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Medeiros LADE, Gentil E, Kaefer IL, Cohn-Haft M. Distribution and diversification of Adelphobates, emblematic poison frogs from Brazilian Amazonia. AN ACAD BRAS CIENC 2024; 96:e20230659. [PMID: 38655924 DOI: 10.1590/0001-3765202320230659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2023] [Accepted: 11/16/2023] [Indexed: 04/26/2024] Open
Abstract
Adelphobates contains three species, and the inaccurate identification of A. quinquevittatus and the scarcity of records of A. castaneoticus complicate inference of their distributions; the latter species occurs in sympatry with A. galactonotus. Our objective was to revise the distributions of Adelphobates by compiling data and modeling habitat suitability, as range limits may be shaped by landscape features and biotic interactions. We initially analyzed the existence of operational taxonomic units within the nominal species and subsequently inferred the observed and potential distributions, taking into account the possible independent lineages for the three species, and we also generated a molecular timetree to understand the chronology of interspecific diversification events. Adelphobates quinquevittatus was found to have a more easterly distribution than previously described, and specimens with phenotypic variation were found to occur in areas inconsistent with the modeling, and A. castaneoticus was concentrated in the Tapajós-Xingu interfluve, surrounded by A. galactonotus. Models indicated that the right bank of the Xingu River is suitable for both species, indeed, both were found there. Despite Adelphobates species having their distributions delimited by major Amazonian rivers, estimated divergence times predate the formation of the modern river network, suggesting that other mechanisms were involved in their diversification.
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Affiliation(s)
- Larissa A DE Medeiros
- Instituto Nacional de Pesquisas da Amazônia, Programa de Pós-Graduação em Ecologia, Av. André Araújo, 2936, Petrópolis, 69067-375 Manaus, AM, Brazil
| | - Eduardo Gentil
- Instituto Nacional de Pesquisas da Amazônia, Programa de Pós-Graduação em Ecologia, Av. André Araújo, 2936, Petrópolis, 69067-375 Manaus, AM, Brazil
| | - Igor L Kaefer
- Instituto Nacional de Pesquisas da Amazônia, Programa de Pós-Graduação em Ecologia, Av. André Araújo, 2936, Petrópolis, 69067-375 Manaus, AM, Brazil
- Universidade Federal do Amazonas, Instituto de Ciências Biológicas, Av. Rodrigo Otávio, 6200, Coroado I, 69077-000 Manaus, AM, Brazil
| | - Mario Cohn-Haft
- Instituto Nacional de Pesquisas da Amazônia, Programa de Pós-Graduação em Ecologia, Av. André Araújo, 2936, Petrópolis, 69067-375 Manaus, AM, Brazil
- Instituto Nacional de Pesquisas da Amazônia, Coleção de Aves, Coordenação de Pesquisas em Biodiversidade, Av. André Araújo, 2936, Petrópolis, 69067-375 Manaus, AM, Brazil
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Vacher JP, Kok PJR, Rodrigues MT, Lima A, Hrbek T, Werneck FP, Manzi S, Thébaud C, Fouquet A. Diversification of the terrestrial frog genus Anomaloglossus (Anura, Aromobatidae) in the Guiana Shield proceeded from highlands to lowlands, with successive loss and reacquisition of endotrophy. Mol Phylogenet Evol 2024; 192:108008. [PMID: 38181828 DOI: 10.1016/j.ympev.2023.108008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2022] [Revised: 09/23/2023] [Accepted: 12/30/2023] [Indexed: 01/07/2024]
Abstract
Two main landscapes emerge from the Guiana Shield: the highlands to the west called the Pantepui region and the Amazonian lowlands to the east, both harbouring numerous endemic species. With 32 currently recognized species, the genus Anomaloglossus stands out among Neotropical frogs as one that diversified only within the Guiana Shield both in the highlands and the lowlands. We present a time-calibrated phylogeny obtained by using combined mitogenomic and nuclear DNA, which suggests that the genus originates from Pantepui where extant lineages started diversifying around 21 Ma, and subsequently (ca. 17 Ma) dispersed during the Miocene Climatic Optimum to the lowlands of the eastern Guiana Shield where the ability to produce endotrophic tadpoles evolved. Further diversification within the lowlands in the A. stepheni group notably led to an evolutionary reversal toward exotrophy in one species group during the late Miocene, followed by reacquisition of endotrophy during the Pleistocene. These successive shifts of reproductive mode seem to have accompanied climatic oscillations. Long dry periods might have triggered evolution of exotrophy, whereas wetter climates favoured endotrophic forms, enabling colonization of terrestrial habitats distant from water. Acquisition, loss, and reacquisition of endotrophy makes Anomaloglossus unique among frogs and may largely explain the current species diversity. The micro evolutionary processes involved in these rapid shifts of reproductive mode remain to be revealed.
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Affiliation(s)
- Jean-Pierre Vacher
- Centre de Recherche sur la Biodiversité et l'Environnement (CRBE), UMR 5300 CNRS-IRD-TINP-UPS3, Université Paul Sabatier, Toulouse, France.
| | - Philippe J R Kok
- Department of Ecology and Vertebrate Zoology, Faculty of Biology and Environmental Protection, University of Łódź, 12/16 Banacha Str, Łódź 90-237, Poland; Department of Life Sciences, The Natural History Museum, Cromwell Road, London SW7 5BD, United Kingdom
| | - Miguel Trefaut Rodrigues
- Universidade de São Paulo, Instituto de Biociências, Departamento de Zoologia, Caixa Postal 11.461, CEP 05508-090 São Paulo, Brazil
| | - Albertina Lima
- Instituto Nacional de Pesquisas da Amazônia, Coordenação de Biodiversidade, Avenida André Araújo 2936, 69080-971 Manaus, AM, Brazil
| | - Tomas Hrbek
- Departamento de Biologia, Instituto de Ciências Biológicas, Universidade Federal do Amazonas, 69080-900 Manaus, AM, Brazil
| | - Fernanda P Werneck
- Instituto Nacional de Pesquisas da Amazônia, Coordenação de Biodiversidade, Avenida André Araújo 2936, 69080-971 Manaus, AM, Brazil
| | - Sophie Manzi
- Centre de Recherche sur la Biodiversité et l'Environnement (CRBE), UMR 5300 CNRS-IRD-TINP-UPS3, Université Paul Sabatier, Toulouse, France
| | - Christophe Thébaud
- Centre de Recherche sur la Biodiversité et l'Environnement (CRBE), UMR 5300 CNRS-IRD-TINP-UPS3, Université Paul Sabatier, Toulouse, France
| | - Antoine Fouquet
- Centre de Recherche sur la Biodiversité et l'Environnement (CRBE), UMR 5300 CNRS-IRD-TINP-UPS3, Université Paul Sabatier, Toulouse, France
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Fouquet A, Ferrão M, Jairam R. Two new species of Allobates of the trilineatus clade (Anura: Aromobatidae) from the Eastern Guiana Shield. Zootaxa 2023; 5297:533-561. [PMID: 37518780 DOI: 10.11646/zootaxa.5297.4.4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Indexed: 08/01/2023]
Abstract
The actual diversity of anurans occurring in Amazonia remains only partly described. This is notably the case of the species of the genus Allobates despite a fast rate of species description in this genus during the last decade. This increasing taxonomic effort has been particularly facilitated by the availability of DNA sequences throughout the region. These data suggest for instance the existence of three lineages in the Guiana Shield that may correspond to unnamed species. We examined morphology and calls of these putative species and compared them to related nominal species, which confirmed that two of these lineages not only differ genetically but also morphologically and bioacoustically. These two species are thus named and described herein. Allobates vicinus sp. nov. from northern Suriname forms a clade with another candidate species from southern Suriname and Northern Pará, (Brazil) and with A. granti that occurs in French Guiana. Allobates ripicolus sp. nov. occurs throughout the eastern Guiana Shield and is nested within the A. tapajos complex which otherwise occurs in southeastern Amazonia and comprises A. tapajos and A. kamilae, along with three additional candidate species.
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Affiliation(s)
- Antoine Fouquet
- Laboratoire Evolution et Diversité Biologique; UMR 5174; CNRS; IRD; Université Paul Sabatier; Bâtiment 4R1 31062 cedex 9; 118 Route de Narbonne; 31077 Toulouse; France.
| | - Miquéias Ferrão
- Museum of Comparative Zoology; Harvard University; Cambridge; MA; 02138; USA.
| | - Rawien Jairam
- National Zoological Collection Suriname (NZCS); Anton de Kom University of Suriname; Paramaribo; Suriname.
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Carvalho TR, Fouquet A, Lyra ML, Giaretta AA, Costa-Campos CE, Rodrigues MT, Haddad CFB, Ron SR. Species diversity and systematics of the Leptodactylus melanonotus group (Anura, Leptodactylidae): review of diagnostic traits and a new species from the Eastern Guiana Shield. SYST BIODIVERS 2022. [DOI: 10.1080/14772000.2022.2089269] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Thiago R. Carvalho
- Laboratório de Herpetologia, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Universidade Estadual Paulista, Rio Claro, SP, Brazil
| | - Antoine Fouquet
- Laboratoire Evolution et Diversité Biologique, Université Paul Sabatier, Toulouse, France
| | - Mariana L. Lyra
- Laboratório de Herpetologia, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Universidade Estadual Paulista, Rio Claro, SP, Brazil
| | - Ariovaldo A. Giaretta
- Laboratório de Taxonomia e Evolução de Anuros Neotropicais, Instituto de Ciências Exatas e Naturais do Pontal, Universidade Federal de Uberlândia, Ituiutaba, MG, Brazil
| | - C. Eduardo Costa-Campos
- Laboratório de Herpetologia, Departamento de Ciências Biológicas e da Saúde, Universidade Federal do Amapá, Macapá, AP, Brazil
| | - Miguel T. Rodrigues
- Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Célio F. B. Haddad
- Laboratório de Herpetologia, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Universidade Estadual Paulista, Rio Claro, SP, Brazil
| | - Santiago R. Ron
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
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Fouquet A, Réjaud A, Rodrigues MT, Ron SR, Chaparro JC, Osorno M, Werneck FP, Hrbek T, Lima AP, Camacho-Badani T, Jaramillo-Martinez AF, Chave J. Diversification of the Pristimantis conspicillatus group (Anura: Craugastoridae) within distinct neotropical areas throughout the Neogene. SYST BIODIVERS 2022. [DOI: 10.1080/14772000.2022.2130464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Antoine Fouquet
- Laboratoire Evolution et Diversité Biologique, UMR 5174, CNRS, IRD, Université Paul Sabatier, Bâtiment 4R1, 118 Route de Narbonne, Toulouse, 31077, France
| | - Alexandre Réjaud
- Laboratoire Evolution et Diversité Biologique, UMR 5174, CNRS, IRD, Université Paul Sabatier, Bâtiment 4R1, 118 Route de Narbonne, Toulouse, 31077, France
| | - Miguel T. Rodrigues
- Departamento de Zoologia, Universidade de São Paulo Instituto de Biociências, São Paulo, SP, Brazil
| | - Santiago R. Ron
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - Juan C. Chaparro
- Museo de Biodiversidad del Perú, Urbanización Mariscal Gamarra A-61, Zona 2, Cusco, Peru
- Museo de Historia Natural de la Universidad Nacional de San Antonio Abad del Cusco, Paraninfo Universitario (Plaza de Armas s/n), Cusco, Perú
| | - Mariela Osorno
- Instituto Amazónico de Investigaciones Científicas SINCHI, Sede enlace. Calle 20 # 5-44, Bogotá, Colombia
| | - Fernanda P. Werneck
- Instituto Nacional de Pesquisas da Amazônia, Coordenação de Biodiversidade, Avenida André Araújo 2936, Manaus, 69080-971, AM, Brazil
| | - Tomas Hrbek
- Departamento de Genética, Instituto de Ciências Biológicas, Universidade Federal do Amazonas, Manaus, 69080-900, AM, Brazil
| | - Albertina P. Lima
- Instituto Nacional de Pesquisas da Amazônia, Coordenação de Biodiversidade, Avenida André Araújo 2936, Manaus, 69080-971, AM, Brazil
| | | | - Andres F. Jaramillo-Martinez
- Laboratório de Sistemática de Vertebrados, Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Av. Ipiranga 6681, Prédio 40, sala 110, Porto Alegre, 90619-900, RS, Brazil
| | - Jérôme Chave
- Laboratoire Evolution et Diversité Biologique, UMR 5174, CNRS, IRD, Université Paul Sabatier, Bâtiment 4R1, 118 Route de Narbonne, Toulouse, 31077, France
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Ortega JA, Brito J, Ron SR. Six new species of Pristimantis (Anura: Strabomantidae) from Llanganates National Park and Sangay National Park in Amazonian cloud forests of Ecuador. PeerJ 2022; 10:e13761. [PMID: 36275471 PMCID: PMC9583859 DOI: 10.7717/peerj.13761] [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: 03/03/2022] [Accepted: 06/29/2022] [Indexed: 01/17/2023] Open
Abstract
We describe six new species of rainfrogs of the genus Pristimantis (Strabomantidae) from Amazonian cloud forests in Ecuador. We also present a phylogeny showing the relationships of the new species. The phylogeny is based on mitochondrial genes 16S rRNA (16S), 12 rRNA (12S), NADH-ubiquinone oxidoreductase chain 1 (ND1) and the nuclear gene recombination-activating 1 (RAG1). We also describe the osteology of two of the new species using high-resolution x-ray computed tomography. The new species belong to two clades. The first clade is sister to the subgenus Huicundomantis and includes P. tamia sp. nov., P. miktos, and P. mallii. Pristimantis tamia sp. nov. is morphologically similar to P. miktos, P. mallii, P. martiae, and P. incomptus, but differs from them by lacking vocal slits and tympanic membrane and by having light greenish blue iris. Based in our results we expand the subgenus Huicundomantis to include the P. miktos species group. The second clade is remarkable by being highly divergent and consisting exclusively of new species: P. anaiae sp. nov., P. glendae sp. nov., P. kunam sp. nov., P. resistencia sp. nov., and P. venegasi sp. nov. The new species resemble P. roni, P. yanezi, P. llanganati, P. katoptroides, P. verecundus, and P. mutabilis but can be distinguished from them by lacking vocal slits and tympanic membrane and by having large dark round areas with thin clear borders in the sacral region. All six new species occur in the eastern slopes of the Ecuadorian Andes and are known from a single locality in Llanganates or Sangay National Park. We recommend assigning all of them to the Data Deficient (DD) Red List category. Based in our high-resolution x-ray tomographies, we report the presence of structures that appear to be intercalary elements. This would be the first report of such structures in Terrarana.
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Affiliation(s)
- Jhael A. Ortega
- Museo de Zoología, Escuela de Biología, Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Pichincha, Ecuador
| | - Jorge Brito
- Instituto Nacional de Biodiversidad (INABIO), Quito, Pichincha, Ecuador
| | - Santiago R. Ron
- Museo de Zoología, Escuela de Biología, Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Pichincha, Ecuador
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Porto CR, Fazolato CP, Marques R, Batalha-Filho H, Napoli MF, Garda AA, de Carvalho MLS, de Campos Fernandes FM. Unravelling the cryptic diversity and evolution of the dwarf swamp frog Pseudopaludicola mystacalis (Anura, Leptodactylidae) in open habitats of South America. AMPHIBIA-REPTILIA 2022. [DOI: 10.1163/15685381-bja10099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Abstract
Many studies on the diversity of the South American biota support the role of ecological and geological events as main drivers of species diversification. For many groups, geomorphological events are the key drivers of diversification, while the influence of Pleistocene climate oscillations is prominent for others. To precisely indicate which events were key for the development of the astonishing biodiversity in South America, studies on widely distributed species are paramount. One such species, the dwarf swamp frog Pseudopaludicola mystacalis (Leptodactylidae, Leiuperinae), is widely distributed in open habitats of South America and we herein investigate population differentiation and diversification in this species across its geographic range. We sequenced a 1374 bp mtDNA fragment from 64 specimens across 25 localities. We used population assignment and species delimitation methods to assess genetic structure and lineage limits across the species distribution. We estimated, for each lineage, intraspecific diversity, divergence times, and demographic histories. Our results recovered ten lineages with up to 5% of genetic divergence among them. Diversification occurred mainly during the Tertiary, suggesting that Miocene-Pliocene topographic events had a major influence on the diversification of P. mystacalis. Pleistocene climatic oscillations also played a role on evolutionary history of P. mystacalis, causing demographic changes in one lineage.
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Affiliation(s)
- Clara Ribeiro Porto
- Universidade Federal da Bahia, Programa de Pós-Graduação em Genética e Biodiversidade, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
| | - Cecil Pergentino Fazolato
- Universidade Federal da Bahia, Programa de Pós-Graduação em Biodiversidade e Evolução, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
| | - Ricardo Marques
- Universidade do Estado de Mato Grosso, 78690-000, Nova Xavantina, Mato Grosso, Brazil
| | - Henrique Batalha-Filho
- Universidade Federal da Bahia, Programa de Pós-Graduação em Biodiversidade e Evolução, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
| | - Marcelo Felgueiras Napoli
- Universidade Federal da Bahia, Programa de Pós-Graduação em Biodiversidade e Evolução, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
| | - Adrian Antonio Garda
- Universidade Federal do Rio Grande do Norte, Centro de Biociências, Departamento de Botânica e Zoologia, Avenida Senador Salgado Filho, S/N, Lagoa Nova, 59078-900, Natal, RN, Brazil
| | - Maria Luiza Silveira de Carvalho
- Universidade Federal da Bahia, Programa de Pós-Graduação em Genética e Biodiversidade, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
- Universidade Federal da Bahia, Programa de Pós-Graduação em Biodiversidade e Evolução, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
| | - Flora Maria de Campos Fernandes
- Universidade Federal da Bahia, Programa de Pós-Graduação em Genética e Biodiversidade, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
- Universidade Federal da Bahia, Programa de Pós-Graduação em Biodiversidade e Evolução, Instituto de Biologia, Rua Barão de Jeremoabo, s/n, 40170-115, Ondina, Salvador, Bahia, Brazil
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Fouquet A, Peloso P, Jairam R, Lima AP, Mônico AT, Ernst R, Kok PJR. Back from the deaf: integrative taxonomy revalidates an earless and mute species, Hylodes grandoculis van Lidth de Jeude, 1904, and confirms a new species of Pristimantis Jiménez de la Espada, 1870 (Anura: Strabomantidae) from the Eastern Guiana Shield. ORG DIVERS EVOL 2022. [DOI: 10.1007/s13127-022-00564-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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9
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The influence of geography in the cranial diversification of the bulldog bats of the genus Noctilio (Noctilionidae: Chiroptera). ORG DIVERS EVOL 2022. [DOI: 10.1007/s13127-022-00567-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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10
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Silva DC, Oliveira HFM, Zangrandi PL, Domingos FMCB. Flying Over Amazonian Waters: The Role of Rivers on the Distribution and Endemism Patterns of Neotropical Bats. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.774083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
The Amazon comprises many of the largest rivers in the planet and also houses some of the richest bat communities in the world. Rivers are important geographic barriers for the dispersal and distribution of different taxa worldwide and, particularly in the Amazon region, they form the conceptual and empirical bases for the recognition of the so-called Areas of Endemism of terrestrial vertebrates. Despite the vast literature on the role of rivers on vertebrate community structure in the Amazon Forest, this process has never been investigated using a comprehensive dataset of Neotropical bat communities in the region. In this study, we aimed at: (1) evaluating the patterns of bat endemism across the Amazon Forest; (2) testing for the relationship between the distribution of bat species in the Amazon and the interfluve Areas of Endemism as currently recognized, and; (3) analyzing the importance of major Amazonian rivers in bat beta-diversity (turnover and nestedness) in the Amazon. Our results indicate that rivers are not major barriers for the current distribution of most bat species, and bat community composition breaks were divided into two clusters separating the east and west regions, and a third cluster in northern Amazon. In addition, there was no significant overlap among species distribution limits and the interfluve Areas of Endemism. Interestingly, the geographic patterns that we found for bat communities composition breaks highly resembles the one recovered using bird communities, suggesting that similar ecological and historical drivers might be acting to determine the distribution of flying vertebrates in the Amazon. Moreover, Amazonian bat distribution and endemism patterns were likely shaped by factors other than rivers, such as species interactions and the current environmental conditions. In conclusion, our results highlight the importance of modern analytical approaches to investigate large scale ecological patterns in the Neotropical region, and also challenge the widely recognized role of rivers on the determination of community structure and endemism patterns in the Amazon Forest, at least for bats.
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Pereira EA, Ceron K, Silva HR, Santana DJ. The dispersal between Amazonia and Atlantic Forest during the Early Neogene revealed by the biogeography of the treefrog tribe Sphaenorhynchini (Anura, Hylidae). Ecol Evol 2022; 12:e8754. [PMID: 35386873 PMCID: PMC8975791 DOI: 10.1002/ece3.8754] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 01/18/2022] [Accepted: 03/04/2022] [Indexed: 11/11/2022] Open
Affiliation(s)
- Elvis Almeida Pereira
- Laboratório de Herpetologia Departamento de Biologia Animal Universidade Federal Rural do Rio de Janeiro Rio de Janeiro Brazil
- Mapinguari ‐ Laboratório de Biogeografia e Sistemática de Anfíbios e Répteis Universidade Federal de Mato Grosso do Sul Campo Grande Brazil
- Laboratório de Genética e Biodiversidade Universidade Federal do Oeste do Pará Santarém Brazil
| | - Karoline Ceron
- Mapinguari ‐ Laboratório de Biogeografia e Sistemática de Anfíbios e Répteis Universidade Federal de Mato Grosso do Sul Campo Grande Brazil
- Departamento de Biologia Animal Universidade Estadual de Campinas (UNICAMP) São Paulo Brazil
| | - Hélio Ricardo Silva
- Laboratório de Herpetologia Departamento de Biologia Animal Universidade Federal Rural do Rio de Janeiro Rio de Janeiro Brazil
| | - Diego José Santana
- Mapinguari ‐ Laboratório de Biogeografia e Sistemática de Anfíbios e Répteis Universidade Federal de Mato Grosso do Sul Campo Grande Brazil
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Ferrão M, de Souza RA, Colatreli OP, Hanken J, Lima AP. Hidden in the litter: cryptic diversity of the leaf-litter toad Rhinella castaneotica– proboscidea complex revealed through integrative taxonomy, with description of a new species from south-western Amazonia. SYST BIODIVERS 2022. [DOI: 10.1080/14772000.2022.2039317] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Miquéias Ferrão
- Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
- Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Manaus, Amazonas, Brazil
| | - Romildo Augusto de Souza
- Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Manaus, Amazonas, Brazil
| | - Olavo Pinhatti Colatreli
- Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Manaus, Amazonas, Brazil
| | - James Hanken
- Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
| | - Albertina Pimentel Lima
- Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Manaus, Amazonas, Brazil
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Magalhães FDM, Camurugi F, Lyra ML, Baldo D, Gehara M, Haddad CFB, Garda AA. Ecological divergence and synchronous Pleistocene diversification in the widespread South American butter frog complex. Mol Phylogenet Evol 2022; 169:107398. [PMID: 35031468 DOI: 10.1016/j.ympev.2022.107398] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Revised: 10/31/2021] [Accepted: 11/15/2021] [Indexed: 11/19/2022]
Abstract
Phylogeographic studies primarily focus on the major role of landscape topography in driving lineage diversification. However, populational phylogeographic breaks may also occur as a result of either niche conservatism or divergence, in the absence of geographic barriers to gene flow. Furthermore, these two factors are not mutually exclusive and can act in concert, making it challenging to evaluate their relative importance on explaining genetic variation in nature. Herein, we use sequences of two mitochondrial and four nuclear genes to investigate the timing and diversification patterns of species pertaining to the Leptodactylus latrans complex, which harbors four morphologically cryptic species with broad distributions across environmental gradients in eastern South America. The origin of this species complex dates back to the late Miocene (ca. 5.5 Mya), but most diversification events occurred synchronically during the late Pleistocene likely as the result of ecological divergence driven by Quaternary climatic oscillations. Further, significant patterns of environmental niche divergences among species in the L. latrans complex imply that ecological isolation is the primary mode of genetic diversification, mostly because phylogenetic breaks are associated with environmental transitions rather than topographic barriers at both species and populational scale. We provided new insights about diversification patterns and processes within a species complex of broadly and continuously distributed group of frogs along South America.
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Affiliation(s)
- Felipe de M Magalhães
- Programa de Pós-Graduação em Ciências Biológicas, Universidade Federal da Paraíba-UFPB, Centro de Ciências Exatas e da Natureza, Cidade Universitária, 58000-000 João Pessoa, Paraiba, Brazil; Earth and Environmental Sciences, Ecology and Evolution, Rutgers University-Newark 195 University Ave, Newark, NJ 07102, USA.
| | - Felipe Camurugi
- Instituto de Biociências, Universidade Federal de Mato Grosso do Sul, Cidade Universitária, 79070-900, Campo Grande, Mato Grosso do Sul, Brazil
| | - Mariana L Lyra
- Instituto de Biociências, Universidade Estadual Paulista, Campus Rio Claro, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Laboratório de Herpetologia, Cx. Postal 199, 13506-900 Rio Claro, São Paulo, Brazil
| | - Diego Baldo
- Instituto de Biología Subtropical (IBS, CONICET-UNaM), Laboratorio de Genética Evolutiva, Facultad de Ciencias Exactas, Universidad Nacional de Misiones, Félix de Azara 1552, CPA N3300LQF Posadas, Misiones, Argentina
| | - Marcelo Gehara
- Earth and Environmental Sciences, Ecology and Evolution, Rutgers University-Newark 195 University Ave, Newark, NJ 07102, USA
| | - Célio F B Haddad
- Instituto de Biociências, Universidade Estadual Paulista, Campus Rio Claro, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Laboratório de Herpetologia, Cx. Postal 199, 13506-900 Rio Claro, São Paulo, Brazil
| | - Adrian A Garda
- Laboratório de Anfíbios e Répteis (LAR), Departamento de Botânica e Zoologia da Universidade Federal do Rio Grande do Norte, Campus Universitário. Lagoa Nova, 59078-900 Natal, Rio Grande do Norte, Brazil
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14
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Bourke BP, Justi SA, Caicedo-Quiroga L, Pecor DB, Wilkerson RC, Linton YM. Phylogenetic analysis of the Neotropical Albitarsis Complex based on mitogenome data. Parasit Vectors 2021; 14:589. [PMID: 34838107 PMCID: PMC8627034 DOI: 10.1186/s13071-021-05090-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Accepted: 11/08/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Some of the most important malaria vectors in South America belong to the Albitarsis Complex (Culicidae; Anophelinae; Anopheles). Understanding the origin, nature, and geographical distribution of species diversity in this important complex has important implications for vector incrimination, control, and management, and for modelling future responses to climate change, deforestation, and human population expansion. This study attempts to further explore species diversity and evolutionary history in the Albitarsis Complex by undertaking a characterization and phylogenetic analysis of the mitogenome of all 10 putative taxa in the Albitarsis Complex. METHODS Mitogenome assembly and annotation allowed for feature comparison among Albitarsis Complex and Anopheles species. Selection analysis was conducted across all 13 protein-coding genes. Maximum likelihood and Bayesian inference methods were used to construct gene and species trees, respectively. Bayesian methods were also used to jointly estimate species delimitation and species trees. RESULTS Gene composition and order were conserved across species within the complex. Unique signatures of positive selection were detected in two species-Anopheles janconnae and An. albitarsis G-which may have played a role in the recent and rapid diversification of the complex. The COI gene phylogeny does not fully recover the mitogenome phylogeny, and a multispecies coalescent-based phylogeny shows that considerable uncertainty exists through much of the mitogenome species tree. The origin of divergence in the complex dates to the Pliocene/Pleistocene boundary, and divergence within the distinct northern South American clade is estimated at approximately 1 million years ago. Neither the phylogenetic trees nor the delimitation approach rejected the 10-species hypothesis, although the analyses could not exclude the possibility that four putative species with scant a priori support (An. albitarsis G, An. albitarsis H, An. albitarsis I, and An. albitarsis J), represent population-level, rather than species-level, splits. CONCLUSION The lack of resolution in much of the species tree and the limitations of the delimitation analysis warrant future studies on the complex using genome-wide data and the inclusion of additional specimens, particularly from two putative species, An. albitarsis I and An. albitarsis J.
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Affiliation(s)
- Brian P Bourke
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA.
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA.
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA.
| | - Silvia A Justi
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA
| | - Laura Caicedo-Quiroga
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA
| | - David B Pecor
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA
| | - Richard C Wilkerson
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA
| | - Yvonne-Marie Linton
- Walter Reed Biosystematics Unit, Smithsonian Institution Museum Support Center, MRC-534, 4210 Silver Hill Rd., Suitland, MD, 20746, USA
- Walter Reed Army Institute of Research, 503 Robert Grant Avenue, Silver Spring, MD, 20910, USA
- Department of Entomology, Smithsonian Institution-National Museum of Natural History, 10th St NE & Constitution Ave NE, Washington, DC, 20002, USA
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15
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Bonatelli IAS, Gehara M, Carstens BC, Colli GR, Moraes EM. Comparative and predictive phylogeography in the South American diagonal of open formations: Unravelling the biological and environmental influences on multitaxon demography. Mol Ecol 2021; 31:331-342. [PMID: 34614269 DOI: 10.1111/mec.16210] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Revised: 09/29/2021] [Accepted: 09/30/2021] [Indexed: 11/28/2022]
Abstract
Phylogeography investigates historical drivers of the geographical distribution of intraspecific lineages. Particular attention has been given to ecological, climatic and geological processes in the diversification of the Neotropical biota. Several species sampled across the South American diagonal of open formations (DOF), comprising the Caatinga, Cerrado and Chaco biomes, experienced range shifts coincident with Quaternary climatic changes. However, comparative studies across different spatial, temporal and biological scales on DOF species are still meagre. Here, we combine phylogeographical model selection and machine learning predictive frameworks to investigate the influence of Pleistocene climatic changes on several plant and animal species from the DOF. We assembled mitochondrial/chloroplastic DNA sequences in public repositories and inferred the demographic responses of 44 species, comprising 70 intraspecific lineages of plants, lizards, frogs, spiders and insects. We then built a random forest model using biotic and abiotic information to identify the best predictors of demographic responses in the Pleistocene. Finally, we assessed the temporal synchrony of species demographic responses with hierarchical approximate Bayesian computation. Biotic variables related to population connectivity, gene flow and habitat preferences largely predicted how species responded to Pleistocene climatic changes, and demographic changes were synchronous primarily during the Middle Pleistocene. Although 22 (~31%) lineages underwent demographic expansion, presumably associated with the spread of aridity during the glacial Pleistocene periods, our findings suggest that nine lineages (~13%) exhibited the opposite response due to taxon-specific attributes.
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Affiliation(s)
- Isabel A S Bonatelli
- Departamento de Biologia, Universidade Federal de São Carlos, Sorocaba, Brazil.,Departamento de Ecologia e Biologia Evolutiva, Universidade Federal de São Paulo, Diadema, Brazil
| | - Marcelo Gehara
- Department of Earth and Environmental Sciences, Rutgers University-Newark, Newark, New Jersey, USA
| | - Bryan C Carstens
- Department of Evolution, Ecology, and Organismal Biology, The Ohio State University, Columbus, Ohio, USA
| | - Guarino R Colli
- Departamento de Zoologia, Universidade de Brasília, Brasília, Brazil
| | - Evandro M Moraes
- Departamento de Biologia, Universidade Federal de São Carlos, Sorocaba, Brazil
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16
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Amiri N, Vaissi S, Aghamir F, Saberi‐Pirooz R, Rödder D, Ebrahimi E, Ahmadzadeh F. Tracking climate change in the spatial distribution pattern and the phylogeographic structure of Hyrcanian wood frog,
Rana pseudodalmatina
(Anura: Ranidae). J ZOOL SYST EVOL RES 2021. [DOI: 10.1111/jzs.12503] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Negar Amiri
- Department of Biodiversity and Ecosystem Management Environmental Sciences Research Institute Shahid Beheshti University Tehran Iran
| | - Somaye Vaissi
- Department of Biology Faculty of Science Razi University Kermanshah Iran
| | - Fateme Aghamir
- Department of Agroecology Environmental Sciences Research Institute Shahid Beheshti University Tehran Iran
| | - Reihaneh Saberi‐Pirooz
- Department of Biodiversity and Ecosystem Management Environmental Sciences Research Institute Shahid Beheshti University Tehran Iran
| | - Dennis Rödder
- Herpetology Section Zoologisches Forschungsmuseum Alexander Koenig (ZFMK) Bonn Germany
| | - Elham Ebrahimi
- Department of Biodiversity and Ecosystem Management Environmental Sciences Research Institute Shahid Beheshti University Tehran Iran
| | - Faraham Ahmadzadeh
- Department of Biodiversity and Ecosystem Management Environmental Sciences Research Institute Shahid Beheshti University Tehran Iran
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17
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Wang Y, Feijó A, Cheng J, Xia L, Wen Z, Ge D, Sun J, Lu L, Li S, Yang Q. Ring distribution patterns-diversification or speciation? Comparative phylogeography of two small mammals in the mountains surrounding the Sichuan Basin. Mol Ecol 2021; 30:2641-2658. [PMID: 33817880 DOI: 10.1111/mec.15913] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 03/15/2021] [Accepted: 03/24/2021] [Indexed: 01/26/2023]
Abstract
Studying the genetic differentiation in a unique geographical area contributes to understanding the process of speciation. Here, we explore the spatial genetic structure and underlying formation mechanism of two congeneric small mammal species (Apodemus draco and A. chevrieri), which are mainly distributed in the mountains surrounding the lowland Sichuan Basin, southwest China. We applied a set of comparative phylogeographical analyses to determine their genetic diversification patterns, combining mitochondrial (Cytb and COI) and nuclear (microsatellite loci) markers, with dense sampling throughout the range (411 A. draco from 21 sites and 191 A. chevrieri from 22 sites). Moreover, we performed three complementary statistical methods to investigate the correlation between genotype and geographical and environmental components, and predicted the potential suitable distributional range under the present and historical climate conditions. Our results suggest that both species have experienced allopatric differentiation and admixture in historical periods, resulting in a ring-shape diversification, under the barrier effect of the Sichuan Basin. We infer that the tectonic events of the Qinghai-Tibetan Plateau and climatic oscillations during the Quaternary played an important role on the genetic divergence of the two species by providing environmental heterogeneity and geographical variation. Our study reveals a case of two sympatric small mammals following a ring-shaped diversification pattern and provides insight into the process of differentiation.
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Affiliation(s)
- Yanqun Wang
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.,School of Animal Science, Xichang College, Xichang, Sichuan, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Anderson Feijó
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Jilong Cheng
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Lin Xia
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Zhixin Wen
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Deyan Ge
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Jian Sun
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Liang Lu
- State Key Laboratory for Infectious Disease Prevention and Control, Chinese Centre for Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention, Beijing, China
| | - Song Li
- Chinese Academy of Sciences, Kunming Institute of Zoology, Kunming, Yunnan, China
| | - Qisen Yang
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
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18
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Pereyra MO, Blotto BL, Baldo D, Chaparro JC, Ron SR, Elias-Costa AJ, Iglesias PP, Venegas PJ, C. Thomé MT, Ospina-Sarria JJ, Maciel NM, Rada M, Kolenc F, Borteiro C, Rivera-Correa M, Rojas-Runjaic FJ, Moravec J, De La Riva I, Wheeler WC, Castroviejo-Fisher S, Grant T, Haddad CF, Faivovich J. Evolution in the Genus Rhinella: A Total Evidence Phylogenetic Analysis of Neotropical True Toads (Anura: Bufonidae). BULLETIN OF THE AMERICAN MUSEUM OF NATURAL HISTORY 2021. [DOI: 10.1206/0003-0090.447.1.1] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Martín O. Pereyra
- Martín O. Pereyra: División Herpetología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”–CONICET, Buenos Aires; and Laboratorio de Genética Evolutiva “Claudio J. Bidau,” Instituto de Biología Subtropical (IBS, CONICET), Universidad Naci
| | - Boris L. Blotto
- Boris L. Blotto: División Herpetología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”–CONICET, Buenos Aires; Universidade Estadual Paulista (UNESP), Instituto de Biociências, Departamento de Biodiversidade e Centro de Aquicultura (CAUN
| | - Diego Baldo
- Diego Baldo: Laboratorio de Genética Evolutiva “Claudio J. Bidau,” Instituto de Biología Subtropical (IBS, CONICET), Universidad Nacional de Misiones (UNaM), Posadas, Misiones, Argentina
| | - Juan C. Chaparro
- Juan C. Chaparro: Museo de Biodiversidad del Perú, Cusco, Perú; and Museo de Historia Natural de la Universidad Nacional de San Antonio Abad del Cusco, Paraninfo Universitario, Cusco
| | - Santiago R. Ron
- Santiago R. Ron: Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Quito
| | - Agustín J. Elias-Costa
- Agustín J. Elias-Costa: División Herpetología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”–CONICET, Buenos Aires
| | - Patricia P. Iglesias
- Patricia P. Iglesias: Laboratorio de Genética Evolutiva “Claudio J. Bidau”, Instituto de Biología Subtropical (IBS, CONICET), Universidad Nacional de Misiones (UNaM), Posadas, Misiones, Argentina
| | - Pablo J. Venegas
- Pablo J. Venegas: División de Herpetología-Centro de Ornitología y Biodiversidad (CORBIDI), Surco, Lima
| | - Maria Tereza C. Thomé
- Maria Tereza C. Thomé: Universidade Estadual Paulista (UNESP), Instituto de Biociências, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Rio Claro, São Paulo
| | - Jhon Jairo Ospina-Sarria
- Jhon Jairo Ospina-Sarria: Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo, Brazil; and Calima, Fundación para la Investigación de la Biodiversidad y Conservación en el Trópico, Cali
| | - Natan M. Maciel
- Natan M. Maciel: Laboratório de Herpetologia e Comportamento Animal, Departamento de Ecologia, Instituto de Ciências Biológicas, Universidade Federal de Goiás, Goiânia, Brazil
| | - Marco Rada
- Marco Rada: Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo
| | - Francisco Kolenc
- Francisco Kolenc: Sección Herpetología, Museo Nacional de Historia Natural, Montevideo
| | - Claudio Borteiro
- Claudio Borteiro: Sección Herpetología, Museo Nacional de Historia Natural, Montevideo
| | - Mauricio Rivera-Correa
- Mauricio Rivera-Correa: Grupo Herpetológico de Antioquia, Instituto de Biología, Universidad de Antioquia, Medellín
| | - Fernando J.M. Rojas-Runjaic
- Fernando J.M. Rojas-Runjaic: Fundación La Salle de Ciencias Naturales, Museo de Historia Natural La Salle (MHNLS), Venezuela; and Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Porto Alegre, Rio Grande do Sul, Brazil
| | - Jiří Moravec
- Jiří Moravec: Department of Zoology, National Museum, Prague, Czech Republic
| | - Ignacio De La Riva
- Ignacio de la Riva: Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid
| | - Ward C. Wheeler
- Ward C. Wheeler: Division of Invertebrate Zoology, American Museum of Natural History, New York
| | - Santiago Castroviejo-Fisher
- Santiago Castroviejo-Fisher: Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Porto Alegre, Rio Grande do Sul, Brazil; and Research Associate, Herpetology, Division of Vertebrate Zoology, American Museum of Natural History, New York
| | - Taran Grant
- Taran Grant: Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo, São Paulo; and Research Associate, Herpetology, Division of Vertebrate Zoology, American Museum of Natural History, New York
| | - Célio F.B. Haddad
- Célio F.B. Haddad: Universidade Estadual Paulista (UNESP), Instituto de Biociências, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), Rio Claro, São Paulo
| | - Julián Faivovich
- Julián Faivovich: División Herpetología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”–CONICET, Buenos Aires; Departamento de Biodiversidad y Biología Experimental, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires,
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19
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de Medeiros LA, Ribas CC, Lima AP. Genetic Diversification of Adelphobates quinquevittatus (Anura: Dendrobatidae) and the Influence of Upper Madeira River Historical Dynamics. Evol Biol 2021. [DOI: 10.1007/s11692-021-09536-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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20
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Dufresnes C, Rodrigues N, Savary R. Slow and steady wins the race: contrasted phylogeographic signatures in two Alpine amphibians. Integr Zool 2021; 17:181-190. [PMID: 33433936 DOI: 10.1111/1749-4877.12518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A deeper phylogeographic structure is expected for slow-dispersing habitat specialists compared to widespread adaptable species, especially in topographically complex regions. We tested this classic assumption by comparing the genomic (RAD-sequencing) phylogeographies of two amphibians inhabiting the Swiss Alps: the mobile, cosmopolitan common frog (Rana temporaria) against the stationary, mountain endemic Alpine salamander (Salamandra atra). Our results ran opposite of predictions: the frog displayed significantly higher genetic divergences and lower within-population variation compared to the salamander. This implies a prominent role for their distinctive glacial histories in shaping intraspecific diversity and structure: diversification and recolonization from several circum-Alpine micro-refugia for the frog versus a single refugium for the salamander, potentially combined with better population connectivity and stability. These striking differences emphasize the great variability of phylogeographic responses to the Quaternary glaciations, hence the complexity to predict general patterns of genetic diversity at the regional scale, and the forces that underlie them.
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Affiliation(s)
- Christophe Dufresnes
- LASER, College of Biology and Environment, Nanjing Forestry University, Nanjing, China
| | - Nicolas Rodrigues
- Department of Ecology & Evolution, University of Lausanne, Lausanne, Switzerland
| | - Romain Savary
- Laboratory for Biological Geochemistry, School of Architecture, Civil and Environmental Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
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21
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Gazoni T, Lyra ML, Ron SR, Strüssmann C, Baldo D, Narimatsu H, Pansonato A, Schneider RG, Giaretta AA, Haddad CF, Parise-Maltempi PP, Carvalho TR. Revisiting the systematics of the Leptodactylus melanonotus group (Anura: Leptodactylidae): Redescription of L. petersii and revalidation of its junior synonyms. ZOOL ANZ 2021. [DOI: 10.1016/j.jcz.2020.12.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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22
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Ferrão M, Lima AP, Ron S, Santos SPD, Hanken J. New Species of Leaf-litter Toad of the Rhinella margaritifera Species Group (Anura: Bufonidae) from Amazonia. COPEIA 2020. [DOI: 10.1643/ch2020043] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Affiliation(s)
- Miquéias Ferrão
- Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts; (MF) ; and (JH) . Send reprint requests to MF
| | - Albertina Pimentel Lima
- Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Manaus, Amazonas, Brazil;
| | - Santiago Ron
- Museum of Zoology–QCAZ, Pontificia Universidad Católica del Ecuador, Quito, Ecuador; (SR) ; and (SPS)
| | - Sueny Paloma dos Santos
- Museum of Zoology–QCAZ, Pontificia Universidad Católica del Ecuador, Quito, Ecuador; (SR) ; and (SPS)
| | - James Hanken
- Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts; (MF) ; and (JH) . Send reprint requests to MF
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23
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Carvalho TR, Seger KR, Magalhães FM, Lourenço LB, Haddad CFB. Systematics and cryptic diversification of
Leptodactylus
frogs in the Brazilian campo rupestre. ZOOL SCR 2020. [DOI: 10.1111/zsc.12470] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Thiago R. Carvalho
- Laboratório de Herpetologia Departamento de Biodiversidade e Centro de Aquicultura Instituto de Biociências Universidade Estadual Paulista Rio Claro Brazil
| | - Karin R. Seger
- Laboratório de Estudos Cromossômicos Departamento de Biologia Estrutural e Funcional Instituto de Biologia Universidade Estadual de Campinas Campinas Brazil
| | - Felipe M. Magalhães
- Programa de Pós‐Graduação em Ciências Biológicas Centro de Ciências Exatas e da Natureza Universidade Federal da Paraíba João Pessoa Brazil
| | - Luciana B. Lourenço
- Laboratório de Estudos Cromossômicos Departamento de Biologia Estrutural e Funcional Instituto de Biologia Universidade Estadual de Campinas Campinas Brazil
| | - Célio F. B. Haddad
- Laboratório de Herpetologia Departamento de Biodiversidade e Centro de Aquicultura Instituto de Biociências Universidade Estadual Paulista Rio Claro Brazil
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24
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Magalhães FDM, Lyra ML, de Carvalho TR, Baldo D, Brusquetti F, Burella P, Colli GR, Gehara MC, Giaretta AA, Haddad CF, Langone JA, López JA, Napoli MF, Santana DJ, de Sá RO, Garda AA. Taxonomic Review of South American Butter Frogs: Phylogeny, Geographic Patterns, and Species Delimitation in the Leptodactylus latrans Species Group (Anura: Leptodactylidae). HERPETOLOGICAL MONOGRAPHS 2020. [DOI: 10.1655/0733-1347-31.4.131] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Felipe de M. Magalhães
- Programa de Pós-Graduação em Ciências Biológicas, Universidade Federal da Paraíba (UFPB), Centro de Ciências Exatas e da Natureza, Cidade Universitária, CEP 58000-000, João Pessoa, Paraíba, Brazil
| | - Mariana L. Lyra
- Universidade Estadual Paulista (UNESP), Instituto de Biociências, Campus Rio Claro, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), CEP 13506-900, Rio Claro, São Paulo, Brazil
| | - Thiago R. de Carvalho
- Universidade Estadual Paulista (UNESP), Instituto de Biociências, Campus Rio Claro, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), CEP 13506-900, Rio Claro, São Paulo, Brazil
| | - Diego Baldo
- Instituto de Biología Subtropical (IBS, CONICET-UNaM), Laboratorio de Genética Evolutiva, Facultad de Ciencias Exactas, Universidad Nacional de Misiones, CP N3300LQF, Posadas, Misiones, Argentina
| | - Francisco Brusquetti
- Instituto de Investigación Biológica del Paraguay (IIBP), Del Escudo 1607, CP 1425 Asunción, Paraguay
| | - Pamela Burella
- Departamento de Ciencias Naturales, Facultad de Humanidades y Ciencias, Universidad Nacional del Litoral. Ciudad Universitaria UNL, 3000, Santa Fe, Argentina
| | - Guarino R. Colli
- Departamento de Zoologia, Universidade de Brasília (UNB), CEP 70910-900, Brasília, Distrito Federal, Brazil
| | - Marcelo C. Gehara
- Department of Biological Sciences, Rutgers University, Newark, New Jersey, 07102, USA
| | - Ariovaldo A. Giaretta
- Laboratório de Taxonomia e Sistemática de Anuros Neotropicais (LTSAN), Instituto de Ciências Exatas e Naturais do Pontal (ICENP), Universidade Federal de Uberlândia (UFU), Ituiutaba, Minas Gerais, Brazil
| | - Célio F.B. Haddad
- Universidade Estadual Paulista (UNESP), Instituto de Biociências, Campus Rio Claro, Departamento de Biodiversidade e Centro de Aquicultura (CAUNESP), CEP 13506-900, Rio Claro, São Paulo, Brazil
| | - José A. Langone
- Departamento de Herpetología, Museo Nacional de Historia Natural, Casilla de Correo 399, CP 11.000, Montevideo, Uruguay
| | - Javier A. López
- Departamento de Ciencias Naturales, Facultad de Humanidades y Ciencias, Universidad Nacional del Litoral. Ciudad Universitaria UNL, 3000, Santa Fe, Argentina
| | - Marcelo F. Napoli
- Laboratório de Taxonomia e História Natural de Anfíbios (AMPHIBIA), Museu de História Natural, Instituto de Biologia, Universidade Federal da Bahia (UFBA), CEP 40170–115, Salvador, Bahia, Brazil
| | - Diego J. Santana
- Mapinguari – Laboratório de Biogeografia e Sistemática de Anfíbios e Répteis, Universidade Federal de Mato Grosso do Sul (UFMS), CEP 79002-970 Campo Grande, Mato Grosso, Brazil
| | - Rafael O. de Sá
- Department of Biology, University of Richmond, Richmond, Virginia, 23173, USA
| | - Adrian A. Garda
- Programa de Pós-Graduação em Ciências Biológicas, Universidade Federal da Paraíba (UFPB), Centro de Ciências Exatas e da Natureza, Cidade Universitária, CEP 58000-000, João Pessoa, Paraíba, Brazil
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25
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Acosta-Galvis AR, Saldarriaga-Gómez AM, Ramírez B, Vargas-Ramírez M. A new Terrarana frog of genus Pristimantis from an unexplored cloud forest from the eastern Andes, Colombia. Zookeys 2020; 961:129-156. [PMID: 32904011 PMCID: PMC7449990 DOI: 10.3897/zookeys.961.51971] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2020] [Accepted: 07/20/2020] [Indexed: 11/12/2022] Open
Abstract
A new species of Pristimantis (Craugastoridae, subgenusPristimantis) is described from a relict and unexplored cloud forest in the western slope from Cordillera Oriental of the Colombian Andes. The specific name was chosen by consensus expert scientists and local people. Pristimantischamezensissp. nov. is easily distinguished from congeneric species by having a gray iris with black reticulations in life, subconical tubercles on the upper eyelid, the chin edged with irregular, dark-brown blotches, and conical heel tubercles. The phylogenetic analyses suggest that the origin and radiation of its clade may have occurred in the highlands. With the description of P.chamezensissp. nov., we identify 14 species distributed throughout the eastern slope of the Andes that are associated with the Orinoco Basin.
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Affiliation(s)
- Andrés R Acosta-Galvis
- Colecciones Biológicas, Subdirección de Investigaciones, Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Carrera 8 No 15-08, Claustro de San Agustín, Villa de Leyva, Boyacá, Colombia Instituto de Investigación de Recursos Biológicos Alexander von Humboldt Boyacá Colombia
| | - Ana M Saldarriaga-Gómez
- Grupo Biodiversidad y Conservación Genética, Instituto de Genética, Universidad Nacional de Colombia, Bogotá, Colombia. Calle 53 # 35-83, Edificio 426, Bogotá D.C., Colombia Universidad Nacional de Colombia Bogotá Colombia
| | - Beatriz Ramírez
- Asociación de Becarios de Casanare-ABC, Carrera 39#15-35, Yopal, Casanare, Colombia Estación de Biología Tropical Roberto Franco Villavicencio Colombia
| | - Mario Vargas-Ramírez
- Grupo Biodiversidad y Conservación Genética, Instituto de Genética, Universidad Nacional de Colombia, Bogotá, Colombia. Calle 53 # 35-83, Edificio 426, Bogotá D.C., Colombia Universidad Nacional de Colombia Bogotá Colombia.,Estación de Biología Tropical Roberto Franco (EBTRF), Carrera 33 #33-76, Villavicencio, Meta, Colombia Asociación de Becarios de Casanare Yopal Colombia
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26
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Cros E, Chattopadhyay B, Garg KM, Ng NSR, Tomassi S, Benedick S, Edwards DP, Rheindt FE. Quaternary land bridges have not been universal conduits of gene flow. Mol Ecol 2020; 29:2692-2706. [PMID: 32542783 DOI: 10.1111/mec.15509] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Revised: 06/06/2020] [Accepted: 06/08/2020] [Indexed: 01/05/2023]
Abstract
Quaternary climate oscillations are a well-known driver of animal diversification, but their effects are most well studied in areas where glaciations lead to habitat fragmentation. In large areas of the planet, however, glaciations have had the opposite effect, but here their impacts are much less well understood. This is especially true in Southeast Asia, where cyclical changes in land distribution have generated enormous land expansions during glacial periods. In this study, we selected a panel of five songbird species complexes covering a range of ecological specificities to investigate the effects Quaternary land bridges have had on the connectivity of Southeast Asian forest biota. Specifically, we combined morphological and bioacoustic analysis with an arsenal of population genomic and modelling approaches applied to thousands of genome-wide DNA markers across a total of more than 100 individuals. Our analyses show that species dependent on forest understorey exhibit deep differentiation between Borneo and western Sundaland, with no evidence of gene flow during the land bridges accompanying the last 1-2 ice ages. In contrast, dispersive canopy species and habitat generalists have experienced more recent gene flow. Our results argue that there remains much cryptic species-level diversity to be discovered in Southeast Asia even in well-known animal groups such as birds, especially in nondispersive forest understorey inhabitants. We also demonstrate that Quaternary land bridges have not been equally suitable conduits of gene flow for all species complexes and that life history is a major factor in predicting relative population divergence time across Quaternary climate fluctuations.
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Affiliation(s)
- Emilie Cros
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
| | - Balaji Chattopadhyay
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
| | - Kritika M Garg
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
| | - Nathaniel S R Ng
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
| | - Suzanne Tomassi
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Suzan Benedick
- Sustainable Agriculture School, Universiti Malaysia Sabah, Sabah, Malaysia
| | - David P Edwards
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Frank E Rheindt
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
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27
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Ruiz-Arce R, Todd TN, Deleon R, Barr NB, Virgilio M, De Meyer M, McPheron BA. Worldwide Phylogeography of Ceratitis capitata (Diptera: Tephritidae) Using Mitochondrial DNA. JOURNAL OF ECONOMIC ENTOMOLOGY 2020; 113:1455-1470. [PMID: 32112108 DOI: 10.1093/jee/toaa024] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2019] [Indexed: 06/10/2023]
Abstract
The Mediterranean fruit fly, Ceratitis capitata (Weidemann), is one of the most economically important tephritid species worldwide. It has spread across six geographic regions as a result of successful invasions and continues to cause substantial losses to agricultural communities. Our study examined 1,864 flies originating from 150 localities, using mitochondrial DNA sequencing methods. We tested for population structure and revealed the genetic diversity for 1,592 specimens gathered from 144 wild fly collections from 46 countries representing the entire geographic range for this species. We also include in this study 272 Sterile Insect Technique (SIT) specimens from four SIT facilities. We recovered 202 haplotypes from the current sampling and updated previously published work to reveal a total of 231 haplotypes for this pest. These data show population structure at and below the regional level for these collections, shedding light on the current demographics for this species. We observed four common haplotypes, seen among 62% of the samples sequenced that have worldwide distribution. Three haplotypes were seen in SIT flies, with one seen as the predominant haplotype. Our work showed that two of the haplotypes were private to SIT flies, not present among wild fly collections. However, a third haplotype common among wild fly collections was also seen in one SIT facility but at a low frequency based on the current sampling. We provide guidance on the interpretation of these methods for the source estimation of current and future infestations.
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Affiliation(s)
| | | | | | | | | | | | - Bruce A McPheron
- Department of Entomology, The Pennsylvania State University, University Park, PA
- The Ohio State University, Columbus, OH
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28
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García JT, Domínguez‐Villaseñor J, Alda F, Calero‐Riestra M, Pérez Olea P, Fargallo JA, Martínez‐Padilla J, Herranz J, Oñate JJ, Santamaría A, Motro Y, Attie C, Bretagnolle V, Delibes J, Viñuela J. A complex scenario of glacial survival in Mediterranean and continental refugia of a temperate continental vole species (
Microtus arvalis
) in Europe. J ZOOL SYST EVOL RES 2020. [DOI: 10.1111/jzs.12323] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jesús T. García
- IREC, Instituto de Investigación en Recursos Cinegéticos (CSIC‐UCLM‐JCCM) Ciudad Real Spain
| | | | - Fernando Alda
- Museum of Natural Science, Department of Biological Sciences Louisiana State University Baton Rouge Louisiana USA
| | - María Calero‐Riestra
- IREC, Instituto de Investigación en Recursos Cinegéticos (CSIC‐UCLM‐JCCM) Ciudad Real Spain
| | - Pedro Pérez Olea
- Terrestrial Ecology Group (TEG), Departamento de Ecología Universidad Autónoma de Madrid Madrid Spain
| | - Juan Antonio Fargallo
- Department of Evolutionary Ecology Museo Nacional de Ciencias Naturales MNCN‐CSIC Madrid Spain
| | | | - Jesús Herranz
- Terrestrial Ecology Group (TEG), Departamento de Ecología Universidad Autónoma de Madrid Madrid Spain
| | - Juan José Oñate
- Terrestrial Ecology Group (TEG), Departamento de Ecología Universidad Autónoma de Madrid Madrid Spain
| | - Ana Santamaría
- IREC, Instituto de Investigación en Recursos Cinegéticos (CSIC‐UCLM‐JCCM) Ciudad Real Spain
| | - Yoav Motro
- Plant Protection and Inspection Services Ministry of Agriculture and Rural Development Bet Dagan Israel
| | | | - Vincent Bretagnolle
- Centre d’Etudes Biologiques de Chizé, UMR 7372 CNRS and Université de la Rochelle La Rochelle France
- LTSER Zone Atelier Plaine and Val de Sèvre CNRS Villiers‐en‐Bois France
| | | | - Javier Viñuela
- IREC, Instituto de Investigación en Recursos Cinegéticos (CSIC‐UCLM‐JCCM) Ciudad Real Spain
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29
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Silva LAD, Carvalho PS, Pereira EA, Fadel RM, Dantas SP, Brandão RA, Santana DJ. Richness, diversity patterns, and taxonomic notes of amphibians from the Tocantins state. BIOTA NEOTROPICA 2020. [DOI: 10.1590/1676-0611-bn-2019-0838] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Abstract: Herein, we provide the first comprehensive amphibian checklist for the State of Tocantins, North of Brazil, based on field sampling, literature data, and specimens deposited in zoological collections. We performed field surveys from 2012 to 2019 in 12 Tocantins municipalities, totaling 376 days of sampling effort. We analyzed 25 papers from the literature and examined 1311 specimens from collections and collected 750 during field surveys. We recorded 90 amphibian species distributed in 12 anurans and two caecilians families. At least seven undescribed species along the state were recorded. We also present new records for 20 species for the state, nine of them corresponding to Amazonian species, four Cerrado endemic, one Caatinga species, and the widely distributed treefrog Boana crepitans; the others five new records comprise undescribed species. Our data also suggest that the Tocantins amphibian composition is not geographically structured in relation to the biomes, since Amazonian, Caatinga, and Cerrado amphibian lineages have their distribution nearly completely overlapped in the state. We propose that this absence of spatial structuration may be a result of two factors (synergetic or not). First, the events of expansion and retraction of the biomes caused by the Quaternary climatic cycles, which may have mixed the populations of species from different biomes causing the notable pattern of overlapped distribution observed here. Second, the forest environments (e.g. gallery and riparian forests) associated to the Araguaia-Tocantins River basins may have acted as historical dispersal corridors for the Amazonian amphibian lineages into the Cerrado of the Tocantins. Despite the sampling effort of the present study, we stress that gaps of information still remain and further field sampling efforts should be performed along the state. Lastly, taxonomic appraisals involving the species with problematic taxonomic status recorded here should be based on multiples lines of evidences (acoustic, molecular, and morphological data), which will render a more accurate view on the Tocantins amphibian diversity. Such data are extremely necessary under the current high rate of habitat loss across the state, since they can be used to guide public policies of conservation.
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30
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Affiliation(s)
- Antoine Fouquet
- Laboratoire Évolution et Diversité biologique (EDB), UMR5174, Bâtiment 4R1, 118 route de Narbonne, F-31077 Toulouse (France). and Laboratoire Écologie, Évolution, Interactions des Systèmes amazoniens (LEEISA), USR3456, Cayenne (French Guiana)
| | - Nicolas Vidal
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles case postale 53, 57 rue Cuvier, F-75231 Paris cedex 05 (France)
| | - Maël Dewynter
- Fondation Biotope pour la biodiversité, 30 Domaine de Montabo, F-97300 Cayenne (French Guiana)
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31
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da Rocha DG, Kaefer IL. What has become of the refugia hypothesis to explain biological diversity in Amazonia? Ecol Evol 2019; 9:4302-4309. [PMID: 31016006 PMCID: PMC6468052 DOI: 10.1002/ece3.5051] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Revised: 02/01/2019] [Accepted: 02/08/2019] [Indexed: 11/05/2022] Open
Abstract
The spatial distribution of biodiversity and related processes is the core of Biogeography. Amazonia is the world's most diverse rainforest and the primary source of diversity to several Neotropical regions. The origins of such diversity continue to be an unresolved question in evolutionary biology. Among many competing hypotheses to explain the evolution of the Amazonian biodiversity, one stands out as the most influential: the refugia hypothesis by Jürgen Haffer. Here, we provide a chronological overview on how the refugia hypothesis evolved over the decades and how the criticism from different fields affected its acceptance. We conclude that the refugia hypothesis alone cannot explain the diversification of the complex Amazonian diversity, and perhaps it was not the most important diversification mechanism. However, the debate provoked by refugia has produced a great amount of knowledge on Amazonian climatic, geological, and evolutionary processes, as well as on species distributions, movements, and history.
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Affiliation(s)
- Daniel Gomes da Rocha
- Department of Wildlife, Fish, and Conservation Biology, Graduate Group in EcologyUniversity of California, DavisDavisCalifornia
- Grupo de Ecologia e Conservação de Felinos na AmazôniaInstituto de Desenvolvimento Sustentável MamirauáTeféBrazil
| | - Igor L. Kaefer
- Instituto de Ciências Biológicas, Universidade Federal do AmazonasManausBrazil
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32
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Reyes-Puig C, Pablo Reyes-Puig J, A Velarde-Garcéz D, Nicolás Dávalos, Mancero E, José Navarrete M, H Yánez-Muñoz M, F Cisneros-Heredia D, R Ron S. A new species of terrestrial frog Pristimantis (Strabomantidae) from the upper basin of the Pastaza River, Ecuador. Zookeys 2019; 832:113-133. [PMID: 30930648 PMCID: PMC6435602 DOI: 10.3897/zookeys.832.30874] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2018] [Accepted: 01/31/2019] [Indexed: 11/26/2022] Open
Abstract
We describe a new species of Pristimantis from the montane forest of the Río Zuñag Ecological Reserve, upper basin of the Pastaza River, Ecuador. Pristimantismalliisp. n. is characterized by a snout-vent length of 11.6–21.3 mm in adult males (n = 12), 22.6–34.3 mm in adult females (n = 8), and is compared morphologically and genetically with Pristimantismiktos and with other relevant species of Pristimantis. The new species is characterized by having skin on dorsum and flanks shagreen, distinctive scapular folds, snout broadly rounded in dorsal view, upper eyelid bearing one or two subconical tubercles and some rounded tubercles, dorsum and flanks light brown to brown, with irregular dark brown marks bounded by dirty cream and groin with irregular yellowish marks.
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Affiliation(s)
- Carolina Reyes-Puig
- Instituto de Zoología Terrestre & Museo de Zoología, Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Unidad de Investigación, Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador
| | - Juan Pablo Reyes-Puig
- Unidad de Investigación, Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador.,Fundación Red de Protección de Bosques ECOMINGA, Fundación Oscar Efrén Reyes, Departamento de Ambiente, Baños, Ecuador
| | - Daniel A Velarde-Garcéz
- Instituto de Zoología Terrestre & Museo de Zoología, Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador
| | - Nicolás Dávalos
- Instituto de Zoología Terrestre & Museo de Zoología, Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador
| | - Emilio Mancero
- Instituto de Zoología Terrestre & Museo de Zoología, Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador
| | - María José Navarrete
- Museo de Zoología, Escuela de Ciencias Biológicas, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - Mario H Yánez-Muñoz
- Unidad de Investigación, Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador
| | - Diego F Cisneros-Heredia
- Instituto de Zoología Terrestre & Museo de Zoología, Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Unidad de Investigación, Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador.,King's College London, Department of Geography, London, UK
| | - Santiago R Ron
- Museo de Zoología, Escuela de Ciencias Biológicas, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
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33
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Accioly T, Sousa JO, Moreau PA, Lécuru C, Silva BDB, Roy M, Gardes M, Baseia IG, Martín MP. Hidden fungal diversity from the Neotropics: Geastrum hirsutum, G. schweinitzii (Basidiomycota, Geastrales) and their allies. PLoS One 2019; 14:e0211388. [PMID: 30726262 PMCID: PMC6364924 DOI: 10.1371/journal.pone.0211388] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2018] [Accepted: 01/11/2019] [Indexed: 11/19/2022] Open
Abstract
Taxonomy of Geastrum species in the neotropics has been subject to divergent opinions among specialists. In our study, type collections were reassessed and compared with recent collections in order to delimit species in Geastrum, sect. Myceliostroma, subsect. Epigaea. A thorough review of morphologic features combined with barcode and phylogenetic analyses (ITS and LSU nrDNA) revealed six new species (G. neoamericanum, G. rubellum, G. brunneocapillatum, G. baculicrystallum, G. rubropusillum and G. courtecuissei). In additon, the presence of hairs on the exoperidium, a commonly used feature to diagnose Geastrum species, proved to be ineffective because it is a derived character within subsect. Epigaea.
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Affiliation(s)
- Thiago Accioly
- Programa de Pós-Graduação em Sistemática e Evolução, Universidade Federal do Rio Grande do Norte, Natal, Rio Grande do Norte, Brazil
| | - Julieth O. Sousa
- Programa de Pós-Graduação em Sistemática e Evolução, Universidade Federal do Rio Grande do Norte, Natal, Rio Grande do Norte, Brazil
| | | | | | - Bianca D. B. Silva
- Departamento de Botânica, Instituto de Biologia, Universidade Federal da Bahia, Ondina, Salvador, Bahia, Brazil
| | - Mélanie Roy
- Laboratoire UMR5174 Evolution et Diversité Biologique (EDB), Université Toulouse 3 Paul Sabatier, Toulouse, France
| | - Monique Gardes
- Laboratoire UMR5174 Evolution et Diversité Biologique (EDB), Université Toulouse 3 Paul Sabatier, Toulouse, France
| | - Iuri G. Baseia
- Departamento de Botânica e Zoologia, Universidade Federal do Rio Grande do Norte, Natal, Rio Grande do Norte, Brazil
| | - María P. Martín
- Departamento de Micología, Real Jardín Botánico-CSIC, Madrid, Spain
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34
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Fouquet A, Ferrier B, Salmona J, Tirera S, Vacher JP, Courtois EA, Gaucher P, Lima JD, Nunes PMS, de Souza SM, Rodrigues MT, Noonan B, de Thoisy B. Phenotypic and life-history diversification in Amazonian frogs despite past introgressions. Mol Phylogenet Evol 2019; 130:169-180. [DOI: 10.1016/j.ympev.2018.09.010] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Revised: 09/15/2018] [Accepted: 09/15/2018] [Indexed: 10/28/2022]
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35
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The role of Pleistocene climate change in the genetic variability, distribution and demography of Proechimys cuvieri and P. guyannensis (Rodentia: Echimyidae) in northeastern Amazonia. PLoS One 2018; 13:e0206660. [PMID: 30557386 PMCID: PMC6296739 DOI: 10.1371/journal.pone.0206660] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2018] [Accepted: 10/17/2018] [Indexed: 11/19/2022] Open
Abstract
The spiny rats, genus Proechimys, have the highest species richness within the Echimyidae family, as well as species with high genetic variability. The genus distribution includes tropical South America and Central America south to Honduras. In this study, we evaluate the phylogeographic histories of Proechimys guyannensis and P. cuvieri using cytochrome b, in a densely sampled area in northeastern Amazon where both species are found in sympatry in different environments. For each species, Bayesian and Maximum Likelihood phylogenetic analysis were congruent and recovered similar clades in the studied area. Bayesian phylogenetic analysis using a relaxed molecular clock showed that these clusters of haplotypes diversified during Pleistocene for both species. Apparently, the large rivers of the region did not act as barriers, as some clades include specimens collected from opposite banks of Oiapoque, Araguari and Jari rivers. Bayesian skyline plot analysis showed recent demographic expansion in both species. The Pleistocene climatic changes in concert with the geologic changes in the Amazon fan probably acted as drivers in the diversification that we detected in these two spiny rats. Proechimys cuvieri and P. guyannensis show genetic structure in the eastern part of the Guiana region. Greater genetic distances observed in P. guyannensis, associated with highly structured groups, suggest that more detailed studies of systematics and ecology should be directed to this species.
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36
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Advertisement calls and DNA sequences reveal a new species of Scinax (Anura: Hylidae) on the Pacific lowlands of Ecuador. PLoS One 2018; 13:e0203169. [PMID: 30256795 PMCID: PMC6157856 DOI: 10.1371/journal.pone.0203169] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2018] [Accepted: 08/06/2018] [Indexed: 11/24/2022] Open
Abstract
Scinax is a speciose genus of Neotropical hylid frogs. We describe a new species from western Ecuador (elevations between 0 and 1207 m) using morphology, vocalizations, and DNA sequences. We also present a new phylogeny for Scinax based on mitochondrial DNA genes 12S rRNA, Cytochrome Oxidase sub-unit I, Cytochrome B, 16S rRNA, NADH dehydrogenase subunit 1, and adjacent tRNAs. The new species, Scinax tsachila sp. nov. was previously confused with S. quinquefasciatus, a morphologically similar sympatric species. They differ by having markedly different advisement calls, distinct skin texture in the dorsum, and different bone coloration. The new species is sister to S. elaeochroa, a species that differs in advertisement call and color pattern. We provide an updated species account for Scinax quinquefasciatus and a redescription of its holotype.
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37
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Lemopoulos A, Covain R. Biogeography of the freshwater fishes of the Guianas using a partitioned parsimony analysis of endemicity with reappraisal of ecoregional boundaries. Cladistics 2018; 35:106-124. [DOI: 10.1111/cla.12341] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/06/2018] [Indexed: 11/29/2022] Open
Affiliation(s)
- Alexandre Lemopoulos
- Department of Environmental and Biological Sciences; University of Eastern Finland; PO Box 111 Joensuu FI-80220 Finland
- Department of Herpetology and Ichthyology; Museum of Natural History; PO Box 6434 Geneva 6 CH-1211 Switzerland
| | - Raphaël Covain
- Department of Herpetology and Ichthyology; Museum of Natural History; PO Box 6434 Geneva 6 CH-1211 Switzerland
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38
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Abstract
Skin swabbing, a minimally invasive DNA sampling method recently proposed for adult amphibians, was tested on the dendrobatid frog Allobates femoralis. I compared DNA yield from skin swabs and toe clips by evaluating obtained DNA concentrations and purity of extracts, as well as amplification success using eleven polymorphic microsatellite loci. I also tested whether storing skin swabs for two months at −20°C affected the properties of the extract or microsatellite analysis. Results show that skin swabs of adult A. femoralis suffered from high contamination and yielded significantly lower DNA quality and quantity, resulting in insufficient genotyping success, than DNA obtained from toe clips. The relatively dry skin in dendrobatid frogs may have impeded the collection of sufficient viable cells, and the presence of skin alkaloids and microbiota in the frog mucus may lead to high contamination load of skin swabs.
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Affiliation(s)
- Eva Ringler
- Department of Integrative Biology and Physiology, University of California Los Angeles, 621 Charles E. Young Drive South, Los Angeles, CA 90095-1606, USA.,Department of Integrative Zoology, University of Vienna, Althanstrasse 14, A-1090 Vienna, Austria.,Messerli Research Institute, University of Veterinary Medicine Vienna, Medical University of Vienna, University of Vienna, Veterinaerplatz 1, A-1210 Vienna, Austria
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39
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Huguin M, Arechiga-Ceballos N, Delaval M, Guidez A, de Castro IJ, Lacoste V, Salmier A, Setién AA, Silva CR, Lavergne A, de Thoisy B. How Social Structure Drives the Population Dynamics of the Common Vampire Bat (Desmodus rotundus, Phyllostomidae). J Hered 2017; 109:393-404. [DOI: 10.1093/jhered/esx111] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2017] [Accepted: 12/01/2017] [Indexed: 01/25/2023] Open
Affiliation(s)
- Maïlis Huguin
- Kwata NGO, Cayenne, French Guiana
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Nidia Arechiga-Ceballos
- Laboratorio de Rabia, Instituto de Diagnóstico y Referencia Epidemiológicos. Mexico DF, Mexico
| | | | - Amandine Guidez
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Isaï Jorge de Castro
- Laboratório de Mamíferos, Instituto de Pesquisas Científicas e Tecnológicas do Estado do Amapá, Macapá, Amapá, Brazil
| | - Vincent Lacoste
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Arielle Salmier
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Alvaro Aguilar Setién
- Unidad de Investigación Médica en Inmunología, Coordinación de Investigación, Instituto Mexicano del Seguro Social, México DF, Mexico
| | - Claudia Regina Silva
- Laboratório de Mamíferos, Instituto de Pesquisas Científicas e Tecnológicas do Estado do Amapá, Macapá, Amapá, Brazil
| | - Anne Lavergne
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Benoit de Thoisy
- Kwata NGO, Cayenne, French Guiana
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
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40
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Xue AT, Hickerson MJ. multi-dice: r package for comparative population genomic inference under hierarchical co-demographic models of independent single-population size changes. Mol Ecol Resour 2017; 17:e212-e224. [PMID: 28449263 PMCID: PMC5724483 DOI: 10.1111/1755-0998.12686] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2017] [Revised: 03/14/2017] [Accepted: 04/14/2017] [Indexed: 01/25/2023]
Abstract
Population genetic data from multiple taxa can address comparative phylogeographic questions about community-scale response to environmental shifts, and a useful strategy to this end is to employ hierarchical co-demographic models that directly test multi-taxa hypotheses within a single, unified analysis. This approach has been applied to classical phylogeographic data sets such as mitochondrial barcodes as well as reduced-genome polymorphism data sets that can yield 10,000s of SNPs, produced by emergent technologies such as RAD-seq and GBS. A strategy for the latter had been accomplished by adapting the site frequency spectrum to a novel summarization of population genomic data across multiple taxa called the aggregate site frequency spectrum (aSFS), which potentially can be deployed under various inferential frameworks including approximate Bayesian computation, random forest and composite likelihood optimization. Here, we introduce the r package multi-dice, a wrapper program that exploits existing simulation software for flexible execution of hierarchical model-based inference using the aSFS, which is derived from reduced genome data, as well as mitochondrial data. We validate several novel software features such as applying alternative inferential frameworks, enforcing a minimal threshold of time surrounding co-demographic pulses and specifying flexible hyperprior distributions. In sum, multi-dice provides comparative analysis within the familiar R environment while allowing a high degree of user customization, and will thus serve as a tool for comparative phylogeography and population genomics.
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Affiliation(s)
- Alexander T. Xue
- Department of Biology: Subprogram in Ecology, Evolutionary Biology, and BehaviorCity College and Graduate Center of City University of New YorkNew YorkNYUSA
| | - Michael J. Hickerson
- Department of Biology: Subprogram in Ecology, Evolutionary Biology, and BehaviorCity College and Graduate Center of City University of New YorkNew YorkNYUSA
- Division of Invertebrate ZoologyAmerican Museum of Natural HistoryNew YorkNYUSA
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41
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Wang B, Xie F, Li J, Wang G, Li C, Jiang J. Phylogeographic investigation and ecological niche modelling of the endemic frog species Nanorana pleskei revealed multiple refugia in the eastern Tibetan Plateau. PeerJ 2017; 5:e3770. [PMID: 28924497 PMCID: PMC5598431 DOI: 10.7717/peerj.3770] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2016] [Accepted: 08/16/2017] [Indexed: 11/22/2022] Open
Abstract
The largest plateau Tibetan Plateau supplied an excellent opportunity to investigate the influence of the Pleistocene events on the high-elevation species. To test for the alternative hypotheses of Pleistocene glacial refugia, we used partial sequences of two mitochondrial genes and one nuclear gene to examine the phylogeographic patterns of the endemic frog species Nanorana pleskei across its known range in the eastern Tibetan Plateau, and conducted species distribution modelling (SDM) to explore changes of its distribution range through current and paleo periods. In all data sets, the species was divided into lineage north occupying open plateau platform and lineage south colonizing the mountainous plateau. The divergence of two major clades was estimated at the early Pleistocene. In mtDNA, lineage north contained northeastern and northwestern sublineages, and lineage south had two overlapping-distributed sublineages. Different lineages possessed distinct demographic characteristics, i.e., subdivision in the northeastern sublineage, historical bottleneck effects and recent expansions in the northwestern sublineage and the southeastern sublineage. SDMs depicted that stable suitable habitats had existed in the upper-middle streams of the Yellow River, Dadu River, Jinsha River and Yalong River. These regions were also recognized as the ancestral areas of different lineages. In conclusion, Nanorana pleskei lineages have probably experienced long-term separations. Stable suitable habitats existing in upper-middle streams of major rivers on the eastern Tibetan Plateau and distinct demographic dynamics of different lineages indicated that the lineages possessed independent evolutionary processes in multiple glacial refugia. The findings verified the profound effects of Pleistocene climatic fluctuations on the plateau endemic species.
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Affiliation(s)
- Bin Wang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization, Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan, China
| | - Feng Xie
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization, Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan, China
| | - Jiannan Li
- Nanjing Institute of Environmental Sciences Under Ministry of Environmental Protection, Nanjing, Jiangsu, China
| | - Gang Wang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization, Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan, China
| | - Cheng Li
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization, Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan, China
| | - Jianping Jiang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization, Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan, China
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42
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Oliveira EAD, Rodrigues LR, Kaefer IL, Pinto KC, Hernández-Ruz EJ. A new species of Pristimantis from eastern Brazilian Amazonia (Anura, Craugastoridae). Zookeys 2017:101-129. [PMID: 29114168 PMCID: PMC5672576 DOI: 10.3897/zookeys.687.13221] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Accepted: 06/01/2017] [Indexed: 01/01/2023] Open
Abstract
In this study a new species of Pristimantis (Anura: Craugastoridae) of the P. conspicillatus species group is described. Pristimantis latrosp. n. is known only from the municipalities of Altamira, Anapu, Brasil Novo, Medicilândia, Uruará and Aveiro (Flona Tapajós, right bank of Tapajós river), in Pará state, Brazil. Morphologically, the new species distinguishes from known congeners in the group mainly by the presence of dorsal tubercles and absence of discoidal folds, smooth belly skin, as well as the presence of supernumerary tubercles on hands. The call of the new species consists of seven ascending notes, the first of which has a dominant frequency of 2635 Hz and the last 3272 Hz. Molecular analysis of the 16S mtDNA indicates a genetic distance of 8% to P. chiastonotus, its closet relative, and between 9% and 11% to populations of P. fenestratus.
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Affiliation(s)
- Elciomar Araújo De Oliveira
- Programa de Pós-Graduação em Biodiversidade e Biotecnologia da Rede BIONORTE, Universidade Federal do Amazonas, Av. Gen. Rodrigo Octávio Jordão Ramos, 3000, CEP 69077-000, Manaus, Amazonas, Brazil
| | - Luis Reginaldo Rodrigues
- Programa de Pós-Graduação em Biociências, Universidade Federal do Oeste do Pará, Rua Vera Paz, s/n (Unidade Tapajós), CEP 68035-110, Santarém, Pará, Brazil
| | - Igor Luis Kaefer
- Universidade Federal do Amazonas. Av. Gen. Rodrigo Octávio Jordão Ramos, 3000, CEP 69077-000, Manaus, Amazonas, Brazil
| | - Karll Cavalcante Pinto
- Biota Projetos e Consultoria Ambiental LTDA, Rua 86-C, 64, CEP 74083-360, Setor Sul, Goiânia, Goiás, Brazil
| | - Emil José Hernández-Ruz
- Programa de Pós-Graduação em Biodiversidade e Conservação, Faculdade de Ciências Biológicas, Campus Universitário de Altamira, Universidade Federal do Pará, Rua Coronel José Porfírio, 2515, CEP 68372-040, Altamira, Pará, Brazil
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43
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Clemente-Carvalho RB, Vaira M, King LE, Koscinski D, Bonansea MI, Lougheed SC. Phytogeographic patterns and cryptic diversity in an aposematic toad from NW Argentina. Mol Phylogenet Evol 2017; 116:248-256. [PMID: 28750851 DOI: 10.1016/j.ympev.2017.07.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2016] [Revised: 07/19/2017] [Accepted: 07/20/2017] [Indexed: 11/15/2022]
Abstract
The Yungas Redbelly Toad, Melanophryniscus rubriventris, is patchily distributed in Argentina, confined to the upland portion (1000-2000m above sea level) of the montane forests of northern and central regions of Salta, and in central-eastern and south-eastern Jujuy. This species is known for its striking aposematic color variation across its geographic distribution, and was once treated as a complex of three subspecies based on distinctive color patterns. Here we assess the geographical genetic variation within M. rubriventris and quantify divergence in color and pattern among individuals sampled from Northwestern Argentina. We compare multi-gene phylogeography of M. rubriventris to patterns of dorsal and ventral coloration to test whether evolutionary affinities predict variation in warning color. Our results reveal two well-supported species lineages: one confined to the extreme northern portion of our sampling area, and the other extending over most of the Argentine portion of the species' range, within which there are two populations. However, these well-supported evolutionary relationships do not mirror the marked variation in warning coloration. This discordance between DNA genealogy and warning color variation may reflect selection brought about by differences in local predation pressures, potentially coupled with effects of sexual selection and thermoregulation.
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Affiliation(s)
| | - Marcos Vaira
- Centro de Investigaciones y Transferencia de Jujuy, Conicet - Universidad Nacional de Jujuy, Gorriti 237, 4600 S.S. de Jujuy, Argentina.
| | - Laura E King
- Wildlife Preservation Canada, 5420 Highway 6 North Guelph, Ontario, N1H 6J2, Canada.
| | - Daria Koscinski
- Department of Biology, University of Western Ontario, London, Ontario, N6A 5B7, Canada.
| | - Maria I Bonansea
- Facultad de Ciencias Agrarias, Universidad Nacional de Jujuy, Alberdi 47, 4600 S. S. de Jujuy, Argentina.
| | - Stephen C Lougheed
- Department of Biology, Queen's University, Kingston, Ontario K7L 3N6, Canada.
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44
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Ringler M, Szipl G, Hödl W, Khil L, Kofler B, Lonauer M, Provin C, Ringler E. Acoustic ranging in poison frogs-it is not about signal amplitude alone. Behav Ecol Sociobiol 2017; 71:114. [PMID: 28757679 PMCID: PMC5506510 DOI: 10.1007/s00265-017-2340-2] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Revised: 06/20/2017] [Accepted: 06/21/2017] [Indexed: 12/27/2022]
Abstract
Abstract Acoustic ranging allows identifying the distance of a sound source and mediates inter-individual spacing and aggression in territorial species. Birds and mammals are known to use more complex cues than only sound pressure level (SPL), which can be influenced by the signaller and signal transmission in non-predictable ways and thus is not reliable by itself. For frogs, only SPL is currently known to mediate inter-individual distances, but we hypothesise that the strong territoriality of Dendrobatids could make the use of complex cues for ranging highly beneficial for this family. Therefore, we tested the ranging abilities of territorial males of Allobates femoralis (Dendrobatidae, Aromobatinae) in playback trials, using amplitude-normalized signals that were naturally degraded over distance, and synthetic signals that were masked with different levels of noise. Frogs responded significantly less to signals recorded from larger distances, regardless of SPL and signal-to-noise ratio (SNR), but showed no differential response to natural minimum and maximum SNRs across the typical communication range in wild populations. This indicates that frogs used signal amplitude and SNR only as ancillary cues when assessing the distance of sound sources and relied instead mainly on more complex cues, such as spectral degradation or reverberation. We suggest that this ability mediates territorial spacing and mate choice in A. femoralis. Good ranging abilities might also play a role in the remarkable orientation performance of this species, probably by enabling the establishment of a mental acoustic map of the habitat. Significance statement Acoustic ranging allows the distance of vocalizing competitors and mates to be identified. While birds and mammals are known to use complex cues such as temporal degradation, frequency-dependent attenuation and reverberation for ranging, previous research indicated that frogs rely only on signal amplitude (sound pressure level) to assess the distance of other callers. The present study shows for the first time that also poison frogs can make use of more complex cues, an ability which is likely to be highly beneficial in their territorial social organization and probably can also be used for orientation. Electronic supplementary material The online version of this article (doi:10.1007/s00265-017-2340-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Max Ringler
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, 621 Charles E. Young Drive South, Los Angeles, CA 90095-1606 USA
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Georgine Szipl
- Department of Cognitive Biology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
- Konrad Lorenz Forschungsstelle, Core Facility, University of Vienna, Fischerau 11, 4645 Grünau im Almtal, Austria
| | - Walter Hödl
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Leander Khil
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Barbara Kofler
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Michael Lonauer
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Christina Provin
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Eva Ringler
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, 621 Charles E. Young Drive South, Los Angeles, CA 90095-1606 USA
- Department of Integrative Zoology, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
- Messerli Research Institute, University of Veterinary Medicine Vienna, Medical University of Vienna, and University of Vienna, Veterinärplatz 1, 1210 Vienna, Austria
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45
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Cryptic diversity in Amazonian frogs: Integrative taxonomy of the genus Anomaloglossus (Amphibia: Anura: Aromobatidae) reveals a unique case of diversification within the Guiana Shield. Mol Phylogenet Evol 2017; 112:158-173. [DOI: 10.1016/j.ympev.2017.04.017] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2017] [Accepted: 04/19/2017] [Indexed: 11/23/2022]
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46
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Ruedas LA. A new species of cottontail rabbit (Lagomorpha: Leporidae: Sylvilagus) from Suriname, with comments on the taxonomy of allied taxa from northern South America. J Mammal 2017. [DOI: 10.1093/jmammal/gyx048] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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47
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Vallinoto M, Cunha DB, Bessa-Silva A, Sodré D, Sequeira F. Deep divergence and hybridization among sympatric Neotropical toads. Zool J Linn Soc 2017. [DOI: 10.1093/zoolinnean/zlw001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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48
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Ribeiro-Júnior M, Amaral S. Diversity, distribution, and conservation of lizards (Reptilia: Squamata) in the Brazilian Amazonia. NEOTROPICAL BIODIVERSITY 2017. [DOI: 10.1080/23766808.2016.1236769] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Affiliation(s)
- Marco Ribeiro-Júnior
- Museu Paraense Emilio Goeldi Programa de Pós-Graduação em Zoologia UFPA-MPEG, C.P. 399, 66017-970, Belém, Pará, Brazil
| | - Silvana Amaral
- Instituto Nacional de Pesquisas Espaciais, C.P. 515, 12227-010, São José dos Campos, São Paulo, Brazil
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49
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Papadopoulou A, Knowles LL. Toward a paradigm shift in comparative phylogeography driven by trait-based hypotheses. Proc Natl Acad Sci U S A 2016; 113:8018-24. [PMID: 27432974 PMCID: PMC4961141 DOI: 10.1073/pnas.1601069113] [Citation(s) in RCA: 138] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023] Open
Abstract
For three decades, comparative phylogeography has conceptually and methodologically relied on the concordance criterion for providing insights into the historical/biogeographic processes driving population genetic structure and divergence. Here we discuss how this emphasis, and the corresponding lack of methods for extracting information about biotic/intrinsic contributions to patterns of genetic variation, may bias our general understanding of the factors driving genetic structure. Specifically, this emphasis has promoted a tendency to attribute discordant phylogeographic patterns to the idiosyncracies of history, as well as an adherence to generic null expectations of concordance with reduced predictive power. We advocate that it is time for a paradigm shift in comparative phylogeography, especially given the limited utility of the concordance criterion as genomic data provide ever-increasing levels of resolution. Instead of adhering to the concordance-discordance dichotomy, comparative phylogeography needs to emphasize the contribution of taxon-specific traits that will determine whether concordance is a meaningful criterion for evaluating hypotheses or may predict discordant phylogeographic structure. Through reference to some case studies we illustrate how refined hypotheses based on taxon-specific traits can provide improved predictive frameworks to forecast species responses to climatic change or biogeographic barriers while gaining unique insights about the taxa themselves and their interactions with their environment. We outline a potential avenue toward a synthetic comparative phylogeographic paradigm that includes addressing some important conceptual and methodological challenges related to study design and application of model-based approaches for evaluating support of trait-based hypotheses under the proposed paradigm.
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Affiliation(s)
- Anna Papadopoulou
- Department of Ecology and Evolutionary Biology, Museum of Zoology, University of Michigan, Ann Arbor, MI 48109; Department of Integrative Ecology, Estación Biológica de Doñana, Consejo Superior de Investigaciones Cientificas, 41092 Seville, Spain
| | - L Lacey Knowles
- Department of Ecology and Evolutionary Biology, Museum of Zoology, University of Michigan, Ann Arbor, MI 48109;
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50
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Satler JD, Carstens BC. Phylogeographic concordance factors quantify phylogeographic congruence among co-distributed species in the Sarracenia alata pitcher plant system. Evolution 2016; 70:1105-19. [PMID: 27076412 DOI: 10.1111/evo.12924] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Revised: 03/28/2016] [Accepted: 04/01/2016] [Indexed: 12/18/2022]
Abstract
Comparative phylogeographic investigations have identified congruent phylogeographic breaks in co-distributed species in nearly every region of the world. The qualitative assessments of phylogeographic patterns traditionally used to identify such breaks, however, are limited because they rely on identifying monophyletic groups across species and do not account for coalescent stochasticity. Only long-standing phylogeographic breaks are likely to be obvious; many species could have had a concerted response to more recent landscape events, yet possess subtle signs of phylogeographic congruence because ancestral polymorphism has not completely sorted. Here, we introduce Phylogeographic Concordance Factors (PCFs), a novel method for quantifying phylogeographic congruence across species. We apply this method to the Sarracenia alata pitcher plant system, a carnivorous plant with a diverse array of commensal organisms. We explore whether a group of ecologically associated arthropods have co-diversified with the host pitcher plant, and identify if there is a positive correlation between ecological interaction and PCFs. Results demonstrate that multiple arthropods share congruent phylogeographic breaks with S. alata, and provide evidence that the level of ecological association can be used to predict the degree of similarity in the phylogeographic pattern. This study outlines an approach for quantifying phylogeographic congruence, a central concept in biogeographic research.
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Affiliation(s)
- Jordan D Satler
- Department of Evolution, Ecology and Organismal Biology, The Ohio State University, Columbus, Ohio, 43210.
| | - Bryan C Carstens
- Department of Evolution, Ecology and Organismal Biology, The Ohio State University, Columbus, Ohio, 43210
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