ST-2021-Cobia-transcriptome.xlsx

Cobia (Rachycentron canadum) is a
marine teleost species with great productive potential worldwide. However, the
genomic information currently available for this species in public databases is
limited. Such lack of information hinders gene expression assessments that might
bring forward novel insights into the physiology, ecology, evolution, and
genetics of this potential aquaculture species. In this study, we report the
first de novo transcriptome assembly of R. canadum liver, improving the availability of novel gene
sequences for this species. Illumina sequencing of liver transcripts generated
1,761,965,794 raw reads, which were filtered into 1,652,319,304 high-quality
reads. De novo assembly resulted in 101,789 unigenes and 163,096 isoforms, with
an average length of 950.61 and 1617.34 nt, respectively. Moreover, we found
that 126,013 of these transcripts bear potentially coding sequences, and 125,993
of these elements (77.3%) correspond to functionally annotated genes found in
six different databases. We also identified 701 putative ncRNA and 35,414
putative lncRNA. Interestingly, homologues for 410 of these putative lncRNAs have
already been observed in previous analyzes with Danio rerio, Lates calcarifer,
Seriola lalandi dorsalis, Seriola dumerili or Echeneis naucrates. Finally, we identified 7894 microsatellites
related to cobia's putative lncRNAs. Thus, the information derived from the
transcriptome assembly described herein will likely assist future nutrigenomics
and breeding programs involving this important fish farming species.