridae). ACTA CHIROPTEROLOGICA 2017. [DOI: 10.3161/15081109acc2017.19.1.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Nicole M. Foley
- School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland
| | - Steven M. Goodman
- Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, USA
- Association Vahatra, BP 3972, Antananarivo 101, Madagascar
| | - Conor V. Whelan
- School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland
| | - Sebastien J. Puechmaille
- School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland
- Applied Zoology and Nature Conservation, Greifswald University, Greifswald, Germany
| | - Emma Teeling
- School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland
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21
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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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22
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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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23
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Zhou H, Wang Y, Wu J, Wang K, Cai D, Bu Y, Niu H. Variation in Hipposideros pratti in China based on morphology and mitochondrial genes. Mamm Biol 2016. [DOI: 10.1016/j.mambio.2016.08.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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24
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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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25
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Goodman SM, Schoeman MC, Rakotoarivelo A, Willows-Munro S. How many species of Hipposideroshave occurred on Madagascar since the Late Pleistocene? Zool J Linn Soc 2016. [DOI: 10.1111/zoj.12368] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Steven M. Goodman
- Field Museum of Natural History; 1400 South Lake Shore Drive Chicago IL 60605 USA
- Association Vahatra; BP 3972 Antananarivo 101 Madagascar
| | - M. Corrie Schoeman
- School of Life Sciences; University of Kwa-Zulu Natal; Biological Sciences Building, South Ring Road, Westville Campus Durban 3630 South Africa
| | - Andrinajoro Rakotoarivelo
- Association Vahatra; BP 3972 Antananarivo 101 Madagascar
- School of Life Sciences; University of Kwa-Zulu Natal; Biological Sciences Building, South Ring Road, Westville Campus Durban 3630 South Africa
| | - Sandi Willows-Munro
- School of Life Sciences; University of Kwa-Zulu Natal; Pietermaritzburg Campus, Rabie Saunders Building Pietermaritzburg 3209 South Africa
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26
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Lavery TH, Olds AD, Seddon JM, Leung LKP. The mammals of northern Melanesia: speciation, ecology, and biogeography. Mamm Rev 2015. [DOI: 10.1111/mam.12057] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Tyrone H. Lavery
- School of Agriculture and Food Sciences; The University of Queensland; Gatton Queensland 4343 Australia
- Queensland Museum; Corner of Grey and Melbourne Streets South Brisbane Queensland 4101 Australia
| | - Andrew D. Olds
- School of Science and Engineering; University of the Sunshine Coast; Maroochydore Queensland 4558 Australia
| | - Jennifer M. Seddon
- School of Veterinary Science; The University of Queensland; Gatton Queensland 4343 Australia
| | - Luke K.-P. Leung
- School of Agriculture and Food Sciences; The University of Queensland; Gatton Queensland 4343 Australia
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27
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Rakotoarivelo AR, Willows-Munro S, Schoeman MC, Lamb JM, Goodman SM. Cryptic diversity in Hipposideros commersoni sensu stricto (Chiroptera: Hipposideridae) in the western portion of Madagascar. BMC Evol Biol 2015; 15:235. [PMID: 26518602 PMCID: PMC4628396 DOI: 10.1186/s12862-015-0510-2] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2015] [Accepted: 10/12/2015] [Indexed: 01/11/2023] Open
Abstract
Background The Commerson’s leaf-nosed bat, Hipposideros commersoni sensu stricto, is endemic to Madagascar and is relatively common in the western portion of the island, where it is found in areas, including forested zones, from sea level to 1325 m. A previous study on morphological patterns of geographic variation within the species highlighted the presence of two distinct morphotypes; larger individuals in the north portion of the island and smaller individuals in the south. The main aim of this study was to use a combination of craniodental morphology and molecular data (mitochondrial and nuclear) to test previous hypotheses based on morphology and clarify the evolutionary history of the species group. Methods We sequenced mitochondrial and nuclear genes from Hipposideros commersoni obtained from the western portion of Madagascar, and compared them with other African species as outgroups. We analyzed the sequence data using Maximum Likelihood and Bayesian phylogenetic inference. Divergence dates were estimated using Bayesian molecular clock approach. Variation in craniodental variables was also assessed from sequenced individuals. Results The molecular analyses suggest that H. commersoni is not monophyletic, with strong support for the presence of several independently evolving lineages. Two individuals amongst those sequenced from Isalo (south central) and Itampolo (southwest) form a separate clade (Clade A), distinct from other H. commersoni, and sister to continental African H. vittatus and H. gigas. Within the H. commersoni clade, the molecular data support two geographically distributed clades; one from the south (Clade B) and the other from the north (Clade C), which diverged approximately 3.38 million years ago. Morphometric data were consistent with the molecular analyses, suggesting a north–south break within H. commersoni. However, at some localities, animals from both clades occurred in sympatry and these individuals could not be differentiated based on external and craniodental measurements. Conclusions Using a combination of molecular and morphological characters, this study presents evidence of cryptic diversity in H. commersoni on Madagascar. Further fine-scale phylogeographic studies are needed to fully resolve the systematics of H. commersoni. This study highlights the utility of the combined approach in employing both morphological and molecular data to provide insights into the evolutionary history of Malagasy population currently assigned to H. commersoni. Electronic supplementary material The online version of this article (doi:10.1186/s12862-015-0510-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Andrinajoro R Rakotoarivelo
- School of Life Sciences, Pietermaritzburg Campus, Rabie Saunders Building, University of Kwa-Zulu Natal, Pietermaritzburg, 3209, South Africa. .,Association Vahatra, BP 3972, Antananarivo, 101, Madagascar. .,Department of Genetics, University of KwaZulu-Natal, Pietermaritzburg Campus, Rabie Saunders Building, Rm 36, Pietermaritzburg, 3209, South Africa.
| | - Sandi Willows-Munro
- School of Life Sciences, Pietermaritzburg Campus, Rabie Saunders Building, University of Kwa-Zulu Natal, Pietermaritzburg, 3209, South Africa
| | - M Corrie Schoeman
- School of Life Sciences, Biological Sciences Building, South Ring Road, Westville Campus, University of Kwa-Zulu Natal, Westville, 3630, South Africa
| | - Jennifer M Lamb
- School of Life Sciences, Biological Sciences Building, South Ring Road, Westville Campus, University of Kwa-Zulu Natal, Westville, 3630, South Africa
| | - Steven M Goodman
- Association Vahatra, BP 3972, Antananarivo, 101, Madagascar.,Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA
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28
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Zhao LZ, Bu YZ, Zhou HX, Zhou HW, Zhang ZX, Niu HX. Differences in Hipposideros pomonafrom three geographical regions in China based on morphology and molecular sequences data. J Mammal 2015. [DOI: 10.1093/jmammal/gyv139] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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29
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Botero-Castro F, Delsuc F, Douzery EJP. Thrice better than once: quality control guidelines to validate new mitogenomes. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:449-54. [PMID: 24708133 DOI: 10.3109/19401736.2014.900666] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Mitogenomic data are increasingly used in evolutionary biology and ecology, stressing the importance for double checking the authenticity of DNA sequences. For example, Szcześniak et al. (2013) recently published the mitochondrial genome of a bat, the Leschenault's rousette (Rousettus leschenaultii). Here we show using straightforward phylogenetic analyses of available chiropteran sequence data that the taxonomic attribution of the reported mitogenome is erroneous. The purportedly-new complete mitochondrial genome likely belongs to the Egyptian fruit bat (R. aegyptiacus) for which a reference sequence already exists. We propose that future articles reporting complete mitochondrial genome sequences should mandatorily include maximum likelihood trees inferred from (i) the standard barcoding marker for the taxon under focus, which would benefit from the massive data available in public databases, and (ii) the available mitogenomes of closely related species. We also strongly advise these trees be presented as phylograms so that all pertinent phylogenetic information is displayed in the form of a topology and its associated branch lengths. Along with compulsory information on the geographical location and origin of the specimen, these new standards should help avoiding the publication of taxonomically misidentified mitogenomes that might end up as reference sequences in public databases and re-used in subsequent meta-analyses.
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Affiliation(s)
- Fidel Botero-Castro
- a Université Montpellier 2, CNRS & IRD, Institut des Sciences de l'Evolution (UMR 5554) , Montpellier , France
| | - Frédéric Delsuc
- a Université Montpellier 2, CNRS & IRD, Institut des Sciences de l'Evolution (UMR 5554) , Montpellier , France
| | - Emmanuel J P Douzery
- a Université Montpellier 2, CNRS & IRD, Institut des Sciences de l'Evolution (UMR 5554) , Montpellier , France
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30
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Escobar-Camacho D, Barriga R, Ron SR. Discovering Hidden Diversity of Characins (Teleostei: Characiformes) in Ecuador's Yasuní National Park. PLoS One 2015; 10:e0135569. [PMID: 26275041 PMCID: PMC4537159 DOI: 10.1371/journal.pone.0135569] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2014] [Accepted: 07/23/2015] [Indexed: 11/18/2022] Open
Abstract
BACKGROUND Management and conservation of biodiversity requires adequate species inventories. The Yasuní National Park is one of the most diverse regions on Earth and recent studies of terrestrial vertebrates, based on genetic evidence, have shown high levels of cryptic and undescribed diversity. Few genetic studies have been carried out in freshwater fishes from western Amazonia. Thus, in contrast with terrestrial vertebrates, their content of cryptic diversity remains unknown. In this study, we carried out genetic and morphological analyses on characin fishes at Yasuní National Park, in eastern Ecuador. Our goal was to identify cryptic diversity among one of the most speciose fish families in the Amazon region. This is the first time that genetic evidence has been used to assess the species content of the Napo Basin, one of the richest regions in vertebrate diversity. RESULTS Phylogenetic analyses of partial mitochondrial 16S ribosomal RNA gene (∼600 pb) DNA sequences from 232 specimens of the family Characidae and its closest groups revealed eight candidate new species among 33 species sampled, representing a 24% increase in species number. Analyses of external morphology allowed us to confirm the species status of six of the candidate species. CONCLUSIONS Our results show high levels of cryptic diversity in Amazonian characins. If this group is representative of other Amazonian fish, our results would imply that the species richness of the Amazonian ichthyofauna is highly underestimated. Molecular methods are a necessary tool to obtain more realistic inventories of Neotropical freshwater fishes.
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Affiliation(s)
- Daniel Escobar-Camacho
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Quito, Pichincha, Ecuador
- Museo de Ictiología, Museo de Historia Natural Gustavo Orces, Instituto de Ciencias Biológicas, Escuela Politécnica Nacional, Quito, Pichincha, Ecuador
| | - Ramiro Barriga
- Museo de Ictiología, Museo de Historia Natural Gustavo Orces, Instituto de Ciencias Biológicas, Escuela Politécnica Nacional, Quito, Pichincha, Ecuador
| | - Santiago R. Ron
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Quito, Pichincha, Ecuador
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Ramasindrazana B, Rakotondramanana CF, Schoeman MC, Goodman SM. Evidence of Echolocation Call Divergence inHipposideros commersoniSensu Stricto (E. Geoffroy, 1803) from Madagascar and Correlation with Body Size. ACTA CHIROPTEROLOGICA 2015. [DOI: 10.3161/15081109acc2015.17.1.007] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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32
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Huang JCC, Jazdzyk EL, Nusalawo M, Maryanto I, Maharadatunkamsi ., Wiantoro S, Kingston T. A Recent Bat Survey Reveals Bukit Barisan Selatan Landscape as a Chiropteran Diversity Hotspot in Sumatra. ACTA CHIROPTEROLOGICA 2014. [DOI: 10.3161/150811014x687369] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
| | - Elly Lestari Jazdzyk
- Department of Biology, College of Mathematics and Natural Science, University of Lampung, Bandar Lampung, Indonesia
| | - Meyner Nusalawo
- Wildlife Conservation Society-Indonesian Program, Bogor, Indonesia
| | - Ibnu Maryanto
- Southeast Asian Bat Conservation Research Unit, Lubbock, TX, USA
| | - . Maharadatunkamsi
- Museum Zoologicum Bogoriense, Lembaga Ilmu Pengetahuan Indonesia, Bogor, Indonesia
| | - Sigit Wiantoro
- Southeast Asian Bat Conservation Research Unit, Lubbock, TX, USA
| | - Tigga Kingston
- Department of Biological Sciences, Texas Tech University, Lubbock, TX, USA
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Foley NM, Thong VD, Soisook P, Goodman SM, Armstrong KN, Jacobs DS, Puechmaille SJ, Teeling EC. How and why overcome the impediments to resolution: lessons from rhinolophid and hipposiderid bats. Mol Biol Evol 2014; 32:313-33. [PMID: 25433366 PMCID: PMC4769323 DOI: 10.1093/molbev/msu329] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
The phylogenetic and taxonomic relationships among the Old World leaf-nosed bats (Hipposideridae) and the closely related horseshoe bats (Rhinolophidae) remain unresolved. In this study, we generated a novel approximately 10-kb molecular data set of 19 nuclear exon and intron gene fragments for 40 bat species to elucidate the phylogenetic relationships within the families Rhinolophidae and Hipposideridae. We estimated divergence times and explored potential reasons for any incongruent phylogenetic signal. We demonstrated the effects of outlier taxa and genes on phylogenetic reconstructions and compared the relative performance of intron and exon data to resolve phylogenetic relationships. Phylogenetic analyses produced a well-resolved phylogeny, supporting the familial status of Hipposideridae and demonstrated the paraphyly of the largest genus, Hipposideros. A fossil-calibrated timetree and biogeographical analyses estimated that Rhinolophidae and Hipposideridae diverged in Africa during the Eocene approximately 42 Ma. The phylogram, the timetree, and a unique retrotransposon insertion supported the elevation of the subtribe Rhinonycterina to family level and which is diagnosed herein. Comparative analysis of diversification rates showed that the speciose genera Rhinolophus and Hipposideros underwent diversification during the Mid-Miocene Climatic Optimum. The intron versus exon analyses demonstrated the improved nodal support provided by introns for our optimal tree, an important finding for large-scale phylogenomic studies, which typically rely on exon data alone. With the recent outbreak of Middle East respiratory syndrome, caused by a novel coronavirus, the study of these species is urgent as they are considered the natural reservoir for emergent severe acute respiratory syndrome (SARS)-like coronaviruses. It has been shown that host phylogeny is the primary factor that determines a virus’s persistence, replicative ability, and can act as a predictor of new emerging disease. Therefore, this newly resolved phylogeny can be used to direct future assessments of viral diversity and to elucidate the origin and development of SARS-like coronaviruses in mammals.
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Affiliation(s)
- Nicole M Foley
- School of Biology & Environmental Science, University College Dublin, Belfield, Dublin, Ireland
| | - Vu Dinh Thong
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Pipat Soisook
- Princess Maha Chakri Sirindhorn Natural History Museum, Prince of Songkla University, Hat Yai, Songkhla, Thailand
| | - Steven M Goodman
- Field Museum of Natural History, Chicago, IL, USA Association Vahatra, Antananarivo, Madagascar
| | - Kyle N Armstrong
- Australian Centre for Evolutionary Biology & Biodiversity, The University of Adelaide, Adelaide, South Australia, Australia South Australian Museum, Adelaide, South Australia, Australia
| | - David S Jacobs
- Department of Biological Sciences, University of Cape Town, Rondebosch, South Africa
| | - Sébastien J Puechmaille
- School of Biology & Environmental Science, University College Dublin, Belfield, Dublin, Ireland Zoological Institute and Museum, Greifswald University, Greifswald, Germany
| | - Emma C Teeling
- School of Biology & Environmental Science, University College Dublin, Belfield, Dublin, Ireland
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Phylogenetic relationships within the snapping shrimp genus Synalpheus (Decapoda: Alpheidae). Mol Phylogenet Evol 2014; 77:116-25. [DOI: 10.1016/j.ympev.2014.03.008] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2013] [Revised: 03/09/2014] [Accepted: 03/11/2014] [Indexed: 11/20/2022]
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Lavery TH, Leung LKP, Seddon JM. Molecular phylogeny of hipposiderid bats (Chiroptera: Hipposideridae) from Solomon Islands and Cape York Peninsula, Australia. ZOOL SCR 2014. [DOI: 10.1111/zsc.12068] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Tyrone H. Lavery
- School of Agriculture and Food Sciences; The University of Queensland; Gatton Qld 4343 Australia
| | - Luke K.-P. Leung
- School of Agriculture and Food Sciences; The University of Queensland; Gatton Qld 4343 Australia
| | - Jennifer M. Seddon
- School of Veterinary Science; The University of Queensland; Gatton Qld 4343 Australia
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Sedlock JL, Jose RP, Vogt JM, Paguntalan LMJ, Cariño AB. A Survey of Bats in a Karst Landscape in the Central Philippines. ACTA CHIROPTEROLOGICA 2014. [DOI: 10.3161/150811014x683390] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Abstract
Abstract:To what extent tropical forest persisted in the Malay-Thai Peninsula during the Last Glacial Maximum, or contracted southwards with subsequent post-glacial expansion, has long been debated. These competing scenarios might be expected to have left contrasting broad spatial patterns of diversity of forest-dependent taxa. To test for a post-glacial northward spread of forest, we examined latitudinal clines of forest-dependent bat species at 15 forest sites across Peninsular Malaysia. From captures of 3776 insectivorous forest bats, we found that low richness characterized the north of the study area: predicted richness of 9–16 species, compared with 21–23 in the south. Predicted species richness decreased significantly with increasing latitude, but showed no relationship with either seasonality or peninsula width. Analyses of beta-diversity showed that differences between communities were not related to geographical distance, although there was evidence of greater differences in species numbers between the most distant sites. Assemblages were consistently dominated by six cave-roosting species from the families Rhinolophidae and Hipposideridae, while another 16 species were consistently rare. We suggest that these observed patterns are consistent with the hypothesized northward expansion of tropical rain forest since the Last Glacial Maximum, but emphasize that more surveys in the extreme north and south of the peninsula are required to support this assertion.
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Wan T, He K, Jiang XL. Multilocus phylogeny and cryptic diversity in Asian shrew-like moles (Uropsilus, Talpidae): implications for taxonomy and conservation. BMC Evol Biol 2013; 13:232. [PMID: 24161152 PMCID: PMC3819745 DOI: 10.1186/1471-2148-13-232] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2013] [Accepted: 10/15/2013] [Indexed: 11/22/2022] Open
Abstract
BACKGROUND The genus Uropsilus comprises a group of terrestrial, montane mammals endemic to the Hengduan and adjacent mountains. These animals are the most primitive living talpids. The taxonomy has been primarily based on cursory morphological comparisons and the evolutionary affinities are little known. To provide insight into the systematics of this group, we estimated the first multi-locus phylogeny and conducted species delimitation, including taxon sampling throughout their distribution range. RESULTS We obtained two mitochondrial genes (~1, 985 bp) and eight nuclear genes (~4, 345 bp) from 56 specimens. Ten distinct evolutionary lineages were recovered from the three recognized species, eight of which were recognized as species/putative species. Five of these putative species were found to be masquerading as the gracile shrew mole. The divergence time estimation results indicated that climate change since the last Miocene and the uplift of the Himalayas may have resulted in the diversification and speciation of Uropsilus. CONCLUSIONS The cryptic diversity found in this study indicated that the number of species is strongly underestimated under the current taxonomy. Two synonyms of gracilis (atronates and nivatus) should be given full species status, and the taxonomic status of another three potential species should be evaluated using extensive taxon sampling, comprehensive morphological, and morphometric approaches. Consequently, the conservation status of Uropsilus spp. should also be re-evaluated, as most of the species/potential species have very limited distribution.
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Affiliation(s)
- Tao Wan
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China
- University of Chinese Academy of Sciences, Beijing 100049 China
| | - Kai He
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China
- Department of Biological Sciences, University of Manitoba, Winnipeg, MB R3T 2N2 Canada
| | - Xue-Long Jiang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China
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Shen B, Fang T, Dai M, Jones G, Zhang S. Independent losses of visual perception genes Gja10 and Rbp3 in echolocating bats (Order: Chiroptera). PLoS One 2013; 8:e68867. [PMID: 23874796 PMCID: PMC3715546 DOI: 10.1371/journal.pone.0068867] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2012] [Accepted: 06/04/2013] [Indexed: 11/19/2022] Open
Abstract
A trade-off between the sensory modalities of vision and hearing is likely to have occurred in echolocating bats as the sophisticated mechanism of laryngeal echolocation requires considerable neural processing and has reduced the reliance of echolocating bats on vision for perceiving the environment. If such a trade-off exists, it is reasonable to hypothesize that some genes involved in visual function may have undergone relaxed selection or even functional loss in echolocating bats. The Gap junction protein, alpha 10 (Gja10, encoded by Gja10 gene) is expressed abundantly in mammal retinal horizontal cells and plays an important role in horizontal cell coupling. The interphotoreceptor retinoid-binding protein (Irbp, encoded by the Rbp3 gene) is mainly expressed in interphotoreceptor matrix and is known to be critical for normal functioning of the visual cycle. We sequenced Gja10 and Rbp3 genes in a taxonomically wide range of bats with divergent auditory characteristics (35 and 18 species for Gja10 and Rbp3, respectively). Both genes have became pseudogenes in species from the families Hipposideridae and Rhinolophidae that emit constant frequency echolocation calls with Doppler shift compensation at high-duty-cycles (the most sophisticated form of biosonar known), and in some bat species that emit echolocation calls at low-duty-cycles. Our study thus provides further evidence for the hypothesis that a trade-off occurs at the genetic level between vision and echolocation in bats.
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Affiliation(s)
- Bin Shen
- Institute of Molecular Ecology and Evolution, Institutes for Advanced Interdisciplinary Research, East China Normal University, Shanghai, China
| | - Tao Fang
- Institute of Molecular Ecology and Evolution, Institutes for Advanced Interdisciplinary Research, East China Normal University, Shanghai, China
| | - Mengyao Dai
- Institute of Molecular Ecology and Evolution, Institutes for Advanced Interdisciplinary Research, East China Normal University, Shanghai, China
| | - Gareth Jones
- School of Biological Sciences, University of Bristol, Bristol, United Kingdom
| | - Shuyi Zhang
- Institute of Molecular Ecology and Evolution, Institutes for Advanced Interdisciplinary Research, East China Normal University, Shanghai, China
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40
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Patrick LE, McCulloch ES, Ruedas LA. Systematics and biogeography of the arcuate horseshoe bat species complex (Chiroptera, Rhinolophidae). ZOOL SCR 2013. [DOI: 10.1111/zsc.12026] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Lorelei E. Patrick
- Department of Biology and Museum of Vertebrate Biology; Portland State University; 1719 SW 10th Ave; SRTC Room 246; Portland; OR; 97207; USA
| | - Eve S. McCulloch
- Department of Biology and Museum of Vertebrate Biology; Portland State University; 1719 SW 10th Ave; SRTC Room 246; Portland; OR; 97207; USA
| | - Luis A. Ruedas
- Department of Biology and Museum of Vertebrate Biology; Portland State University; 1719 SW 10th Ave; SRTC Room 246; Portland; OR; 97207; USA
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Ho YY, Fang YP, Chou CH, Cheng HC, Chang HW. High duty cycle to low duty cycle: echolocation behaviour of the hipposiderid bat Coelops frithii. PLoS One 2013; 8:e62938. [PMID: 23717396 PMCID: PMC3663840 DOI: 10.1371/journal.pone.0062938] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2012] [Accepted: 03/27/2013] [Indexed: 11/29/2022] Open
Abstract
Laryngeally echolocating bats avoid self-deafening (forward masking) by separating pulse and echo either in time using low duty cycle (LDC) echolocation, or in frequency using high duty cycle (HDC) echolocation. HDC echolocators are specialized to detect fluttering targets in cluttered environments. HDC echolocation is found only in the families Rhinolophidae and Hipposideridae in the Old World and in the New World mormoopid, Pteronotus parnellii. Here we report that the hipposiderid Coelops frithii, ostensibly an HDC bat, consistently uses an LDC echolocation strategy whether roosting, flying, or approaching a fluttering target rotating at 50 to 80 Hz. We recorded the echolocation calls of free-flying C. frithii in the field in various situations, including presenting bats with a mechanical fluttering target. The echolocation calls of C. frithii consisted of an initial narrowband component (0.5±0.3 ms, 90.6±2.0 kHz) followed immediately by a frequency modulated (FM) sweep (194 to 113 kHz). This species emitted echolocation calls at duty cycles averaging 7.7±2.8% (n = 87 sequences). Coelops frithii approached fluttering targets more frequently than did LDC bats (C.frithii, approach frequency = 40.4%, n = 80; Myotis spp., approach frequency = 0%, n = 13), and at the same frequency as sympatrically feeding HDC species (Hipposideros armiger, approach rate = 53.3%, n = 15; Rhinolophus monoceros, approach rate = 56.7%, n = 97). We propose that the LDC echolocation strategy used by C. frithii is derived from HDC ancestors, that this species adjusts the harmonic contents of its echolocation calls, and that it may use both the narrowband component and the FM sweep of echolocations calls to detect fluttering targets.
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Affiliation(s)
- Ying-Yi Ho
- Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung, Taiwan
| | - Yin-Ping Fang
- Department of Biological Resources, National Chiayi University, Chiayi, Taiwan
| | - Cheng-Han Chou
- Department of Leisure and Recreation Studies, Aletheia University, Tainan, Taiwan
- Endemic Species Research Institute, Nantou, Taiwan
| | | | - Hsueh-Wen Chang
- Department of Biological Sciences, National Sun Yat-sen University, Kaohsiung, Taiwan
- * E-mail:
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Sun K, Luo L, Zhang Z, Liu S, Feng J. Molecular characteristics and evolution of the mitochondrial control region in three genera (Hipposideridae: Hipposideros Aselliscus and Coelops) of leaf-nosed bats. ACTA ACUST UNITED AC 2013; 24:451-61. [PMID: 23406568 DOI: 10.3109/19401736.2013.766176] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The mitochondrial control region (CR) was sequenced for three genera of Hipposideridae to give a detailed overview of its features. The CR of leaf-nosed bats (1288-1560 bp) was divided into three domains like that of other mammals. In addition to the common conserved blocks (ETAS1, ETAS2, F-B boxes, CSB1, CSB2, and CSB3) found in all species, a CSB1-like element was also detected in the conserved sequence blocks (CSB). Repeated motifs were examined in the ETAS of Aselliscus stoliczkanus (26 bp) and Hipposideros bicolor (80 bp) and were present in the CSB of all individuals (6, 8, 16, and 20 bp). Phylogenetic reconstructions using the CR sequences indicated that the phylogenetic relationships among Hipposideros species were consistent with the results of other molecular and phenetic analyses. Aselliscus and Coelops had a closer relationship. But the central domain could not be used for phylogenetic analyses at family and genus levels due to its high conservation.
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Affiliation(s)
- Keping Sun
- Jilin Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun 130024, China
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Datzmann T, Dolch D, Batsaikhan N, Kiefer A, Helbig-Bonitz M, ZÖphel U, Stubbe M, Mayer F. Cryptic Diversity in Mongolian Vespertilionid Bats (Vespertilionidae, Chiroptera, Mammalia). Results of the Mongolian-German Biological Expeditions Since 1962, No. 299. ACTA CHIROPTEROLOGICA 2012. [DOI: 10.3161/150811012x661594] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Esselstyn JA, Evans BJ, Sedlock JL, Anwarali Khan FA, Heaney LR. Single-locus species delimitation: a test of the mixed Yule-coalescent model, with an empirical application to Philippine round-leaf bats. Proc Biol Sci 2012; 279:3678-86. [PMID: 22764163 DOI: 10.1098/rspb.2012.0705] [Citation(s) in RCA: 144] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Prospects for a comprehensive inventory of global biodiversity would be greatly improved by automating methods of species delimitation. The general mixed Yule-coalescent (GMYC) was recently proposed as a potential means of increasing the rate of biodiversity exploration. We tested this method with simulated data and applied it to a group of poorly known bats (Hipposideros) from the Philippines. We then used echolocation call characteristics to evaluate the plausibility of species boundaries suggested by GMYC. In our simulations, GMYC performed relatively well (errors in estimated species diversity less than 25%) when the product of the haploid effective population size (N(e)) and speciation rate (SR; per lineage per million years) was less than or equal to 10(5), while interspecific variation in N(e) was twofold or less. However, at higher but also biologically relevant values of N(e) × SR and when N(e) varied tenfold among species, performance was very poor. GMYC analyses of mitochondrial DNA sequences from Philippine Hipposideros suggest actual diversity may be approximately twice the current estimate, and available echolocation call data are mostly consistent with GMYC delimitations. In conclusion, we consider the GMYC model useful under some conditions, but additional information on N(e), SR and/or corroboration from independent character data are needed to allow meaningful interpretation of results.
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Affiliation(s)
- Jacob A Esselstyn
- Biodiversity Institute, University of Kansas, Lawrence, KS 66045, USA.
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