ArticlePloS one2013
Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
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Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it, 74 citations in OpenAlex.
- Transcriptional assessment by microarray analysis and large-scale meta-analysis of the metabolic capacity of cardiac and skeletal muscle tissues to cope with reduced nutrient availability in Gilthead Sea Bream (Sparus aurata L.).Marine biotechnology (New York, N.Y.) · 2014Pooled it
- Comparative Transcriptomics as a Key to Understanding the Adaptation Mechanisms of Baikal Sculpins to the Deep-Water Habitat.Biology · 2025Article
- Mechanisms underlying thermally induced growth plasticity in juvenile Pacific halibut.The Journal of experimental biology · 2025Article
- Transcriptomic Divergence and Associated Markers Between Genomic Lineages of Silver Catfish (Ecology and evolution · 2025Article
- Transcriptomic and biometric parameters analysis in rainbow trout (Oncorhynchus mykiss) challenged with viral hemorrhagic septicemia virus (VHSV).BMC genomics · 2025Article
- Transcriptomic and biochemical analyses revealed the improved growth, lipid metabolism, and flesh quality of grass carp (Ctenopharyngodon idellus) by dietary Eucommia ulmoides bark and leaf supplementation.Journal of animal science · 2022Article
- Transcriptome analysis and gene expression analysis related to salinity-alkalinity and low temperature adaptation ofFrontiers in genetics · 2022Article
- Targeting the Mild-Hypoxia Driving Force for Metabolic and Muscle Transcriptional Reprogramming of Gilthead Sea Bream (Biology · 2021Article
- Transcriptome analysis of the growth performance of hybrid mandarin fish after food conversion.PloS one · 2020Article
- Physiological Effects of Water Flow Induced Swimming Exercise in SeabreamFrontiers in physiology · 2020Article
- Identifying the Related Genes of Muscle Growth and Exploring the Functions by Compensatory Growth in Mandarin Fish (Frontiers in physiology · 2020Article
- Article
- Immunomodulatory Effects of Dietary Seaweeds in LPS Challenged Atlantic SalmonFrontiers in physiology · 2018Article
- Article
- Trans-omics approaches used to characterise fish nutritional biorhythms in leopard coral grouper (Plectropomus leopardus).Scientific reports · 2017Article
- Genetic architecture of gene transcription in two Atlantic salmon (Salmo salar) populations.Heredity · 2017Article
- RNA-seq transcriptome analysis of extensor digitorum longus and soleus muscles in large white pigs.Molecular genetics and genomics : MGG · 2016Article
- Analysis of Gene Expression in an Inbred Line of Soft-Shell Clams (International journal of genomics · 2016Article
- Substantial Downregulation of Myogenic Transcripts in Skeletal Muscle of Atlantic Cod during the Spawning Period.PloS one · 2016Article
- mRNA-seq reveals skeletal muscle atrophy in response to handling stress in a marine teleost, the red cusk-eel (Genypterus chilensis).BMC genomics · 2015Article
Corrections and comments
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Authors and funding
10 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Deep RNA sequencing (RNA-seq) was performed to provide an in-depth view of the transcriptome of red and white skeletal muscle of exercised and non-exercised rainbow trout (Oncorhynchus mykiss) with the specific objective to identify expressed genes and quantify the transcriptomic effects of swimming-induced exercise. Pubertal autumn-spawning seawater-raised female rainbow trout were rested (n = 10) or swum (n = 10) for 1176 km at 0.75 body-lengths per second in a 6,000-L swim-flume under reproductive conditions for 40 days. Red and white muscle RNA of exercised and non-exercised fish (4 lanes) was sequenced and resulted in 15-17 million reads per lane that, after de novo assembly, yielded 149,159 red and 118,572 white muscle contigs. Most contigs were annotated using an iterative homology search strategy against salmonid ESTs, the zebrafish Danio rerio genome and general Metazoan genes. When selecting for large contigs (>500 nucleotides), a number of novel rainbow trout gene sequences were identified in this study: 1,085 and 1,228 novel gene sequences for red and white muscle, respectively, which included a number of important molecules for skeletal muscle function. Transcriptomic analysis revealed that sustained swimming increased transcriptional activity in skeletal muscle and specifically an up-regulation of genes involved in muscle growth and developmental processes in white muscle. The unique collection of transcripts will contribute to our understanding of red and white muscle physiology, specifically during the long-term reproductive migration of salmonids.
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