title: Identification and characterization of the expression profile of the microRNAs in the Amazon species Colossoma macropomum by next generation sequencing.
abstract: Colossoma macropomum is a resistant species native of Amazonas and Orinoco river basins. It is regarded as the second largest finfish of Solimões 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.
authors.affiliation: Institute of Coastal Studies, Laboratory of Genetics and Molecular Biology, Federal University of Pará, Campus of Bragança, 68600-000 Bragança, PA, Brazil. Electronic address: fat_gomes@hotmail.com.
authors.forename: Fátima
authors.initials: F
authors.lastname: Gomes
authors.affiliation: Institute of Coastal Studies, Laboratory of Genetics and Molecular Biology, Federal University of Pará, Campus of Bragança, 68600-000 Bragança, PA, Brazil. Electronic address: lwatanabe@ufpa.br.
authors.forename: Luciana
authors.initials: L
authors.lastname: Watanabe
authors.affiliation: Dow AgroSciences, Av Antonio Diederichsen, 400, - Ribeirão Preto, SP 14020-250, Brazil. Electronic address: srnozawa@gmail.com.
authors.forename: Sérgio
authors.initials: S
authors.lastname: Nozawa
authors.affiliation: Center for Technological Innovation, Evandro Chagas Institute, Ministry of Health, 67030-000 Ananindeua, PA, Brazil. Electronic address: layannafoliveira@gmail.com.
authors.forename: Layanna
authors.initials: L
authors.lastname: Oliveira
authors.affiliation: Center for Technological Innovation, Evandro Chagas Institute, Ministry of Health, 67030-000 Ananindeua, PA, Brazil; Postgraduate Program in Virology (PPGV), Evandro Chagas Institute, Ministry of Health, Ananindeua, PA 67030-000, Brazil. Electronic address: jedson.cardoso@gmail.com.
authors.forename: Jedson
authors.initials: J
authors.lastname: Cardoso
authors.affiliation: Center for Technological Innovation, Evandro Chagas Institute, Ministry of Health, 67030-000 Ananindeua, PA, Brazil. Electronic address: vianez.iec@gmail.com.
authors.forename: João
authors.initials: J
authors.lastname: Vianez
authors.affiliation: Center for Technological Innovation, Evandro Chagas Institute, Ministry of Health, 67030-000 Ananindeua, PA, Brazil. Electronic address: marcionunesbrasil@yahoo.com.br.
authors.forename: Márcio
authors.initials: M
authors.lastname: Nunes
authors.affiliation: Institute of Coastal Studies, Laboratory of Genetics and Molecular Biology, Federal University of Pará, Campus of Bragança, 68600-000 Bragança, PA, Brazil. Electronic address: horacio@ufpa.br.
authors.forename: Horacio
authors.initials: H
authors.lastname: Schneider
authors.affiliation: Institute of Coastal Studies, Laboratory of Genetics and Molecular Biology, Federal University of Pará, Campus of Bragança, 68600-000 Bragança, PA, Brazil. Electronic address: ira@ufpa.br.
authors.forename: Iracilda
authors.initials: I
authors.lastname: Sampaio
mesh_terms: D000818:Animals; D060125:Characiformes / Q000235:genetics / Q000378:metabolism*; D019295:Computational Biology; D059014:High-Throughput Nucleotide Sequencing; D008099:Liver / Q000378:metabolism; D035683:MicroRNAs / Q000235:genetics*; D017423:Sequence Analysis, RNA; D012867:Skin / Q000378:metabolism; D059467:Transcriptome
chemical_list: D035683:MicroRNAs
keywords: Expression; High-throughput sequencing; Tambaqui; miRNA