Comment on “Laser Desorption/Ionization Coupled to FTICR Mass Spectrometry for Studies of Natural Organic Matter”

Molecular composition of dissolved organic matter across diverse ecosystems: Preliminary implications for biogeochemical cycling

Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR MS) has been widely applied to characterize the molecular composition of dissolved organic matter (DOM) in different ecosystems. Most previous studies have explored the molecular composition of DOM focused on one or a few ecosystems, which prevents us from tracing the molecular composition of DOM from different sources and further exploring its biogeochemical cycling across ecosystems. In this study, a total of 67 DOM samples, including soil, lake, river, ocean, and groundwater, were analyzed by negative-ion electrospray ionization FT-ICR MS. Results show that molecular composition of DOM varies dramatically among diverse ecosystems. Specifically, the forest soil DOM exhibited the strongest terrestrial signature of molecules, while the seawater DOM showed the most abundant of biologically recalcitrant components, for example, the carboxyl-rich alicyclic molecules were abundant in the deep-sea waters. Terrigenous organic matter is gradually degraded during its transport along the river-estuary-ocean continuum. The saline lake DOM showed similar DOM characteristics with marine DOM, and sequestrated abundant recalcitrant DOM. By comparing these DOM extracts, we found that human activities likely lead to an increase in the content of S and N-containing heteroatoms in DOM, this phenomenon was commonly found in the paddy soil, polluted river, eutrophic lake, and acid mine drainage DOM samples. Overall, this study compared molecular composition of DOM extracted from various ecosystems, providing a preliminary comparison on the DOM fingerprint and an angle of view into biogeochemical cycling across different ecosystems. We thus advocate for the development of a comprehensive molecular fingerprint database of DOM using FT-ICR MS across a wider range of ecosystems. This will enable us to better understand the generalizability of the distinct features among ecosystems.

Dissolved organic matter defines microbial communities during initial soil formation after deglaciation

Ecosystem succession and pedogenesis reshuffle the composition and turnover of dissolved organic matter (DOM) and its interactions with soil microbiome. The changes of these connections are especially intensive during initial pedogenesis, e.g. in young post-glacial areas. The temporal succession and vertical development of DOM effects on microbial community structure remains elusive. Using Fourier Transform Ion Cyclotron Resonance Mass Spectrometry (FT-ICR MS), high-throughput sequencing, and molecular ecological networks, we characterized the molecular diversity of water-extractable DOM and identified its links to microbial communities in soil profiles along deglaciation chronosequence (12, 30, 40, 52, 80, and 120 years) in the southeastern Tibetan Plateau. Low-molecular-weight compound content decreased, whereas the mid- and high-molecular-weight compounds increased with succession age and soil depth. This was confirmed by the increase in double bond equivalents and averaged oxygen-to‑carbon ratios (O/C), and decrease in hydrogen-to‑carbon ratios (H/C), which reflect DOM accumulation and stabilization. Microbial community succession shifted towards the dominance of oligotrophic Acidobacteria and saprophytic Mortierellomycota, reflecting the increase of stable DOM components (H/C < 1.5 and wider O/C). Less DOM-bacterial positive networks during the succession reduced specialization of labile DOM production (such as lipid- and protein-like compounds), whereas more DOM-fungal negative networks increased specialization of stable DOM decomposition (such as tannin- and condensed aromatic-like compounds). Consequently, DOM stability is not intrinsic during initial pedogenesis: stable DOM compounds remain after fast bacterial utilization of labile DOM compounds, whereas fungi decompose slowly the remaining DOM pools.

Internal loop sustains cyanobacterial blooms in eutrophic lakes: Evidence from organic nitrogen and ammonium regeneration

Algal bloom species can live upon internal regenerated ammonium (NH₄⁺) for growth during the nitrogen-limited period. However, the linkages between NH₄⁺ regeneration and phytoplankton biomass and community composition dynamics remain largely unknown. To unravel the interactions between NH₄⁺ regeneration and phytoplankton community, we measured water column NH₄⁺ regeneration rates (REGs) during a continuous phytoplankton growing period and a contrast summer/winter turnover in eutrophic Lake Taihu. Measured REGs were higher in summer than in winter and significantly correlated to total phytoplankton biomass, Cyanophyta biomass and its biomass proportions, and the concentrations of particulate nitrogen and dissolved organic carbon as well as the relative abundance of labile components (proteins and lipids). Random forest regression analyses displayed that variation of REGs were mainly controlled by water temperature and algal-related parameters (including chlorophyll a, total phytoplankton biomass, and Cyanophyta biomass). Partial least squares path model further revealed that algal-related parameters were the direct and significant factors regulating REGs, and contributed to the largest effect of the variance in REGs. Of the algal community, Cyanophyta was the dominant phylum to accelerate REGs. Correspondingly, rapid internal NH₄⁺ turnover may strongly support the persistence of cyanobacterial blooms, thus forming a positive feedback between cyanobacterial blooms and REGs during the nitrogen-limited summer months. We therefore deduced that the internal loop between cyanobacterial blooms and REGs during summer may be a key self-maintenance mechanism of continuous cyanobacterial blooms.

Transformation mechanisms of refractory organic matter in mature landfill leachate treated using an Fe0-participated O3/H2O2 process

An Fe⁰-participated O₃/H₂O₂ (Fe⁰-O₃/H₂O₂) process was applied to remove refractory organic matter (OM) in semi-aerobic aged refuse biofilter (SAARB) leachate arising from treating mature landfill leachate. The degradation and transformation characteristics of refractory OM were revealed at molecular level. Removal efficiencies of aromatic substances were 63.55% by the Fe⁰-O₃/H₂O₂ process (much higher than in other single or binary processes), and fulvic- and humic-like substances were more effectively degraded by this process than by other treatments. According to Fourier transform-ion cyclotron resonance mass spectrometry (FT-ICR MS), 6645 categories of OM in SAARB leachate were identified. Although there was little difference in number of OM categories after treatment using the single-O₃ and Fe⁰-O₃/H₂O₂ processes, Fe⁰-O₃/H₂O₂ process can better reduce OM relative abundance. It is noteworthy that the Fe⁰-O₃/H₂O₂ process more effectively degraded CHONS compounds than the single-O₃ process, while also producing more CHO compounds having higher bio-availability. The enhanced degradation efficiency of the Fe⁰-O₃/H₂O₂ process were attributed to the formation of the Fenton process initiated by leached Fe²⁺ and H₂O₂. The heterogeneous catalytic effect from iron (hydro) oxides for O₃/H₂O₂ also increased the treatment capacity of the Fe⁰-O₃/H₂O₂ process, resulting in better total organic carbon removal. The Fe⁰-O₃/H₂O₂ process is an efficient method for removing refractory OM in SAARB leachate.

Application of Fourier transform ion cyclotron resonance mass spectrometry to characterize natural organic matter

Advances in the ultra-high-resolution mass spectroscopy lead to a deep insight into the molecular characterization of natural organic matter (NOM). Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) has been used as one of the most powerful tools to decipher NOM molecules. In FTICR-MS analysis, the matrix effects caused by the co-occurring inorganic substances in water samples greatly affect the ionization of NOM molecules. The inherent complexity of NOM may hinder its component classification and formula assignment. In this study, basic principles and recent advances for sample separation and purification approaches, ionization methods, and the evolutions in formula assignment and data exploitation of the FTICR-MS analysis were reviewed. The complementary characterization methods for FTICR-MS were also reviewed. By coupling with other developed/developing characterization methods, the statistical confidence for inferring the NOM compositions by FTICR-MS was greatly improved. Despite that the refined separation procedures and advanced data processing methods for NOM molecules have been exploited, the big challenge for interpreting NOM molecules is to give the basic structures of them. Online share of the FTICR-MS data, further optimizing the FTICR-MS technique, and coupling this technique with more characterization methods would be beneficial to improving the understanding of the composition and property of NOM.

Molecular Evidence of Arsenic Mobility Linked to Biodegradable Organic Matter

Molecular characteristics of natural organic matter (NOM) and their potential connections to arsenic enrichment processes remain poorly understood. Here, we examine dissolved organic matter (DOM) in groundwater and water-soluble organic matter (WSOM) in aquifer sediments being depth-matched with groundwater samples from a typical arid-semiarid basin (Hetao Basin, China) hosting high arsenic groundwater. We used Fourier transform ion cyclotron resonance mass spectrometry to determine molecular characteristics of DOM and WSOM and evaluate potential roles of biodegradable compounds in microbially mediated arsenic mobility at the molecular level. High-arsenic groundwater DOM was generally enriched in recalcitrant molecules (including lignins and aromatic structures). Although potential contribution of recalcitrant compounds to arsenic enrichment cannot be ruled out, preferential degradation of the labile molecules coupled with reduction of Fe(III) (oxyhydr)oxides seemed to dominate arsenic mobilization. Both the number and the intensity of biodegradable compounds (including aliphatic/proteins and carbohydrates) were higher in WSOM than those in DOM in depth-matched high-arsenic groundwater (arsenic >0.67 μmol/L or 50 μg/L). Groundwater arsenic concentration generally increased with the increase in the number and the intensity of unique biodegradable compounds (especially N-containing compounds) in WSOM at matched depths. Anoxic incubations of sediments and deionized water show that more arsenic and Fe(II) were released from aquifer sediments with greater numbers and intensities of consumed biodegradable compounds in WSOM (especially N-containing compounds), with a higher proportion of microbially derived compounds produced. These observations indicate that the biodegradation of aliphatic/proteins and carbohydrates (especially CHON formulas) in WSOM fueling the reductive dissolution of Fe(III) (oxyhydr)oxides predominantly promotes arsenic release from aquifer solids. Our unique data present a better understanding of arsenic mobilization shaped by microbial degradation of labile organic compounds in anoxic aquifers at the molecular level.

In-House Standard Method for Molecular Characterization of Dissolved Organic Matter by FT-ICR Mass Spectrometry

Electrospray ionization (ESI) coupled with Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) has been widely used for molecular characterization of dissolved organic matter (DOM). However, ESI FT-ICR MS generally has poor repeatability and reproducibility because of its inherent ionization mechanism and structural characteristics, which severely hindered its application in quantitative analysis of complex mixtures. In this article, we developed an in-house standard method for molecular characterization of DOM by ESI FT-ICR MS. Instead of obtaining reproducible results by determining the instrument parameters, we adopted an approach of object control on the mass spectrum to solve the problem of poor reproducibility. The mass peak shape, resolution, and relative intensity distribution of a natural organic matter standard were adjusted by optimizing the operating conditions to obtain a repeatable result. The quality control sample was run 26 times by the different operators in a 6-month-long period to evaluate the reproducibility. Results showed that the relative standard deviation (%) of repeatability and reproducibility are 1.02 and 2.35 for average H/C, respectively. The in-house standard method has been validated and successfully used for the characterization of more than 4000 DOM samples, which is transferable to other laboratories.

Validation and Evaluation of High-Resolution Orbitrap Mass Spectrometry on Molecular Characterization of Dissolved Organic Matter

Molecular composition of dissolved organic matter (DOM) is a hot topic in subjects such as environmental science and geochemistry. Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) has been applied to molecular composition characterization of DOM successfully. However, high instrument and maintenance costs have constrained its wider application. A high-resolution Orbitrap mass spectrometer (Orbitrap MS) can provide approximately 500,000 resolving power (at m/z 200), which is potentially capable of characterizing the molecular composition of DOM. In this paper, the application of high-resolution Orbitrap MS was evaluated by comparing with FT-ICR MS in the aspect of resolution, mass distribution, detection dynamic range, and isotopic peak intensity ratio. The impact of instrument parameters of Orbitrap MS was further investigated, which includes ionization, ion transfer, and mass detection. The result shows that the high-resolution Orbitrap MS is capable or even preferable for molecular characterization of DOM. However, the peak intensity distributions are dependent on the instrument parameters, which could affect the environmental impact assessment caused by the sample itself. The result indicates that development of a universal and comparable method is of great demand.

Molecular characteristics of microbially mediated transformations of Synechococcus-derived dissolved organic matter as revealed by incubation experiments

In this study, we investigated the microbially mediated transformation of labile Synechococcus-derived DOM to RDOM using a 60-day experimental incubation system. Three phases of TOC degradation activity (I, II and III) were observed following the addition of Synechococcus-derived DOM. The phases were characterized by organic carbon consumption rates of 8.77, 1.26 and 0.16 μmol L^-1 day^-1 , respectively. Excitation emission matrix analysis revealed the presence of three FDOM components including tyrosine-like, fulvic acid-like, and humic-like molecules. The three components also exhibited differing biological availabilities that could be considered as labile DOM (LDOM), semi-labile DOM (SLDOM) and RDOM, respectively. DOM molecular composition was also evaluated using FT-ICR MS. Based on differing biological turnover rates and normalized intensity values, a total of 1704 formulas were identified as candidate LDOM, SLDOM and RDOM molecules. Microbial transformation of LDOM to RDOM tended to proceed from high to low molecular weight, as well as from molecules with high to low double bond equivalent (DBE) values. Relatively higher aromaticity was observed in the formulas of RDOM molecules relative to those of LDOM molecules. FDOM components provide valuable proxy information to investigate variation in the bioavailability of DOM. These results suggest that coordinating fluorescence spectroscopy and FT-ICR MS of DOM, as conducted here, is an effective strategy to identify and characterize LDOM, SLDOM and RDOM molecules in incubation experiments emulating natural systems. The results described here provide greater insight into the metabolism of phytoplankton photosynthate by heterotrophic bacteria in marine environments.