A5053404275- Aquaculture disease management and microbiota
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- Identification and Quantification in Food
- Aquaculture Nutrition and Growth
- Bacteriophages and microbial interactions
- Fish Ecology and Management Studies
- Ichthyology and Marine Biology
- SARS-CoV-2 detection and testing
- Odor and Emission Control Technologies
- COVID-19 diagnosis using AI
- Marine Ecology and Invasive Species
- Environmental DNA in Biodiversity Studies
- Zoonotic diseases and public health
- Fish Biology and Ecology Studies
- Distributed and Parallel Computing Systems
- Entomopathogenic Microorganisms in Pest Control
UiT The Arctic University of Norway
2017-2023
Abstract Evaluating metagenomic software is key for optimizing metagenome interpretation and focus of the Initiative Critical Assessment Metagenome Interpretation (CAMI). The CAMI II challenge engaged community to assess methods on realistic complex datasets with long- short-read sequences, created computationally from around 1,700 new known genomes, as well 600 plasmids viruses. Here we analyze 5,002 results by 76 program versions. Substantial improvements were seen in assembly, some due...
We introduce the marine databases; MarRef, MarDB and MarCat (https://mmp.sfb.uit.no/databases/), which are publicly available resources that promote research innovation. These data resources, have been implemented in Marine Metagenomics Portal (MMP) (https://mmp.sfb.uit.no/), collections of richly annotated manually curated contextual (metadata) sequence databases representing three tiers accuracy. While MarRef is a database for completely sequenced prokaryotic genomes, represent prokaryote...
The population of Atlantic cod (Gadus morhua), also known as Northeast Arctic cod, migrating or simply "skrei," lives mainly in the Barents Sea and Svalbard waters migrates annual cycles to Norwegian coast order spawn eggs during late winter. It is world's largest distinct from coastal (or "fjord" cod). Despite biological, economic, cultural importance current knowledge on associated microbiota very limited. Using shotgun metagenomics metaproteomics approaches, we present here gut...
Abstract Understanding fish‐microbial relationships may be of great value for fish producers as growth, development and welfare are influenced by the microbial community associated with rearing systems surfaces. Accurate methods to generate analyze these communities would an important tool help improve understanding effects in industry. In this study, we performed taxonomic classification determination operational units on Atlantic salmon microbiota taking advantage full‐length 16S rRNA gene...
Abstract Evaluating metagenomic software is key for optimizing metagenome interpretation and focus of the community-driven initiative Critical Assessment Metagenome Interpretation (CAMI). In its second challenge, CAMI engaged community to assess their methods on realistic complex datasets with long short reads, created from ∼1,700 novel known microbial genomes, as well ∼600 plasmids viruses. Altogether 5,002 results by 76 program versions were analyzed, representing a 22x increase in...
Genus Aliivibrio is known to harbor species exhibiting bioluminescence as well pathogenic behavior affecting the fish farming industry. Current phylogenetic understanding of has largely remained dormant after reclassification disentangled it from Vibrio genus in 2007. There growing evidence wider diversity, but until now lack genomes and selective use type strains have limited ability compare classify firmly. In this study, a total 143 bacterial strains, including 51 novel sequenced were...
Winter-ulcer Moritella viscosa infections continue to be a significant burden in Atlantic salmon (Salmo salar L.) farming. M. comprises two main clusters that differ genetic variation and phenotypes including virulence. Horizontal gene transfer through acquisition loss of mobile elements (MGEs) is major driving force bacterial diversification. To gain insight into genomic traits could affect sublineage evolution within this bacterium we examined the genome sequences twelve strains. Matches...
The COVID-19 pandemic has exemplified the importance of interoperable and equitable data sharing for global surveillance to support research. While many challenges could be overcome, at least in some countries, hurdles within organizational, scientific, technical cultural realms still remain tackled prepared future threats. We propose (i) continue supporting efforts that have proven efficient trustworthy toward addressing pathogen molecular sharing; (ii) establish a distributed network...