Presence and habitats of bacterial fish pathogen relatives in a marine salmon post-smolt RAS

How to define fish pathogen relatives from a 16S rRNA sequence library and Pearson correlation analysis between defined OTUs from the library: Supplementary data to the research article “Presence and habitats of bacterial fish pathogen relatives in a marine salmon post-smolt RAS”

“…The original research paper describes how we went about including as many species of fish pathogens as possible in the database of full-length 16S rRNA sequences [ 1 , 3 ]. A total of 295 species were included in the database.…”

“…A 16S rRNA sequence library from a post-smolt RAS (1524 sequences, 250 bp long) was previously deposited in the Mendeley database and published by Data in Brief article [2] . Sequence similarities between 90-100% were considered hits between these databases and identified the “fish pathogen relatives” as reported in the co-submitted research article [1] . Pearson correlation analysis data for all the defined OTUs (535) in the 16S rRNA sequence library were also deposited to Mendeley data with link to present paper.…”

“… This paper provides supplementary data to the research paper ''Presence and habitats of bacterial fish pathogen relatives in a marine salmon post-smolt RAS" [1] . Here, environmental samples from a marine recirculating aquaculture system (RAS) were subjected to microbiome studies.…”

Enrichment of antibiotic resistant genes and pathogens in face masks from coastal environments

“…Alpha-diversity calculation and histogram creation were performed with the online server of the MicrobiomeAnalyst [14] . The potential pathogens were identified using the high-quality sequences to blast with two pathogen databases (fish and human) with the strict criteria of sequence identity > 99%, matched alignment length > 374 bp and E-value < 1 × 10 −10 , which was detailed in previous studies [21] , [77] . The potential bacterial metabolic functions in FMs and sediments were predicted on the basis of their 16S rRNA gene sequences using PICRUSt2 [10] .…”

A Review of Factors Affecting Farmed Atlantic Salmon (Salmo salar) Welfare in Australia and Beyond

“…Similar investigations have been undertaken in fish, where a healthy microbiome, particularly in gills and skin (Lorgen-Ritchie et al 2022), is thought to protect against infection and disease ( Dahle et al 2023). Microbial communities in RAS are recognised as important mediators of fish health and welfare (Rud et al 2017, Drønen et al 2022. This may, at least partially, explain why gradual salinity changes before transfer to seawater reduce mortality of smolts since it also allows for adaptations in the host microbiome (Fossmark et al 2021, Morales-Rivera et al 2023.…”