Genetic chronicle of the capybara: the complete mitochondrial genome of Hydrochoerus hydrochaeris

The capybara, Hydrochoerus hydrochaeris , is a rodent that inhabits the wetlands of South America. Despite being widely distributed and having the nuclear genomes available, there has been a lack of information regarding the mitochondrial genome. To address this, we conducted the assembly and annota...

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Bibliographic Details
Published in:Mammalian biology : Zeitschrift für Säugetierkunde 2024-08, Vol.104 (4), p.459-465
Main Authors: da Silva, Iuri Batista, Menegídio, Fabiano Bezerra, Garcia, Caroline, Kavalco, Karine Frehner, Pasa, Rubens
Format: Article
Language:English
Subjects:
Animal Anatomy
Animal Ecology
Animal Systematics/Taxonomy/Biogeography
Biomedical and Life Sciences
Codon
Evolutionary Biology
Fish & Wildlife Biology & Management
Genes
Genomes
Genomics
Histology
Life Sciences
Morphology
Phylogeny
Short Communication
Zoology
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Summary:The capybara, Hydrochoerus hydrochaeris , is a rodent that inhabits the wetlands of South America. Despite being widely distributed and having the nuclear genomes available, there has been a lack of information regarding the mitochondrial genome. To address this, we conducted the assembly and annotation of the capybara’s mitochondrial genome and reconstructed the phylogeny of Parvorder Caviomorpha. The assembly was conducted under the de novo method with GetOrganelle, while the annotation was performed with MitoZ. Analysis of relative codon synonymous usage was conducted in the mitochondrial genomes of the capybara and two other Caviidae species: Cavia porcellus and Cavia aperea. The phylogenetic inference was conducted under the Maximum Likelihood method, using the 13 protein-coding genes, including the capybara as well as other 42 Caviomorpha mitochondrial genomes. The resulting capybara mitochondrial genome consisted of 16,681 bp, 37 genes (22 tRNAs, 2 rRNAs, and 13 protein-coding genes) and a control region. The number of genes and their arrangement corresponds to the pattern observed in most mammalian species. The capybara was recovered as a sister group of Cavia . Caviidae was reconstructed as a monophyletic group that is closely related to Cuniculidae. Overall, this study provides valuable insights into the mitochondrial evolution and evolutionary relationships of the capybara.
ISSN:1616-5047
1618-1476
DOI:10.1007/s42991-024-00417-3