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Ruiz-García M, Cáceres AM, Luengas-Villamil K, Aliaga-Rossel E, Zeballos H, Singh MD, Shostell JM. Mitogenomic phylogenetics and population genetics of several taxa of agouties (Dasyprocta sp., Dasyproctidae, Rodentia): molecular nonexistence of some claimed endemic taxa. MAMMAL RES 2022. [DOI: 10.1007/s13364-022-00626-6] [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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Campo DH, Caraballo DA, Cassini GH, Lucero SO, Teta P. Integrative taxonomy of extant maras supports the recognition of the genera Pediolagus and Dolichotis within the Dolichotinae (Rodentia, Caviidae). J Mammal 2020. [DOI: 10.1093/jmammal/gyaa038] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
The subfamily Dolichotinae (Rodentia, Caviidae) includes two living species (Dolichotis patagonum and D. salinicola) of cursorial, long-legged rodents that inhabit semiarid thorn scrubs and shrublands in southern South America. Some authors consider that the morphological differences between D. patagonum and D. salinicola warrant circumscription of the latter in its own genus, Pediolagus. Based on a phylogeny and divergence times grounded on molecular data, as well as a qualitative and quantitative assessment of morphological differences, the distinction between Dolichotis and Pediolagus is equal to or greater than differences seen for other intergeneric comparisons within Cavioidea. Based on these results, we argue that the taxonomic designations of Dolichotis and Pediolagus should be retained.
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Affiliation(s)
- Denise H Campo
- Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón II, Ciudad Autónoma de Buenos Aires, Argentina
| | - Diego A Caraballo
- Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón II, Ciudad Autónoma de Buenos Aires, Argentina
- Instituto de Fisiología, Biología Molecular y Neurociencias (IFIBYNE), CONICET- Universidad de Buenos Aires, Ciudad Universitaria, Pabellón II, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
| | - Guillermo H Cassini
- División Mastozoología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia,” Ciudad Autónoma de Buenos Aires, Argentina
- Departamento de Ciencias Básicas, Universidad Nacional de Luján, Ruta 5 y Av. Constitución s/n, Luján, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas – CONICET, Godoy Cruz, Ciudad Autónoma de Buenos Aires, Argentina
| | - Sergio O Lucero
- División Mastozoología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia,” Ciudad Autónoma de Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas – CONICET, Godoy Cruz, Ciudad Autónoma de Buenos Aires, Argentina
| | - Pablo Teta
- División Mastozoología, Museo Argentino de Ciencias Naturales “Bernardino Rivadavia,” Ciudad Autónoma de Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas – CONICET, Godoy Cruz, Ciudad Autónoma de Buenos Aires, Argentina
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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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Rodrigues da Costa MJ, Siqueira do Amaral PJ, Pieczarka JC, Sampaio MI, Rossi RV, Mendes-Oliveira AC, Rodrigues Noronha RC, Nagamachi CY. Cryptic Species in Proechimys goeldii (Rodentia, Echimyidae)? A Case of Molecular and Chromosomal Differentiation in Allopatric Populations. Cytogenet Genome Res 2016; 148:199-210. [PMID: 27255109 DOI: 10.1159/000446562] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/21/2016] [Indexed: 11/19/2022] Open
Abstract
The spiny rats of the genus Proechimys have a wide distribution in the Amazon, covering all areas of endemism of this region. We analyzed the karyotype and cytochrome b (Cyt b) sequences in Proechimys goeldii from 6 localities representing 3 interfluves of the eastern Amazon. A clear separation of P. goeldii into 2 monophyletic clades was observed, both chromosomally and based on Cyt b sequences: cytotype A (2n = 26x2640;/27x2642;, NF = 42) for samples from the Tapajos-Xingu interfluve and cytotype B (2n = 24x2640;/25x2642;, NF = 42) for samples from the Xingu-Tocantins interfluve and east of the Tocantins River. The karyotypes differ in a pericentric inversion and a centric fusion/fission and an average nucleotide divergence of 6.1%, suggesting cryptic species. Meiotic analysis confirmed the presence of a XX/XY1Y2 multiple sex chromosome determination system for both karyotypes. The karyotypes also vary from the literature (2n = 24, NF = 42, XX/XY). The autosome translocated to the X chromosome is different both in size and morphology to P. cf. longicaudatus, which also has a multiple sex chromosome determination system (2n = 14x2640;/15x2640;x2642;/16x2640;/17x2642;, NF = 14). The Xingu River is a barrier that separates populations of P. goeldii, thus maintaining their allopatric nature and providing an explanation for the molecular and cytogenetic patterns observed for the Xingu River but not the Tocantins River.
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Tavares WC, Pessôa LM, Seuánez HN. Plio-Pleistocene history of the endangered spiny ratTrinomys eliasi(Echimyidae) from Rio de Janeiro, Brazil. J Mammal 2015. [DOI: 10.1093/jmammal/gyu010] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Quintela M, Berlin S, Wang B, Höglund J. Genetic diversity and differentiation among Lagopus lagopus populations in Scandinavia and Scotland: evolutionary significant units confirmed by SNP markers. Mol Ecol 2010; 19:2380-93. [PMID: 20636891 DOI: 10.1111/j.1365-294x.2010.04648.x] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Single Nucleotide Polymorphism in four Scandinavian populations of willow grouse (Lagopus lagopus) and two Scottish populations of red grouse (Lagopus lagopus scoticus) were assessed at 13 protein-coding loci. We found high levels of diversity, with one substitution every 55 bp as an average and a total of 76 unlinked parsimony informative SNPs. Different estimators of genetic diversity such as: number of synonymous and non-synonymous sites, average number of alleles, number and percentage of polymorphic loci, mean nucleotide diversity (pi(s), pi(a)) and gene diversity at synonymous and non-synonymous sites showed higher diversity in the northern populations compared to southern ones. Strong levels of purifying selection found in all the populations together with neutrality tests conforming to neutral expectations agree with large effective population sizes. Assignment tests reported a clear distinction between Scandinavian and Scottish grouse suggesting the existence of two different evolutionary significant units. The divergence time between willow and red grouse ranging between 12 500 and 125 000 years, in conjunction with the presence of 'specific' markers for each subspecies prompt a reassessment of the taxonomical status of the Scottish red grouse.
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Affiliation(s)
- María Quintela
- Population Biology and Conservation Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen18D, SE-752 36 Uppsala, Sweden.
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