Analysis of the black-chinned tilapia Sarotherodon melanotheron heudelotii reproducing under a wide range of salinities: from RNA-seq to candidate genes
Résumé
The black-chinned tilapia Sarotherodon melanotheron heudelotii is an ecologically appealing model as it shows
exceptional adaptive capacities, especially with regard to salinity. In spite of this, this species is devoid of genomic
resources, which impedes the understanding of such remarkable features. De novo assembly of transcript sequences
produced by next-generation sequencing technologies offers a rapid approach to obtain expressed gene sequences
for non-model organisms. It also facilitates the development of quantitative real-time PCR (qPCR) assays for
analysing gene expression under different environmental conditions. Nevertheless, obtaining accurate and reliable
qPCR results from such data requires a number of validations prior to interpretation. The transcriptome of S. melanotheron
was sequenced to discover transcripts potentially involved in the plasticity of male reproduction in response
to salinity variations. A set of 54 candidate and reference genes was selected through a digital gene expression (DGE)
approach, and a de novo qPCR assay using these genes was validated for further detailed expression analyses. A
user-friendly web interface was created for easy handling of the sequence data. This sequence collection represents a
major transcriptomic resource for S. melanotheron and will provide a useful tool for functional genomics and
genetics studies.
Keywords: gene expression,