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The present research is focused on the use of a triple quadrupole mass spectrometer (QqQ MS) coupled with flow modulated comprehensive two-dimensional gas chromatography (FM GC × GC) for a multilevel elucidation of biodegradation potentiality of natural marine microbial populations during a bioremediation (biostimulation) treatment. The crude oil used for the evaluation of the bioremediation process, namely Dansk Blend Pier E1, represents a very complex sample. Hence, in order to understand the metabolic activity of microbial populations during the bioremediation process, a GC × GC system was used. The high separation power has allowed a detailed characterization of the different chemical families; moreover, thanks to the high acquisition frequency of the QqQ MS spectrometer, both full scan and multiple reaction monitoring (MRM) data were acquired in the same run. By using this system, both qualitative analysis of untargeted hydrocarbons mixture (crude oil) and qualitative analysis of biomarker compounds, present in low amount and often hindered under the bulk of the sample (i.e. adamantanes, diamantanes, steranes and hopanes), were performed simultaneously. The bioremediation capability of biostimulated bacteria was evaluated at four (T), eight (T) and fourteen (T) days. Progressive degradation of linear, branched, and aromatic hydrocarbons, adamantanes, and diamantanes has been showed, whereas, results underline the lack of any kind of activity against steranes, and hopanes.
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http://dx.doi.org/10.1016/j.chroma.2018.03.013 | DOI Listing |
Cell
September 2025
The Plant Molecular and Cellular Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA; Cell and Developmental Biology, Division of Biological Sciences, University of California, San Diego, San Diego, CA 92037, USA; Marine Biology Research Division, Scripps Instituti
The human gut microbiome is linked to child malnutrition, yet traditional microbiome approaches lack resolution. We hypothesized that complete metagenome-assembled genomes (cMAGs), recovered through long-read (LR) DNA sequencing, would enable pangenome and microbial genome-wide association study (GWAS) analyses to identify microbial genetic associations with child linear growth. LR methods produced 44-64× more cMAGs per gigabase pair (Gbp) than short-read methods, with PacBio (PB) yielding the most accurate and cost-effective assemblies.
View Article and Find Full Text PDFMar Environ Res
September 2025
Shandong Key Laboratory of Coastal Environmental Processes, Yantai, Shandong, 264003, China.
Coastal zones are critical for the biogeochemical cycling of dissolved organic matter (DOM) in marine ecosystems, yet the relative importance of photochemical and microbial degradation in DOM transformation remains poorly understood due to complex hydrodynamics, diverse sources, and human activities. Through 14-day laboratory incubations, we investigated DOM transformation mechanisms from three common marine coastal space uses: port, mariculture and inshore areas adjacent to Yantai City. DOM characterization was performed using fluorescence excitation-emission matrix parallel factor (EEM-PARAFAC) and UV-Vis spectroscopic indices.
View Article and Find Full Text PDFGlob Chang Biol
September 2025
State Key Laboratory of Vegetation Structure, Function and Construction (VegLab), Ministry of Education Key Laboratory of Earth Surface Processes, and College of Urban and Environmental Sciences, Peking University, Beijing, China.
Microbial nitrogen use efficiency (NUE) describes the partitioning of organic N between microbial growth and N mineralization, which is crucial for assessing soil N retention. However, how warming affects NUE along soil depth remains unclear. Based on a whole-soil-profile warming experiment (0 to 100 cm, +4°C) on the Qinghai-Tibetan Plateau, combined with O and N isotope labeling techniques, we determined soil carbon (C) composition, edaphic properties, and microbial parameters.
View Article and Find Full Text PDFMar Environ Res
September 2025
College of Oceanography and Ecological Science, Shanghai Ocean University, Shanghai, 201306, China. Electronic address:
This review examines the chemical and ecological interactions between filter-feeding mussels and the green macroalga Ulva prolifera in integrated multi-trophic aquaculture (IMTA) systems. Mussels are crucial for nutrient recycling, as they filter water and release bioavailable compounds such as ammonium (NH), urea (CO(NH)), and dissolved organic matter (DOM). These compounds promote Ulva growth and enhance microbial activity.
View Article and Find Full Text PDFMar Pollut Bull
September 2025
School of Marine Sciences, Sun Yat-sen University, and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China; The Research Center of Ocean Climate, Sun Yat-sen University, Zhuhai 519082, China; Pearl River Estuary Marine Ecosystem Research Station, Ministry of E
Estuarine plumes (EPs) are recognized as critical drivers of dissolved organic matter (DOM) heterogeneity in coastal zones, primarily by inducing phytoplankton blooms and subsequent bottom-water dissolved oxygen (DO) depletion. However, the specific mechanisms governing the EP-driven transformations of DOM molecular composition and biogeochemical fate remain elusive. Here, we integrated optical spectroscopy and Fourier transform ion cyclotron resonance mass spectrometry to characterize the molecular signatures of DOM and their biogeochemical transformations within EP-influenced bottom waters of the Pearl River Estuary.
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