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Meierhofer MB, Johnson JS, Perez-Jimenez J, Ito F, Webela PW, Wiantoro S, Bernard E, Tanalgo KC, Hughes A, Cardoso P, Lilley T, Mammola S. Effective conservation of subterranean-roosting bats. Conserv Biol 2024; 38:e14157. [PMID: 37504891 DOI: 10.1111/cobi.14157] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Revised: 05/15/2023] [Accepted: 05/16/2023] [Indexed: 07/29/2023]
Abstract
Bats frequently inhabit caves and other subterranean habitats and play a critical role in subterranean food webs. With escalating threats to subterranean ecosystems, identifying the most effective measures to protect subterranean-roosting bats is critical. We conducted a meta-analysis to evaluate the effectiveness of conservation and management interventions for subterranean-roosting bats. We used network analyses to determine to what extent interventions for bats overlap those used for other subterranean taxa. We conducted our analyses with data extracted from 345 papers recommending a total of 910 conservation interventions. Gating of roost entrances was applied to preserve bat populations in 21 studies, but its effectiveness was unclear. Habitat restoration and disturbance reduction positively affected bat populations and bat behavior, respectively, in ≤4 studies. Decontamination was assessed in 2 studies and positively affected bat populations, particularly in studies focused on reducing fungal spores associated with white-nose syndrome in North America. Monitoring of bat populations as an effective conservation strategy was unclear and infrequently tested. Only 4% of bat studies simultaneously considered other subterranean organisms. However, effective interventions for bat conservation had similarities with all other organisms. If other subterranean organisms are considered when applying interventions to conserve bats, they might also benefit.
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Affiliation(s)
- Melissa B Meierhofer
- BatLab Finland, Finnish Museum of Natural History (LUOMUS), University of Helsinki, Helsinki, Finland
| | - Joseph S Johnson
- School of Information Technology, University of Cincinnati, Cincinnati, Ohio, USA
| | | | - Fernanda Ito
- BatLab Finland, Finnish Museum of Natural History (LUOMUS), University of Helsinki, Helsinki, Finland
- Laboratório de Ciência Aplicada à Conservação da Biodiversidade, Universidade Federal de Pernambuco, Recife, Brazil
| | - Paul W Webela
- Department of Forestry and Wildlife Management, Maasai Mara University, Narok, Kenya
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Center for Biosystematics & Evolution, National Research and Innovation Agency, Bogor, Indonesia
| | - Enrico Bernard
- Laboratório de Ciência Aplicada à Conservação da Biodiversidade, Universidade Federal de Pernambuco, Recife, Brazil
| | - Krizler C Tanalgo
- Ecology and Conservation Research Laboratory (Eco/Con Lab), Department of Biological Sciences, College of Science and Mathematics, University of Southern Mindanao, Cotabato, Philippines
| | - Alice Hughes
- School of Biological Sciences, University of Hong Kong, Hong Kong
- Center of Conservation Biology, Core Botanical Gardens, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Jinghong, China
| | - Pedro Cardoso
- Laboratory for Integrative Biodiversity Research (LIBRe), Finnish Museum of Natural History (LUOMUS), University of Helsinki, Helsinki, Finland
| | - Thomas Lilley
- BatLab Finland, Finnish Museum of Natural History (LUOMUS), University of Helsinki, Helsinki, Finland
| | - Stefano Mammola
- Laboratory for Integrative Biodiversity Research (LIBRe), Finnish Museum of Natural History (LUOMUS), University of Helsinki, Helsinki, Finland
- Molecular Ecology Group (MEG), Water Research Institute (IRSA), National Research Council (CNR), Verbania, Italy
- National Biodiversity Future Center, Palermo, Italy
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2
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Ch’ng L, Tsang SM, Ong ZA, Low DH, Wiantoro S, Smith IL, Simmons NB, Su YC, Lohman DJ, Smith GJ, Mendenhall IH. Co-circulation of alpha- and beta-coronaviruses in Pteropus vampyrus flying foxes from Indonesia. Transbound Emerg Dis 2022; 69:3917-3925. [PMID: 36382687 PMCID: PMC9898127 DOI: 10.1111/tbed.14762] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Revised: 10/03/2022] [Accepted: 11/11/2022] [Indexed: 11/17/2022]
Abstract
Bats are important reservoirs for alpha- and beta-coronaviruses. Coronaviruses (CoV) have been detected in pteropodid bats from several Southeast Asian countries, but little is known about coronaviruses in the Indonesian archipelago in proportion to its mammalian biodiversity. In this study, we screened pooled faecal samples from the Indonesian colonies of Pteropus vampyrus with unbiased next-generation sequencing. Bat CoVs related to Rousettus leschenaultii CoV HKU9 and Eidolon helvum CoV were detected. The 121 faecal samples were further screened using a conventional hemi-nested pan-coronavirus PCR assay. Three positive samples were successfully sequenced, and phylogenetic reconstruction revealed the presence of alpha- and beta-coronaviruses. CoVs belonging to the subgenera Nobecovirus, Decacovirus and Pedacovirus were detected in a single P. vampyrus roost. This study expands current knowledge of coronavirus diversity in Indonesian flying foxes, highlighting the need for longitudinal surveillance of colonies as continuing urbanization and deforestation heighten the risk of spillover events.
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Affiliation(s)
- Lena Ch’ng
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
| | - Susan M. Tsang
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, New York, NY 10024, USA
- Biology Department, City College of New York, City University of New York, New York, NY 10031, USA
- Ph.D. Program in Biology, Graduate Center, City University of New York, New York, NY 10016, USA
- Zoology Division, National Museum of Natural History, Manila 1000, Philippines
| | - Zoe A. Ong
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
| | - Dolyce H.W. Low
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Center for Biosystematics and Evolution, National Research and Innovation Agency, Cibinong, West Java 16911, Indonesia
| | - Ina L. Smith
- Health and Biosecurity, The Commonwealth Scientific and Industrial Research Organization, Black Mountain, ACT 2601, Australia
| | - Nancy B. Simmons
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, New York, NY 10024, USA
| | - Yvonne C.F. Su
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
| | - David J. Lohman
- Biology Department, City College of New York, City University of New York, New York, NY 10031, USA
- Ph.D. Program in Biology, Graduate Center, City University of New York, New York, NY 10016, USA
- Zoology Division, National Museum of Natural History, Manila 1000, Philippines
| | - Gavin J.D. Smith
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
- Centre for Outbreak Preparedness, Duke-NUS Medical School, Singapore
- SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore
- Duke Global Health Institute, Duke University, Durham, NC 27710, USA
| | - Ian H. Mendenhall
- Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore
- SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore
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3
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Nesi N, Tsagkogeorga G, Tsang SM, Nicolas V, Lalis A, Scanlon AT, Riesle-Sbarbaro SA, Wiantoro S, Hitch AT, Juste J, Pinzari CA, Bonaccorso FJ, Todd CM, Lim BK, Simmons NB, McGowen MR, Rossiter SJ. Interrogating Phylogenetic Discordance Resolves Deep Splits in the Rapid Radiation of Old World Fruit Bats (Chiroptera: Pteropodidae). Syst Biol 2021; 70:1077-1089. [PMID: 33693838 PMCID: PMC8513763 DOI: 10.1093/sysbio/syab013] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Revised: 04/27/2021] [Accepted: 03/03/2021] [Indexed: 11/14/2022] Open
Abstract
The family Pteropodidae (Old World fruit bats) comprises $>$200 species distributed across the Old World tropics and subtropics. Most pteropodids feed on fruit, suggesting an early origin of frugivory, although several lineages have shifted to nectar-based diets. Pteropodids are of exceptional conservation concern with $>$50% of species considered threatened, yet the systematics of this group has long been debated, with uncertainty surrounding early splits attributed to an ancient rapid diversification. Resolving the relationships among the main pteropodid lineages is essential if we are to fully understand their evolutionary distinctiveness, and the extent to which these bats have transitioned to nectar-feeding. Here we generated orthologous sequences for $>$1400 nuclear protein-coding genes (2.8 million base pairs) across 114 species from 43 genera of Old World fruit bats (57% and 96% of extant species- and genus-level diversity, respectively), and combined phylogenomic inference with filtering by information content to resolve systematic relationships among the major lineages. Concatenation and coalescent-based methods recovered three distinct backbone topologies that were not able to be reconciled by filtering via phylogenetic information content. Concordance analysis and gene genealogy interrogation show that one topology is consistently the best supported, and that observed phylogenetic conflicts arise from both gene tree error and deep incomplete lineage sorting. In addition to resolving long-standing inconsistencies in the reported relationships among major lineages, we show that Old World fruit bats have likely undergone at least seven independent dietary transitions from frugivory to nectarivory. Finally, we use this phylogeny to identify and describe one new genus. [Chiroptera; coalescence; concordance; incomplete lineage sorting; nectar feeder; species tree; target enrichment.].
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Affiliation(s)
- Nicolas Nesi
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK
| | - Georgia Tsagkogeorga
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK
| | - Susan M Tsang
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, New York, USA
- Zoology Section, National Museum of Natural History, Manila, Philippines
| | - Violaine Nicolas
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d’Histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, Paris, France
| | - Aude Lalis
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d’Histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, Paris, France
| | - Annette T Scanlon
- School of Natural and Built Environments, University of South Australia, Mawson Lakes, SA, Australia
| | - Silke A Riesle-Sbarbaro
- Department of Veterinary Medicine, University of Cambridge, Cambridge, UK
- Institute of Zoology, Zoological Society of London, London, UK
- Centre for Biological Threats and Special Pathogens, Robert Koch Institute, Berlin, Germany
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Center for Biology, Indonesian Institute of Sciences, Cibinong, Indonesia
| | - Alan T Hitch
- Department of Wildlife, Fish, and Conservation Biology, University of California Davis, CA, USA
| | - Javier Juste
- Estación Biológica de Doñana (CSIC), Avda. Américo Vespucio, Sevilla, Spain
| | | | | | - Christopher M Todd
- The Hawkesbury institute for the Environment, Western Sydney University, Australia
| | - Burton K Lim
- Royal Ontario Museum, Toronto, ON M5S 2C6, Canada
| | - Nancy B Simmons
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, New York, USA
| | - Michael R McGowen
- Department of Vertebrate Zoology, Smithsonian National Museum of Natural History, Washington, DC, USA
| | - Stephen J Rossiter
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK
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4
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Chaber AL, Amstrong KN, Wiantoro S, Xerri V, Caraguel C, Boardman WSJ, Nielsen TD. Bat E-Commerce: Insights Into the Extent and Potential Implications of This Dark Trade. Front Vet Sci 2021; 8:651304. [PMID: 34179158 PMCID: PMC8224922 DOI: 10.3389/fvets.2021.651304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2021] [Accepted: 04/29/2021] [Indexed: 11/15/2022] Open
Abstract
Little is known about the global bat souvenir trade despite previous research efforts into bat harvest for bushmeat. We screened eBay listings of bats in Australia, Canada, Italy, Switzerland, United Kingdom and USA to assess the nature and extent of the online offers. A total of 237 listings were retrieved in between the 11th and 25th of May 2020 with a median price per item of US$38.50 (range: US$8.50–2,500.00). Items on offer were mostly taxidermy (61.2%) or skull (21.1%) specimens. Overall, 32 different species of bat were advertised, most of which (n = 28) are listed as “Least Concern” on the International Union for Conservation of Nature (IUCN) Red List. One species (Nycteris javanica) is classified as “Vulnerable” and one (Eidolon helvum) as “Near Threatened.” Pteropus spp. specimens were the most expensive specimens on offer and the conservations status of these species may range from “Critically Endangered” to “Data Deficient” by IUCN and the entire genus is listed in the Appendix II by the Convention on the International Trade in Endangered Species of Wild Fauna and Flora (CITES). However, the exact species concerned, and their respective conservation status, could not be confirmed based on the listings' photos. The sourcing of bat was restricted to mostly South-East Asian countries (a third of items sourced from Indonesia) and to two African countries. Our survey revealed that the online offer of bat products is diverse, abundant, and facilitated by worldwide sellers although most offered bats species are from South-East Asia. With a few exceptions, the species on offer were of little present conservation concern, however, many unknowns remain on the potential animal welfare, biosecurity, legal implications, and most importantly public health risks associated with this dark trade.
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Affiliation(s)
- Anne-Lise Chaber
- School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, Australia
| | - Kyle N Amstrong
- School of Biological Sciences, University of Adelaide, Adelaide, SA, Australia.,South Australian Museum, Adelaide, SA, Australia
| | - Sigit Wiantoro
- School of Biological Sciences, University of Adelaide, Adelaide, SA, Australia.,Museum Zoologicum Bogoriense, Research Center for Biology, Indonesian Institute of Sciences, Cibinong, Indonesia
| | - Vanessa Xerri
- School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, Australia
| | - Charles Caraguel
- School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, Australia
| | - Wayne S J Boardman
- School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, Australia
| | - Torben D Nielsen
- School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, Australia
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5
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Arida E, Ashari H, Dahruddin H, Fitriana YS, Hamidy A, Irham M, Kadarusman, Riyanto A, Wiantoro S, Zein MSA, Hadiaty RK, Apandi, Krey F, Kurnianingsih, Melmambessy EHP, Mulyadi, Ohee HL, Saidin, Salamuk A, Sauri S, Suparno, Supriatna N, Suruwaky AM, Laksono WT, Warikar EL, Wikanta H, Yohanita AM, Slembrouck J, Legendre M, Gaucher P, Cochet C, Delrieu-Trottin E, Thébaud C, Mila B, Fouquet A, Borisenko A, Steinke D, Hocdé R, Semiadi G, Pouyaud L, Hubert N. Exploring the vertebrate fauna of the Bird's Head Peninsula (Indonesia, West Papua) through DNA barcodes. Mol Ecol Resour 2021; 21:2369-2387. [PMID: 33942522 DOI: 10.1111/1755-0998.13411] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2021] [Revised: 04/06/2021] [Accepted: 04/13/2021] [Indexed: 11/27/2022]
Abstract
Biodiversity knowledge is widely heterogeneous across the Earth's biomes. Some areas, due to their remoteness and difficult access, present large taxonomic knowledge gaps. Mostly located in the tropics, these areas have frequently experienced a fast development of anthropogenic activities during the last decades and are therefore of high conservation concerns. The biodiversity hotspots of Southeast Asia exemplify the stakes faced by tropical countries. While the hotspots of Sundaland (Java, Sumatra, Borneo) and Wallacea (Sulawesi, Moluccas) have long attracted the attention of biologists and conservationists alike, extensive parts of the Sahul area, in particular the island of New Guinea, have been much less explored biologically. Here, we describe the results of a DNA-based inventory of aquatic and terrestrial vertebrate communities, which was the objective of a multidisciplinary expedition to the Bird's Head Peninsula (West Papua, Indonesia) conducted between 17 October and 20 November 2014. This expedition resulted in the assembly of 1005 vertebrate DNA barcodes. Based on the use of multiple species-delimitation methods (GMYC, PTP, RESL, ABGD), 264 molecular operational taxonomic units (MOTUs) were delineated, among which 75 were unidentified and an additional 48 were considered cryptic. This study suggests that the diversity of vertebrates of the Bird's Head is severely underestimated and considerations on the evolutionary origin and taxonomic knowledge of these biotas are discussed.
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Affiliation(s)
- Evy Arida
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Hidayat Ashari
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Hadi Dahruddin
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Yuli Sulistya Fitriana
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Amir Hamidy
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Mohammad Irham
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Kadarusman
- Politeknik Kelautan dan Perikanan Sorong, Jl. Kapitan Pattimura, Suprau, Indonesia
| | - Awal Riyanto
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Sigit Wiantoro
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Moch Syamsul Arifin Zein
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Renny K Hadiaty
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Apandi
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Frengky Krey
- Jurusan Perikanan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Papua, Jl. Gunung Salju Amban, Manokwari, Indonesia
| | - Kurnianingsih
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Edy H P Melmambessy
- Program Studi Manajemen Sumberdaya Perairan, Fakultas Pertanian, Universitas Musamus, Jl. Kamizaun Mopah Lama, Rimba Jaya, Merauke, Indonesia
| | - Mulyadi
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Henderite L Ohee
- Jurusan Biologi, Fakultas MIPA, Universitas Cendrawasih, Jl. Kamp Wolker Waena Jayapura, Jayapura, Indonesia
| | - Saidin
- Politeknik Kelautan dan Perikanan Sorong, Jl. Kapitan Pattimura, Suprau, Indonesia
| | - Ayub Salamuk
- Dinas Kelautan dan Perikanan Kabupaten Kaimana, Jl.Utarum Kampung Coa, Kaimana, Indonesia
| | - Sopian Sauri
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Suparno
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Nanang Supriatna
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Amir M Suruwaky
- Politeknik Kelautan dan Perikanan Sorong, Jl. Kapitan Pattimura, Suprau, Indonesia
| | - Wahyudi Tri Laksono
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Evie L Warikar
- Jurusan Biologi, Fakultas MIPA, Universitas Cendrawasih, Jl. Kamp Wolker Waena Jayapura, Jayapura, Indonesia
| | - Hadi Wikanta
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Aksamina M Yohanita
- Jurusan Biologi, Fakultas MIPA, Universitas Papua Jl. Gunung Salju - Amban, Manokwari, Indonesia
| | - Jacques Slembrouck
- UMR 5554 ISEM (IRD, UM, CNRS, EPHE), Université de Montpellier, Montpellier, France
| | - Marc Legendre
- UMR 5554 ISEM (IRD, UM, CNRS, EPHE), Université de Montpellier, Montpellier, France
| | - Philippe Gaucher
- USR LEEISA- Laboratoire Ecologie, Evolution, Interactions des Systèmes amazoniens, Centre de Recherche de Montabo, cayenne, French Guiana
| | - Christophe Cochet
- UMR 5554 ISEM (IRD, UM, CNRS, EPHE), Université de Montpellier, Montpellier, France
| | | | | | - Borja Mila
- Department of Biodiversity and Evolutionary Biology, National Museum of Natural Sciences, Spanish National Research Council (CSIC), Madrid, Spain
| | - Antoine Fouquet
- UMR 5174 EDB CNRS, Université Paul Sabatier, IRD, Toulouse, France
| | - Alex Borisenko
- Department of Integrative Biology, Centre for Biodiversity Genomics, University of Guelph, Guelph, ON, Canada
| | - Dirk Steinke
- Department of Integrative Biology, Centre for Biodiversity Genomics, University of Guelph, Guelph, ON, Canada
| | - Régis Hocdé
- UMR 9190 MARBEC (IRD, UM, CNRS, IFREMER), Université de Montpellier, Montpellier, France
| | - Gono Semiadi
- Division of Zoology, Research Center for Biology, Indonesian Institute of Sciences (LIPI), Cibinong, Indonesia
| | - Laurent Pouyaud
- UMR 5554 ISEM (IRD, UM, CNRS, EPHE), Université de Montpellier, Montpellier, France
| | - Nicolas Hubert
- UMR 5554 ISEM (IRD, UM, CNRS, EPHE), Université de Montpellier, Montpellier, France
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6
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Tsang SM, Low DHW, Wiantoro S, Smith I, Jayakumar J, Simmons NB, Vijaykrishna D, Lohman DJ, Mendenhall IH. Detection of Tioman Virus in Pteropus vampyrus Near Flores, Indonesia. Viruses 2021; 13:v13040563. [PMID: 33810446 PMCID: PMC8067168 DOI: 10.3390/v13040563] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2021] [Revised: 03/13/2021] [Accepted: 03/15/2021] [Indexed: 12/24/2022] Open
Abstract
Diverse paramyxoviruses have coevolved with their bat hosts, including fruit bats such as flying foxes (Chiroptera: Pteropodidae). Several of these viruses are zoonotic, but the diversity and distribution of Paramyxoviridae are poorly understood. We screened pooled feces samples from three Pteropus vampyrus colonies and assayed tissues, rectal swabs, and oral swabs from 95 individuals of 23 pteropodid species sampled at 17 sites across the Indonesian archipelago with a conventional paramyxovirus PCR; all tested negative. Samples from 43 individuals were screened with next generation sequencing (NGS), and a single Pteropus vampyrus collected near Flores had Tioman virus sequencing reads. Tioman virus is a bat-borne virus in the genus Pararubulavirus with prior evidence of spillover to humans. This work expands the known range of Tioman virus, and it is likely that this isolated colony likely has sustained intergenerational transmission over a long period.
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Affiliation(s)
- Susan M. Tsang
- Division of Vertebrate Zoology, American Museum of Natural History, New York, NY 10024, USA; (S.M.T.); (N.B.S.)
- Zoology Division, National Museum of Natural History, Manila 1000, Philippines;
- Ph.D. Program in Biology, Graduate Center, City University of New York, New York, NY 10016, USA
- Biology Department, City College of New York, City University of New York, New York, NY 10031, USA
| | - Dolyce H. W. Low
- Programme in Emerging Infectious Diseases, Duke-National University of Singapore Medical School, Singapore 169857, Singapore; (D.H.W.L.); (J.J.)
- Graduate School for Integrative Sciences and Engineering, National University of Singapore, Singapore 119077, Singapore
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Center for Biology, Indonesian Institute of Sciences, Cibinong, West Java 16911, Indonesia;
| | - Ina Smith
- Health and Biosecurity, The Commonwealth Scientific and Industrial Research Organization, Black Mountain, ACT 2601, Australia;
| | - Jayanthi Jayakumar
- Programme in Emerging Infectious Diseases, Duke-National University of Singapore Medical School, Singapore 169857, Singapore; (D.H.W.L.); (J.J.)
| | - Nancy B. Simmons
- Division of Vertebrate Zoology, American Museum of Natural History, New York, NY 10024, USA; (S.M.T.); (N.B.S.)
| | - Dhanasekaran Vijaykrishna
- School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong, China;
| | - David J. Lohman
- Zoology Division, National Museum of Natural History, Manila 1000, Philippines;
- Ph.D. Program in Biology, Graduate Center, City University of New York, New York, NY 10016, USA
- Biology Department, City College of New York, City University of New York, New York, NY 10031, USA
| | - Ian H. Mendenhall
- Programme in Emerging Infectious Diseases, Duke-National University of Singapore Medical School, Singapore 169857, Singapore; (D.H.W.L.); (J.J.)
- SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore
- Correspondence:
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7
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Tsang SM, Wiantoro S, Veluz MJ, Sugita N, Nguyen YL, Simmons NB, Lohman DJ. Dispersal out of Wallacea spurs diversification of Pteropus flying foxes, the world's largest bats (Mammalia: Chiroptera). J Biogeogr 2020; 47:527-537. [PMID: 33041434 PMCID: PMC7546435 DOI: 10.1111/jbi.13750] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Accepted: 10/04/2019] [Indexed: 05/25/2023]
Abstract
AIM Islands provide opportunities for isolation and speciation. Many landmasses in the Indo-Australian Archipelago (IAA) are oceanic islands, and founder-event speciation is expected to be the predominant form of speciation of volant taxa on these islands. We studied the biogeographic history of flying foxes, a group with many endemic species and a predilection for islands, to test this hypothesis and infer the biogeographic origin of the group. LOCATION Australasia, Indo-Australian Archipelago, Madagascar, Pacific Islands. TAXON Pteropus (Pteropodidae). METHODS To infer the biogeographic history of Pteropus, we sequenced up to 6169 bp of genetic data from 10 markers and reconstructed a multilocus species tree of 34 currently recognized Pteropus species and subspecies with 3 Acerodon outgroups using BEAST and subsequently estimated ancestral areas using models implemented in BioGeoBEARS. RESULTS Species-level resolution was occasionally low because of slow rates of molecular evolution and/or recent divergences. Older divergences, however, were more strongly supported and allow the evolutionary history of the group to be inferred. The genus diverged in Wallacea from its common ancestor with Acerodon; founder-event speciation out of Wallacea was a common inference. Pteropus species in Micronesia and the western Indian Ocean were also inferred to result from founder-event speciation. MAIN CONCLUSIONS Dispersal between regions of the IAA and the islands found therein fostered diversification of Pteropus throughout the IAA and beyond. Dispersal in Pteropus is far higher than in most other volant taxa studied to date, highlighting the importance of inter-island movement in the biogeographic history of this large clade of large bats.
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Affiliation(s)
- Susan M. Tsang
- Biology Department, City College, City University of New York, NY 10031, USA
- Biology Ph.D. Program, Graduate Center, City University of New York, NY 10034, USA
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, NY 10024, USA
- Mammalogy Section, National Museum of Natural History, Manila 1000, Philippines
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Centre for Biology, Indonesian Institute of Sciences-LIPI, Bogor 16911, Indonesia
| | - Maria Josefa Veluz
- Mammalogy Section, National Museum of Natural History, Manila 1000, Philippines
| | - Norimasa Sugita
- Department of Zoology, National Museum of Nature and Science, Tokyo, Tsukuba, Ibaraki 305-0005, Japan
- National Institute for Environmental Studies, Tokyo, Tsukuba, Ibaraki 305-8506, Japan
| | - Y-Lan Nguyen
- Biology Department, City College, City University of New York, NY 10031, USA
- Macaulay Honors College, City University of New York, NY 10021, USA
| | - Nancy B. Simmons
- Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History, NY 10024, USA
| | - David J. Lohman
- Biology Department, City College, City University of New York, NY 10031, USA
- Biology Ph.D. Program, Graduate Center, City University of New York, NY 10034, USA
- Entomology Section, National Museum of Natural History, Manila 1000, Philippines
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Tsang SM, Wiantoro S, Veluz MJ, Simmons NB, Lohman DJ. Low Levels of Population Structure among Geographically Distant Populations of Pteropus vampyrus (Chiroptera: Pteropodidae). Acta Chiropterologica 2018. [DOI: 10.3161/15081109acc2018.20.1.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Susan M. Tsang
- Department of Biology, City College and the Graduate Center, The City University of New York, 365 Fifth Avenue, New York, NY, 10016, USA
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Indonesian Institute of Sciences, Jl. Raya Jakarta-Bogor, Km. 46, Cibinong, 16911, Indonesia
| | - Maria Josefa Veluz
- Zoology Division, National Museum of the Philippines, Padres Burgos Ave, Ermita, Manila, 1000 Metro Manila, Philippines
| | - Nancy B. Simmons
- Department of Mammalogy, American Museum of Natural History, Central Park West and 79th Street, New York, NY, 10024, USA
| | - David J. Lohman
- Department of Biology, City College and the Graduate Center, The City University of New York, 365 Fifth Avenue, New York, NY, 10016, USA
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Tsang SM, Wiantoro S, Simmons NB. New Records of Flying Foxes (Chiroptera:Pteropussp.) from Seram, Indonesia, with Notes on Ecology and Conservation Status. American Museum Novitates 2015. [DOI: 10.1206/3842.1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Csorba G, Görföl T, Wiantoro S, Kingston T, Bates PJJ, Huang JCC. Thumb-pads up-a new species of thick-thumbed bat from Sumatra (Chiroptera: Vespertilionidae: Glischropus). Zootaxa 2015; 3980:267-78. [PMID: 26249952 DOI: 10.11646/zootaxa.3980.2.7] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Indexed: 11/04/2022]
Abstract
To date, three species of the genus Glischropus are recognized from the Indomalayan zoogeographic region-G. bucephalus from the Indochinese subregion, G. tylopus from the Sundaic subregion (Peninsular Thailand and Malaysia, Borneo, Sumatra, Moluccas) and G. javanus, restricted to Java. The investigation of the holotype and three topotype specimens of G. batjanus supported the view that the name was previously correctly regarded as the junior subjective synonym of G. tylopus. During review of material recently collected in southwestern Sumatra, Indonesia, one specimen of a yet undescribed species of Thick-thumbed bat was identified. G. aquilus n. sp. markedly differs from its congeners by its dark brown pelage, nearly black ear and tragus, and in skull proportions. The phylogenetic analysis based on cytb sequences also supports the specific distinctness of G. aquilus n. sp. Its discovery brings the count to 88 species of bats known from Sumatra.
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Affiliation(s)
- Gábor Csorba
- Department of Zoology, Hungarian Natural History Museum, Baross u. 13., 1088 Budapest, Hungary.;
| | - Tamás Görföl
- Department of Zoology, Hungarian Natural History Museum, Baross u. 13., 1088 Budapest, Hungary. Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Hungária krt. 21., 1143 Budapest, Hungary;
| | - Sigit Wiantoro
- Museum Zoologicum Bogoriense, Research Centre for Biology, Indonesian Institute of Sciences, Widyasatwaloka Building, Jl Raya Jakarta-Bogor Km. 46, 16911 Cibinong, Indonesia.;
| | - Tigga Kingston
- Department of Biological Sciences, Texas Tech University, Lubbock, Texas, 79409, USA.;
| | - Paul J J Bates
- Centre for Systematics and Biodiversity Research, Harrison Institute, Bowerwood House, St Botolph's Road, Sevenoaks, Kent, TN13 3AQ, UK.;
| | - Joe Chun-Chia Huang
- Department of Biological Sciences, Texas Tech University, Lubbock, Texas, 79409, USA. Southeast Asian Bat Conservation Research Unit, Lubbock, Texas, 79409, USA;
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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] [What about the content of this article? (0)] [Affiliation(s)] [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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Csorba G, Chou CH, Ruedi M, Görföl T, Motokawa M, Wiantoro S, Thong VD, Son NT, Lin LK, Furey N. The reds and the yellows: a review of AsianChrysopteronJentink, 1910 (Chiroptera: Vespertilionidae:Myotis). J Mammal 2014. [DOI: 10.1644/13-mamm-a-200] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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