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Salazar-Bravo J, Tinoco N, Zeballos H, Brito J, Arenas-Viveros D, Marín-C D, Ramírez-Fernández JD, Percequillo AR, Lee, Jr. TE, Solari S, Colmenares-Pinzon J, Nivelo C, Rodríguez Herrera B, Merino W, Medina CE, Murillo-García O, Pardiñas UF. Systematics and diversification of the Ichthyomyini (Cricetidae, Sigmodontinae) revisited: evidence from molecular, morphological, and combined approaches. PeerJ 2023; 11:e14319. [PMID: 36655048 PMCID: PMC9841913 DOI: 10.7717/peerj.14319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Accepted: 10/09/2022] [Indexed: 01/15/2023] Open
Abstract
Ichthyomyini, a morphologically distinctive group of Neotropical cricetid rodents, lacks an integrative study of its systematics and biogeography. Since this tribe is a crucial element of the Sigmodontinae, the most speciose subfamily of the Cricetidae, we conducted a study that includes most of its recognized diversity (five genera and 19 species distributed from southern Mexico to northern Bolivia). For this report we analyzed a combined matrix composed of four molecular markers (RBP3, GHR, RAG1, Cytb) and 56 morphological traits, the latter including 15 external, 14 cranial, 19 dental, five soft-anatomical and three postcranial features. A variety of results were obtained, some of which are inconsistent with the currently accepted classification and understanding of the tribe. Ichthyomyini is retrieved as monophyletic, and it is divided into two main clades that are here recognized as subtribes: one to contain the genus Anotomys and the other composed by the remaining genera. Neusticomys (as currently recognized) was found to consist of two well supported clades, one of which corresponds to the original concept of Daptomys. Accordingly, we propose the resurrection of the latter as a valid genus to include several species from low to middle elevations and restrict Neusticomys to several highland forms. Numerous other revisions are necessary to reconcile the alpha taxonomy of ichthyomyines with our phylogenetic results, including placement of the Cajas Plateau water rat (formerly Chibchanomys orcesi) in the genus Neusticomys (sensu stricto), and the recognition of at least two new species (one in Neusticomys, one in Daptomys). Additional work is necessary to confirm other unanticipated results, such as the non-monophyletic nature of Rheomys and the presence of a possible new genus and species from Peru. Our results also suggest that ichthyomyines are one of the main Andean radiations of sigmodontine cricetids, with an evolutionary history dating to the Late Miocene and subsequent cladogenesis during the Pleistocene.
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Affiliation(s)
- Jorge Salazar-Bravo
- Department of Biological Sciences, Texas Tech University, Lubbock, Texas, United States,Instituto de Ecologia, Universidad Mayor de San Andrés, La Paz, Bolivia,Instituto Nacional de Biodiversidad, Quito, Ecuador
| | - Nicolás Tinoco
- Museo de Zoología Escuela de Ciencias Biológicas, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | | | - Jorge Brito
- Instituto Nacional de Biodiversidad, Quito, Ecuador
| | | | - David Marín-C
- Colección Teriológica, Universidad de Antioquia, Medellin, Colombia
| | | | - Alexandre R. Percequillo
- Escola Superior de Agricultura “Luiz de Queiroz”, Departamento de Ciências Biológicas, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Thomas E. Lee, Jr.
- Department of Biology, Abilene Christian University, Abilene, Texas, United States
| | - Sergio Solari
- Instituto de Biología, Universidad de Antioquia, Medellin, Antioquia, Colombia
| | - Javier Colmenares-Pinzon
- Department of Biological Sciences, Texas Tech University, Lubbock, Texas, United States,Grupo de Estudios en Biodiversidad, Escuela de Biología, Universidad Industrial de Santander, Bucaramanga, Santander, Colombia
| | - Carlos Nivelo
- Museo de Zoologia, Escuela de Biología, Universidad del Azuay, Cuenca, Ecuador,Instituto de Diversidad y Evolución Austral, Consejo Nacional de Investigaciones Científicas y Técnicas, Puerto Madryn, Chubut, Argentina
| | | | - William Merino
- Escuela de Biología, Universidad de El Salvador, San Salvador, San Salvador, El Salvador
| | - Cesar E. Medina
- Museo de Historia Natural, Universidad Nacional de San Agustin, Arequipa, Arequipa, Peru
| | - Oscar Murillo-García
- Departamento de Biología, Universidad del Valle, Cali, Valle del Cauca, Colombia
| | - Ulyses F.J. Pardiñas
- Instituto Nacional de Biodiversidad, Quito, Ecuador,Instituto de Diversidad y Evolución Austral, Consejo Nacional de Investigaciones Científicas y Técnicas, Puerto Madryn, Chubut, Argentina
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Bogoni JA, Percequillo AR, Ferraz KMPMB, Peres CA. The empty forest three decades later: Lessons and prospects. Biotropica 2022. [DOI: 10.1111/btp.13188] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Juliano A. Bogoni
- Laboratório de Ecologia, Manejo e Conservação de Fauna (LEMaC), Departamento de Ciências Florestais, Escola Superior de Agricultura “Luiz de Queiroz” Universidade de São Paulo Piracicaba Brazil
- School of Environmental Sciences University of East Anglia Norwich UK
| | - Alexandre R. Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz” Universidade de São Paulo Piracicaba Brazil
| | - Katia M. P. M. B. Ferraz
- Laboratório de Ecologia, Manejo e Conservação de Fauna (LEMaC), Departamento de Ciências Florestais, Escola Superior de Agricultura “Luiz de Queiroz” Universidade de São Paulo Piracicaba Brazil
| | - Carlos A. Peres
- School of Environmental Sciences University of East Anglia Norwich UK
- Instituto Juruá Manaus Brazil
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Abreu EF, Pavan SE, Tsuchiya MTN, McLean BS, Wilson DE, Percequillo AR, Maldonado JE. Old specimens for old branches: Assessing effects of sample age in resolving a rapid Neotropical radiation of squirrels. Mol Phylogenet Evol 2022; 175:107576. [PMID: 35809853 DOI: 10.1016/j.ympev.2022.107576] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Revised: 06/10/2022] [Accepted: 07/01/2022] [Indexed: 11/15/2022]
Abstract
Ultraconserved Elements (UCEs) have been useful to resolve challenging phylogenies of non-model clades, unpuzzling long-conflicted relationships in key branches of the Tree of Life at both deep and shallow levels. UCEs are often reliably recovered from historical samples, unlocking a vast number of preserved natural history specimens for analysis. However, the extent to which sample age and preservation method impact UCE recovery as well as downstream inferences remains unclear. Furthermore, there is an ongoing debate on how to curate, filter, and properly analyze UCE data when locus recovery is uneven across sample age and quality. In the present study we address these questions with an empirical dataset composed of over 3800 UCE loci from 219 historical and modern samples of Sciuridae, a globally distributed and ecologically important family of rodents. We provide a genome-scale phylogeny of two squirrel subfamilies (Sciurillinae and Sciurinae: Sciurini) and investigate their placement within Sciuridae. For historical specimens, recovery of UCE loci and mean length per locus were inversely related to sample age; deeper sequencing improved the number of UCE loci recovered but not locus length. Most of our phylogenetic inferences-performed on six datasets with alternative data-filtering strategies, and using three distinct optimality criteria-resulted in distinct topologies. Datasets containing more loci (40% and 50% taxa representativeness matrices) yielded more concordant topologies and higher support values than strictly filtered datasets (60% matrices) particularly with IQ-Tree and SVDquartets, while filtering based on information content provided better topological resolution for inferences with the coalescent gene-tree based approach in ASTRAL-III. We resolved deep relationships in Sciuridae (including among the five currently recognized subfamilies) and relationships among the deepest branches of Sciurini, but conflicting relationships remain at both genus- and species-levels for the rapid Neotropical tree squirrel radiation. Our results suggest that phylogenomic consensus can be difficult and heavily influenced by the age of available samples and the filtering steps used to optimize dataset properties.
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Affiliation(s)
- Edson F Abreu
- Laboratório de Mamíferos, Departamento de Ciências Biológicas, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, Brazil; Center for Conservation Genomics, Smithsonian National Zoo and Conservation Biology Institute, Washington, DC, USA.
| | - Silvia E Pavan
- Center for Conservation Genomics, Smithsonian National Zoo and Conservation Biology Institute, Washington, DC, USA
| | - Mirian T N Tsuchiya
- Center for Conservation Genomics, Smithsonian National Zoo and Conservation Biology Institute, Washington, DC, USA; Data Science Lab, Office of the Chief Information Officer, Smithsonian Institution, Washington, DC, USA
| | - Bryan S McLean
- Department of Biology, University of North Carolina Greensboro, Greensboro, NC, USA
| | - Don E Wilson
- Division of Mammals, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | - Alexandre R Percequillo
- Laboratório de Mamíferos, Departamento de Ciências Biológicas, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - Jesús E Maldonado
- Center for Conservation Genomics, Smithsonian National Zoo and Conservation Biology Institute, Washington, DC, USA
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Galetti M, Carmignotto AP, Percequillo AR, Santos MCDO, Ferraz KMPMDB, Lima F, Vancine MH, Muylaert RL, Bonfim FCG, Magioli M, Abra FD, Chiarello AG, Duarte JMB, Morato R, de Mello Beisiegel B, Olmos F, Galetti Jr. PM, Ribeiro MC. Mammals in São Paulo State: diversity, distribution, ecology, and conservation. Biota Neotrop 2022. [DOI: 10.1590/1676-0611-bn-2022-1363] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Abstract Mammals are charismatic organisms that play a fundamental role in ecological functions and ecosystem services, such as pollination, seed dispersal, nutrient cycling, and pest control. The state of São Paulo represents only 3% of the Brazilian territory but holds 33% of its mammalian diversity. Most of its territory is dominated by agriculture, pastures, and urban areas which directly affect the diversity and persistence of mammals in the landscape. In addition, São Paulo has the largest port in Latin America and the largest offshore oil reservoir in Brazil, with a 600 km stretch of coastline with several marine mammal species. These human-made infrastructures affect the diversity, distribution, ecology, and the future of mammals in the state. Here, we answer five main questions: 1) What is the diversity of wild mammals in São Paulo state? 2) Where are they? 3) What is their positive and negative impact on human well-being? 4) How do mammals thrive in human-modified landscapes? 5) What is the future of mammals in the state? The state of São Paulo holds 255 species of native mammals, with four endemic species, two of them globally endangered. At least six species (two marsupials, Giant otter, Pampas deer, Brazilian dwarf brocket deer, and Giant armadillo) were extirpated from the state due to hunting and habitat loss. The intense human land use in the state forced many mammalian species to change their diet to cope with the intense fragmentation and agriculture. Large-scale monoculture has facilitated the invasion of exotic species such as wild boars (javali) and the European hare. Several “savanna-dwelling” species are expanding their ranges (Maned wolf, Brocket deer) over deforested areas and probably reflect changes towards a drier climate. Because the state has the largest road system, about 40,000 mammals from 33 species are killed per year in collisions causing an economic loss of 12 million dollars/year. The diversity of mammals is concentrated in the largest forest remnants of Serra do Mar and in the interior of the State, mainly in the regions of Ribeirão Preto and Jundiaí. Sampling gaps are concentrated throughout the interior of the state, particularly in the northwest region. Wild mammals play a fundamental role in many ecosystem services, but they can also be a concern in bringing new emergent diseases to humans. Although the taxonomy of mammals seems to be well known, we show that new species are continuously being discovered in the state. Therefore, continuous surveys using traditional and new technologies (eDNA, iDNA, drones), long-term population monitoring, investigation of the interface of human-wildlife conflict, and understanding of the unique ecosystem role played by mammals are future avenues for promoting sustainable green landscapes allied to human well-being in the state. The planting of forest or savanna corridors, particularly along with major river systems, in the plateau, controlling illegal hunting in the coastal areas, managing fire regimes in the Cerrado, and mitigating roadkill must be prioritized to protect this outstanding mammal diversity.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - Marcelo Magioli
- Instituto Pró-Carnivoros, Brasil; Instituto Chico Mendes de Conservação da Biodiversidade, Brasil
| | - Fernanda D. Abra
- Instituto Pró-Carnivoros, Brasil; Smithsonian Conservation Biology Institute, USA
| | | | | | - Ronaldo Morato
- Instituto Chico Mendes de Conservação da Biodiversidade, Brasil
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Prado JR, Knowles LL, Percequillo AR. A new species of South America marsh rat (Holochilus, Cricetidae) from northeastern Brazil. J Mammal 2021. [DOI: 10.1093/jmammal/gyab104] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Abstract
Marsh rats of the genus Holochilus are broadly distributed and inhabit several distinct environments throughout South America. As an enigmatic group with a somewhat uncertain taxonomy, the composition and names of taxa have shifted throughout history, including the boundaries of Holochilus sciureus, a species formerly distributed in the lowlands of the Guianas, Peru, Bolivia, and northern, central, and northeastern of Brazil. Based on a combination of morphological and morphometric traits, and genomic sequences, we redefined species boundaries and split this wide concept of H. sciureus into three separated species, including a redefined H. sciureus, the newly erected from synonymy H. nanus, and an unnamed taxon. We describe this unnamed species, and provide emended diagnoses for the two redefined species. The newly named taxon inhabits the northeastern part of Brazil and differs from the other congeners by a unique combination of phenotypic and genomic characters.
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Affiliation(s)
- Joyce R Prado
- Departamento de Ciências Biológicas, Escola Superior de Agricultura ‘Luiz de Queiroz’, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - L Lacey Knowles
- Department of Ecology and Evolutionary Biology, The University of Michigan, Ann Arbor, MI, USA
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura ‘Luiz de Queiroz’, Universidade de São Paulo, Piracicaba, SP, Brazil
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Prado JR, Percequillo AR, Pirani RM, Thomaz AT. Phenotypic and genomic differences between biomes of the South America marsh rat, Holochilus brasiliensis. Biol J Linn Soc Lond 2021. [DOI: 10.1093/biolinnean/blab132] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Abstract
Abiotic factors can influence genetic and phenotypic divergence in several ways, and identifying the mechanisms responsible for generating this variation is challenging. However, when evaluated in combination, ecological characteristics and genetic and phenotypic information can help us to understand how habitat preferences can influence morphological and genetic patterns exhibited by taxa distributed between distinct biomes, such as the Atlantic Forest and Pampas biomes in South America. By combining distributional, environmental, phenotypic and genomic information from a habitat-specialist semi-aquatic rodent (Holochilus brasiliensis), we quantified the relationship between ecological niche differences and the phenotypic and genetic variation. The results demonstrate notable segregation among the ecological niches of H. brasiliensis within each biome, although we could not refute the hypothesis of niche similarity or equivalency. Such differences are consistent with a solid morphometric variation associated with the size of these rodents. However, the ecological and morphometric differentiation is not accompanied by the same pattern of genetic variation. Despite differences in the connectivity patterns in both biomes, the genetic differences corroborate a consistent level of migration history between biomes. Additionally, the association tests show that the environment explains a small and non- significant part of the genetic variation but a significant portion of the morphometric variation.
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Affiliation(s)
- Joyce R Prado
- Departamento de Ciências Biológicas, Escola Superior de Agricultura ‘Luiz de Queiroz’, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura ‘Luiz de Queiroz’, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - Renata M Pirani
- Biology Department, University of Nevada-Reno, Reno, NV, USA
| | - Andrea T Thomaz
- Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, DC, Colombia
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Serpa MCDA, Luz HR, Costa FB, Weck BC, Benatti HR, Martins TF, Correa LS, Ramirez DG, Rocha V, Dias TC, Correa LR, Brasil J, Brites-Neto J, Nievas AM, Suzin A, Monticelli PF, Moro MEG, Lopes B, Pacheco RC, Aguiar DM, Piovezan U, Szabó MPJ, Ferraz KMPMB, Percequillo AR, Labruna MB, Ramos VN. Small mammals, ticks and rickettsiae in natural and human-modified landscapes: Diversity and occurrence of Brazilian spotted fever in Brazil. Ticks Tick Borne Dis 2021; 12:101805. [PMID: 34411793 DOI: 10.1016/j.ttbdis.2021.101805] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2020] [Revised: 07/15/2021] [Accepted: 08/05/2021] [Indexed: 10/20/2022]
Abstract
We studied communities of small mammals and their ticks in endemic (E) and non-endemic (NE) areas for Brazilian spotted fever (BSF), aiming to infer if diversity parameters of parasites and hosts could be related to occurrence and prevalence of rickettsial infection, especially Rickettsia rickettsii. We compared E and NE areas in human-modified landscapes (HMLs) and natural areas (BIO) with no report of BSF cases. Composition and equitability were important components of diversity explaining differences among areas. The marsupial Didelphis albiventris was dominant in HMLs, but not in natural areas, and this opossum was the main host for the tick Amblyomma sculptum, principal vector of R. rickettsii, especially in E areas. Communities of ticks were dominated by A. sculptum, followed by Amblyomma dubitatum in E areas. In NE areas, this dominance was inverted, with more A. dubitatum than A. sculptum infesting small mammals, but the numbers of ticks were much lower than in E areas. Composition and abundance of ticks in natural areas were very dissimilar from HMLs, with the lowest tick burdens. Didelphis albiventris in E areas presented higher seroprevalence and endpoint titres against R. rickettsii than in other areas. At least three Rickettsia species, non-pathogenic to humans, were detected in natural areas (Rickettsia bellii, Rickettsia amblyommatis and 'Candidatus Rickettsia andeanae'), and only one non-pathogenic species in HMLs (R. bellii). Our results suggest that higher diversity of ticks, hosts and rickettsiae could be relevant factors in buffering the effect in BSF occurrence. Particularly for D. albiventris, its importance has to be quantified in further studies considering the epidemiological scenario of BSF.
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Affiliation(s)
- Maria Carolina de A Serpa
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Hermes R Luz
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Departamento de Patologia, Programa de Pós Graduação em Biotecnologia do Renorbio, Ponto Focal Maranhão, Universidade Federal do Maranhão, São Luís, MA, Brazil
| | - Francisco B Costa
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Departamento de Patologia, Faculdade de Medicina Veterinária, Universidade Estadual do Maranhão, São Luís, MA, Brazil
| | - Bárbara C Weck
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Hector R Benatti
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Thiago F Martins
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Departamento de Laboratórios Especializados, Superintendência de Controle de Endemias, Secretaria de Estado da Saúde de São Paulo, São Paulo, SP, Brazil
| | - Lidiani Silva Correa
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Departamento de Ciências Biológicas, Escola Superior de Agricultura 'Luiz de Queiroz' Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Diego G Ramirez
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Departamento de Parasitologia Animal, Instituto de Medicina Veterinária, Universidade Federal Rural do Rio de Janeiro, Seropédica, RJ, Brazil
| | - Vlamir Rocha
- Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, SP, Brazil
| | - Thiago C Dias
- Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, SP, Brazil; Centro de Ciências Biológicas e da Saúde, Programa de Pós-Graduação em Ecologia e Recursos Naturais, Universidade Federal de São Carlos, São Carlos, SP, Brazil
| | - Lucas Ribeiro Correa
- Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, SP, Brazil
| | - Jardel Brasil
- Unidade de Vigilância em Saúde, Secretaria Municipal de Saúde, Americana, SP, Brazil
| | - José Brites-Neto
- Unidade de Vigilância em Saúde, Secretaria Municipal de Saúde, Americana, SP, Brazil
| | - Ana Maria Nievas
- Departamento de Psicologia, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto, SP, Brazil
| | - Adriane Suzin
- Laboratório de Ixodologia, Faculdade de Medicina Veterinária, Universidade Federal de Uberlândia, Uberlândia, MG, Brazil; Programa de Pós Graduação em Ecologia e Conservação de Recursos Naturais, Universidade Federal de Uberlândia, Uberlândia, MG, Brazil
| | - Patricia Ferreira Monticelli
- Departamento de Psicologia, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto, SP, Brazil
| | - Maria Estela G Moro
- Departamento de Zootecnia, Faculdade de Zootecnia e Engenharia de Alimentos, Universidade de São Paulo, Pirassununga, SP, Brazil
| | - Beatriz Lopes
- Departamento de Ciências Florestais, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - Richard C Pacheco
- Programa de Pós-graduação em Ciências Veterinárias, Faculdade de Medicina Veterinária, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Daniel M Aguiar
- Programa de Pós-graduação em Ciências Veterinárias, Faculdade de Medicina Veterinária, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Ubiratan Piovezan
- Embrapa Pantanal, Corumbá, MS, Brazil; Embrapa Tabuleiros Costeiros, Aracaju, SE, Brazil
| | - Matias P J Szabó
- Laboratório de Ixodologia, Faculdade de Medicina Veterinária, Universidade Federal de Uberlândia, Uberlândia, MG, Brazil
| | - Katia Maria P M B Ferraz
- Departamento de Ciências Florestais, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, Brazil
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura 'Luiz de Queiroz' Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Marcelo B Labruna
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil
| | - Vanessa N Ramos
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, Brazil; Laboratório de Ixodologia, Faculdade de Medicina Veterinária, Universidade Federal de Uberlândia, Uberlândia, MG, Brazil.
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8
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Brito J, Koch C, Percequillo AR, Tinoco N, Weksler M, Pinto CM, Pardiñas UFJ. A new genus of oryzomyine rodents (Cricetidae, Sigmodontinae) with three new species from montane cloud forests, western Andean cordillera of Colombia and Ecuador. PeerJ 2020; 8:e10247. [PMID: 33240614 PMCID: PMC7664470 DOI: 10.7717/peerj.10247] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Accepted: 10/06/2020] [Indexed: 11/23/2022] Open
Abstract
The Andean cloud forests of western Colombia and Ecuador are home to several endemic mammals; members of the Oryzomyini, the largest Sigmodontinae tribe, are extensively represented in the region. However, our knowledge about this diversity is still incomplete, as evidenced by several new taxa that have been described in recent years. Extensive field work in two protected areas enclosing remnants of Chocó montane forest recovered a high diversity of small mammals. Among them, a medium-sized oryzomyine is here described as a new genus having at least three new species, two of them are named and diagnosed. Although externally similar to members of the genera Nephelomys and Tanyuromys, the new genus has a unique molar pattern within the tribe, being characterized by a noticeable degree of hypsodonty, simplification, lamination, and third molar compression. A phylogeny based on a combination of molecular markers, including nuclear and mitochondrial genes, and morphological data recovered the new genus as sister to Mindomys, and sequentially to Nephelomys. The new genus seems to be another example of a sigmodontine rodent unique to the Chocó biogeographic region. Its type species inhabits cloud forest between 1,600 and 2,300 m in northernmost Ecuador (Carchi Province); a second species is restricted to lower montane forest, 1,200 m, in northern Ecuador (Imbabura Province); a third putative species, here highlighted exclusively by molecular evidence from one immature specimen, is recorded in the montane forest of Reserva Otonga, northern Ecuador (Cotopaxi Province). Finally, the new genus is also recorded in southernmost Colombia (Nariño Department), probably represented there also by a new species. These species are spatially separated by deep river canyons through Andean forests, resulting in marked environmental discontinuities. Unfortunately, Colombian and Ecuadorian Pacific cloud forests are under rapid anthropic transformation. Although the populations of the type species are moderately abundant and occur in protected areas, the other two persist in threatened forest fragments.
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Affiliation(s)
- Jorge Brito
- Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador
| | - Claudia Koch
- Zoologisches Forschungsmuseum Alexander Koenig (ZFMK), Bonn, Germany
| | - Alexandre R. Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Nicolás Tinoco
- Sección de Mastozoología, Museo de Zoología, Facultad de Ciencias Exactas y Naturales, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - Marcelo Weksler
- Setor de Mastozoologia, Departamento de Vertebrados, Museu Nacional, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - C. Miguel Pinto
- Observatorio de Biodiversidad Ambiente y Salud (OBBAS), Quito, Ecuador
| | - Ulyses F. J. Pardiñas
- Instituto Nacional de Biodiversidad (INABIO), Quito, Ecuador
- Instituto de Diversidad y Evolución Austral (IDEAus—CONICET), Puerto Madryn, Argentina
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Abreu-Jr EFD, Pavan SE, Tsuchiya MTN, Wilson DE, Percequillo AR, Maldonado JE. Spatiotemporal Diversification of Tree Squirrels: Is the South American Invasion and Speciation Really That Recent and Fast? Front Ecol Evol 2020. [DOI: 10.3389/fevo.2020.00230] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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10
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de Abreu-Jr EF, Pavan SE, Tsuchiya MTN, Wilson DE, Percequillo AR, Maldonado JE. Museomics of tree squirrels: a dense taxon sampling of mitogenomes reveals hidden diversity, phenotypic convergence, and the need of a taxonomic overhaul. BMC Evol Biol 2020; 20:77. [PMID: 32590930 PMCID: PMC7320592 DOI: 10.1186/s12862-020-01639-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Accepted: 06/17/2020] [Indexed: 12/27/2022] Open
Abstract
BACKGROUND Tree squirrels (Sciuridae, Sciurini), in particular the highly diverse Neotropical lineages, are amongst the most rapidly diversifying branches of the mammal tree of life but also some of the least known. Negligence of this group by systematists is likely a product of the difficulties in assessing morphological informative traits and of the scarcity or unavailability of fresh tissue samples for DNA sequencing. The highly discrepant taxonomic arrangements are a consequence of the lack of phylogenies and the exclusive phenotypic-based classifications, which can be misleading in a group with conservative morphology. Here we used high-throughput sequencing and an unprecedented sampling of museum specimens to provide the first comprehensive phylogeny of tree squirrels, with a special emphasis on Neotropical taxa. RESULTS We obtained complete or partial mitochondrial genomes from 232 historical and modern samples, representing 40 of the 43 currently recognized species of Sciurini. Our phylogenetic analyses-performed with datasets differing on levels of missing data and taxa under distinct analytical methods-strongly support the monophyly of Sciurini and consistently recovered 12 major clades within the tribe. We found evidence that the diversity of Neotropical tree squirrels is underestimated, with at least six lineages that represent taxa to be named or revalidated. Ancestral state reconstructions of number of upper premolars and number of mammae indicated that alternative conditions of both characters must have evolved multiple times throughout the evolutionary history of tree squirrels. CONCLUSIONS Complete mitogenomes were obtained from museum specimens as old as 120 years, reinforcing the potential of historical samples for phylogenetic inferences of elusive lineages of the tree of life. None of the taxonomic arrangements ever proposed for tree squirrels fully corresponded to our phylogenetic reconstruction, with only a few of the currently recognized genera recovered as monophyletic. By investigating the evolution of two morphological traits widely employed in the taxonomy of the group, we revealed that their homoplastic nature can help explain the incongruence between phylogenetic results and the classification schemes presented so far. Based on our phylogenetic results we suggest a tentative supraspecific taxonomic arrangement for Sciurini, employing 13 generic names used in previous taxonomic classifications.
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Affiliation(s)
- Edson Fiedler de Abreu-Jr
- Laboratório de Mamíferos, Departamento de Ciências Biológicas, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, 13418900, Brazil.
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, 20013, USA.
| | - Silvia E Pavan
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, 20013, USA.
- Coordenação de Zoologia, Museu Paraense Emílio Goeldi, Belém, PA, 66077530, Brazil.
| | - Mirian T N Tsuchiya
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, 20013, USA
- Data Science Lab, Office of the Chief Information Officer, Smithsonian Institution, Washington, DC, 20560, USA
| | - Don E Wilson
- Division of Mammals, National Museum of Natural History, Smithsonian Institution, Washington, DC, 20560, USA
| | - Alexandre R Percequillo
- Laboratório de Mamíferos, Departamento de Ciências Biológicas, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, 13418900, Brazil
| | - Jesús E Maldonado
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, DC, 20013, USA
- Department of Biology and Department of Environmental Science and Policy, George Mason University, Fairfax, VA, 22030, USA
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11
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Tirelli FP, de Freitas TR, Michalski F, Percequillo AR, Eizirik E. Using reliable predator identification to investigate feeding habits of Neotropical carnivores (Mammalia, Carnivora) in a deforestation frontier of the Brazilian Amazon. MAMMALIA 2018. [DOI: 10.1515/mammalia-2018-0106] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Accurate identification of predator species is a critical requirement to investigate their diet using faecal samples. We used non-invasive sampling and two methods of predator identification to investigate the diets of sympatric carnivores in a highly deforested region of the Brazilian Amazon. Of 108 scats, 81 could be identified at the species level using DNA sequencing and/or trichology. The former performed better than the latter (81.5% vs. 54.3% of the identified samples), and results were quite congruent (89.7% concordance in the 29 samples that could be assessed with both approaches). Nine species were identified, out of which four (crab-eating fox, ocelot, puma and jaguar) presented a sufficient number of samples to allow dietary analyses. The crab-eating fox was the most generalist (BA=0.92); ocelots focused on small- to medium-sized prey; pumas fed mostly on medium-sized items; and jaguars mostly targeted large-sized prey. A considerable overlap was observed between ocelots and pumas in all estimations (O=0.47–0.83). The presence of jaguars in the same region could be driving pumas to select medium- and small-sized prey. The results of this study highlight the importance of reliable predator identification and the need for in-depth ecological studies in areas where carnivore species are sympatric.
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Affiliation(s)
- Flávia P. Tirelli
- Programa de Pós-graduação em Biologia Animal, Instituto de Biociências , Universidade Federal do Rio Grande do Sul, UFRGS , Av. Bento Gonçalves 9500, Prédio 43435 , Bairro Agronomia, Porto Alegre, RS 91501-970 , Brazil
- PUCRS, Escola de Ciências, Laboratório de Biologia Genômica e Molecular , 6681 Ipiranga Av. , Porto Alegre, RS 90619-900 , Brazil
| | - Thales R.O. de Freitas
- Programa de Pós-graduação em Biologia Animal, Instituto de Biociências , Universidade Federal do Rio Grande do Sul, UFRGS , Av. Bento Gonçalves 9500, Prédio 43435 , Bairro Agronomia, Porto Alegre, RS 91501-970 , Brazil
- Departamento de Genética, Instituto de Biociências , Universidade Federal do Rio Grande do Sul, Campus do Vale , Av. Bento Gonçalves 9500, prédio 43323 , Porto Alegre, RS 9150197 , Brazil
| | - Fernanda Michalski
- Laboratório de Ecologia e Conservação de Vertebrados , Universidade Federal do Amapá , Rodovia Juscelino Kubitschek, km 02, Bloco T , Macapá, AP 68903-419 , Brazil
- Instituto Pró-Carnívoros , C.P. 10, Atibaia, SP 12940-970 , Brazil
| | - Alexandre R. Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz” , Universidade de São Paulo , Av. Pádua Dias 11, Caixa Postal 9 , Piracicaba, São Paulo 13418-900 , Brazil
- Department of Life Sciences , The Natural History Museum , Cromwell Road , London SW7 5BD , UK
| | - Eduardo Eizirik
- PUCRS, Escola de Ciências, Laboratório de Biologia Genômica e Molecular , 6681 Ipiranga Av. , Porto Alegre, RS 90619-900 , Brazil
- Instituto Pró-Carnívoros , C.P. 10, Atibaia, SP 12940-970 , Brazil
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Mendonça A, Percequillo AR, Camargo NF, Ribeiro JF, Palma ART, Oliveira LC, Câmara EMVC, Vieira EM. CERRADO SMALL MAMMALS: abundance and distribution of marsupials, lagomorphs, and rodents in a Neotropical savanna. Ecology 2018; 99:1900. [PMID: 29701243 DOI: 10.1002/ecy.2367] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Revised: 04/09/2018] [Accepted: 04/11/2018] [Indexed: 11/09/2022]
Abstract
Patterns in distribution and local abundance of species within a biome are central concerns in ecology and allow the understanding of the effects of habitat loss on rates of species extinction; provide support for the creation and management of reserves; and contribute to the identification and quantification of the processes that allow niche partitioning by species. However, despite the importance in the conservation and management of the ecosystems, most systematized information on the abundance and distribution of small mammals is restricted to the northern hemisphere or forest ecosystems. For tropical biomes, an important part of this information remains dispersed and difficult to access in the form of theses, technical reports, or unpublished data sets. Here we present a comprehensive data set of abundance and richness of small mammals in the Cerrado, the largest Neotropical savanna. This data set includes 2,599 records of 446 sites from 96 studies. More than 50% of references in this data set are peer-reviewed journal articles, but 45.78% of communities were compiled from theses. The data set comprises 24,283 individuals of 55 genera and at least 118 species of small mammals including 29 marsupials, two lagomorphs (one exotic), and 87 rodents (three exotic). Local species richness ranged from 1 to 26 species (5.82 ± 3.55, average species richness ± SD). We observed hyperdominance of a few species; the 10 most abundant species in this data set represented 60.19% of all recorded individuals. The hairy-tailed bolo mouse (Necromys lasiurus) represented over than 20% of all individuals and occurred at more than 50% of sites. Furthermore, we identified 18 environments, 16 native vegetation types, and 2 anthropic environments. Typical savanna and gallery forest were the most frequently sampled vegetation types (comprising 46.94% of all sampled sites) and the most speciose ones (57 species for typical savanna and 53 species for gallery forest). The information contained in this data set can be used to analyze ecological questions such as the relationship between local abundance and regional distribution, the relevance of local and regional factors to community structuring, and the role of phylogenetic mechanisms in community assemblage. It can also be useful in conservation efforts in this biodiversity hotspot. No copyright, proprietary, or cost restrictions apply. Please cite this paper when the data are used in publications. We also request that researchers and teachers inform us of how they are using the data.
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Affiliation(s)
- André Mendonça
- Laboratório de Ecologia de Vertebrados, Departamento de Ecologia, Instituto de Ciências Biológicas, Universidade de Brasília, Campus Darcy Ribeiro, CP 04457, Brasília DF, CEP 70919-970, Brazil
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura "Luiz de Queiroz" (ESALQ), Universidade de São Paulo, Piracicaba, São Paulo, CEP 13418-900, Brazil.,Department of Life Sciences, The Natural History Museum, London, SW7 5BD, United Kingdom
| | - Nicholas F Camargo
- Laboratório de Ecologia de Vertebrados, Departamento de Ecologia, Instituto de Ciências Biológicas, Universidade de Brasília, Campus Darcy Ribeiro, CP 04457, Brasília DF, CEP 70919-970, Brazil
| | - Juliana F Ribeiro
- Laboratório de Ecologia de Vertebrados, Departamento de Ecologia, Instituto de Ciências Biológicas, Universidade de Brasília, Campus Darcy Ribeiro, CP 04457, Brasília DF, CEP 70919-970, Brazil
| | - Alexandre R T Palma
- Departamento de Sistemática e Ecologia, Universidade Federal da Paraíba - UFPB, Castelo Branco, João Pessoa, PB, Brazil
| | - Leonardo C Oliveira
- Faculdade de Formação de Professores, Universidade do Estado do Rio de Janeiro, Rua Francisco Portela 1470, Patronato, São Gonçalo, Rio de Janeiro, CEP 24435-005, Brazil.,Bicho do Mato Instituto de Pesquisa, Avenida Cônsul Antônio Cadar, 600, Santa Lúcia, Belo Horizonte, Minas Gerais, CEP 303600-082, Brazil
| | - Edeltrudes M V C Câmara
- Bicho do Mato Instituto de Pesquisa, Avenida Cônsul Antônio Cadar, 600, Santa Lúcia, Belo Horizonte, Minas Gerais, CEP 303600-082, Brazil
| | - Emerson M Vieira
- Laboratório de Ecologia de Vertebrados, Departamento de Ecologia, Instituto de Ciências Biológicas, Universidade de Brasília, Campus Darcy Ribeiro, CP 04457, Brasília DF, CEP 70919-970, Brazil
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Pavan AC, Bobrowiec PED, Percequillo AR. Geographic variation in a South American clade of mormoopid bats, Pteronotus (Phyllodia), with description of a new species. J Mammal 2018. [DOI: 10.1093/jmammal/gyy048] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Ana C Pavan
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz” – ESALQ/Universidade de São Paulo, Piracicaba, Brazil
| | - Paulo E D Bobrowiec
- Instituto Nacional de Pesquisas da Amazônia (INPA), coordenação de Biodiversidade, Manaus, Brazil
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz” – ESALQ/Universidade de São Paulo, Piracicaba, Brazil
- Department of Life Sciences, The Natural History Museum, London, United Kingdom
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Gonçalves F, Bovendorp RS, Beca G, Bello C, Costa-Pereira R, Muylaert RL, Rodarte RR, Villar N, Souza R, Graipel ME, Cherem JJ, Faria D, Baumgarten J, Alvarez MR, Vieira EM, Cáceres N, Pardini R, Leite YLR, Costa LP, Mello MAR, Fischer E, Passos FC, Varzinczak LH, Prevedello JA, Cruz-Neto AP, Carvalho F, Percequillo AR, Paviolo A, Nava A, Duarte JMB, de la Sancha NU, Bernard E, Morato RG, Ribeiro JF, Becker RG, Paise G, Tomasi PS, Vélez-Garcia F, Melo GL, Sponchiado J, Cerezer F, Barros MAS, de Souza AQS, dos Santos CC, Giné GAF, Kerches-Rogeri P, Weber MM, Ambar G, Cabrera-Martinez LV, Eriksson A, Silveira M, Santos CF, Alves L, Barbier E, Rezende GC, Garbino GST, Rios ÉO, Silva A, Nascimento ATA, de Carvalho RS, Feijó A, Arrabal J, Agostini I, Lamattina D, Costa S, Vanderhoeven E, de Melo FR, de Oliveira Laroque P, Jerusalinsky L, Valença-Montenegro MM, Martins AB, Ludwig G, de Azevedo RB, Anzóategui A, da Silva MX, Figuerêdo Duarte Moraes M, Vogliotti A, Gatti A, Püttker T, Barros CS, Martins TK, Keuroghlian A, Eaton DP, Neves CL, Nardi MS, Braga C, Gonçalves PR, Srbek-Araujo AC, Mendes P, de Oliveira JA, Soares FAM, Rocha PA, Crawshaw P, Ribeiro MC, Galetti M. ATLANTIC MAMMAL TRAITS: a data set of morphological traits of mammals in the Atlantic Forest of South America. Ecology 2018; 99:498. [DOI: 10.1002/ecy.2106] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/25/2017] [Revised: 11/08/2017] [Accepted: 11/17/2017] [Indexed: 11/06/2022]
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Percequillo AR, Dalapicolla J, Abreu-Júnior EF, Roth PRO, Ferraz KM, Chiquito EA. How many species of mammals are there in Brazil? New records of rare rodents (Rodentia: Cricetidae: Sigmodontinae) from Amazonia raise the current known diversity. PeerJ 2017; 5:e4071. [PMID: 29259840 PMCID: PMC5733914 DOI: 10.7717/peerj.4071] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Accepted: 10/30/2017] [Indexed: 11/20/2022] Open
Abstract
BACKGROUND Since 1996, when Vivo questioned how many species of mammals occur in Brazil, there has been a huge effort to assess this biodiversity. In this contribution, we present new records for rare species of the sigmodontine rodent genera Rhagomys and Neusticomys previously unknown to Brazilian Amazon. We provided detailed information on the morphologic variation to allow the proper identification of these species. We also furnished updated information on their collection, aiming to establish hypothesis of their geographic distribution, based on SDM's, aiming to hypothesize potential occurrence areas for these species. METHODS Rodent specimens were sampled in separate inventories in two sites of Rondônia State (Hydroelectric Dam Jirau and Parque Nacional de Pacaás Novos) and one site in Pará State (Pacajá), Brazil, and were compared to specimens from museum collections to apply appropriate names. The SDM were conducted using two algorithms for rare species, MaxEnt and randomForest (RF), and were based on seven localities for Rhagomys, and 10 for Neusticomys. RESULTS All specimens were collected with pitfall traps. One specimen of genus Rhagomys was trapped in the Hydroelectric Dam Jirau. We identified this specimen as R. longilingua, and the SDM species indicates suitable areas for its occurrence at high elevations near on the Andes and lowlands of Amazon Basin to the South of the Rio Amazonas. Two specimens of Neusticomys were recorded, and we identified the specimen from Pacaás Novos as N. peruviensis, with SDM suggesting main areas of occurrence on Western Amazon. We applied the name N. ferreirai to the specimen from Pacajá, with SDM recovering suitable areas in Eastern Amazon. DISCUSSION We reinforced the importance of pitfall traps on the study of Neotropical rodents. We described morphologic variation within and among all species that do not invalidate their specific status, but in the near future a re-evaluation will be mandatory. The new records extended the species distribution considerably. SDM was successful to predict their distributions, as the two algorithms presented important differences in range size recovered by the models that can be explained by differences in the thresholds used for the construction of the models. Most suitable areas coincide with the areas facing most of the deforestation in Amazon. We added two rare species of sigmodontine rodents to the list of Brazilian Mammals, which now comprises 722 species (or 775 valid nominal taxa). Although more information is available than in 1996, it is essential that mammal experts maintain inventory and revisionary programs to update and revise this information. This is even more important, as changes in Brazilian environmental legislation are being discussed, suggesting reduced need for environmental impact reports prior to beginning commercial enterprises, resulting in the loss of information about native biodiversity in the affected areas.
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Affiliation(s)
- Alexandre R. Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
- Department of Life Sciences, The Natural History Museum, London, United Kingdon
| | - Jeronymo Dalapicolla
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
- Department of Ecology and Evolutionary Biology, Museum of Zoology, University of Michigan, Ann Arbor, MI, United States of America
| | - Edson F. Abreu-Júnior
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Paulo Ricardo O. Roth
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Katia M.P.M.B. Ferraz
- Departamento de Ciências Florestais, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Elisandra A. Chiquito
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
- Departamento de Ciências Biológicas, Centro de Ciências Humanas e Naturais, Universidade Federal do Espírito Santo, Vitória, Espírito Santo, Brazil
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Bovendorp RS, Villar N, de Abreu-Junior EF, Bello C, Regolin AL, Percequillo AR, Galetti M. Atlantic small-mammal: a dataset of communities of rodents and marsupials of the Atlantic forests of South America. Ecology 2017; 98:2226. [PMID: 28500789 DOI: 10.1002/ecy.1893] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/30/2017] [Revised: 04/28/2017] [Accepted: 05/05/2017] [Indexed: 11/10/2022]
Abstract
The contribution of small mammal ecology to the understanding of macroecological patterns of biodiversity, population dynamics, and community assembly has been hindered by the absence of large datasets of small mammal communities from tropical regions. Here we compile the largest dataset of inventories of small mammal communities for the Neotropical region. The dataset reviews small mammal communities from the Atlantic forest of South America, one of the regions with the highest diversity of small mammals and a global biodiversity hotspot, though currently covering less than 12% of its original area due to anthropogenic pressures. The dataset comprises 136 references from 300 locations covering seven vegetation types of tropical and subtropical Atlantic forests of South America, and presents data on species composition, richness, and relative abundance (captures/trap-nights). One paper was published more than 70 yr ago, but 80% of them were published after 2000. The dataset comprises 53,518 individuals of 124 species of small mammals, including 30 species of marsupials and 94 species of rodents. Species richness averaged 8.2 species (1-21) per site. Only two species occurred in more than 50% of the sites (the common opossum, Didelphis aurita and black-footed pigmy rice rat Oligoryzomys nigripes). Mean species abundance varied 430-fold, from 4.3 to 0.01 individuals/trap-night. The dataset also revealed a hyper-dominance of 22 species that comprised 78.29% of all individuals captured, with only seven species representing 44% of all captures. The information contained on this dataset can be applied in the study of macroecological patterns of biodiversity, communities, and populations, but also to evaluate the ecological consequences of fragmentation and defaunation, and predict disease outbreaks, trophic interactions and community dynamics in this biodiversity hotspot.
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Affiliation(s)
- Ricardo S Bovendorp
- Departamento de Ecologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), CP. 199, Rio Claro, São Paulo, 13506-900, Brazil
| | - Nacho Villar
- Departamento de Ecologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), CP. 199, Rio Claro, São Paulo, 13506-900, Brazil
| | - Edson F de Abreu-Junior
- Departamento de Ciências Biológicas, Escola Superior de Agricultura "Luiz de Queiroz" (ESALQ), Universidade de São Paulo, Piracicaba, São Paulo, 13418-900, Brazil
| | - Carolina Bello
- Departamento de Ecologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), CP. 199, Rio Claro, São Paulo, 13506-900, Brazil
| | - André L Regolin
- Departamento de Ecologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), CP. 199, Rio Claro, São Paulo, 13506-900, Brazil
| | - Alexandre R Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura "Luiz de Queiroz" (ESALQ), Universidade de São Paulo, Piracicaba, São Paulo, 13418-900, Brazil
| | - Mauro Galetti
- Departamento de Ecologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), CP. 199, Rio Claro, São Paulo, 13506-900, Brazil
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Abstract
AbstractFor the first time, we observed and photographed nests of the elusive and endangered Russet rice rat,
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Abreu-Júnior EF, De Freitas MA, Lapenta MJ, Venâncio NM, De França DPF, Percequillo AR. Marsupials and rodents (Didelphimorphia and Rodentia) of upper Rio Acre, with new data on Oxymycterus inca Thomas, 1900 from Brazil. cl 2016. [DOI: 10.15560/12.5.1956] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
Abstract
Our goal was to inventory marsupial and rodent species from two conservation units (Reserva Extrativista Chico Mendes and Estação Ecológica do Rio Acre) of the upper Rio Acre, in Brazilian Amazonia, as well as to provide new data on the morphology and geographic distribution for several species. We recorded 25 species, including seven marsupials and 18 rodents. Among these, there are poorly sampled species in Brazil, such as Marmosa regina and Dactylomys boliviensis. We document range extensions (about 450 km towards southeastern Acre state) of Neacomys musseri, Dasyprocta fuliginosa, and Proechimys cuvieri. We also present the first confirmed record of an undescribed species of Monodelphis in Acre state and the second collecting record of Oxymycterus inca in Brazil. We describe the morphology and morphometrics of upper Rio Acre specimens of O. inca. Finally, we compare our results with other inventories in the Amazon region and discuss the high efficiency of pitfall traps for capturing nonvolant small mammals.
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Abreu-Júnior EF, De Freitas MA, Lapenta MJ, Venâncio NM, De França DPF, Percequillo AR. Marsupials and rodents (Didelphimorphia and Rodentia) of upper Rio Acre, with new data on Oxymycterus inca Thomas, 1900 from Brazil. Check List 2016. [DOI: 10.15560/15.5.1956] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
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Martins TF, Diniz-Reis TR, Libardi GS, Percequillo AR, Verdade LM, Matushima ER, Labruna MB. Ticks (Acari: Ixodidae) identified from prey-predator interactions via faecal analysis of Brazilian wild carnivores. Exp Appl Acarol 2015; 66:119-125. [PMID: 25702204 DOI: 10.1007/s10493-015-9886-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Accepted: 02/08/2015] [Indexed: 06/04/2023]
Abstract
Between July 2008 and May 2010, we conducted a trophic study on 12 Brazilian wild carnivore species through their faecal analysis in a silvicultural landscape at Angatuba municipality, southern São Paulo state. Predator faeces was identified by morphology, predator hair, and surrounding tracks; prey remnants within faeces were used for morphological identification of the prey. Among the recovered ectoparasites, there were 89 specimens of six tick species in 21 (4.0%) out of 523 analysed samples. Ticks were identified to species level, based on external morphological characters, as following: adults of Amblyomma ovale and Amblyomma sculptum; nymphs of Amblyomma brasiliense, Amblyomma calcaratum, Amblyomma dubitatum, A. ovale, and Ixodes schulzei; and larvae of Amblyomma sp. and Ixodes sp. Generally, the recovered immature ticks were associated with consumed prey (small birds or small mammals), whereas adults were associated with the predator itself, ingested during its self-grooming. Our data show that faeces is an additional information source on ticks in Brazil and which may provide information on ectoparasite-predator-prey interactions.
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Affiliation(s)
- Thiago F Martins
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, SP, 05508-270, Brazil,
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Brennand PGG, Langguth A, Percequillo AR. The genusHylaeamysWeksler, Percequillo, and Voss 2006 (Rodentia: Cricetidae: Sigmodontinae) in the Brazilian Atlantic Forest: geographic variation and species definition. J Mammal 2013. [DOI: 10.1644/12-mamm-a-312.1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Prado JR, Percequillo AR. Ontogenetic and sexual variation in cranial characters of Aegialomys Xanthaeolus (Thomas, 1894)(Cricetidae: Sigmodontinae) from Ecuador and Peru. Pap Avulsos Zool (São Paulo) 2011. [DOI: 10.1590/s0031-10492011000900001] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Percequillo AR, Hingst-Zaher E, Bonvicino CR. Systematic Review of Genus Cerradomys Weksler, Percequillo and Voss, 2006 (Rodentia: Cricetidae: Sigmodontinae: Oryzomyini), with Description of Two New Species from Eastern Brazil. American Museum Novitates 2008. [DOI: 10.1206/495.1] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Alexandre R. Percequillo
- Departamento de Ciências Biológicas, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Avenida Pádua Dias, 11, C.P. 9, 13418-900, Piracicaba, SP, Brazil
| | - Erika Hingst-Zaher
- Laboratório de Morfometria, Mastozoologia, Museu de Zoologia da Universidade de São Paulo, C.P. 42594, 04299-970, São Paulo, SP, Brazil
| | - Cibele R. Bonvicino
- Programa de Genética, Instituto Nacional de Câncer, Rua André Cavalcanti, 37, 4th floor, 20231-050, Rio de Janeiro, Brazil and Laboratório de Biologia e Parasitologia de Mamíferos Silvestres Reservatórios, Instituto Oswaldo Cruz, Rio de Janeiro, Braz
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Cáceres NC, Bornschein MR, Lopes WH, Percequillo AR. Mammals of the Bodoquena Mountains, southwestern Brazil: an ecological and conservation analysis. ACTA ACUST UNITED AC 2007. [DOI: 10.1590/s0101-81752007000200021] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
We carried out a mammalian survey in the neighborhoods of the Serra da Bodoquena National Park, Mato Grosso do Sul state, a region poorly known in southwestern Brazil. During the months of April, May and July 2002 we used wire live trap, direct observation, indirect evidence (e.g. tracks), carcasses, and interviews with local residents to record mammalian species. Fifty six mammal species were recorded, including threatened species (14%). These records were discussed regarding species abundance, distribution, range extension, habitat, and conservation. The geographic distribution and ecology of the poorly known marsupials Thylamys macrurus and Micoureus constantiae in Brazil are emphasized.
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