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Rahman MM, Kim ES, Sung HC. Microplastics as an emerging threat to amphibians: Current status and future perspectives. Heliyon 2024; 10:e28220. [PMID: 38560268 PMCID: PMC10979166 DOI: 10.1016/j.heliyon.2024.e28220] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Revised: 02/29/2024] [Accepted: 03/13/2024] [Indexed: 04/04/2024] Open
Abstract
Given their pervasiveness in the environment, particularly in aquatic ecosystems, plastics are posing a growing concern worldwide. Many vertebrates and invertebrates in marine, freshwater, and terrestrial ecosystems exhibit microplastic (MP) uptake and accumulation. Some studies have indicated the fatal impacts of MPs on animals and their possible transfer through food chains. Thus, it is crucial to study MP pollution and its impacts on environment-sensitive and globally threatened animal groups, such as amphibians, which also play an important role in the energy transfer between ecosystems. Unfortunately, research in this field is lacking and sources of organized information are also scarce. Hence, we systematically reviewed published literature on MPs in amphibians to fill the existing knowledge gap. Our review revealed that most of the previous studies have focused on MP bioaccumulation in amphibians, whereas, only a few research highlighted its impacts. We found that more than 80% of the studied species exhibited MP accumulation. MPs were reported to persist in different organs for a long time and get transferred to other trophic levels. They can also exhibit cytotoxic and mutagenic effects and may have fatal impacts. Moreover, they can increase the disease susceptibility of amphibians. Our study concludes the MPs as a potential threat to amphibians and urges increasing the scope and frequency of research on MP pollution and its impacts on this vulnerable animal group. We also provide a generalized method for studying MPs in amphibians with future perspectives and research directions. Our study is significant for extending the knowledge of MPs and their impacts on amphibians and guiding prospective research.
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Affiliation(s)
- Md Mizanur Rahman
- Department of Biological Sciences, Chonnam National University, 61186, Gwangju, Republic of Korea
| | - Eung-Sam Kim
- Department of Biological Sciences, Chonnam National University, 61186, Gwangju, Republic of Korea
- Research Center of Ecomimetics, Chonnam National University, Gwangju, 61186, Republic of Korea
- Center for Next Generation Sensor Research and Development, Chonnam National University, Gwangju, 61186, Republic of Korea
- Institute of Sustainable Ecological Environment, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Ha-Cheol Sung
- Department of Biological Sciences, Chonnam National University, 61186, Gwangju, Republic of Korea
- Research Center of Ecomimetics, Chonnam National University, Gwangju, 61186, Republic of Korea
- Institute of Sustainable Ecological Environment, Chonnam National University, Gwangju, 61186, Republic of Korea
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2
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Dehling JM, Sinsch U. Amphibians of Rwanda: Diversity, Community Features, and Conservation Status. DIVERSITY 2023. [DOI: 10.3390/d15040512] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/05/2023]
Abstract
The diversity and distribution of the amphibians in Rwanda was critically reviewed to provide a reliable species inventory for informed conservation management. The checklist of the amphibian species of Rwanda is based on results of our own fieldwork, historical records compiled from the literature, and examination of voucher specimens in museum collections. A total of 62 species are recorded, and 22 further species listed in field guides and open-access data bases are discussed, identified as erroneous records, and consequently not included in the country list. We provide diagnostic characters of external morphology and the advertisement call for each validated species, and a short synopsis of geographic distribution, altitudinal range, occurrence in the provinces of Rwanda, and habitat preference. We provide keys to all genera, and all taxonomically described species based on morphological characters and additional keys based on features of the advertisement calls. We discuss features of amphibian communities including local community structure and delimitation of altitudinal metacommunities. Based on the IUCN red list assessment and our field surveys, we propose for the first time a national red list of amphibians in Rwanda.
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Affiliation(s)
- J. Maximilian Dehling
- Department of Biology, Institute of Integrated Natural Sciences, University of Koblenz, D-56070 Koblenz, Germany
| | - Ulrich Sinsch
- Department of Biology, Institute of Integrated Natural Sciences, University of Koblenz, D-56070 Koblenz, Germany
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3
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Alfayo Koskei, George Eshiamwata, Bernard Kirui, Phylus K. Cheruiyot. Breeding phenology and population dynamics of the endangered Forest Spiny Reed Frog Afrixalus sylvaticus Schiøtz, 1974 in Shimba Hills, Kenya. JOURNAL OF THREATENED TAXA 2022. [DOI: 10.11609/jott.4943.14.7.21347-21355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
Abstract
Afrixalus sylvaticus Schiøtz, 1974 is a species of hyperoliid frog inhabiting coastal forest Kenya. It is classified as endangered under IUCN B2ab(iii) ver 3.1 and occurs in the Shimba Hills National Park and hinterlands. Habitat loss and other human activities are threatening the species. Therefore, understanding the breeding ecology and population dynamics is important for its conservation. This study assessed the breeding ecology and population dynamics of the species in the protected and community landscapes in Shimba Hills National Reserve in Kenya. Data was collected through ecological surveys conducted from June 2016 to July 2017 using a visual encounter surveys (VES) method. The results show that the species was more abundant during the wet season than dry (58% and 42%, respectively). The population estimate was 192 individuals and a density of 0.98 individuals/km2. Regarding the morphology, the mean snout-vent length (SVL) for males was 15.12 mm and females 15.96 mm, but there was no significant difference (t-test = 0.87, p = 0.390, df = 39). The mean weight of both gravid and non-gravid females was 6.05 g and males was 4.82 g. The weights were statistically different between both sexes (t-test = 3.50, p-value = 0.001, df = 39). The sex ratio was 1:2 (male: female). There was more activity in the wet season (April and May), and the breeding habitats were reeds and water lilies. The threats identified to their habitat include; human activities such as bush burning, livestock grazing, drainage, and plantation of exotic tree species (Eucalyptus sp.) that have led to habitat loss and degradation. The study recommends that the reforestation processes such as plantation of exotic species such as Eucalyptus sp. and Casuarina sp. and bush burning in the wetlands and species habitats must be discouraged among the stakeholders (community and park management). Moreover, more synchronized studies are necessary to highlight the driver(s) of imbalanced sex ratios and species habitat shifts.
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4
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Janiak MC, Silva FE, Beck RMD, de Vries D, Kuderna LFK, Torosin NS, Melin AD, Marquès-Bonet T, Goodhead IB, Messias M, da Silva MNF, Sampaio I, Farias IP, Rossi R, de Melo FR, Valsecchi J, Hrbek T, Boubli JP. 205 newly assembled mitogenomes provide mixed evidence for rivers as drivers of speciation for Amazonian primates. Mol Ecol 2022; 31:3888-3902. [PMID: 35638312 PMCID: PMC9546496 DOI: 10.1111/mec.16554] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Revised: 05/06/2022] [Accepted: 05/20/2022] [Indexed: 12/02/2022]
Abstract
Mitochondrial DNA remains a cornerstone for molecular ecology, especially for study species from which high‐quality tissue samples cannot be easily obtained. Methods using mitochondrial markers are usually reliant on reference databases, but these are often incomplete. Furthermore, available mitochondrial genomes often lack crucial metadata, such as sampling location, limiting their utility for many analyses. Here, we assembled 205 new mitochondrial genomes for platyrrhine primates, most from the Amazon and with known sampling locations. We present a dated mitogenomic phylogeny based on these samples along with additional published platyrrhine mitogenomes, and use this to assess support for the long‐standing riverine barrier hypothesis (RBH), which proposes that river formation was a major driver of speciation in Amazonian primates. Along the Amazon, Negro, and Madeira rivers, we found mixed support for the RBH. While we identified divergences that coincide with a river barrier, only some occur synchronously and also overlap with the proposed dates of river formation. The most compelling evidence is for the Amazon river potentially driving speciation within bearded saki monkeys (Chiropotes spp.) and within the smallest extant platyrrhines, the marmosets and tamarins. However, we also found that even large rivers do not appear to be barriers for some primates, including howler monkeys (Alouatta spp.), uakaris (Cacajao spp.), sakis (Pithecia spp.), and robust capuchins (Sapajus spp.). Our results support a more nuanced, clade‐specific effect of riverine barriers and suggest that other evolutionary mechanisms, besides the RBH and allopatric speciation, may have played an important role in the diversification of platyrrhines.
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Affiliation(s)
- Mareike C Janiak
- School of Science, Engineering & Environment, University of Salford, Salford, United Kingdom
| | - Felipe E Silva
- Research Group on Primate Biology and Conservation, Mamirauá Institute for Sustainable Development, Brazil.,Department of Evolutionary Biology and Ecology, Université Libre de Bruxelles, Belgium
| | - Robin M D Beck
- School of Science, Engineering & Environment, University of Salford, Salford, United Kingdom
| | - Dorien de Vries
- School of Science, Engineering & Environment, University of Salford, Salford, United Kingdom
| | - Lukas F K Kuderna
- Ilumina Inc., Hayward, CA, USA.,Institute of Evolutionary Biology (UPF-CSIC), Barcelona, Spain
| | - Nicole S Torosin
- Department of Genetics, Human Genetics Institute of New Jersey, Rutgers University, Piscataway, NJ, USA
| | - Amanda D Melin
- Department of Anthropology & Archaeology and Department of Medical Genetics, University of Calgary, Calgary, AB, Canada.,Alberta Children's Hospital Research Institute, Calgary, AB, Canada
| | - Tomàs Marquès-Bonet
- Institute of Evolutionary Biology (UPF-CSIC), Barcelona, Spain.,Catalan Institution of Research and Advanced Studies (ICREA), Barcelona, Spain.,CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST), Barcelona, Spain.,Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, Edifici ICTA-ICP, Cerdanyola del Vallès, Barcelona, Spain
| | - Ian B Goodhead
- School of Science, Engineering & Environment, University of Salford, Salford, United Kingdom
| | - Mariluce Messias
- Department of Biology, Universidade Federal de Rondônia, Porto Velho, Brazil
| | - Maria N F da Silva
- Coleção de Mamíferos, Instituto Nacional de Pesquisas da Amazônia, Brazil
| | | | - Izeni P Farias
- Laboratory of Evolution and Animal Genetics, Universidade Federal do Amazonas, Brazil
| | - Rogerio Rossi
- Instituto de Biociências, Universidade Federal do Mato Grosso, Brazil
| | - Fabiano R de Melo
- Department of Forestry Engineering, Universidade Federal de Viçosa, Brazil
| | - João Valsecchi
- Research Group on Primate Biology and Conservation, Mamirauá Institute for Sustainable Development, Brazil
| | - Tomas Hrbek
- Department of Biology, Trinity University, San Antonio, TX, USA
| | - Jean P Boubli
- School of Science, Engineering & Environment, University of Salford, Salford, United Kingdom.,Coleção de Mamíferos, Instituto Nacional de Pesquisas da Amazônia, Brazil
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Canty SWJ, Nowakowski AJ, Connette GM, Deichmann JL, Songer M, Chiaravalloti R, Dodge M, Feistner ATC, Fergus C, Hall JS, Komatsu KJ, Linares‐Palomino R, McField M, Ogburn MB, Velez‐Zuazo X, Akre TS. Mapping a conservation research network to the Sustainable Development Goals. CONSERVATION SCIENCE AND PRACTICE 2022. [DOI: 10.1111/csp2.12731] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Affiliation(s)
- Steven W. J. Canty
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian Marine Station Fort Pierce Florida USA
| | - A. Justin Nowakowski
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Moore Center for Science Conservation International Arlington Virginia USA
| | - Grant M. Connette
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Jessica L. Deichmann
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Melissa Songer
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Rafael Chiaravalloti
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Molly Dodge
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Anna T. C. Feistner
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Craig Fergus
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Jefferson S. Hall
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- ForestGEO, Smithsonian Tropical Research Institute Panama City Panama
| | - Kimberly J. Komatsu
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian Environmental Research Center Edgewater Maryland USA
| | - Reynaldo Linares‐Palomino
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Melanie McField
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian Marine Station Fort Pierce Florida USA
| | - Matthew B. Ogburn
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian Environmental Research Center Edgewater Maryland USA
| | - Ximena Velez‐Zuazo
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
| | - Thomas S. Akre
- Working Land and Seascapes Smithsonian Institution Washington District of Columbia USA
- Smithsonian National Zoo and Conservation Biology Institute Front Royal Virginia USA
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6
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Mulcahy DG, Ibáñez R, Jaramillo CA, Crawford AJ, Ray JM, Gotte SW, Jacobs JF, Wynn AH, Gonzalez-Porter GP, McDiarmid RW, Crombie RI, Zug GR, de Queiroz K. DNA barcoding of the National Museum of Natural History reptile tissue holdings raises concerns about the use of natural history collections and the responsibilities of scientists in the molecular age. PLoS One 2022; 17:e0264930. [PMID: 35245325 PMCID: PMC8896674 DOI: 10.1371/journal.pone.0264930] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 02/22/2022] [Indexed: 01/09/2023] Open
Abstract
Natural history collections are essential to a wide variety of studies in biology because they maintain large collections of specimens and associated data, including genetic material (e.g., tissues) for DNA sequence data, yet they are currently under-funded and collection staff have high workloads. With the advent of aggregate databases and advances in sequencing technologies, there is an increased demand on collection staff for access to tissue samples and associated data. Scientists are rapidly developing large DNA barcode libraries, DNA sequences of specific genes for species across the tree of life, in order to document and conserve biodiversity. In doing so, mistakes are made. For instance, inconsistent taxonomic information is commonly taken from different lending institutions and deposited in data repositories, such as the Barcode of Life Database (BOLD) and GenBank, despite explicit disclaimers regarding the need for taxonomic verification by the lending institutions. Such errors can have profound effects on subsequent research based on these mis-labelled sequences in data repositories. Here, we present the production of a large DNA barcode library of reptiles from the National Museum of Natural History tissue holdings. The library contains 2,758 sequences (2,205 COI and 553 16S) from 2260 specimens (four crocodilians, 37 turtles, and 2,219 lizards, including snakes), representing 583 named species, from 52 countries. In generating this library, we noticed several common mistakes made by scientists depositing DNA barcode data in public repositories (e.g., BOLD and GenBank). Our goal is to raise awareness of these concerns and offer advice to avoid such mistakes in the future to maintain accurate DNA barcode libraries to properly document Earth’s biodiversity.
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Affiliation(s)
- Daniel G. Mulcahy
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
- * E-mail:
| | - Roberto Ibáñez
- Smithsonian Tropical Research Institute, Panama City, Republic of Panama
- Sistema Nacional de Investigación, SENACYT, Panamá City, República de Panamá
- Departamento de Zoología, Universidad de Panamá, Panamá City, República de Panamá
| | - Cesar A. Jaramillo
- Smithsonian Tropical Research Institute, Panama City, Republic of Panama
- Departamento de Histología y Neuroanatomía, Facultad de Medicina, Universidad de Panamá, Panamá City, República de Panamá
| | - Andrew J. Crawford
- Smithsonian Tropical Research Institute, Panama City, Republic of Panama
- Department of Biological Sciences, Museo de Historia Natural C.J. Marinkelle, Universidad de los Andes, Bogotá, Colombia
| | - Julie M. Ray
- Department of Biology, University of Nevada, Reno, Nevada, United States of America
| | - Steve W. Gotte
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
| | - Jeremy F. Jacobs
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
| | - Addison H. Wynn
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
| | | | - Roy W. McDiarmid
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
| | - Ronald I. Crombie
- Department of Herpetology, California Academy of Sciences, San Francisco, California, United States of America
| | - George R. Zug
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
| | - Kevin de Queiroz
- Division of Amphibians and Reptiles, Department of Vertebrate Zoology, National Museum of Natural History, Washington, DC, United States of America
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7
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Berba CMP, Matias AMA. State of biodiversity documentation in the Philippines: Metadata gaps, taxonomic biases, and spatial biases in the DNA barcode data of animal and plant taxa in the context of species occurrence data. PeerJ 2022; 10:e13146. [PMID: 35341040 PMCID: PMC8944339 DOI: 10.7717/peerj.13146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2021] [Accepted: 03/01/2022] [Indexed: 01/12/2023] Open
Abstract
Anthropogenic changes in the natural environment have led to alarming rates of biodiversity loss, resulting in a more urgent need for conservation. Although there is an increasing cognizance of the importance of incorporating biodiversity data into conservation, the accuracy of the inferences generated from these records can be highly impacted by gaps and biases in the data. Because of the Philippines' status as a biodiversity hotspot, the assessment of potential gaps and biases in biodiversity documentation in the country can be a critical step in the identification of priority research areas for conservation applications. In this study, we systematically assessed biodiversity data on animal and plant taxa found in the Philippines by examining the extent of metadata gaps, taxonomic biases, and spatial biases in DNA barcode data while using species occurrence data as a backdrop of the 'Philippines' biodiversity. These barcode and species occurrence datasets were obtained from public databases, namely: GenBank, Barcode of Life Data System and Global Biodiversity Information Facility. We found that much of the barcode data had missing information on either records and publishing, geolocation, or taxonomic metadata, which consequently, can limit the usability of barcode data for further analyses. We also observed that the amount of barcode data can be directly associated with the amount of species occurrence data available for a particular taxonomic group and location-highlighting the potential sampling biases in the barcode data. While the majority of barcode data came from foreign institutions, there has been an increase in local efforts in recent decades. However, much of the contribution to biodiversity documentation only come from institutions based in Luzon.
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8
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Christoph Liedtke H, Lyakurwa JV, Lawson LP, Menegon M, Garrido-Priego M, Mariaux J, Ngalason W, Channing A, Owen NR, Bittencourt-Silva GB, Wilkinson M, Larson JG, Loader SP. Thirty years of amphibian surveys in the Ukagurus Mountains of Tanzania reveal new species, yet others are in decline. AFR J HERPETOL 2022. [DOI: 10.1080/21564574.2022.2043945] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- H Christoph Liedtke
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), Sevilla, Spain
| | - John V Lyakurwa
- Department of Zoology and Wildlife Conservation, University of Dar es Salaam, Dar es Salaam, Tanzania
| | - Lucinda P Lawson
- Biological Sciences, University of Cincinnati, Cincinnati, Ohio, USA
| | - Michele Menegon
- Division of Biology & Conservation Ecology, School of Science & the Environment, Manchester Metropolitan University, Manchester, UK
- PAMS Foundation, Arusha, Tanzania
| | - Marina Garrido-Priego
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), Sevilla, Spain
- Division of Behavioural Ecology, Institute of Ecology and Evolution, University of Bern, Bern, Switzerland
| | - Jean Mariaux
- Natural History Museum of Geneva, Geneva, Switzerland
| | - Wilirk Ngalason
- Department of Zoology and Wildlife Conservation, University of Dar es Salaam, Dar es Salaam, Tanzania
| | - Alan Channing
- Unit for Environmental Sciences and Management, North-West University, Potchefstroom, South Africa
| | - Nisha R Owen
- On the EDGE Conservation, London, UK
- The Society for Environmental Exploration (Frontier), London, UK
| | - Gabriela B Bittencourt-Silva
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), Sevilla, Spain
| | - Mark Wilkinson
- Department of Life Sciences, Natural History Museum, London, UK
| | - Joanna G Larson
- Department of Biological Sciences, University of Notre Dame, Notre Dame, Indiana, USA
| | - Simon P Loader
- Department of Life Sciences, Natural History Museum, London, UK
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9
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Liedtke HC, Soler-Navarro DJ, Gomez-Mestre I, Loader SP, Rödel MO. Parallel diversification of the African tree toad genus Nectophryne (Bufonidae). Mol Phylogenet Evol 2021; 162:107184. [PMID: 33932615 DOI: 10.1016/j.ympev.2021.107184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 04/14/2021] [Accepted: 04/26/2021] [Indexed: 10/21/2022]
Abstract
African amphibian diversity remains underestimated with many cryptic lineages awaiting formal description. An important hotspot of amphibian diversification is the Guineo-Congolian rainforest in Central Africa, its richness attributable to present day and ancestral range fragmentation through geological barriers, habitat expansion and contraction, and the presence of steep ecological gradients. The charismatic Nectophryne tree toads present an interesting case study for diversification in this region. The two formally described species comprising this genus show nearly identical geographic distributions extending across most of the Guineo-Congolian rainforest, but show little morphological disparity. Both species harbour extensive genetic diversity warranting taxonomic revisions, and interestingly, when comparing the subclades within each, the two species show remarkably parallel diversification histories, both in terms of timing of phylogenetic splits and their geographic distributions. This indicates that common processes may have shaped the evolutionary history of these lineages.
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Affiliation(s)
- H Christoph Liedtke
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain.
| | - Diego J Soler-Navarro
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain
| | - Ivan Gomez-Mestre
- Ecology, Evolution and Development Group, Department of Wetland Ecology, Estación Biológica de Doñana (CSIC), 41092 Sevilla, Spain
| | - Simon P Loader
- Life Sciences Department, Natural History Museum, London SW7 5BD, UK
| | - Mark-Oliver Rödel
- Museum für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Biodiversity Dynamics, Invalidenstr. 43, Berlin 10115, Germany
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10
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Beyond the comfort zone: amphibian diversity and distribution in the West Sahara-Sahel using mtDNA and nuDNA barcoding and spatial modelling. CONSERV GENET 2021. [DOI: 10.1007/s10592-021-01331-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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11
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Rahman MM, Nneji LM, Adeniyi AC, Chen J, Eniang EA, Oladipo SO, Olatunde O, Onadeko AB, Kilunda FK, Ayoola AO, Adedeji BE, Nneji IC, Akwaowo NU, Ugwumba AAA, Jin J, Yin T, Peng M, Olory C, Eninekit N, Che J. Amphibian assemblages and diversity patterns in two forest ecosystems of South‐Eastern Nigeria. Afr J Ecol 2020. [DOI: 10.1111/aje.12776] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Md Mizanur Rahman
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
- Kunming College of Life Science University of Chinese Academy of Sciences Kunming China
| | - Lotanna M. Nneji
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
- Sino‐Africa Joint Research Center Chinese Academy of Sciences Kunming China
| | - Adeola C. Adeniyi
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
- Sino‐Africa Joint Research Center Chinese Academy of Sciences Kunming China
| | - Jinmin Chen
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
| | - Edem A. Eniang
- Department of Forestry and Wildlife University of Uyo Uyo Akwa Ibom Nigeria
| | - Segun O. Oladipo
- Department of Biosciences and Biotechnology Kwara State University Malete Nigeria
| | - Omotoso Olatunde
- Department of Zoology Faculty of Science University of Ibadan Ibadan Nigeria
| | - Abiodun B. Onadeko
- Department of Zoology Faculty of Science University of Lagos Lagos Nigeria
| | - Felista Kasyoka Kilunda
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
- Kunming College of Life Science University of Chinese Academy of Sciences Kunming China
| | - Adeola O Ayoola
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
| | | | - Ifeanyi C. Nneji
- Department of Biological Sciences Faculty of Science University of Abuja FCT Abuja Nigeria
| | - Nelson U. Akwaowo
- Department of Zoology Faculty of Science University of Ibadan Ibadan Nigeria
| | | | - Jie‐Qiong Jin
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
| | - Tingting Yin
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
| | - Min‐Sheng Peng
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
- Sino‐Africa Joint Research Center Chinese Academy of Sciences Kunming China
| | | | | | - Jing Che
- State Key Laboratory of Genetic Resources and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China
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12
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Ali FS, Ismail M, Aly W. DNA barcoding to characterize biodiversity of freshwater fishes of Egypt. Mol Biol Rep 2020; 47:5865-5877. [PMID: 32661870 DOI: 10.1007/s11033-020-05657-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 07/08/2020] [Indexed: 12/16/2022]
Abstract
The current study represents the first molecular characterization of freshwater fish species in Egypt from two major fish resources; the River Nile and Lake Nasser. A total of 160 DNA barcodes using a 655-bp-long fragment of the mitochondrial cytochrome oxidase subunit I (COI) gene were generated from 37 species belonging to 32 genera that represent 15 families from nine orders. The studied species were identified using different molecular-based identification approaches, in addition to the morphological identification, including neighbor-joining (NJ) trees, Barcode Index Number, and Automatic Barcode Gap Discovery (ABGD). The average genetic divergence based on the Kimura two-parameter model (K2P) within orders, families, genera, and species were 0.175, 0.067, 0.02, and 0.008, respectively. The minimum and maximum K2P distance-based genetic divergences were 0.0 and 0.154, respectively. Nucleotide diversity (π) varied among families and ranged between 0.0% for families Malapteruridae, Auchenoglanididae, Schilbeidae, Anguillidae, Centropomidae and Tetraodontidae and 17% for family Cyprinidae. The current study cautions against the lack of species coverage at public databases which limits the accurate identification of newly surveyed species and recommends that multiple methods are encouraged for accurate species identification. The findings of the current study also support that COI barcode enabled effective fish species identification in River Nile and Lake Nasser. Moreover, the results of the current study will establish a comprehensive DNA barcode library for freshwater fishes along the River Nile in Egypt. Egyptian freshwater fish DNA barcodes will contribute substantially to future efforts in monitoring, conservation, and management of fisheries in Egypt.
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Affiliation(s)
- Fawzia S Ali
- Genetics Laboratory, Aquaculture Division, National Institute of Oceanography and Fisheries (NIOF), Cairo, Egypt.
| | - Mohamed Ismail
- Genetics Department, Faculty of Agriculture, Menoufia University, Shibin El-Kom, Egypt
| | - Walid Aly
- Fisheries Division, National Institute of Oceanography and Fisheries (NIOF), Cairo, Egypt
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13
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Gvoždík V, Nečas T, Dolinay M, Zimkus BM, Schmitz A, Fokam EB. Evolutionary history of the Cameroon radiation of puddle frogs (Phrynobatrachidae: Phrynobatrachus), with descriptions of two critically endangered new species from the northern Cameroon Volcanic Line. PeerJ 2020; 8:e8393. [PMID: 32175182 PMCID: PMC7059761 DOI: 10.7717/peerj.8393] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2019] [Accepted: 12/13/2019] [Indexed: 01/22/2023] Open
Abstract
The Cameroon Volcanic Line, a mountain chain located between West and Central Africa, is a region of numerous endemic diversifications, including of puddle frogs (Phrynobatrachus). This study reviews the phylogeny and taxonomy of puddle frogs of the "Cameroon radiation," which is a clade containing mainly montane but also at least three lowland species. Molecular data revealed a novel evolutionary lineage from high altitudes in the northern part of the mountains. Puddle frogs from the new, minute-sized (SVL < 20 mm) lineage are identified using molecular, morphological and acoustic data and described as two new species, Phrynobatrachus arcanus sp. nov. (Gotel Mountains, Cameroon-Nigeria) and P. mbabo sp. nov. (Tchabal Mbabo, Cameroon). The tadpole of the first species is also described. Phylogenetic analyses placed the new lineage to the proximity of the recently described lowland small-sized taxa (P. horsti, P. ruthbeateae). Based on the inferred phylogeny, we propose five species groups within the Cameroon radiation: P. arcanus, P. chukuchuku, P. ruthbeateae, P. steindachneri, and P. werneri. The taxonomically enigmatic P. hylaios is proposed to be a member of the P. ruthbeateae species group. The basal radiation evolved during the late Miocene with subsequent diversifications occurring during the Pliocene, while closely related terminal taxa originated during the Pleistocene. We recommend that the newly described species are categorized as Critically Endangered due to their limited ranges and because recent surveys did not identify any individuals at the type localities. This further supports the need for conservation interventions in the mountains of Cameroon and Nigeria.
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Affiliation(s)
- Václav Gvoždík
- Institute of Vertebrate Biology of the Czech Academy of Sciences, Brno, Czech Republic.,Department of Zoology, National Museum, Prague, Czech Republic
| | - Tadeáš Nečas
- Institute of Vertebrate Biology of the Czech Academy of Sciences, Brno, Czech Republic.,Department of Botany and Zoology, Masaryk University, Brno, Czech Republic
| | - Matej Dolinay
- Institute of Vertebrate Biology of the Czech Academy of Sciences, Brno, Czech Republic.,Department of Botany and Zoology, Masaryk University, Brno, Czech Republic
| | - Breda M Zimkus
- Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
| | | | - Eric B Fokam
- Department of Zoology and Animal Physiology, University of Buea, Buea, Cameroon
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14
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Abdala CS, Aguilar-Kirigin AJ, Semhan RV, Bulacios Arroyo AL, Valdes J, Paz MM, Gutiérrez Poblete R, Valladares Faundez P, Langstroth R, Aparicio J. Description and phylogeny of a new species of Liolaemus (Iguania: Liolaemidae) endemic to the south of the Plurinational State of Bolivia. PLoS One 2019; 14:e0225815. [PMID: 31790476 PMCID: PMC6886809 DOI: 10.1371/journal.pone.0225815] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 11/12/2019] [Indexed: 11/19/2022] Open
Abstract
The Liolaemus montanus group is a diverse group of lizards that ranges from central Peru to southwestern Mendoza, Argentina, including much of the Plurinational State of Bolivia ("Bolivia") and Chile. The species of this group mainly inhabit high elevation areas with cold temperatures. In the last years, several species of this group have been described, mostly in Argentina and Chile. In Bolivia, there are at least thirteen valid species belonging to the L. montanus group. In this study, we describe a new species of the L. montanus group with a marked endemism in the Cordillera de Sama of the Tarija Department, Bolivia, and a combination of unique character states that allows its formal description as a new species. The phylogenetic relationships based on analysis of 159 morphological characters suggest that it belongs to the L. montanus group, and that it is closest to Liolaemus pulcherrimus, which is found allopatrically in a small area of the Jujuy Province, Argentina. The multivariate analyses of 66 morphological characters support the phylogenetic relationships. Statistical analyses of inter-species comparisons of morphological characters are not considered the only methods due to the non-independence of some characters states among species; thus, a phylogenetic analysis is recommended. The detailed revision of specimens of the L. montanus group held in the collections of Bolivia is filling major geographic gaps and improving our understanding of the phylogenetic and biogeographic relationships of this widely distributed group of South American lizards.
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Affiliation(s)
- Cristian Simón Abdala
- Consejo Nacional de Investigación Científicas y Técnicas (CONICET)—Unidad Ejecutora Lillo (UEL), San Miguel de Tucumán, Argentina
- Facultad de Ciencias Naturales e Instituto Miguel Lillo (IML), Universidad Nacional de Tucumán, San Miguel de Tucumán, Argentina
| | - Alvaro J. Aguilar-Kirigin
- Área de Herpetología, Colección Boliviana de Fauna, Campus Universitario de Cota Cota, Facultad de Ciencias Puras y Naturales, Universidad Mayor de San Andrés, La Paz, Bolivia
| | - Romina Valeria Semhan
- Consejo Nacional de Investigación Científicas y Técnicas (CONICET)—Unidad Ejecutora Lillo (UEL), San Miguel de Tucumán, Argentina
| | - Ana Lucia Bulacios Arroyo
- Consejo Nacional de Investigación Científicas y Técnicas (CONICET)—Unidad Ejecutora Lillo (UEL), San Miguel de Tucumán, Argentina
| | - Julián Valdes
- Consejo Nacional de Investigación Científicas y Técnicas (CONICET)—Unidad Ejecutora Lillo (UEL), San Miguel de Tucumán, Argentina
- Cátedra Genética Evolutiva, Facultad de Ciencias Exactas y Naturales y Agrimensura, Universidad Nacional del Nordeste, Corrientes, Argentina
| | - Marcos Maximiliano Paz
- Consejo Nacional de Investigación Científicas y Técnicas (CONICET)—Unidad Ejecutora Lillo (UEL), San Miguel de Tucumán, Argentina
| | | | - Pablo Valladares Faundez
- Laboratorio de Zoología Integrativa, Departamento de Biología, Facultad de Ciencias, Universidad de Tarapacá, Arica, Chile
| | - Robert Langstroth
- Área de Herpetología, Colección Boliviana de Fauna, Campus Universitario de Cota Cota, Facultad de Ciencias Puras y Naturales, Universidad Mayor de San Andrés, La Paz, Bolivia
| | - James Aparicio
- Área de Herpetología, Colección Boliviana de Fauna, Campus Universitario de Cota Cota, Facultad de Ciencias Puras y Naturales, Universidad Mayor de San Andrés, La Paz, Bolivia
- Museo Nacional de Historia Natural (MNHN), Cota Cota (Ovidio Suárez), La Paz, Bolivia
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15
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Bell RC, McLaughlin PJ, Jongsma GFM, Blackburn DC, Stuart BL. Morphological and genetic variation of Leptopelis brevirostris encompasses the little-known treefrogs Leptopelis crystallinoron from Gabon and Leptopelis brevipes from Bioko Island, Equatorial Guinea. AFR J HERPETOL 2019. [DOI: 10.1080/21564574.2019.1681523] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Rayna C Bell
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | | | - Gregory FM Jongsma
- Florida Museum of Natural History, University of Florida, Gainesville, USA
| | - David C Blackburn
- Florida Museum of Natural History, University of Florida, Gainesville, USA
| | - Bryan L Stuart
- North Carolina Museum of Natural Sciences, Raleigh, NC, USA
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16
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Amaral CRL, Chaves ACS, Borges Júnior VNT, Pereira F, Silva BM, Silva DA, Amorim A, Carvalho EF, Rocha CFD. Amphibians on the hotspot: Molecular biology and conservation in the South American Atlantic Rainforest. PLoS One 2019; 14:e0224320. [PMID: 31644600 PMCID: PMC6808428 DOI: 10.1371/journal.pone.0224320] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Accepted: 10/11/2019] [Indexed: 12/01/2022] Open
Abstract
Amphibians are the focus of a recent debate and public attention owing to the global decline in their populations worldwide. Amphibians are one of the most threatened and poorly known groups of vertebrates in several geographic areas, even though they play a central role in their own ecosystems. At different levels, amphibians make their contribution to proper ecosystem functioning. They act as regulators of the food web and nutrient cycling, and they also provide several valuable ecosystem services, e.g., as a food source and as animal models for lab research. In this sense, it seems clear that the maintenance of amphibian diversity should be one of the major goals for the several countries where their population decline is observed. However, we are still struggling with the very first step of this process, i.e., the correct identification of the amphibian species diversity. Over the past few decades, research on molecular identification of amphibians using DNA barcoding has encountered some difficulties related to high variability in the mitochondrial genome of amphibians, and a research gap is noticeable in the literature. We herein evaluated both COI and 16S rRNA mitochondrial genes for the molecular identification of frogs and tadpoles in a large fragment of the South American Atlantic Rainforest in Rio de Janeiro, Brazil. Our results suggest that both COI and 16S rRNA are informative markers for the molecular identification of the amphibian specimens with all specimens unambiguously identified at the species level. We also made publicly available 12 new sequences of Atlantic Rainforest amphibian species for the first time, and we discussed some conservation issues related to amphibians within the Atlantic Rainforest domains in the state of Rio de Janeiro, Brazil.
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Affiliation(s)
- Cesar R. L. Amaral
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Anna C. S. Chaves
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Vitor N. T. Borges Júnior
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Filipe Pereira
- Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), University of Porto, Porto, Portugal
| | - Bruna M. Silva
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Dayse A. Silva
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - António Amorim
- Instituto de Patologia Molecular e Imunologia (IPATIMUP) / Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal
- Faculdade de Ciências, Universidade do Porto, Porto, Portugal
| | - Elizeu F. Carvalho
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Carlos F. D. Rocha
- Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, Brazil
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Hofmann EP, Nicholson KE, Luque-Montes IR, Köhler G, Cerrato-Mendoza CA, Medina-Flores M, Wilson LD, Townsend JH. Cryptic Diversity, but to What Extent? Discordance Between Single-Locus Species Delimitation Methods Within Mainland Anoles (Squamata: Dactyloidae) of Northern Central America. Front Genet 2019; 10:11. [PMID: 30804976 PMCID: PMC6378269 DOI: 10.3389/fgene.2019.00011] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2018] [Accepted: 01/11/2019] [Indexed: 01/10/2023] Open
Abstract
Single-locus molecular barcoding is a useful method for identifying overlooked and undescribed biodiversity, providing the groundwork for further systematic study and taxonomic investigation. A variety of methods for delimiting species from barcoding libraries have been developed and applied, allowing for rapid estimates of species diversity in a broad range of taxa. However, tree-based and distance-based analyses can infer different group assignments, potentially over- or underestimating the number of putative species groups. Here, we explore diversity of mainland species of anole lizards from the Chortís Block biogeographical province of northern Central America using a DNA barcoding approach, generating and analyzing cytochrome oxidase subunit I (COI) sequences for over 400 samples assignable to 33 of 38 (86.8%) native and one introduced mainland species. We subsequently tested the effects different models of nucleotide substitution, different species-delimitation algorithms, and reducing our dataset had on species delimitation estimates. We performed of two distance-based (ABGD, RESL) and three tree-based (bPTP, mPTP, GMYC) analyses on both the full dataset and a dataset consisting only of unique halotypes. From 34 nominal taxa, analyses of the full dataset recovered between 34 and 64 operational taxonomic units (OTUs), while analyses of the reduced dataset inferred between 36 and 59. Reassigning individuals to either mPTP-inferred or ABGD clustered (7.2% threshold) groups improved the detection of a barcoding gap across three different models of nucleotide substitution, removing overlap between intra- and interspecific distances. Our results highlight the underestimated diversity of mainland Chortís Block anoles, but the lack of congruence between analyses demonstrates the importance of considering multiple analytical methods when dealing with single-locus datasets. We recommend future studies consider the effects of different models of nucleotide substitution on proposed barcoding gaps, as well as the effect reducing a dataset to unique haplotypes may have on proposed diversity estimates.
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Affiliation(s)
- Erich P. Hofmann
- Department of Biology, Indiana University of Pennsylvania, Indiana, PA, United States
- Department of Biological Sciences, Clemson University, Clemson, SC, United States
| | - Kirsten E. Nicholson
- Department of Biology, Central Michigan University, Mount Pleasant, MI, United States
| | | | - Gunther Köhler
- Senckenberg Forschungsinstitut und Naturmuseum, Frankfurt, Germany
| | - César A. Cerrato-Mendoza
- Federación Hondureña de Deportes de Montaña Y Escalada, Departamento de Francisco Morazán, Tegucigalpa, Honduras
| | - Melissa Medina-Flores
- Federación Hondureña de Deportes de Montaña Y Escalada, Departamento de Francisco Morazán, Tegucigalpa, Honduras
| | - Larry David Wilson
- Centro Zamorano de Biodiversidad, Escuela Agrícola Panamericana Zamorano, Departamento de Francisco Morazán, Tegucigalpa, Honduras
| | - Josiah H. Townsend
- Department of Biology, Indiana University of Pennsylvania, Indiana, PA, United States
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18
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Nneji LM, Adeola AC, Okeyoyin AO, Oladipo OC, Saidu Y, Usongo JY, Ugwumba AAA. Assessing the effectiveness of molecular data for species identification and diversity studies of Nigerian herpetofauna. MITOCHONDRIAL DNA PART B-RESOURCES 2019. [DOI: 10.1080/23802359.2018.1561219] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Lotanna M. Nneji
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
| | - Adeniyi C. Adeola
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
| | - Agboola O. Okeyoyin
- National Park Service Headquarter, Abuja, Federal Capital Territory, Nigeria
| | | | | | - John Y. Usongo
- Department of Zoology, Modibbo Adama University of Technology, Yola, Nigeria
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19
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Tougard C, Justy F, Guinand B, Douzery EJP, Berrebi P. Salmo macrostigma (Teleostei, Salmonidae): Nothing more than a brown trout (S. trutta) lineage? JOURNAL OF FISH BIOLOGY 2018; 93:302-310. [PMID: 29992566 DOI: 10.1111/jfb.13751] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Accepted: 03/07/2018] [Indexed: 06/08/2023]
Abstract
We examined specimens of the macrostigma trout Salmo macrostigma, which refers to big black spots on the flanks, to assess whether it is an example of taxonomic inflation within the brown trout Salmo trutta complex. Using new specimens, publicly available data and a mitogenomic protocol to amplify the control and cytochrome b regions of the mitochondrial genome from degraded museum samples, including one syntype specimen, the present study shows that the macrostigma trout is not a valid species. Our results suggest the occurrence of a distinct evolutionary lineage of S. trutta in North Africa and Sicily. The name of the North African lineage is proposed for this lineage, which was found to be sister to the Atlantic lineage of brown trout, S. trutta.
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Affiliation(s)
| | - Fabienne Justy
- ISEM, CNRS, Université de Montpellier, IRD, EPHE, Montpellier, France
| | - Bruno Guinand
- ISEM, CNRS, Université de Montpellier, IRD, EPHE, Montpellier, France
| | | | - Patrick Berrebi
- ISEM, CNRS, Université de Montpellier, IRD, EPHE, Montpellier, France
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20
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Mulcahy DG, Lee JL, Miller AH, Chand M, Thura MK, Zug GR. Filling the BINs of life: Report of an amphibian and reptile survey of the Tanintharyi (Tenasserim) Region of Myanmar, with DNA barcode data. Zookeys 2018:85-152. [PMID: 29780268 PMCID: PMC5958176 DOI: 10.3897/zookeys.757.24453] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Accepted: 04/09/2018] [Indexed: 11/12/2022] Open
Abstract
Despite threats of species extinctions, taxonomic crises, and technological advances in genomics and natural history database informatics, we are still distant from cataloguing all of the species of life on earth. Amphibians and reptiles are no exceptions; in fact new species are described nearly every day and many species face possible extinction. The number of described species continues to climb as new areas of the world are explored and as species complexes are examined more thoroughly. The use of DNA barcoding provides a mechanism for rapidly estimating the number of species at a given site and has the potential to record all of the species of life on Earth. Though DNA barcoding has its caveats, it can be useful to estimate the number of species in a more systematic and efficient manner, to be followed in combination with more traditional, morphology-based identifications and species descriptions. Herein, we report the results of a voucher-based herpetological expedition to the Tanintharyi (Tenasserim) Region of Myanmar, enhanced with DNA barcode data. Our main surveys took place in the currently proposed Tanintharyi National Park. We combine our results with photographs and observational data from the Chaung-nauk-pyan forest reserve. Additionally, we provide the first checklist of amphibians and reptiles of the region, with species based on the literature and museum. Amphibians, anurans in particular, are one of the most poorly known groups of vertebrates in terms of taxonomy and the number of known species, particularly in Southeast Asia. Our rapid-assessment program combined with DNA barcoding and use of Barcode Index Numbers (BINs) of voucher specimens reveals the depth of taxonomic diversity in the southern Tanintharyi herpetofauna even though only a third of the potential amphibians and reptiles were seen. A total of 51 putative species (one caecilian, 25 frogs, 13 lizards, 10 snakes, and two turtles) were detected, several of which represent potentially undescribed species. Several of these species were detected by DNA barcode data alone. Furthermore, five species were recorded for the first time in Myanmar, two amphibians (Ichthyophis cf. kohtaoensis and Chalcorana eschatia) and three snakes (Ahaetulla mycterizans, Boiga dendrophila, and Boiga drapiezii).
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Affiliation(s)
- Daniel G Mulcahy
- Global Genome Initiative, National Museum of Natural History, Smithsonian Institution, 10th & Constitution Ave., Washington, DC, 20013 USA
| | - Justin L Lee
- College of Computer, Mathematical and Natural Sciences, University of Maryland, College Park Maryland, 20742 USA
| | - Aryeh H Miller
- Department of Biology, University of North Carolina Asheville, Asheville, NC 28804 USA
| | - Mia Chand
- College of William & Mary, Williamsburg, Virginia, 23187 USA
| | - Myint Kyaw Thura
- Myanmar Environment Sustainable Conservation (MESC), Yangon, Myanmar
| | - George R Zug
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, 20013 USA
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