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Comparative analysis of the transcriptome of the Amazonian fish species Colossoma macropomum (tambaqui) and hybrid tambacu by next generation sequencing

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2019
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Comparative analysis of the transcriptome of the Amazonian fish species Colossoma macropomum (tambaqui) and hybrid tambacu by next generation sequencing.pdf (2.344Mb)
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URI
http://patua.iec.gov.br//handle/iec/3834
Autor
Gomes, Fátima
Watanabe, Luciana
Vianez Júnior, João Lídio da Silva Gonçalves
Nunes, Márcio Roberto Teixeira
Cardoso, Jedson Ferreira
Lima, Clayton
Schneider, Horacio
Sampaio, Iracilda
Resumo
BACKGROUND: The C. macropomum is a characiform fish from the Amazon basin that has been hybridized with other pacu species to produce commercial hybrids, such as the tambacu. However, little is known of the functional genomics of the parental species or these hybrid forms. The transcriptome of C. macropomum and tambacu were sequenced using 454 Roche platform (pyrosequencing) techniques to characterize the domains of Gene Ontology (GO) and to evaluate the levels of gene expression in the two organisms. RESULTS: The 8,188,945 reads were assembled into 400,845 contigs. A total of 58,322 contigs were annotated with a predominance of biological processes for both organisms, as determined by Gene Ontology (GO). Similar numbers of metabolic pathways were identified in both the C. macropomum and the tambacu, with the metabolism category presenting the largest number of transcripts. The BUSCO analysis indicated that our assembly was more than 40% complete. We identified 21,986 genes for the two fishes. The P and Log2FC values indicated significant differences in the levels of gene expression, with a total of 600 up-regulated genes. CONCLUSION: In spite of the lack of a reference genome, the functional annotation was successful, and confirmed a considerable difference in the specificity and levels of gene expression between the two organisms. This report provides a comprehensive baseline for the genetic management of these commercially important fishes, in particular for the identification of specific genes that may represent markers involved in the immunity, growth, and fertility of these organisms, with potential practical applications in aquaculture management.
Referência
GOMES, Fátima et al. Comparative analysis of the transcriptome of the Amazonian fish species Colossoma macropomum (tambaqui) and hybrid tambacu by next generation sequencing. PLoS ONE, v. 14, n. 2, e0212755, p. 1-23, Feb. 2019.
DeCs
Peixes / genética
Ontologia Genética
Caraciformes / genética
Colossoma macropomum
Tambaqui
Manejo de Espécimes
Aquicultura
Direito Autoral
Acesso Aberto
Coleções
  • CIT - Artigos Científicos
  • PPGV - Artigos Científicos

Instituto Evandro Chagas - SVS - MS - 2007-2018 Rodovia BR316 km 7 sn - Levilandia - 67030-000 - Ananindeua - Para - Brasil.
Licença Creative CommonsEste trabalho está licenciado com uma Licença Creative Commons - Atribuição-NãoComercial 4.0 Internacional
Tel: (55 91) 3214-2191
Email: biblioteca@iec.gov.br / clariceneta@iec.gov.br
 

 

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Instituto Evandro Chagas - SVS - MS - 2007-2018 Rodovia BR316 km 7 sn - Levilandia - 67030-000 - Ananindeua - Para - Brasil.
Licença Creative CommonsEste trabalho está licenciado com uma Licença Creative Commons - Atribuição-NãoComercial 4.0 Internacional
Tel: (55 91) 3214-2191
Email: biblioteca@iec.gov.br / clariceneta@iec.gov.br