Gill Transcriptome Sequencing and De Novo Annotation of Acanthogobius ommaturus in Response to Salinity Stress

Abstract

Acanthogobius ommaturus is a euryhaline fish widely distributed in coastal, bay and estuarine areas, showing a strong tolerance to salinity. In order to understand the mechanism of adaptation to salinity stress, RNA-seq was used to compare the transcriptome responses of Acanthogobius ommaturus to the changes of salinity. Four salinity gradients, 0 psu, 15 psu (control), 30 psu and 45 psu were set to conduct the experiment. In total, 131,225 unigenes were obtained from the gill tissue of A. ommaturus using the Illumina HiSeq 2000 platform (San Diego, USA). Compared with the gene expression profile of the control group, 572 differentially expressed genes (DEGs) were screened, with 150 at 0 psu, 170 at 30 psu, and 252 at 45 psu. Additionally, among these DEGs, Gene Ontology (GO) analysis indicated that binding, metabolic processes and cellular processes were significantly enriched. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways analysis detected 3, 5 and 8 pathways related to signal transduction, metabolism, digestive and endocrine systems at 0 psu, 30 psu and 45 psu, respectively. Based on GO enrichment analysis and manual literature searches, the results of the present study indicated that A. ommaturus mainly responded to energy metabolism, ion transport and signal transduction to resist the damage caused by salinity stress. Eight DEGs were randomly selected for further validation by quantitative real-time PCR (qRT-PCR) and the results were consistent with the RNA-seq data.

RNA Sequencing Analysis Reveals Divergent Adaptive Response to Hypo- and Hyper-Salinity in Greater Amberjack (Seriola dumerili) Juveniles

“…Blood and water in gills are separated by just a few micrometers, thus facilitating the exchange of gases and allowing gill tissue to be exposed to environmental variation and pollutants [19]. Moreover, gills can balance the ion concentration in blood and acid base in freshwater and seawater-adapted fish [20][21][22]. Salinity changes can cause many lesions in gills, such as vascular congestion [8], lamellar fusion, mucosal cell and gill filament epithelium hyperplasia, loss of the structural integrity of pillar cells, and an increased number of chloride cells [23,24].…”

Transcriptome Profiling Reveals a Divergent Adaptive Response to Hyper- and Hypo-Salinity in the Yellow Drum, Nibea albiflora

“…In addition, the transcriptome analysis of cobia ( Rachycentron canadum ) under salinity stress showed that metabolism was the pathway that was the most affected by salinity changes [ 22 ]. Sun et al found that the DEGs related to the adaptive regulation mechanism of salinity in Acanthogobius ommaturus were mainly involved in the metabolic, ion transport, and signal transduction processes [ 23 ]. Several genes of the solute carrier (SLC) gene family have been identified as candidate genes that mediate the response of the tiger puffer ( Takifugu rubripes ) to low-salinity stress [ 24 ].…”

Transcriptome analysis of the muscle of fast‐ and slow‐growing phoenix barb (Spinibarbus denticulatus denticulatus)

“…The number of DEGs in the FG vs. SG groups at the three growth stages was determined using edgeR package (Robinson et al, 2009). All the unigenes were annotated on NCBI nonredundant protein (NR), eukaryotic orthologous group (KOG), Kyoto Encyclopedia of Genes and Genomes (KEGG), NCBI nucleotide (NT), gene ontology (GO) and Swiss-Prot protein databases (Conesa et al, 2005;Kanehisa et al, 2008;Sun et al, 2020).…”