Full‐length 16S rRNA gene classification of Atlantic salmon bacteria and effects of using different 16S variable regions on community structure analysis

Impact of Preservation Method and 16S rRNA Hypervariable Region on Gut Microbiota Profiling

(2019) Zigui Chen et al.   mSystems

The effects of sequencing platforms on phylogenetic resolution in 16 S rRNA gene profiling of human feces

(2018) Tae Woong Whon et al.   Scientific Data

Contamination in Low Microbial Biomass Microbiome Studies: Issues and Recommendations

(2018) Raphael Eisenhofer et al.   TRENDS IN MICROBIOLOGY

The environmental and host-associated bacterial microbiota of Arctic seawater-farmed Atlantic salmon with ulcerative disorders

(2017) C Karlsen et al.   JOURNAL OF FISH DISEASES

MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data

(2017) Achal Dhariwal et al.   NUCLEIC ACIDS RESEARCH

The Microbiome of Seriola lalandi of Wild and Aquaculture Origin Reveals Differences in Composition and Potential Function

(2017) Carolina Ramírez et al.   Frontiers in Microbiology

The Skin-Mucus Microbial Community of Farmed Atlantic Salmon (Salmo salar)

(2017) Giusi Minniti et al.   Frontiers in Microbiology

Exploring the Cultivable Ectocarpus Microbiome

(2017) Hetty KleinJan et al.   Frontiers in Microbiology

Fine Flounder (Paralichthys adspersus) Microbiome Showed Important Differences between Wild and Reared Specimens

(2017) Carolina Ramírez et al.   Frontiers in Microbiology

Fermented Soybean Meal Increases Lactic Acid Bacteria in Gut Microbiota of Atlantic Salmon (Salmo salar)

(2017) Natalia Catalán et al.   Probiotics and Antimicrobial Proteins

Genome-wide analysis of Atlantic salmon (Salmo salar) mucin genes and their role as biomarkers

(2017) Lene Rydal Sveen et al.   PLoS One

High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system

(2017) Wirulda Pootakham et al.   Scientific Reports

Influence of Fishmeal-Free Diets on Microbial Communities in Atlantic Salmon (Salmo salar) Recirculation Aquaculture Systems

(2016) Victor Schmidt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

First isolation, identification and characterisation of Tenacibaculum maritimum in Norway, isolated from diseased farmed sea lice cleaner fish Cyclopterus lumpus L

(2016) Sverre Bang Småge et al.   AQUACULTURE

Evaluation of PacBio sequencing for full-length bacterial 16S rRNA gene classification

(2016) Josef Wagner et al.   BMC MICROBIOLOGY

High-resolution phylogenetic microbial community profiling

(2016) Esther Singer et al.   ISME Journal

Transition from freshwater to seawater reshapes the skin-associated microbiota of Atlantic salmon

(2016) Jep Lokesh et al.   Scientific Reports

Performance of 16s rDNA Primer Pairs in the Study of Rhizosphere and Endosphere Bacterial Microbiomes in Metabarcoding Studies

(2016) Bram Beckers et al.   Frontiers in Microbiology

Sample Processing Impacts the Viability and Cultivability of the Sponge Microbiome

(2016) Ana I. S. Esteves et al.   Frontiers in Microbiology

A high-resolution map of the gut microbiota in Atlantic salmon (Salmo salar): A basis for comparative gut microbial research

(2016) Karina Gajardo et al.   Scientific Reports

Tenacibaculum finnmarkense sp. nov., a fish pathogenic bacterium of the family Flavobacteriaceae isolated from Atlantic salmon

(2015) Sverre Bang Småge et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

The biogeography of the atlantic salmon (Salmo salar) gut microbiome

(2015) Martin S Llewellyn et al.   ISME Journal

Community Structure of Skin Microbiome of Gulf Killifish, Fundulus grandis, Is Driven by Seasonality and Not Exposure to Oiled Sediments in a Louisiana Salt Marsh

(2015) Andrea M. Larsen et al.   MICROBIAL ECOLOGY

Community assembly of a euryhaline fish microbiome during salinity acclimation

(2015) Victor T. Schmidt et al.   MOLECULAR ECOLOGY

Primer and platform effects on 16S rRNA tag sequencing

(2015) Julien Tremblay et al.   Frontiers in Microbiology

16S rRNA gene-based profiling of the human infant gut microbiota is strongly influenced by sample processing and PCR primer choice

(2015) Alan W. Walker et al.   Microbiome

Emerging flavobacterial infections in fish: A review

(2015) Thomas P. Loch et al.   Journal of Advanced Research

Limits to robustness and reproducibility in the demarcation of operational taxonomic units

(2014) Thomas S. B. Schmidt et al.   ENVIRONMENTAL MICROBIOLOGY

Pyrosequencing-based characterization of gastrointestinal bacteria of Atlantic salmon (Salmo salarL.) within a commercial mariculture system

(2014) K.Z. Zarkasi et al.   JOURNAL OF APPLIED MICROBIOLOGY

Host specificity and clade dependent distribution of putative virulence genes in Moritella viscosa

(2014) Christian Karlsen et al.   MICROBIAL PATHOGENESIS

Intragenomic Heterogeneity of 16S rRNA Genes Causes Overestimation of Prokaryotic Diversity

(2013) Dong-Lei Sun et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Design and evaluation of a unique RT-qPCR assay for diagnostic quality control assessment that is applicable to pathogen detection in three species of salmonid fish

(2013) Dagoberto Sepúlveda et al.   BMC Veterinary Research

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

Environmental and ecological factors that shape the gut bacterial communities of fish: a meta-analysis

(2012) KAREN E. SULLAM et al.   MOLECULAR ECOLOGY

CREST – Classification Resources for Environmental Sequence Tags

(2012) Anders Lanzén et al.   PLoS One

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

(2011) Jeffrey J Werner et al.   ISME Journal

Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing

(2011) Purnima S. Kumar et al.   PLoS One

Role of gastrointestinal microbiota in fish

(2010) Sukanta K Nayak   AQUACULTURE RESEARCH

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Previously unrecognised division within Moritella viscosa isolated from fish farmed in the North Atlantic

(2010) S Grove et al.   DISEASES OF AQUATIC ORGANISMS

Tenacibaculum sp. associated with winter ulcers in sea-reared Atlantic salmon Salmo salar

(2010) AB Olsen et al.   DISEASES OF AQUATIC ORGANISMS

A flexible and efficient template format for circular consensus sequencing and SNP detection

(2010) K. J. Travers et al.   NUCLEIC ACIDS RESEARCH

Bacterial coldwater disease of fishes caused by Flavobacterium psychrophilum

(2010) Clifford E. Starliper   Journal of Advanced Research

Database indexing for production MegaBLAST searches

(2008) Aleksandr Morgulis et al.   BIOINFORMATICS

Real-time PCR detection of Moritella viscosa, the likely causal agent of winter-ulcer in Atlantic salmon Salmo salar and rainbow trout Oncorhynchus mykiss

(2008) S Grove et al.   DISEASES OF AQUATIC ORGANISMS