Lyle Whyte results 17
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Common, low-frequency, rare, and ultra-rare coding variants contribute to COVID-19 severityNARA Subscribed
The combined impact of common and rare exonic variants in COVID-19 host genetics is currently insufficiently understood. Here, common and rare variants from whole-exome sequencing data of about 4000 SARS-CoV-2-positive individuals were used to define an interpretable machine-learning model for predicting COVID-19 severity. First, variants were converted into separate sets of Boolean features, depending on the absence or the pr...
Thiomicrorhabdus streamers and sulfur cycling in perennial hypersaline cold springs in the Canadian high ArcticNARA Subscribed
Summary The Gypsum Hill (GH) springs on Axel Heiberg Island in the Canadian high Arctic are host to chemolithoautotrophic, sulfur‐oxidizing streamers that flourish in the high Arctic winter in water temperatures from −1.3 to 7°C with ~8% salinity in a high Arctic winter environment with air temperatures commonly less than −40°C and an average annual air temperature of −15°C. Metagenome sequencing and binning of streamer sample...
Summary Microbial metabolism of the thawing organic carbon stores in permafrost results in a positive feedback loop of greenhouse gas emissions. CO 2 and CH 4 fluxes and the associated microbial communities in Arctic cryosols are important in predicting future warming potential of the Arctic. We demonstrate that topography had an impact on CH 4 and CO 2 flux at a high Arctic ice‐wedge polygon terrain site, with higher CO 2 emi...
Mechanisms of subzero growth in the cryophile Planococcus halocryophilus determined through proteomic analysisNARA Subscribed
Summary The eurypsychrophilic bacterium Planococcus halocryophilus is capable of growth down to −15°C, making it ideal for studying adaptations to subzero growth. To increase our understanding of the mechanisms and pathways important for subzero growth, we performed proteomics on P . halocryophilus grown at 23°C, 23°C with 12% w/v NaCl and −10°C with 12% w/v NaCl. Many proteins with increased abundances at −10°C versus 23°C al...
Comparative activity and functional ecology of permafrost soils and lithic niches in a hyper‐arid polar desertNARA Subscribed
Summary Permafrost in the high elevation McMurdo Dry Valleys of Antarctica ranks among the driest and coldest on Earth. Permafrost soils appear to be largely inhospitable to active microbial life, but sandstone lithic microhabitats contain a trophically simple but functional cryptoendolithic community. We used metagenomic sequencing and activity assays to examine the functional capacity of permafrost soils and cryptoendolithic...
Novel sulfur‐oxidizing streamers thriving in perennial cold saline springs of the Canadian high ArcticNARA Subscribed
Summary The perennial springs at Gypsum Hill (GH) and Colour Peak (CP), situated at nearly 80°N on Axel Heiberg Island in the Canadian high Arctic, are one of the few known examples of cold springs in thick permafrost on Earth. The springs emanate from deep saline aquifers and discharge cold anoxic brines rich in both sulfide and sulfate. Grey‐coloured microbial streamers form during the winter months in snow‐covered regions o...
Microbial diversity and activity through a permafrost/ground ice core profile from the Canadian high ArcticNARA Subscribed
Summary Culture‐dependent and culture‐independent methods were used in an investigation of the microbial diversity in a permafrost/massive ground ice core from the Canadian high Arctic. Denaturing gradient gel electrophoresis as well as Bacteria and Archaea 16S rRNA gene clone libraries showed differences in the composition of the microbial communities in the distinct core horizons. Microbial diversity was similar in the activ...
Prokaryotic diversity of arctic ice shelf microbial matsNARA Subscribed
Summary The prokaryotic diversity and respiratory activity of microbial mat communities on the Markham Ice Shelf and Ward Hunt Ice Shelf in the Canadian high Arctic were analysed. All heterotrophic isolates and > 95% of bacterial 16S rRNA gene clone library sequences from both ice shelves grouped within the phyla Bacteroidetes , Proteobacteria and Actinobacteria . Clone library analyses showed that the bacterial communities we...
Alkane hydroxylase homologues in Gram‐positive strainsNARA Subscribed
Summary We isolated Gram‐positive alkane‐degraders from soil and a tricking‐bed reactor, and show using polymerase chain reaction (PCR) with degenerate alkane hydroxylase primers and Southern blots that most Rhodococcus isolates contain three to five quite divergent homologues of the Pseudomonas putida GPo1 alkB gene. Two Mycobacterium isolates each contain one homologue, however there is no evidence for the presence of alkB h...
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