Sensitive quantification of dipicolinic acid from bacterial endospores in soils and sediments.

Endospore-forming bacteria make up an important and numerically significant component of microbial communities in a range of settings including soils, industry, hospitals and marine sediments extending into the deep subsurface. Bacterial endospores are non-reproductive structures that protect DNA and improve cell survival during periods unfavourable for bacterial growth. An important determinant of endospores withstanding extreme environmental conditions is 2,6-pyridine dicarboxylic acid (i.e. dipicolinic acid, or DPA), which contributes heat resistance. This study presents an improved HPLC-fluorescence method for DPA quantification using a single 10-min run with pre-column Tb3+ chelation. Relative to existing DPA quantification methods, specific improvements pertain to sensitivity, detection limit and range, as well as the development of new free DPA and spore-specific DPA proxies. The method distinguishes DPA from intact and recently germinated spores, enabling responses to germinants in natural samples or experiments to be assessed in a new way. DPA-based endospore quantification depends on accurate spore-specific DPA contents, in particular, thermophilic spores are shown to have a higher DPA content, meaning that marine sediments with plentiful thermophilic spores may require spore number estimates to be revisited. This method has a wide range of potential applications for more accurately quantifying bacterial endospores in diverse environmental samples.

Ecotoxicological benthic impacts of experimental oil-contaminated marine snow deposition.

Marine Oil Snow Sedimentation and Flocculent Accumulation (MOSSFA) can pose serious threats to the marine benthic ecosystem as it results in a deposition of oil contaminated marine snow on the sediment surface. In a microcosm experiment we investigated the effects of oil in combination with artificial marine snow or kaolin clay on two benthic invertebrate species and benthic meiofauna. The amphipod showed a dose-dependent decrease in survival for both oil-contaminated clay and oil-contaminated marine snow. The gastropod was only affected by the highest concentration of oil-contaminated marine snow and had internal concentrations of PAHs with a similar distribution as oil-contaminated marine snow. Benthic copepods showed higher survival in presence of marine snow. This study revealed that marine snow on the sediment after oil spills affects organisms in a trait-dependent way and that it can be a vector for introducing oil into the food web.

Marine snow increases the adverse effects of oil on benthic invertebrates.

After the Deepwater Horizon oil spill, a MOSSFA (Marine Oil Snow Sedimentation and Flocculent Accumulation) event took place, transporting an estimated 14% of total released oil to the sediment, and smothering parts of the benthic ecosystem. This microcosm study describes the effects of oiled artificial marine snow on benthic macroinvertebrates. Corophium volutator survival was reduced by 80% in oil-contaminated snow. Hydrobia ulvae survival was reduced by 40% in oil-contaminated snow, possibly due to consumption of oiled snow. Macoma balthica was sensitive to marine snow, addition of oil slightly decreased survival. This study reveals trait-dependent sensitivity to oil with or without marine snow. The main drivers for organismal response to marine snow and oil are motility, sensitivity to hypoxia and oil toxicity, and feeding habits. Adverse effects of MOSSFA events on benthos will have consequence for the benthic-pelagic habitat and food chain, and should receive more attention in oil spill management.

A rapid method to assess a broad inventory of organic species in marine sediments using ultra-high resolution mass spectrometry.

RATIONALE: A broad range of organic species in marine sediments is routinely used as biogeochemical proxies of Earth history. These species are typically analyzed using different analytical methods, targeting very specific components and often including time-intensive sample preparation. There is, therefore, a need for a more comprehensive, rapid and high-throughput approach to simultaneously analyze a broad range of known sedimentary polar species and also have a surveillance capability able to identify candidate new species classes. METHODS: Whole solvent extracts from recently deposited Gulf of Mexico marine sediments were obtained after a simple, one-step extraction. They were analyzed by Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS), using atmospheric pressure photoionization in positive ion mode (APPI-P), over a broad mass range (m/z 150-1500). RESULTS: From 3000 to over 5000 peaks per sample were assigned molecular formulae, and the majority of assignments (90%) showed an absolute error lower than 200 ppb. The detected species belong to the NO1-7 , N4 O2-8 , O1-9 , HC, N and OS compound classes, including known biomarker species such as pigments (e.g. tetrapyrrole macrocycles and carotenoids) and lipids (e.g. glycerol dialkyl glycerol tetraethers, GDGTs), but also compounds of still unknown detailed molecular structure, but with clear potential geochemical relevance. CONCLUSIONS: The reported method enables rapid (12 min FTICR-MS analysis time) and simultaneous detection of a broad range of multi-heteroatom, polar organic species in whole sediment extracts. This allows for higher sample throughput, a more comprehensive investigation of sedimentary geochemistry, and potentially the discovery of new components and derivation of novel, multi-species proxies. Copyright © 2016 John Wiley & Sons, Ltd.

Rapid Screening of Glycerol Ether Lipid Biomarkers in Recent Marine Sediment Using Atmospheric Pressure Photoionization in Positive Mode Fourier Transform Ion Cyclotron Resonance Mass Spectrometry.

Many of the molecular proxies commonly used for paleoenvironmental reconstruction are focused on a limited set of glycerol ether lipids, mainly due to the lack of more comprehensive analytical methods and instrumentation able to deal with a more diverse range of species. In this study, we describe an FTICR-MS-based method for rapid, nontargeted screening of ether lipid biomarkers in recent marine sediments. This method involves simplified sample preparation and enables rapid identification of known and novel ether lipid species. Using this method, we were able to identify complete series of core glycerol dialkyl glycerol tetraethers (GDGTs with 0 to 8 alicyclic rings), including the complete resolution of GDGT-4 and the unexpected detection of GDGTs with more than 5 rings, in sediments from mesophilic marine environments (sea surface temperature, SST, of 24-25 °C). Additionally, mono- and dihydroxy-GDGT analogs (including novel species with >2 rings), as well as glycerol dialkanol diethers, GDDs (including novel species with >5 rings) were detected. Finally, we putatively identified other, previously unreported groups of glycerol ether lipid species. Adequacy of the APPI-P FTICR-MS data for the determination of commonly used GDGT-based proxy indices was demonstrated. The results of this study show great potential for the use of FTICR-MS as both a rapid method for determining existing proxy indices and, perhaps more importantly, as a tool for the early detection of possible new biomarkers and proxies that may establish novel geochemical relationships between archaeal ether lipids and key environmental-, energy-, and climate-related system variables.

Recalcitrance and degradation of petroleum biomarkers upon abiotic and biotic natural weathering of Deepwater Horizon oil.

Petroleum biomarkers such as hopanoids, steranes, and triaromatic steroids (TAS) are commonly used to investigate the source and fate of petroleum hydrocarbons in the environment based on the premise that these compounds are resistant to biotic and abiotic degradation. To test the validity of this premise in the context of the Deepwater Horizon disaster, we investigated changes to these biomarkers as induced by natural weathering of crude oil discharged from the Macondo Well (MW). For surface slicks collected from May to June in 2010, and other oiled samples collected on beaches in the northern Gulf of Mexico from July 2010 until August 2012, hopanoids with up to 31 carbons as well as steranes and diasteranes were not systematically affected by weathering processes. In contrast, TAS and C32- to C35-homohopanes were depleted in all samples relative to 17α(H),21ß(H)-hopane (C30-hopane). Compared to MW oil, C35-homohopanes and TAS were depleted by 18 ± 10% and 36 ± 20%, respectively, in surface slicks collected from May to June 2010, and by 37 ± 9% and 67 ± 10%, respectively, in samples collected along beaches from April 2011 through August 2012. Based on patterns of relative losses of individual compounds, we hypothesize biodegradation and photooxidation as main degradation processes for homohopanes and TAS, respectively. This study highlights that (i) TAS and homohopanes can be degraded within several years following an oil spill, (ii) the use of homohopanes and TAS for oil spill forensics must account for degradation, and (iii) these compounds provide a window to parse biodegradation and photooxidation during advanced stages of oil weathering.

Chemometrics-assisted effect-directed analysis of crude and refined oil using comprehensive two-dimensional gas chromatography-time-of-flight mass spectrometry.

An effect-directed analysis (EDA) of fresh and artificially weathered (evaporated, photooxidized) samples of North Sea crude oil and residual heavy fuel oil is presented. Aliphatic, aromatic, and polar oil fractions were tested for the presence of aryl hydrocarbon receptor (AhR) agonist and androgen receptor (AR) antagonist, demonstrating for the first time the AR antagonist effects in the aromatic and, to a lesser extent, polar fractions. An extension of the typical EDA strategy to include an N-way partial least-squares (N-PLS) model capable of relating the comprehensive two-dimensional gas chromatography-time-of-flight mass spectrometry (GC × GC-TOFMS) data set to the bioassay data obtained from normal-phase LC fractions is proposed. The predicted AhR binding effects in the fresh and artificially weathered aromatic oil fractions facilitated the identification of alkyl-substituted three- and four-ring aromatic systems in the active fractions through the weighting of their contributions to the observed effects. A N-PLS chemometric model is demonstrated as a potentially useful strategy for future EDA studies that can streamline the compound identification process and provide additional reduction of samples' complexity. The AhR binding effects of the suspected compounds predicted by N-PLS and identified by GC × GC-TOFMS were confirmed using quantitative structure-activity relationship (QSAR) estimates.

Assessment of photochemical processes in marine oil spill fingerprinting.

Understanding weathering processes plays a critical role in oil spill forensics, which is based on the comparison of the distributions of selected compounds assumed to be recalcitrant and/or have consistent weathering transformations. Yet, these assumptions are based on limited laboratory and oil-spill studies. With access to additional sites that have been oiled by different types of oils and exposures, there is a great opportunity to expand on our knowledge about these transformations. Here, we demonstrate the effects of photooxidation on the overall composition of spilled oils caused by natural and simulated sunlight, and particularly on the often used polycyclic aromatic hydrocarbons (PAHs) and the biomarker triaromatic steranes (TAS). Both laboratory and field data from oil released from the Macondo well oil following the Deepwater Horizon disaster (2010), and heavy fuel-oil from the Prestige tanker spill (2002) have been obtained to improve the data interpretation of the typical fingerprinting methodology.

Effects of simulated weathering on the toxicity of selected crude oils and their components to sea urchin embryos.

Artificial weathering of Angolan crude and a Heavy Fuel Oil (HFO) was performed by evaporation and photooxidation. The aliphatic, aromatic, polar and asphaltene fractions of the fresh and weathered oils were isolated. The toxicity of the water accommodated fraction or an oil/fraction dissolved in DMSO was assessed using the sea urchin embryo test. Photooxidation was observed to decrease the aromatics content and increase polar compounds. A slight reduction in the toxicity of Angolan crude was observed following weathering for the water-accommodated fraction and the extract in DMSO, but no effect was seen for the Heavy Fuel Oil. For aliphatic compounds, the toxicity decreased in the order fresh>evaporated>photooxidated for both Angolan crude and HFO. Weathering slightly increased the toxicity of the aromatic and polar fractions of the oil. The aromatic fractions were responsible for most of the toxicity and the polar compounds were the second most important toxic components, despite having less or similar abundance than the aliphatic fraction. The toxic contribution of the aromatic compounds was higher for the HFO than for the Angolan crude. A decrease in the toxicity of Angolan crude following weathering correlated with a reduction in the toxicity of the aliphatic fraction.

Solving chromatographic challenges in comprehensive two-dimensional gas chromatography-time-of-flight mass spectrometry using multivariate curve resolution-alternating least squares.

Multivariate curve resolution-alternating least squares (MCR-ALS) analysis is proposed to solve chromatographic challenges during two-dimensional gas chromatography-time-of-flight mass spectrometry (GC × GC-TOFMS) analysis of complex samples, such as crude oil extract. In view of the fact that the MCR-ALS method is based on the fulfillment of the bilinear model assumption, three-way and four-way GC × GC-TOFMS data are preferably arranged in a column-wise superaugmented data matrix in which mass-to-charge ratios (m/z) are in its columns and the elution times in the second and first chromatographic columns are in its rows. Since m/z values are common for all measured spectra in all second-column modulations, unavoidable chromatographic challenges such as retention time shifts within and between GC × GC-TOFMS experiments are properly handled. In addition, baseline/background contributions can be modeled by adding extra components to the MCR-ALS model. Another outstanding aspect of MCR-ALS analysis is its extreme flexibility to consider all samples (standards, unknowns, and replicates) in a single superaugmented data matrix, allowing joint analysis. In this way, resolution, identification, and quantification results can be simultaneously obtained in a very fast and reliable way. The potential of MCR-ALS analysis is demonstrated in GC × GC-TOFMS analysis of a North Sea crude oil extract sample with relative errors in estimated concentrations of target compounds below 6.0 % and relative standard deviations lower than 7.0 %. The results obtained, along with reasonable values for the lack of fit of the MCR-ALS model and high values of the reversed match factor in mass spectra similarity searches, confirm the reliability of the proposed strategy for GC × GC-TOFMS data analysis.

Compositional properties characterizing commonly transported oils and controlling their fate in the marine environment.

Oil spills relating to shipping incidents remain of substantial concern with respect to marine pollution. Whilst most frequently a reactive approach is adopted in post-incident monitoring (for the specific product involved), this paper reports important physical and compositional characteristics of commonly transported oils and oil products to afford pro-active assessments. These properties include specific gravity, viscosity, elemental composition and, of particular relevance, the relative class compositions between aliphatics, aromatics, resins and asphaltenes. The latter were determined experimentally using thin layer chromatography with flame ionization detection. Diagnostic ratios of specific compounds are reported, statistically analysed, and their significance in identification of different oil types and the weathering processes is discussed. The influence of the properties on fates under different environmental conditions (selected to represent contrasting European regional seas) are examined using the NOAA Automated Data Inquiry for Oil Spills (ADIOS2) model. Relative contributions of the different environmental conditions and properties to the fate of the oil at sea are discussed.

Post-incident monitoring to evaluate environmental damage from shipping incidents: chemical and biological assessments.

Oil and chemical spills in the marine environment are an issue of growing concern. Oil exploration and exploitation is moving from the continental shelf to deeper waters, and to northern latitudes where the risk of an oil spill is potentially greater and may affect pristine ecosystems. Moreover, a growing number of chemical products are transported by sea and maritime incidents of hazardous and noxious substances (HNS) are expected to increase. Consequently, it seems timely to review all of the experience gained from past spills to be able to cope with appropriate response and mitigation strategies to combat future incidents. Accordingly, this overview is focused on the dissemination of the most successful approaches to both detect and assess accidental releases using chemical as well as biological approaches for spills of either oil or HNS in the marine environment. Aerial surveillance, sampling techniques for water, suspended particles, sediments and biota are reviewed. Early warning bioassays and biomarkers to assess spills are also presented. Finally, research needs and gaps in knowledge are discussed.

Resolution and quantification of complex mixtures of polycyclic aromatic hydrocarbons in heavy fuel oil sample by means of GC × GC-TOFMS combined to multivariate curve resolution.

Comprehensive two-dimensional gas chromatography time-of-flight mass spectrometry (GC × GC-TOFMS) combined to multivariate curve resolution-alternating least-squares (MCR-ALS) is proposed for the resolution and quantification of very complex mixtures of compounds such as polycyclic aromatic hydrocarbons (PAHs) in heavy fuel oil (HFO). Different GC × GC-TOFMS data slices acquired during the analysis of HFO samples and PAH standards were simultaneously analyzed using the MCR-ALS method to resolve the pure component elution profiles in the two chromatographic dimensions as well as their pure mass spectra. Outstandingly, retention time shifts within and between GC × GC runs were not affecting the results obtained using the proposed strategy and proper resolution of strongly coeluted compounds, baseline and background contributions was achieved. Calibration curves built up with standard samples of PAHs allowed the quantification of ten of them in HFO aromatic fractions. Relative errors in their estimated concentrations were in all cases below 6%. The obtained results were compared to those obtained by commercial software provided with GC × GC-TOFMS instruments and to Parallel Factor Analysis (PARAFAC). Inspection of these results showed improvement in terms of data fitting, elution process description, concentration relative errors and relative standard deviations.