A5030660305- Bacteriophages and microbial interactions
- Microbial Community Ecology and Physiology
- Plant Virus Research Studies
- Methane Hydrates and Related Phenomena
- Plant and Fungal Interactions Research
- Climate change and permafrost
- Respiratory viral infections research
- Genomics and Phylogenetic Studies
- Marine and coastal ecosystems
- Environmental DNA in Biodiversity Studies
- Protist diversity and phylogeny
- Aquaculture disease management and microbiota
- Polar Research and Ecology
- Plant Disease Resistance and Genetics
- Cryospheric studies and observations
- Animal Virus Infections Studies
- Arctic and Antarctic ice dynamics
- Vibrio bacteria research studies
- Antibiotic Resistance in Bacteria
- Pharmaceutical and Antibiotic Environmental Impacts
- Viral gastroenteritis research and epidemiology
- Zoonotic diseases and public health
- Atmospheric and Environmental Gas Dynamics
- Molecular Biology Techniques and Applications
- Antibiotic Use and Resistance
Center for Northern Studies
2017-2024
Université Laval
2016-2024
Pacific Biosciences (United States)
2022-2024
University of Hawaiʻi at Mānoa
2007-2023
Makivik Corporation
2023
University of Hawaii System
2012-2022
Takuvik Joint International Laboratory
2020
University of Arizona
2015
University of British Columbia
2003-2007
University of Alaska Fairbanks
2006
RNA viruses infect marine organisms from bacteria to whales, but virus communities in the sea remain essentially unknown. Reverse-transcribed whole-genome shotgun sequencing was used characterize diversity of uncultivated assemblages. A diverse assemblage viruses, including a broad group picorna-like and distant relatives infecting arthropods higher plants were found. Communities dominated by distinct genotypes with small genome sizes, we completely assembled genomes several hitherto...
Whereas DNA viruses are known to be abundant, diverse, and commonly key ecosystem players, RNA insufficiently studied outside disease settings. In this study, we analyzed ≈28 terabases of Global Ocean sequences expand Earth's virus catalogs their taxonomy, investigate evolutionary origins, assess marine biogeography from pole pole. Using new approaches optimize discovery classification, identified that necessitate substantive revisions taxonomy (doubling phyla adding >50% classes)...
DNA viruses are increasingly recognized as influencing marine microbes and microbe-mediated biogeochemical cycling. However, little is known about global RNA virus diversity, ecology, ecosystem roles. In this study, we uncover patterns predictors of community- “species”-level diversity contextualize their ecological impacts from pole to pole. Our analyses revealed four zones, latitudinal depth patterns, environmental correlates for viruses. findings only partially parallel those cosampled...
ABSTRACT Viruses have a profound influence on the ecology and evolution of plankton, but our understanding composition aquatic viral communities is still rudimentary. This especially true those viruses having RNA genomes. The limited data that been published suggest virioplankton dominated by with positive-sense, single-stranded (+ss) genomes features in common eukaryote-infecting order Picornavirales (picornavirads). In this study, we investigated diversity virus assemblages tropical...
Early work on marine algal viruses focused exclusively those having DNA genomes, but recent studies suggest that RNA viruses, especially with positive-sense, single-stranded (+ssRNA) are abundant in tropical and temperate coastal seawater. To test whether this was also true of polar waters, we estimated the relative abundances using a mass ratio approach conducted shotgun metagenomics purified viral samples collected from site near Palmer Station, Antarctica six occasions throughout summer...
Permafrost thawing results in the formation of thermokarst lakes, which are biogeochemical hotspots northern landscapes and strong emitters greenhouse gasses to atmosphere. Most studies lakes have been summer, despite predominance winter ice-cover over much year, microbial ecology these waters under ice remains poorly understood. Here we first compared summer versus microbiomes a subarctic lake using DNA- RNA-based 16S rRNA amplicon sequencing qPCR. We then applied comparative metagenomics...
Abstract We describe an inexpensive, reliable, and easily executed improvement for the extraction of DNA from Sterivex TM filter units, that involves separation its casing. Our study demonstrates our modification original protocol significantly increased yields, with average increase 4.1‐fold more than standard approach. A comparison diversity after Illumina MiSeq sequencing bacterial communities extracted both approach proposed one indicated modified has no or little impact on results. This...
Abstract The bacterium Aeromonas salmonicida subsp. is a common pathogen in fish farms worldwide. Since the antibiotic resistance of this bacterial species on increase, it important to have broader view issue. In present study, we tested presence known plasmids conferring multi-drug as well genes by PCR approach 100 Canadian A. isolates. Our study highlighted dominance conjugative pSN254b plasmid, which confers resistance. We also identified new plasmid named pAsa8, has been characterized...
Abstract Background The sulfur cycle encompasses a series of complex aerobic and anaerobic transformations S-containing molecules plays fundamental role in cellular ecosystem-level processes, influencing biological carbon transfers other biogeochemical cycles. Despite their importance, the microbial communities metabolic pathways involved these remain poorly understood, especially for inorganic compounds intermediate oxidation states (thiosulfate, tetrathionate, sulfite, polysulfides)....
Abstract Giant viruses (GVs) are key players in ecosystem functioning, biogeochemistry, and eukaryotic genome evolution. GV diversity abundance aquatic systems can exceed that of prokaryotes, but their ecology lakes, especially polar ones, remain poorly understood. We conducted a comprehensive survey meta-analysis across 20 spanning to temperate regions, combining our extensive lake metagenome database from the Canadian Arctic subarctic with publicly available datasets. Leveraging novel...
HaRNAV, a novel virus that infects the toxic bloom‐forming alga Heterosigma akashiwo (Hada) Hada ex et Chihara, was characterized based on morphology, pathology, nucleic acid type, structural proteins, and range of host strains it infects. HaRNAV is 25‐nm single‐stranded RNA (ssRNA) with genome size approximately 9100 nucleotides. This first report an ssRNA causes lysis phytoplankton species. The particle sensitive to chloroform contains at least five proteins ranging in apparent from 24 34...
Viruses are an integral component of the marine food web, contributing to disease and mortality essentially every type life, yet diversity viruses in sea, especially those with RNA genomes, remains very poorly characterized. Isolates RNA-containing that infect plankton still rare, only cultivation-independent surveys viral reported so far were conducted for temperate coastal waters British Columbia. Here, we report on our improvements a previously used protocol investigate picorna-like...
Abstract Bacteria are key players in biogeochemical cycles and control water quality freshwater ecosystems. Nevertheless, little is known about the identity ecology of riverine bacteria, especially during ice‐covered periods that often mistakenly perceived as with negligible biological activities. Here, we analyzed detail effects environmental climatic conditions on bacterial community structure diversity over a 2‐yr sampling campaign, targeting seasonally river Quebec City (Canada) area,...
Abstract The candidate phyla radiation (CPR) is a diverse group of uncultured bacterial lineages with poorly understood metabolic functions. CPR bacteria can represent large proportion the total planktonic microbial community in subarctic thermokarst lakes, but their functional roles remain unexplored. We applied sequential water filtration and metagenomic shotgun sequencing to peatland permafrost thaw lake, found high proportions both summer winter (> 40% 16S rRNA reads 0.02–0.22 μ m...
Abstract Background RNA viruses have been isolated that infect marine organisms ranging from bacteria to whales, but little is known about the composition and population structure of in situ virus community. In a recent study, majority three genomes previously unknown positive-sense single-stranded (ss) were assembled reverse-transcribed whole-genome shotgun libraries. The present contribution comparatively analyzes these with respect representative established viral taxa. Results Two (JP-A...
Abstract Aquatic ecosystems in the High Arctic are facing unprecedented changes as a result of global warming effects on cryosphere. Snow pack is central feature northern landscapes, but snow microbiome and its microbial connectivity to adjacent downstream habitats have been little explored. To evaluate these aspects, we sampled along hydrologic continuum at Ward Hunt Lake (latitude 83°N) Canadian Arctic, from banks, water tracks permafrost catchment, upper lower strata lake, lake outlet...
Shallow lakes are common across the Arctic landscape and their ecosystem productivity is often dominated by benthic, cyanobacterial biofilms. Many of these water bodies freeze to bottom biologically inactive during winter, but full freeze-up becoming less with warming. Here we analyzed microbiome structure newly discovered biofilms at deepest site a perennially ice-covered High lake as model polar microbial communities that remain unfrozen throughout year. Biofilms were also sampled from...