Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing
Colossoma macropomum is a resistant species native of Amazonas and Orinoco river basins. It is regarded as the second largest finfish of Solim?es and Amazon rivers, representing a major fishery resource in Amazonas and an important species in tropical aquaculture. MicroRNAs are non-coding endogeno...
| Autor principal: | Gomes, F?tima |
|---|---|
| Outros Autores: | Watanabe, Luciana, Nozawa, S?rgio, Oliveira, Layanna, Cardoso, Jedson Ferreira, Vianez J?nior, Jo?o L?dio da Silva Gon?alves, Nunes, M?rcio Roberto Teixeira, Schneider, Horacio, Sampaio, Iracilda |
| Grau: | Artigo |
| Idioma: | eng |
| Publicado em: |
Elsevier
2019
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| Assuntos: | |
| Acesso em linha: |
http://patua.iec.gov.br//handle/iec/3841 |
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ir-iec-3841 |
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ir-iec-38412019-08-16T11:46:44Z Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing Gomes, F?tima Watanabe, Luciana Nozawa, S?rgio Oliveira, Layanna Cardoso, Jedson Ferreira Vianez J?nior, Jo?o L?dio da Silva Gon?alves Nunes, M?rcio Roberto Teixeira Schneider, Horacio Sampaio, Iracilda Peixes / anatomia & histologia Caraciformes / gen?tica Caraciformes / metabolismo MicroRNAs / gen?tica F?gado / metabolismo Pele / metabolismo Transcriptoma Express?o G?nica An?lise de Sequ?ncia de RNA Sequenciamento de Nucleot?deos em Larga Escala Biologia Computacional Ecossistema Amaz?nico (BR) Colossoma macropomum is a resistant species native of Amazonas and Orinoco river basins. It is regarded as the second largest finfish of Solim?es and Amazon rivers, representing a major fishery resource in Amazonas and an important species in tropical aquaculture. MicroRNAs are non-coding endogenous riboregulators of nearly 22 nucleotides that play a key role in post-transcriptional gene regulation of several organisms. We analyzed samples of liver and skin from specimens of C. macropomum using next generation sequencing. The dataset was evaluated using computational programs to check the quality of sequences, identification of miRNAs, as well as to evaluate the expression levels of these microRNAs and interaction of target genes. We identified 279 conserved miRNAs, being 257 from liver and 272 from skin, with several miRNAs shared between tissues, with divergence in the number of reads. The strands miR-5p and miR-3p were observed in 72 miRNAs, some of them presenting a higher number of 3p reads. The functional annotation of the most expressed miRNAs resulted in 27 pathways for the liver and skin mainly related to the ?biological processes? domain. Based on the identified pathways, we visualized a large gene network, suggesting the regulation of selected miRNA over this interactive dataset. We were able to identify and characterize the expression levels of miRNAs in two tissues of great activity in C. macropomum, which stands out as the beginning of several studies that can be carried out to elucidate the influence of miRNAs in this species and their applicability as biotechnological tools. National Council for Scientific and Technological Development (CNPq) (Bionorte Projct: 550939/2010-5) 2019-08-16T11:37:42Z 2019-08-16T11:37:42Z 2017 Artigo GOMES, F?tima et al. Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing. Genomics, v. 109, n. 2, p. 67-74, Mar. 2017. 1089-8646 http://patua.iec.gov.br//handle/iec/3841 10.1016/j.ygeno.2017.02.001 eng Acesso Aberto application/pdf Elsevier |
| institution |
Instituto Evandro Chagas (IEC) |
| collection |
PATUA |
| language |
eng |
| topic |
Peixes / anatomia & histologia Caraciformes / gen?tica Caraciformes / metabolismo MicroRNAs / gen?tica F?gado / metabolismo Pele / metabolismo Transcriptoma Express?o G?nica An?lise de Sequ?ncia de RNA Sequenciamento de Nucleot?deos em Larga Escala Biologia Computacional Ecossistema Amaz?nico (BR) |
| spellingShingle |
Peixes / anatomia & histologia Caraciformes / gen?tica Caraciformes / metabolismo MicroRNAs / gen?tica F?gado / metabolismo Pele / metabolismo Transcriptoma Express?o G?nica An?lise de Sequ?ncia de RNA Sequenciamento de Nucleot?deos em Larga Escala Biologia Computacional Ecossistema Amaz?nico (BR) Gomes, F?tima Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| topic_facet |
Peixes / anatomia & histologia Caraciformes / gen?tica Caraciformes / metabolismo MicroRNAs / gen?tica F?gado / metabolismo Pele / metabolismo Transcriptoma Express?o G?nica An?lise de Sequ?ncia de RNA Sequenciamento de Nucleot?deos em Larga Escala Biologia Computacional Ecossistema Amaz?nico (BR) |
| description |
Colossoma macropomum is a resistant species native of Amazonas and Orinoco river basins. It is regarded as the second largest finfish of Solim?es and Amazon rivers, representing a major fishery resource in Amazonas and
an important species in tropical aquaculture. MicroRNAs are non-coding endogenous riboregulators of nearly
22 nucleotides that play a key role in post-transcriptional gene regulation of several organisms. We analyzed
samples of liver and skin from specimens of C. macropomum using next generation sequencing. The dataset
was evaluated using computational programs to check the quality of sequences, identification of miRNAs, as
well as to evaluate the expression levels of these microRNAs and interaction of target genes. We identified 279
conserved miRNAs, being 257 from liver and 272 from skin, with several miRNAs shared between tissues, with
divergence in the number of reads. The strands miR-5p and miR-3p were observed in 72 miRNAs, some of
them presenting a higher number of 3p reads. The functional annotation of the most expressed miRNAs resulted
in 27 pathways for the liver and skin mainly related to the ?biological processes? domain. Based on the identified
pathways, we visualized a large gene network, suggesting the regulation of selected miRNA over this interactive
dataset. We were able to identify and characterize the expression levels of miRNAs in two tissues of great activity
in C. macropomum, which stands out as the beginning of several studies that can be carried out to elucidate the
influence of miRNAs in this species and their applicability as biotechnological tools. |
| format |
Artigo |
| author |
Gomes, F?tima |
| author2 |
Watanabe, Luciana Nozawa, S?rgio Oliveira, Layanna Cardoso, Jedson Ferreira Vianez J?nior, Jo?o L?dio da Silva Gon?alves Nunes, M?rcio Roberto Teixeira Schneider, Horacio Sampaio, Iracilda |
| author2Str |
Watanabe, Luciana Nozawa, S?rgio Oliveira, Layanna Cardoso, Jedson Ferreira Vianez J?nior, Jo?o L?dio da Silva Gon?alves Nunes, M?rcio Roberto Teixeira Schneider, Horacio Sampaio, Iracilda |
| title |
Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| title_short |
Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| title_full |
Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| title_fullStr |
Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| title_full_unstemmed |
Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing |
| title_sort |
identification and characterization of the expression profile of the micrornas in the amazon species colossoma macropomum by next generation sequencing |
| publisher |
Elsevier |
| publishDate |
2019 |
| url |
http://patua.iec.gov.br//handle/iec/3841 |
| _version_ |
1717584450480504832 |
| score |
11.755432 |