ArticleMarine biotechnology (New York, N.Y.)2015
RNA sequencing to study gene expression and SNP variations associated with growth in zebrafish fed a plant protein-based diet.
Article in Marine biotechnology (New York, N.Y.), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 32 citations in OpenAlex.
- Integrated Application of Transcriptomics and Metabolomics Provides Insights into the Different Body-Size Growth in Chinese Mitten Crab (International journal of molecular sciences · 2025Article
- The Interaction Between theInternational journal of molecular sciences · 2025Article
- RNA-seq and whole-genome re-sequencing reveal Micropterus salmoides growth-linked gene and selection signatures under carbohydrate-rich diet and varying temperature.Scientific reports · 2024Article
- Differential responses of hepatopancreas transcriptome between fast and slow growth in giant freshwater prawns (Macrobrachium rosenbergii) fed a plant-based diet.Scientific reports · 2024Article
- Exploring the influence of DNA methylation and single nucleotide polymorphisms of theFrontiers in genetics · 2023Article
- On the Compatibility of Fish Meal Replacements in Aquafeeds for Rainbow Trout. A Combined Metabolomic, Proteomic and Histological Study.Frontiers in physiology · 2022Article
- Article
- Immunologic Profiling of the Atlantic Salmon Gill by Single Nuclei Transcriptomics.Frontiers in immunology · 2021Article
- Plant-Based Diets Induce Transcriptomic Changes in Muscle of Zebrafish and Atlantic Salmon.Frontiers in genetics · 2020Article
- Current basis and future directions of zebrafish nutrigenomics.Genes & nutrition · 2019Review
- Identification of Single Nucleotide Polymorphism in Red Clover (Frontiers in plant science · 2019Article
- Differential gene expression and SNP association between fast- and slow-growing turbot (Scophthalmus maximus).Scientific reports · 2017Article
- Transcriptome assembly and identification of genes and SNPs associated with growth traits in largemouth bass (Micropterus salmoides).Genetica · 2017Article
- Searching for an Accurate Marker-Based Prediction of an Individual Quantitative Trait in Molecular Plant Breeding.Frontiers in plant science · 2017Review
- Article
- Transcriptomic Analysis of Compromise Between Air-Breathing and Nutrient Uptake of Posterior Intestine in Loach (Misgurnus anguillicaudatus), an Air-Breathing Fish.Marine biotechnology (New York, N.Y.) · 2016Article
- Identification of Immune-Related Genes and Development of SSR/SNP Markers from the Spleen Transcriptome of Schizothorax prenanti.PloS one · 2016Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The objectives of this study were to measure gene expression in zebrafish and then identify SNP to be used as potential markers in a growth association study. We developed an approach where muscle samples collected from low- and high-growth fish were analyzed using RNA-Sequencing (RNA-seq), and SNP were chosen from the genes that were differentially expressed between the low and high groups. A population of 24 families was fed a plant protein-based diet from the larval to adult stages. From a total of 440 males, 5 % of the fish from both tails of the weight gain distribution were selected. Total RNA was extracted from individual muscle of 8 low-growth and 8 high-growth fish. Two pooled RNA-Seq libraries were prepared for each phenotype using 4 fish per library. Libraries were sequenced using the Illumina GAII Sequencer and analyzed using the CLCBio genomic workbench software. One hundred and twenty-four genes were differentially expressed between phenotypes (p value < 0.05 and FDR < 0.2). From these genes, 164 SNP were selected and genotyped in 240 fish samples. Marker-trait analysis revealed 5 SNP associated with growth in key genes (Nars, Lmod2b, Cuzd1, Acta1b, and Plac8l1). These genes are good candidates for further growth studies in fish and to consider for identification of potential SNPs associated with different growth rates in response to a plant protein-based diet.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.