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Analysis of the gut and gill microbiome of resistant and susceptible lines of rainbow trout ( Oncorhynchus mykiss )
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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R: A Language and Environment for Statistical Computing
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Association of Flavobacterium psychrophilum strains with intestinal explants of rainbow trout Oncorhynchus mykiss
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Correlations of Host Genetics and Gut Microbiome Composition
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QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
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What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Systematic literature review identifying bacterial constituents in the core intestinal microbiome of rainbow trout ( Oncorhynchus mykiss )
inferred← citeshttps://doi.org/10.1002/aff2.70054openalex-snapshot
Systematic Literature Review Identifying Core Genera in the Gut Microbiome of Rainbow Trout ( Oncorhynchus mykiss ) and Species‐level Microbial Community Analysis Using Long‐Read Amplicon Sequencing
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Host evolution shapes gut microbiome composition in Astyanax mexicanus
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The influence of diet on the microbiota of live-feed rotifers (Brachionus plicatilis) used in commercial fish larviculture
inferred← citeshttps://doi.org/10.1093/femsmc/xtae011openalex-snapshot
The gut microbiome of farmed Arctic char (Salvelinus alpinus) is shaped by feeding stage and nutrient presence
inferred← citeshttps://doi.org/10.1093/ismeco/ycaf160openalex-snapshot
Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities
inferred← citeshttps://doi.org/10.1093/jambio/lxae295openalex-snapshot
Influence of feeding black soldier fly (Hermetia illucens), cricket (Gryllodes sigillatus), and superworm (Zophobas morio) on the gut microbiota of rainbow trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.1098/rspb.2020.0184openalex-snapshot
The role of the gut microbiome in sustainable teleost aquaculture
inferred← citeshttps://doi.org/10.1101/2022.05.27.493806openalex-snapshot
Genomic and environmental factors shape gill microbiome activity in an Amazonian teleost holobiont
inferred← citeshttps://doi.org/10.1101/2023.12.07.570641openalex-snapshot
A niche-adapted brain microbiome in salmonids at homeostasis
inferred← citeshttps://doi.org/10.1111/1462-2920.15218openalex-snapshot
Targeted isolation based on metagenome‐assembled genomes reveals a phylogenetically distinct group of thermophilic spirochetes from deep biosphere
inferred← citeshttps://doi.org/10.1111/anu.13302openalex-snapshot
Effects of different dietary lipid levels on intestinal mucosal barrier and microbial community of juvenile tiger puffer Takifugu rubripes
inferred← citeshttps://doi.org/10.1111/jfd.13283openalex-snapshot
Mycoplasma infections in freshwater carnivorous fishes in Hungary
inferred← citeshttps://doi.org/10.1111/jfd.14050openalex-snapshot
Monitoring Fish Bacterial Pathogens of Wild Fish Species From the South China Sea by Applying Next‐Generation Sequencing on Gill Tissue
inferred← citeshttps://doi.org/10.1111/raq.12375openalex-snapshot
A microbial sea of possibilities: current knowledge and prospects for an improved understanding of the fish microbiome
inferred← citeshttps://doi.org/10.1111/raq.12745openalex-snapshot
Fish disease prevention via microbial dysbiosis‐associated biomarkers in aquaculture
inferred← citeshttps://doi.org/10.1126/sciadv.ado0277openalex-snapshot
A brain microbiome in salmonids at homeostasis
inferred← citeshttps://doi.org/10.1126/sciimmunol.aay3254openalex-snapshot
Specialization of mucosal immunoglobulins in pathogen control and microbiota homeostasis occurred early in vertebrate evolution
inferred← citeshttps://doi.org/10.1128/aem.00411-20openalex-snapshot
Microbial Ecology of Atlantic Salmon (Salmo salar) Hatcheries: Impacts of the Built Environment on Fish Mucosal Microbiota
inferred← citeshttps://doi.org/10.1128/aem.02154-22openalex-snapshot
Herbivorous Fish Microbiome Adaptations to Sulfated Dietary Polysaccharides
inferred← citeshttps://doi.org/10.1128/mra.01562-19openalex-snapshot
Analysis of the Microbiome of Rainbow Trout (Oncorhynchus mykiss) Exposed to the Pathogen Flavobacterium psychrophilum 10094
inferred← citeshttps://doi.org/10.1128/spectrum.00947-24openalex-snapshot
Environmental and population influences on mummichog ( Fundulus heteroclitus ) gut microbiomes
inferred← citeshttps://doi.org/10.1128/spectrum.02064-22openalex-snapshot
Genomic and Environmental Factors Shape the Active Gill Bacterial Community of an Amazonian Teleost Holobiont
inferred← citeshttps://doi.org/10.1128/spectrum.02255-22openalex-snapshot
Optimization of Low-Biomass Sample Collection and Quantitative PCR-Based Titration Impact 16S rRNA Microbiome Resolution
inferred← citeshttps://doi.org/10.1128/spectrum.03277-25openalex-snapshot
Host genotype and environmental factors differentially shape the black piranha’s gill microbiota
inferred← citeshttps://doi.org/10.1139/as-2023-0022openalex-snapshot
Characterization of skin- and intestine microbial communities in migrating High Arctic lake whitefish and cisco
inferred← citeshttps://doi.org/10.1155/2023/8128141openalex-snapshot
Fishmeal Protein Replacement by Defatted and Full-Fat Black Soldier Fly Larvae Meal in Juvenile Turbot Diet: Effects on the Growth Performance and Intestinal Microbiota
inferred← citeshttps://doi.org/10.1155/anu/9264855openalex-snapshot
Species‐ and Level‐Dependent Modulation of Growth and Skin and Intestinal Mucosal Microbiota in Rainbow Trout Fed Mushroom Stem Meals
inferred← citeshttps://doi.org/10.1155/are/6646341openalex-snapshot
Environmental and Host Associated Microbiota in Whiteleg Shrimp Litopenaeus vannamei Aquaculture: Functional and Taxonomic Insights From 16S rRNA Gene Sequencing
inferred← citeshttps://doi.org/10.1155/are/9305030openalex-snapshot
Impact of Brewer’s Spent Yeast Supplemented Diets on the Growth Rates and Intestinal Bacterial Communities of Farmed Rainbow Trout ( Oncorhynchus mykiss )
inferred← citeshttps://doi.org/10.1186/s12864-019-6175-2openalex-snapshot
Analysis of the fecal microbiota of fast- and slow-growing rainbow trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.1186/s12866-021-02374-0openalex-snapshot
Sampling the fish gill microbiome: a comparison of tissue biopsies and swabs
inferred← citeshttps://doi.org/10.1186/s12917-024-04125-5openalex-snapshot
Association of microbial community structure with gill disease in marine-stage farmed Atlantic salmon (Salmo salar); a yearlong study
inferred← citeshttps://doi.org/10.1186/s40168-021-01221-8openalex-snapshot
A multi-omics approach unravels metagenomic and metabolic alterations of a probiotic and synbiotic additive in rainbow trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.1186/s42523-020-00046-4openalex-snapshot
Antibiotic-induced alterations and repopulation dynamics of yellowtail kingfish microbiota
inferred← citeshttps://doi.org/10.1186/s42523-020-00063-3openalex-snapshot
The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.1186/s42523-020-00071-3openalex-snapshot
Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon
inferred← citeshttps://doi.org/10.1186/s42523-021-00096-2openalex-snapshot
Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
inferred← citeshttps://doi.org/10.1186/s42523-023-00253-9openalex-snapshot
The microbiota knows: handling-stress and diet transform the microbial landscape in the gut content of rainbow trout in RAS
inferred← citeshttps://doi.org/10.1186/s42523-024-00347-yopenalex-snapshot
Hatchery type influences the gill microbiome of Atlantic farmed salmon (Salmo salar) after transfer to sea
inferred← citeshttps://doi.org/10.1186/s42523-025-00429-5openalex-snapshot
Prospecting microbiota of Adriatic fish: Bacillus velezensis as a potential probiotic candidate
inferred← citeshttps://doi.org/10.1186/s42523-026-00572-7openalex-snapshot
Tetrodotoxin (TTX) reshapes the functional potential of the gut microbiome in juvenile tiger pufferfish (Takifugu rubripes) across salinity gradients
inferred← citeshttps://doi.org/10.1186/s42523-026-00588-zopenalex-snapshot
From onset to healing: temporal dynamics of microbial communities pinpoint Midichloria-like organism’s key role in the development of the fish skin disease red mark syndrome
inferred← citeshttps://doi.org/10.1371/journal.pone.0226159openalex-snapshot
Low-diversity bacterial microbiota in Southern Ocean representatives of lanternfish genera Electrona, Protomyctophum and Gymnoscopelus (family Myctophidae)
inferred← citeshttps://doi.org/10.1371/journal.pone.0243684openalex-snapshot
Effects of ploidy and salmonid alphavirus infection on the skin and gill microbiome of Atlantic salmon (Salmo salar)
inferred← citeshttps://doi.org/10.1575/1912/29313openalex-snapshot
Variations in marine microbiomes: from habitat to host
inferred← citeshttps://doi.org/10.15760/etd.3668openalex-snapshot
The Influence of Polystyrene Microplastics on Juvenile Steelhead Trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.1590/1678-992x-2020-0096openalex-snapshot
Effect of dietary protein and genetic line of Litopenaeus vannamei on its hepatopancreatic microbiota
inferred← citeshttps://doi.org/10.20944/preprints202403.0875.v1openalex-snapshot
Intestinal Bacteria Community Structures of Ruditapes philippinarum and Their Correlation with Environmental Factors
inferred← citeshttps://doi.org/10.21203/rs.3.rs-119477/v1openalex-snapshot
Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
inferred← citeshttps://doi.org/10.21203/rs.3.rs-1754689/v1openalex-snapshot
Herbivorous fish microbiome adaptations to sulfated dietary polysaccharides
inferred← citeshttps://doi.org/10.21203/rs.3.rs-1754689/v2openalex-snapshot
Herbivorous fish microbiome adaptations to sulfated dietary polysaccharides
inferred← citeshttps://doi.org/10.21203/rs.3.rs-1814912/v1openalex-snapshot
Hologenomic insights demonstrate co-evolution between an intestinal Mycoplasma and its salmonid host
inferred← citeshttps://doi.org/10.21203/rs.3.rs-2419489/v1openalex-snapshot
Hydropower dam alters the microbial structure of fish gut in different habitats in upstream and downstream rivers
inferred← citeshttps://doi.org/10.21203/rs.3.rs-459562/v1openalex-snapshot
A multi omics approach unravels metagenomic and metabolic alterations of a probiotic in rainbow trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.21203/rs.3.rs-4765186/v1openalex-snapshot
Experimental evolution of a mammalian holobiont: selection for herbivorous capability in bank voles yields distinct and robust gut microbial communities
inferred← citeshttps://doi.org/10.21203/rs.3.rs-4809319/v1openalex-snapshot
Intestinal microbiota shifts as a marker of thermal stress during extreme heat summer episodes in farmed gilthead sea bream (Sparus aurata)
inferred← citeshttps://doi.org/10.21203/rs.3.rs-79307/v1openalex-snapshot
Salmon Gut Microbiota Correlates With Disease Infection Status: Potential for Monitoring Health in Farmed Animals
inferred← citeshttps://doi.org/10.21203/rs.3.rs-916019/v1openalex-snapshot
A Multi Omics Approach Unravels Metagenomic and Metabolic Alterations of a Probiotic and Synbiotic Additive in Rainbow Trout (Oncorhynchus Mykiss)
inferred← citeshttps://doi.org/10.2139/ssrn.6910406openalex-snapshot
Successional dynamics of environmental and fish-associated microbiota in a climate-stressed common carp (Cyprinus carpio) nursery ecosystem
inferred← citeshttps://doi.org/10.3389/fcimb.2025.1639426openalex-snapshot
Symbiotic strategies: deciphering the role of gut microbiota in the nutrition and metabolism of fish and shellfish
inferred← citeshttps://doi.org/10.3389/fimmu.2020.01809openalex-snapshot
Polarized Trout Epithelial Cells Regulate Transepithelial Electrical Resistance, Gene Expression, and the Phosphoproteome in Response to Viral Infection
inferred← citeshttps://doi.org/10.3389/fimmu.2022.1086103openalex-snapshot
New insights into β-glucan-enhanced immunity in largemouth bass Micropterus salmoides by transcriptome and intestinal microbial composition
inferred← citeshttps://doi.org/10.3389/fimmu.2025.1611481openalex-snapshot
Integrated transcriptomic and microbiomic analyses reveal mechanisms of Decapod iridescent virus 1 resistance in Macrobrachium rosenbergii
inferred← citeshttps://doi.org/10.3389/fmars.2022.1008103openalex-snapshot
An insight into gill microbiome of Eastern Mediterranean wild fish by applying next generation sequencing
inferred← citeshttps://doi.org/10.3389/fmars.2022.901389openalex-snapshot
Longitudinal Sampling of the Rainbow Trout (Oncorhynchus mykiss) Microbiome Reveals Effects of Dietary Cecropin A and Yersinia ruckeri Infection
inferred← citeshttps://doi.org/10.3389/fmicb.2019.02118openalex-snapshot
Defining the Distinct Skin and Gut Microbiomes of the Northern Pike (Esox lucius)
inferred← citeshttps://doi.org/10.3389/fmicb.2021.567408openalex-snapshot
Microbiome Composition and Function in Aquatic Vertebrates: Small Organisms Making Big Impacts on Aquatic Animal Health
inferred← citeshttps://doi.org/10.3389/fmicb.2021.709611openalex-snapshot
Breeding Strategy Shapes the Composition of Bacterial Communities in Female Nile Tilapia Reared in a Recirculating Aquaculture System
inferred← citeshttps://doi.org/10.3389/fmicb.2022.912806openalex-snapshot
A strategic model of a host–microbe–microbe system reveals the importance of a joint host–microbe immune response to combat stress-induced gut dysbiosis
inferred← citeshttps://doi.org/10.3389/fmicb.2023.1200997openalex-snapshot
Microbiomes in the context of developing sustainable intensified aquaculture
inferred← citeshttps://doi.org/10.3389/fvets.2024.1374803openalex-snapshot
Comparative study of the gut microbial communities collected by scraping and swabbing in a fish model: a comprehensive guide to promote non-lethal procedures for gut microbial studies
inferred← citeshttps://doi.org/10.3390/ani13101633openalex-snapshot
Sustainable Fish Feeds with Insects and Probiotics Positively Affect Freshwater and Marine Fish Gut Microbiota
inferred← citeshttps://doi.org/10.3390/ani13213325openalex-snapshot
Combined Dietary Administration of Chlorella fusca and Ethanol-Inactivated Vibrio proteolyticus Modulates Intestinal Microbiota and Gene Expression in Chelon labrosus
inferred← citeshttps://doi.org/10.3390/ani14010097openalex-snapshot
Salmo salar Skin and Gill Microbiome during Piscirickettsia salmonis Infection
inferred← citeshttps://doi.org/10.3390/ani15192885openalex-snapshot
One Function, Many Faces: Functional Convergence in the Gut Microbiomes of European Marine and Freshwater Fish Unveiled by Bayesian Network Meta-Analysis
inferred← citeshttps://doi.org/10.3390/ani16091389openalex-snapshot
Identification of Association Between Mucus Microbiota and Gene Expression in the Gill of a Streptococcus agalactiae-Resistant Nile Tilapia Strain Though Multi-Omics Analyses
inferred← citeshttps://doi.org/10.3390/ani9040143openalex-snapshot
The Effects of Dietary Insect Meal from Hermetia illucens Prepupae on Autochthonous Gut Microbiota of Rainbow Trout (Oncorhynchus mykiss)
inferred← citeshttps://doi.org/10.3390/biology14101400openalex-snapshot
Effects of Water Temperature and Photoperiod on the Antioxidant Status and Intestinal Microbiota in Larval Spotted Mandarin Fish, Siniperca scherzeri, in the Yalu River
inferred← citeshttps://doi.org/10.3390/biology15131066openalex-snapshot
Gut Microbiomes of Rainbow Trout and Atlantic Salmon: Nutritional Modulation, Mucosal Immunity, and Resistome Risk
inferred← citeshttps://doi.org/10.3390/biology9100331openalex-snapshot
Salmonid Antibacterial Immunity: An Aquaculture Perspective
inferred← citeshttps://doi.org/10.3390/fishes10100505openalex-snapshot
Dietary Inclusion of Micro-Algal Astaxanthin on Gut Health of Rainbow Trout Oncorhynchus mykiss: Insights from Gut Morphology, Physiological Indices and Microbiota Diversity
inferred← citeshttps://doi.org/10.3390/fishes7040209openalex-snapshot
First Evaluation of Associated Gut Microbiota in Wild Thick-Lipped Grey Mullets (Chelon labrosus, Risso 1827)
inferred← citeshttps://doi.org/10.3390/genes10070484openalex-snapshot
Population Genetic Divergence and Environment Influence the Gut Microbiome in Oregon Threespine Stickleback
inferred← citeshttps://doi.org/10.3390/ijms22115454openalex-snapshot
Processed Animal Proteins from Insect and Poultry By-Products in a Fish Meal-Free Diet for Rainbow Trout: Impact on Intestinal Microbiota and Inflammatory Markers
inferred← citeshttps://doi.org/10.3390/microorganisms10050933openalex-snapshot
Gut Microbial Composition of Pacific Salmonids Differs across Oregon River Basins and Hatchery Ancestry
inferred← citeshttps://doi.org/10.3390/microorganisms11010208openalex-snapshot
Response of Intestinal Microbiota of Tiger Puffer (Takifugu rubripes) to the Fish Oil Finishing Strategy
inferred← citeshttps://doi.org/10.3390/microorganisms9051032openalex-snapshot
Effects of a Bioprocessed Soybean Meal Ingredient on the Intestinal Microbiota of Hybrid Striped Bass, Morone chrysops x M. saxatilis
inferred← citeshttps://doi.org/10.3390/microorganisms9102125openalex-snapshot
The Characteristics of Intestinal Bacterial Community in Three Omnivorous Fishes and Their Interaction with Microbiota from Habitats
inferred← citeshttps://doi.org/10.3390/pathogens12030454openalex-snapshot
Impact of Infection with Flavobacterium psychrophilum and Antimicrobial Treatment on the Intestinal Microbiota of Rainbow Trout
inferred← citeshttps://doi.org/10.3390/pathogens15060622openalex-snapshot
Rapid Culture-Independent Detection of Fish Pathogens Using Oxford Nanopore Technologies: Case-Based Insights Across Multiple Species and Tissues
inferred← citeshttps://doi.org/10.3390/toxics10050206openalex-snapshot
Metagenomic Analysis of the Gastrointestinal Microbiota of Gadus morhua callarias L. Originating from a Chemical Munition Dump Site
inferred← citeshttps://doi.org/10.4995/thesis/10251/203838openalex-snapshot
Evaluation of Organic Plant and Animal Ingredients for Fish Feeding
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525208openalex-snapshot
Additional file 10 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525211openalex-snapshot
Additional file 11 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525214openalex-snapshot
Additional file 12 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525217openalex-snapshot
Additional file 13 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525220openalex-snapshot
Additional file 14 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525223openalex-snapshot
Additional file 15 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525226openalex-snapshot
Additional file 16 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525229openalex-snapshot
Additional file 17 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525232openalex-snapshot
Additional file 18 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525256openalex-snapshot
Additional file 7 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525259openalex-snapshot
Additional file 8 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13525265openalex-snapshot
Additional file 9 of The yellow perch (Perca flavescens) microbiome revealed resistance to colonisation mostly associated with neutralism driven by rare taxa under cadmium disturbance
inferred← citeshttps://doi.org/10.6084/m9.figshare.13545373openalex-snapshot
Additional file 1 of Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon
inferred← citeshttps://doi.org/10.6084/m9.figshare.14457267openalex-snapshot
Additional file 1 of Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
inferred← citeshttps://doi.org/10.6084/m9.figshare.14457276openalex-snapshot
Additional file 3 of Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
inferred← citeshttps://doi.org/10.7287/peerj.12992v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Gut microbiota differences between paired intestinal wall and digesta samples in three small species of fish (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.12992v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Gut microbiota differences between paired intestinal wall and digesta samples in three small species of fish (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.12992v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Gut microbiota differences between paired intestinal wall and digesta samples in three small species of fish (v0.2)"
inferred← citeshttps://doi.org/10.7717/peerj.12992openalex-snapshot
Gut microbiota differences between paired intestinal wall and digesta samples in three small species of fish
inferred← citeshttps://doi.org/10.7717/peerj.13235openalex-snapshot
Multi-locus evaluation of gastrointestinal bacterial communities from Zalophus californianus pups in the Gulf of California, México
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