Extensive genomic reshuffling involved in the karyotype evolution of genus Cerradomys (Rodentia: Sigmodontinae: Oryzomyini)

Di-Nizo, Camilla Bruno; Ferguson‐Smith, Malcolm A.; Silva, Maria José de J.

doi:10.1590/1678-4685-gmb-2020-0149

Cited by 6 publications

(6 citation statements)

References 47 publications

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“…All the other analyses (cytogenetics, bPTP, GMYC cyt- b , BPP, and STEM) recognized C. vivoi , C. goytaca, and C. subflavus as distinct species and detected additionally cryptic species. Thus, previous hypothesis (based only on cyt- b ) that suggests C. goytaca as junior synonym of C. subflavus ( Bonvicino, Casado & Weksler, 2014 ) is incongruent with our results—in addition to the morphometric analyses described by Tavares, Pessôa & Seuánez (2016) and to the cytogenetic data reported by Di-Nizo, Ferguson-Smith & Silva (2020) that suggest that hybrids may not be viable.…”

Section: Discussionsupporting

confidence: 56%

“…2 ), although Robertsonian rearrangements and pericentric inversion were described for C. langguthi and C. subflavus ( Figs. 2H – 2J ); ( Maia & Hulak, 1981 ; Almeida & Yonenaga-Yassuda, 1985 ; Di-Nizo, Ferguson-Smith & Silva, 2020 ). Even in the species that share the same diploid number, the fundamental number, size and morphology of the chromosomes can accurately discriminate them ( e.g.…”

Section: Discussionmentioning

confidence: 99%

“… N/A: not available. In bold: present study; 1 Bonvicino, Casado & Weksler (2014) ; 2 Tavares, Pessôa & Seuánez (2016); 3 Bonvicino & Moreira (2001) ; 4 Hanson & Bradley (unpublished); 5 Weksler (2003) ; 6 Di-Nizo, Ferguson-Smith & Silva (2020) ; a Holotype; b Type locality; c Paratype. Acronyms of Brazilian states: Alagoas (AL), Bahia (BA), Ceará (CE), Espírito Santo (ES), Goiás (GO), Mato Grosso (MT), Mato Grosso do Sul (MS), Minas Gerais (MG), Paraíba (PB), Pernambuco (PE), Piaui (PI), Rio de Janeiro (RJ), São Paulo (SP) and Tocantins (TO).…”

Section: Supplemental Informationmentioning

confidence: 92%

“…were analyzed under molecular approaches ( Table S1 - in bold). From these specimens, 35 have cytogenetic information obtained in this study (26 individuals) or by Di-Nizo, Ferguson-Smith & Silva (2020) (nine individuals) ( Table S1 ). Samples were collected in 41 localities from 10 Brazilian States.…”

Section: Methodsmentioning

confidence: 99%

“…Cerradomys subflavus, C. vivoi, and C. goytaca have not been recovered as reciprocally monophyletic using single-locus molecular phylogeny, suggesting that they might be conspecific ( Bonvicino, Casado & Weksler, 2014 ). However, Tavares, Pessôa & Seuánez (2016) based on morphometric data, and more recently Di-Nizo, Ferguson-Smith & Silva (2020) based on comparative chromosome analyses, suggested that these three lineages should be recognized as distinct species.…”

Section: Introductionmentioning

confidence: 99%

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Species limits and recent diversification ofCerradomys(Sigmodontinae: Oryzomyini) during the Pleistocene

Di-Nizo

Suárez-Villota

Silva

2022

PeerJ

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Cerradomys is a genus of the tribe Oryzomyini with eight species currently recognized, and a controversial taxonomy. These species are mainly distributed in the South America dry diagonal, but some species extend into Atlantic Forest, reaching the coastal sandy plains known as Restingas. This study aimed to address species limits and patterns of diversification of Cerradomys species. For this purpose, we performed cytogenetic and molecular analyses (phylogeny, coalescent species delimitation, barcoding, and divergence times estimation) using multiple mitochondrial and nuclear markers on a comprehensive sampling, representing all nominal taxa reported so far. Chromosomal information was a robust marker recognizing eight Cerradomys species. Reciprocal monophyly was recovered for all the species, except for C. subflavus. These results together with coalescent analyses recovered eight species as the most congruent species delimitation scenario for the genus (mean Ctax: 0.72). Divergence time estimates revealed that Cerradomys’ diversification occurred about 1.32 million years ago (Mya) during the Pleistocene. Although our results conservatively support the eight Cerradomys species described so far, different lines of evidence suggest that C. langguthi and C. subflavus could potentially be species-complexes. We discussed this scenario in the light of multiple evolutionary processes within and between species and populations, since Cerradomys comprises a species group with recent diversification affected by Pleistocene climatic changes and by the complex biogeographic history of South America dry diagonal. This work supports that the diversity of Cerradomys is underestimated and reiterates that interdisciplinary approaches are mandatory to identify small rodent species properly, and to unhide cryptic species.

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Section: Discussionsupporting

confidence: 56%

Section: Discussionmentioning

confidence: 99%

Section: Supplemental Informationmentioning

confidence: 92%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Species limits and recent diversification ofCerradomys(Sigmodontinae: Oryzomyini) during the Pleistocene

Di-Nizo

Suárez-Villota

Silva

2022

PeerJ

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Chromosomal evolution of tribe Oryzomyini (Rodentia: Cricetidae: Sigmodontinae)

et al. 2022

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Chromosomal rearrangements played an important role in the speciation of rice rats of genus Cerradomys (Rodentia, Sigmodontinae, Oryzomyini)

Oliveira da Silva,

Malcher,

Ferguson-Smith

et al. 2024

Sci Rep

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Rodents of the genus Cerradomys belong to tribe Oryzomyini, one of the most diverse and speciose groups in Sigmodontinae (Rodentia, Cricetidae). The speciation process in Cerradomys is associated with chromosomal rearrangements and biogeographic dynamics in South America during the Pleistocene era. As the morphological, molecular and karyotypic aspects of Myomorpha rodents do not evolve at the same rate, we strategically employed karyotypic characters for the construction of chromosomal phylogeny to investigate whether phylogenetic relationships using chromosomal data corroborate the radiation of Cerradomys taxa recovered by molecular phylogeny. Comparative chromosome painting using Hylaeamys megacephalus (HME) whole chromosome probes in C. langguthi (CLA), Cerradomys scotii (CSC), C. subflavus (CSU) and C. vivoi (CVI) shows that karyotypic variability is due to 16 fusion events, 2 fission events, 10 pericentric inversions and 1 centromeric repositioning, plus amplification of constitutive heterochromatin in the short arms of the X chromosomes of CSC and CLA. The chromosomal phylogeny obtained by Maximum Parsimony analysis retrieved Cerradomys as a monophyletic group with 97% support (bootstrap), with CSC as the sister to the other species, followed by a ramification into two clades (69% of branch support), the first comprising CLA and the other branch including CVI and CSU. We integrated the chromosome painting analysis of Eumuroida rodents investigated by HME and Mus musculus (MMU) probes and identified several syntenic blocks shared among representatives of Cricetidae and Muridae. The Cerradomys genus underwent an extensive karyotypic evolutionary process, with multiple rearrangements that shaped extant karyotypes. The chromosomal phylogeny corroborates the phylogenetic relationships proposed by molecular analysis and indicates that karyotypic diversity is associated with species radiation. Three syntenic blocks were identified as part of the ancestral Eumuroida karyotype (AEK): MMU 7/19 (AEK 1), MMU 14 (AEK 10) and MMU 12 (AEK 11). Besides, MMU 5/10 (HME 18/2/24) and MMU 8/13 (HME 22/5/11) should be considered as signatures for Cricetidae, while MMU 5/9/14, 5/7/19, 5 and 8/17 for Sigmodontinae.

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Extensive genomic reshuffling involved in the karyotype evolution of genus Cerradomys (Rodentia: Sigmodontinae: Oryzomyini)

Cited by 6 publications

References 47 publications

Species limits and recent diversification ofCerradomys(Sigmodontinae: Oryzomyini) during the Pleistocene

Species limits and recent diversification ofCerradomys(Sigmodontinae: Oryzomyini) during the Pleistocene

Chromosomal evolution of tribe Oryzomyini (Rodentia: Cricetidae: Sigmodontinae)

Chromosomal rearrangements played an important role in the speciation of rice rats of genus Cerradomys (Rodentia, Sigmodontinae, Oryzomyini)

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