From the Amazon: A comprehensive liver transcriptome dataset of the teleost fish tambaqui, Colossoma macropomum

Abstract

The teleost fish tambaqui, Colossoma macropomum , is a valuable resource for the Brazillian aquaculture sector, representing more than one-quarter of the total production. In this context, the development of molecular tools is paramount to address and improve productivity, nutrition, and genetic breeding programs. In this study, we applied RNA-seq technology to produce the first comprehensive liver transcriptome in this species. Our analysis generated a gold standard transcriptome with a total of 43,098 transcripts, with an N50 of 1855 bp and the average length of 1312 bp. To functionally annotate the transcripts, the Trinotate pipeline together with several public databases were scrutinized. The blast-x analysis revealed more than 40,000 homologous match hits for each database (NCBI-Nr, Uniref90, Swissprot, Trembl), while the Kaas web server allowed the mapping of our transcripts to 380 kegg pathways. The dataset provided in this study entails a comprehensive molecular resource, which will be instrumental to further develop tambaqui aquaculture, specifically in the field of nutrigenomics.

Regulation of gene expression associated with LC‐PUFA metabolism in juvenile tambaqui ( Colossoma macropomum ) fed different dietary oil sources

“…In teleosts, specific gene duplicates have been found in pparα and pparβ ( pparαa and pparαb , and pparβa and pparβb ) (Leaver et al, 2005; Madureira et al, 2017; Robinson‐Rechavi et al, 2001; Urbatzka et al, 2013). In this present work, we were able to deduce the complete open reading frames (ORF) of five tambaqui ppar gene sequences ( pparαa , pparαb , pparβa , pparβb and pparγ ) through the investigation of this species brain and liver transcriptome (Machado et al, 2019). Importantly, in teleosts, some ppar have been shown to regulate the endogenous production of LC‐PUFA and associated with the modulation of Fads expression (Li et al, 2015, 2019; Morais et al, 2012; Vagner et al, 2009; You et al, 2017).…”

“…The sequences of the key gene involved in the LC‐PUFA biosynthesis ( fads2 , elovl5 and elovl2 ) and TF ( pparαa , pparαb , pparβa , pparβb , ppary , lxrα and srebp1 ), and enzymes involved in the fatty acid biosynthesis ( fas ) and lipid catabolism ( lpl ), were retrieved from tambaqui liver and brain transcriptome assemblies (Machado et al, 2019). For the normalization of the real‐time quantitative PCR, we combined β‐actin ( actb ), a stable housekeeping gene in tambaqui (Nascimento et al, 2016), with α‐tubulin ( tuba ) and β‐2‐microglobulin ( b2 m ).…”

“…The same occurred for the lipid metabolism enzymes Lpl and Fas (Figures S4 and S5), and for the housekeeping genes Actb (Figure S6), B2 m (Figure S7) and Tuba (Figure S8). The orthology of Fads2, Elovl2 and Elovl5 had been previously established by Ferraz et al, (2019), whereas Ppar orthologues were identified by Machado et al, (2019).…”

Aspectos Econômico Da Piscicultura Na Amazônia Brasileira

“…Os lipídios da dieta estão fortemente correlacionados com a lipase do trato digestório dos tambaquis, como observado por Almeida, Lundstedt e Moraes (2006). Sandre et al (2017) avaliaram tambaqui (peso: entre 10 e 250g) nutridos com níveis de carboidratos (41,0,46,0 e 51,0 %) e de lipídios (4,0 e 8,0 %), e encontraram os níveis de 46% (460 g/kg) de carboidratos e 4% (40 g/kg) de lipídios como os ideias para o cultivo da espécie. Nutrientes energéticos corretamente balanceados na dieta são poupadores de proteínas, maximizando a eficiência proteica e reduzindo a excreção de nitrogenados no meio.…”

A Ostreicultura Enquanto Alternativa De Renda Para Populações Tradicionais Do Litoral Amazônico: O Caso Da Agromar

“…Os lipídios da dieta estão fortemente correlacionados com a lipase do trato digestório dos tambaquis, como observado por Almeida, Lundstedt e Moraes (2006). Sandre et al (2017) avaliaram tambaqui (peso: entre 10 e 250g) nutridos com níveis de carboidratos (41,0,46,0 e 51,0 %) e de lipídios (4,0 e 8,0 %), e encontraram os níveis de 46% (460 g/kg) de carboidratos e 4% (40 g/kg) de lipídios como os ideias para o cultivo da espécie. Nutrientes energéticos corretamente balanceados na dieta são poupadores de proteínas, maximizando a eficiência proteica e reduzindo a excreção de nitrogenados no meio.…”