Draft genome assembly for the colombian freshwater bocachico fish, Prochilodus magdalenae

We report the first draft genome assembly for , the leading representative species of the Prochilodontidae family in Colombia. This 1.2-Gb assembly, with a GC content of 42.0% and a repetitive content of around 31.0%, is in the range of previously reported characid species genomes. Annotation identi...

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Bibliographic Details
Published in:Frontiers in genetics 2023-01, Vol.13, p.989788-989788
Main Authors: Yepes-Blandón, Jonny Andrés, Bian, Chao, Benítez-Galeano, María José, Aristizabal-Regino, Jorge Luis, Estrada-Posada, Ana Lucía, Mir, Daiana, Vásquez-Machado, Gersson, Atencio-García, Víctor Julio, Shi, Qiong, Rodríguez-Osorio, Nélida
Format: Article
Language:English
Subjects:
colombian bocachico
flannel-mouth characiforms
Genetics
prochilodontidae
south American fish
whole genome sequencing
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Summary:We report the first draft genome assembly for , the leading representative species of the Prochilodontidae family in Colombia. This 1.2-Gb assembly, with a GC content of 42.0% and a repetitive content of around 31.0%, is in the range of previously reported characid species genomes. Annotation identified 34,725 nuclear genes, and BUSCO completeness value was 94.9%. Gene ontology and primary metabolic pathway annotations indicate similar gene profiles for and the closest species with annotated genomes: blind cave fish ( ) and red piranha ( ). A comparative analysis showed similar genome traits to other characid species. The fully sequenced and annotated mitochondrial genome reproduces the taxonomic classification of and confirms the low mitochondrial genetic divergence inside the genus. Phylogenomic analysis, using nuclear single-copy orthologous genes, also confirmed the evolutionary position of the species. This genome assembly provides a high-resolution genetic resource for sustainable management in Colombia and, as the first genome assembly for the Prochilodontidae family, will contribute to fish genomics throughout South America.
ISSN:1664-8021
1664-8021
DOI:10.3389/fgene.2022.989788