Gradient of acid mine drainage regulates microbial community assembly and the diversity of species associated with native plants.

Acid mine drainage (AMD) is considered as one of the most important global environmental challenges. Therefore, understanding the impact of AMD on the diversity of microbial communities associated with native plants is important for phytoremediation. In this study, the community assembly and microbial diversity associated with native plants growing along an AMD impact gradient was investigated using metabarcoding and high throughput iChip technique.

Metagenomic survey reveals hydrocarbon biodegradation potential of Canadian high Arctic beaches.

Background: Decreasing sea ice coverage across the Arctic Ocean due to climate change is expected to increase shipping activity through previously inaccessible shipping routes, including the Northwest Passage (NWP). Changing weather conditions typically encountered in the Arctic will still pose a risk for ships which could lead to an accident and the uncontrolled release of hydrocarbons onto NWP shorelines. We performed a metagenomic survey to characterize the microbial communities of various NWP shorelines and to determine whether there is a metabolic potential for hydrocarbon degradation in these microbiomes.

High Arctic seawater and coastal soil microbiome co-occurrence and composition structure and their potential hydrocarbon biodegradation.

The accelerated decline in Arctic sea-ice cover and duration is enabling the opening of Arctic marine passages and improving access to natural resources. The increasing accessibility to navigation and resource exploration and production brings risks of accidental hydrocarbon releases into Arctic waters, posing a major threat to Arctic marine ecosystems where oil may persist for many years, especially in beach sediment. The composition and response of the microbial community to oil contamination on Arctic beaches remain poorly understood.

Native freshwater lake microbial community response to an in situ experimental dilbit spill.

With the increase in crude oil transport throughout Canada, the potential for spills into freshwater ecosystems has increased and additional research is needed in these sensitive environments. Large enclosures erected in a lake were used as mesocosms for this controlled experimental dilbit (diluted bitumen) spill under ambient environmental conditions. The microbial response to dilbit, the efficacy of standard remediation protocols on different shoreline types commonly found in Canadian freshwater lakes, including a testing of a shoreline washing agent were all evaluated.

Comparison of two field systems for determination of crude oil biodegradation in cold seawater.

Marine oil spills have devastating environmental impacts and extrapolation of experimental fate and impact data from the lab to the field remains challenging due to the lack of comparable field data. In this work we compared two field systems used to study in situ oil depletion with emphasis on biodegradation and associated microbial communities. The systems were based on (i) oil impregnated clay beads and (ii) hydrophobic Fluortex adsorbents coated with thin oil films.

Factors that affect water column hydrocarbon concentrations have minor impacts on microbial responses following simulated diesel fuel spills.

Effects of season and mixing on hydrocarbon concentrations and the microbial community response was explored in a series of mesocosm experiments simulating surface spills of diesel into coastal waters. Mixing of any amount contributed to hydrocarbons entering the water column, but diesel fuel composition had a significant effect on hydrocarbon concentrations. Higher initial concentrations of aromatic hydrocarbons resulted in higher water column concentrations, with minimal differences among seasons due to high variability.

The long-term fate of saturates and biomarkers within crude oil spilled during the Baffin Island Oil Spill (BIOS) Project.

The Baffin Island Oil Spill (BIOS) Project is a long-term monitoring field study conducted in the early 1980s, seeking to examine the physical and chemical fate of crude oil released into a pristine Arctic setting. During the present study, sites of the BIOS Project were revisited in 2019 for the collection of oiled intertidal and backshore sediments. These samples were analyzed for several groups of petroleum hydrocarbons including saturates (n-alkanes, branched alkanes, and alkylcycloalkanes), hopane and sterane biomarkers, and alkylbenzenes.

Effects of marine diesel on microbial diversity and activity in high Arctic beach sediments.

Global warming induced sea ice loss increases Arctic maritime traffic, enhancing the risk of ecosystem contamination from fuel spills and nutrient loading. The impact of marine diesel on bacterial metabolic activity and diversity, assessed by colorimetric assay, 16S rRNA and metagenomic sequencing, of Northwest Passage (Arctic Ocean) beach sediments was assessed with nutrient amendment at environmentally relevant temperatures (5 and 15 °C). Higher temperature and nutrients stimulated microbial activity, while diesel reduced it, with metabolism inhibited at and above 0.

Long-term biodegradation of crude oil in high-arctic backshore sediments: The Baffin Island Oil Spill (BIOS) after nearly four decades.

With an on-going disproportional warming of the Arctic Ocean and the reduction of the sea ice cover, the risk of an accidental oil spill from ships or future oil exploration is increasing. It is hence important to know how crude oil weathers in this environment and what factors affect oil biodegradation in the Arctic. However, this topic is currently poorly studied.

The effect of wheat genotype on the microbiome is more evident in roots and varies through time.

Crop breeding has traditionally ignored the plant-associated microbial communities. Considering the interactions between plant genotype and associated microbiota is of value since different genotypes of the same crop often harbor distinct microbial communities which can influence the plant phenotype. However, recent studies have reported contrasting results, which led us to hypothesize that the effect of genotype is constrained by growth stages, sampling year and plant compartment.

Spatio-temporal connectivity of the aquatic microbiome associated with cyanobacterial blooms along a Great Lake riverine-lacustrine continuum.

Lake Erie is subject to recurring events of cyanobacterial harmful algal blooms (cHABs), but measures of nutrients and total phytoplankton biomass seem to be poor predictors of cHABs when taken individually. A more integrated approach at the watershed scale may improve our understanding of the conditions that lead to bloom formation, such as assessing the physico-chemical and biological factors that influence the lake microbial community, as well as identifying the linkages between Lake Erie and the surrounding watershed. Within the scope of the Government of Canada's Genomics Research and Development Initiative (GRDI) Ecobiomics project, we used high-throughput sequencing of the 16S rRNA gene to characterize the spatio-temporal variability of the aquatic microbiome in the Thames River-Lake St.

The recalcitrance and potential toxicity of polycyclic aromatic hydrocarbons within crude oil residues in beach sediments at the BIOS site, nearly forty years later.

The Arctic is a unique environment characterized by extreme conditions, including daylight patterns, sea ice cover, and some of the lowest temperatures on Earth. Such characteristics in tandem present challenges when extrapolating information from oil spill research within warmer, more temperate regions. Consequently, oil spill studies must be conducted within the Arctic to yield accurate and reliable results.

Biodegradation potential of residue generated during the in-situ burning of oil in the marine environment.

The biodegradability of residues derived from in-situ burning, an oil spill response strategy which involves burning an oil slick on the sea surface, has not yet been fully studied. With a growing risk of oil spills, the fate of the persistent burn residue containing potentially toxic substances must be better understood. Microcosms were used to study the microbial community response and potential biodegradability of in-situ burn residues generated from Ultra Low Sulphur (ULS) marine diesel.

The effect of temperature on hydrocarbon profiles and the microbial community composition in North Saskatchewan River water during mesoscale tank tests of diluted bitumen spills.

Despite many studies of diluted bitumen (DB) behavior during spills in saltwater, limited information is available on DB behavior in fresh water. This study examined the collective weathering processes on changes of fresh DB spilled in the North Saskatchewan River water and sediment mixture in a mesoscale spill tank under average air/water temperatures of 14 °C/15 °C and 6 °C/2 °C. Temporal changes of the hydrocarbon and microbial community compositions in the water column were assessed during the two 35-day tests under intermittent wave action.

High-resolution shotgun metagenomics: the more data, the better?

In shotgun metagenomics (SM), the state-of-the-art bioinformatic workflows are referred to as high-resolution shotgun metagenomics (HRSM) and require intensive computing and disk storage resources. While the increase in data output of the latest iteration of high-throughput DNA sequencing systems can allow for unprecedented sequencing depth at a minimal cost, adjustments in HRSM workflows will be needed to properly process these ever-increasing sequence datasets. One potential adaptation is to generate so-called shallow SM datasets that contain fewer sequencing data per sample as compared with the more classic high coverage sequencing.

An experimental oil spill at a tidal freshwater wetland along the St. Lawrence River re-visited after 21 years.

In 1999, a tidal wetland located along the St. Lawrence River close to Ste. Croix de Lotbinière (Quebec, Eastern Canada) was the site of an experimental oil spill.

Responses of Alcanivorax species to marine alkanes and polyhydroxybutyrate plastic pollution: Importance of the ocean hydrocarbon cycles.

Understanding microbial responses to hydrocarbon and plastic pollution are crucial for limiting the detrimental impacts of environmental contaminants on marine ecosystems. Herein, we reported a new Alcanivorax species isolated from the North Atlantic Ocean capable of degrading alkanes and polyhydroxybutyrate (PHB) plastic (one of the emerging bioplastics that may capture the future plastic market). The whole-genome sequencing showed that the species harbors three types of alkane 1-monooxygenases (AlkB) and one PHB depolymerase (PhaZ) to initiate the degradation of alkanes and plastics.

Draft Whole-Genome Sequences of the Polar Cyanobacterium sp. Strain Cla-17 and Its Associated Flavobacterium.

Draft whole-genome sequences of a coculture are presented. One component was a polar cyanobacterium, sp. strain Cla-17.

Recent advances in chemical and biological degradation of spilled oil: A review of dispersants application in the marine environment.

Growing concerns over the risk of accidental releases of oil into the marine environment have emphasized our need to improve both oil spill preparedness and response strategies. Among the available spill response options, dispersants offer the advantages of breaking oil slicks into small oil droplets and promoting their dilution, dissolution, and biodegradation within the water column. Thus dispersants can reduce the probability of oil slicks at sea from reaching coastal regions and reduce their direct impact on mammals, sea birds and shoreline ecosystems.

Transport of Microplastics in Shore Substrates over Tidal Cycles: Roles of Polymer Characteristics and Environmental Factors.

Tidal zones providing habitats are particularly vulnerable to microplastic (MP) pollution. In this study, the effects of tidal cycles on the transport of MPs (4-6 μm polyethylene, PE1; 125 μm polyethylene, PE2; and 5-6 μm polytetrafluoroethylene, PFTE) in porous media combined with various environmental and MPs properties were systemically investigated. The results indicated that smaller substrate sizes exhibited higher retention percentages compared to those of larger substrate sizes under different tidal cycles.

Bioremediation of Petroleum Hydrocarbons in the Upper Parts of Sandy Beaches.

The biodegradation of dispersed crude oil in the ocean is relatively rapid (a half-life of a few weeks). However, it is often much slower on shorelines, usually attributed to low moisture content, nutrient limitation, and higher oil concentrations in beaches than in dispersed plumes. Another factor may be the increased salinity of the upper intertidal and supratidal zones because these parts of the beach are potentially subject to prolonged evaporation and only intermittent inundation.