Advances in genomics for flatfish aquaculture

Abstract

Fish aquaculture is considered to be one of the most sustainable sources of protein for humans. Many different species are cultured worldwide, but among them, marine flatfishes comprise a group of teleosts of high commercial interest because of their highly prized white flesh. However, the aquaculture of these fishes is seriously hampered by the scarce knowledge on their biology. In recent years, various experimental 'omics' approaches have been applied to farmed flatfishes to increment the genomic resources available. These tools are beginning to identify genetic markers associated with traits of commercial interest, and to unravel the molecular basis of different physiological processes. This article summarizes recent advances in flatfish genomics research in Europe. We focus on the new generation sequencing technologies, which can produce a massive amount of DNA sequencing data, and discuss their potentials and applications for de novo genome sequencing and transcriptome analysis. The relevance of these methods in nutrigenomics and foodomics approaches for the production of healthy animals, as well as high quality and safety products for the consumer, is also briefly discussed.

New developments and biological insights into the farming of Solea senegalensis reinforcing its aquaculture potential

“…which will open up ample possibilities for molecular studies devoted to gain a deeper understanding of biological processes and with potential to also be used in future breeding programmes, to identify molecular markers for traits of economical interest (Cerdà et al . ; Cerdà & Manchado ; García‐Cegarra et al . ).…”

Molecular and biochemical tricks of the research trade: -omics approaches in finfish aquaculture

“…In fish, there are many ongoing studies on genetic markers, mapping and detection of QTL (see Liu & Cordes 2004;Garber & Sullivan 2006;Kent et.al. 2009;Cerda & Manchado 2013) and in Atlantic salmon, MAS has also been implemented (www.aquagen.no/; www.landcatch.co.uk/) in commercial breeding programmes. Partial DNA sequence information from hundreds of finfish species, many of which are commercially farmed or are being considered for commercial cultivation, has surfaced over the last 10-20 years, mostly by using polymerase chain reaction-based methods.…”

“…Prieto-Álamo et al 2012;Rodrigues et al 2012;Cerda & Manchado 2013;Li & Li 2014; also see Table 1). In this review, we aim to briefly summarise the key state-of-the-art -omics technologies.…”

High-Throughput Proteomics: A New Tool for Quality and Safety in Fishery Products

“…In a recent review, Cerdà and Manchado summarize how OMICS technologies, included proteomics and foodomics, can better characterize reproduction, development, nutrition, immunity and toxicology of flatfishes to produce in a sustainable and profitable manner, healthy animals as well as high-quality and safe products for the consumer [19].…”

“…The number of publications dealing with application of proteomics in aquaculture more than doubled in the period 2007-2011 [19], however most of them are based on electrophoretic techniques such as 1 or 2-DE. Gel-based methods, especially 2-DE, are time-consuming, labour intensive and often evidence difficulties in reproducibility between the gels; nonetheless this approach can facilitate the identification of proteins for non-completely sequenced organisms (i.e.…”