mSystems · 2021 · 11 citations · 56 references
Life SciencesMicrobiologyOceanographyBiogeochemistryMarine MicrobiologyMicrobial EcologyAquatic Microbial EcologyMarine Microbial MetabolismMicrobial BiogeochemistryMicrobial DecompositionMicrobial OceanographyOil Spill ImpactsHydrocarbon DegradationHydrocarbon-degrading BacteriaHydrocarbon-degrading MicrobesHydrocarbon-degrading MicroorganismsMarine Snow AggregationMetabolic Pathways In Hydrocarbon DegradationMicrobial Biogeochemical CyclingPetroleum Spills
Vast quantities of oil-associated marine snow (MOS) formed in the water column as part of the natural biological response to the Deepwater Horizon drilling accident. Despite the scale of the event, uncertainty remains about the mechanisms controlling MOS formation and its impact on the environment. In addition to MOS, we observed micrometer-scale (10- to 150-μm) aggregates whose abundance coincided with maximum rates of hydrocarbon degradation and whose composition was dominated by hydrocarbon-degrading bacteria with the genetic potential to metabolize a range of these compounds. This targeted study examining the role of these bacteria-oil microaggregates in hydrocarbon degradation reveals details of this fundamental component of the biological response to oil spills, and with it, alterations to biogeochemical cycling in the ocean.
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Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 69.7K citations · Full text
Fast gapped-read alignment with Bowtie 2
Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations
DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan, Paul J. McMurdie, Michael Rosen et al. · Nature Methods · 2016 · 36.3K citations
Patrick D. Schloss, Sarah L. Westcott, Thomas Ryabin et al. · Applied and Environmental Microbiology · 2009 · 21.8K citations · Full text