A transcriptomic analysis of striped catfish (Pangasianodon hypophthalmus) in response to salinity adaptation: De novo assembly, gene annotation and marker discovery

Reference gene selection for quantitative gene expression studies during biological invasions: A test on multiple genes and tissues in a model ascidian Ciona savignyi

“…Recent studies have attempted to elucidate the strategies responsible for various abiotic stresses in plants such as hybrids of Hordeum vulgare L. x Saccharum spp. (Janska et al, 2013;Guo et al, 2014), fish such as Pangasianodon hypophthalmus and Pagothenia borchgrevinki (Thanh et al, 2014;Bilyk and Cheng, 2014), and molluscs such as Mytilus galloprovincialis (Lockwood et al, 2010;Lockwood and Somero, 2011) and Pomacea canaliculata (Sun et al, 2012). As invasive species rapidly spread and successfully colonized throughout varying environments, they offer a great opportunity to study the causes and consequences of adaptability to rapidly changing environments.…”

Transcriptomics in aquaculture: current status and applications

“…Transcriptome profiling of the intestine and swim bladder identified genes related to salinity adaptation (Thanh et al . ). Narum and Campbell () sequenced gill transcriptome of red band trout ( Oncorhynchus mykiss gairdneri ) collected from desert, montane, F1 crosses and studied the expression pattern of heat shock proteins chaperons to reveal transcriptomics response to heat stress.…”

Optimizing de novo transcriptome assembly and extending genomic resources for striped catfish (Pangasianodon hypophthalmus)

“…CLC with a k-mer length of 20 generated the largest N50, best average contig length and the greatest number of contigs above 1000 bp in length while the number of contigs and maximum Table 1 Overview of Ion Torrent sequencing and read processing. Intestine and swim bladder data have been published before in Thanh et al (2014).…”

“…The transcriptomes were developed using the Ion Torrent platform. The transcriptomes from intestine and swim bladder generated by Thanh et al (2014) were also added to the current datasets to increase genetic resources for striped catfish. Transcriptome sequences were assembled into contigs via an optimization of de novo transcriptome assembly strategies.…”