Molecular Chemodiversity of Dissolved Organic Matter in Paddy Soils

Li, Xiaoming; Sun, Guoxin; Chen, Songcan; Fang, Zhi; Yuan, Hang; Shi, Quan; Zhu, Yan

doi:10.1021/acs.est.7b00377

Cited by 190 publications

(128 citation statements)

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“…While variations in the type and abundance of paddy soil DOM molecules have typically been chalked-up to temperature, moisture, pH, and mineralogy [ 15 , 27 – 29 ], here, we demonstrated that the microbiome describes DOM variance to a greater extent than any other edaphic or geographic factor investigated. This result emphasizes the overriding potential impact that biotic function factors can have on constructing the DOM heterogeneity when compared to other abiotic functions in paddy soil.…”

Section: Discussionmentioning

confidence: 52%

“…Factors like parential metrial, redox state, fertilization level, pesticide application, mineralogy, rice cultivar, and growth stage may also influence the geography of the microbial community and DOM [ 29 , 48 – 53 ]. In submerged paddy soil, rice aerenchyma enables the transport of atmospheric O 2 to the roots [ 54 ], influencing soil redox states [ 55 ]; moreover, rice straw and stubble are assumed to provide substrates for microbial activity in the early growth stage, while exudates become more important during late tillering and ripening [ 56 , 57 ].…”

Section: Discussionmentioning

confidence: 99%

“…3 e). Recently, a relatively comprehensive study on the DOM chemodiversity of paddy soil and factors, including mineral elements of Fe, Mn, Al, Mg, Ca, and Si, demonstrated that the iron complexing index (Fe p /Fe R ), together with pH and C/N ratio, were key factors controlling DOM profiles [ 29 ]. Another study on agricultural, meadow, and forest soils revealed that pH and nitrate significantly affect the chemical composition of DOM molecules [ 14 ].…”

Section: Discussionmentioning

confidence: 99%

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The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales

Li¹,

Wang²,

Wang³

et al. 2018

Microbiome

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163

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BackgroundPaddy soil dissolved organic matter (DOM) represents a major hotspot for soil biogeochemistry, yet we know little about its chemodiversity let alone the microbial community that shapes it. Here, we leveraged ultrahigh-resolution mass spectrometry, amplicon, and metagenomic sequencing to characterize the molecular distribution of DOM and the taxonomic and functional microbial diversity in paddy soils across China. We hypothesized that variances in microbial community significantly associate with changes in soil DOM molecular composition.ResultsWe report that both microbial and DOM profiles revealed geographic patterns that were associated with variation in mean monthly precipitation, mean annual temperature, and pH. DOM molecular diversity was significantly correlated with microbial taxonomic diversity. An increase in DOM molecules categorized as peptides, carbohydrates, and unsaturated aliphatics, and a decrease in those belonging to polyphenolics and polycyclic aromatics, significantly correlated with proportional changes in some of the microbial taxa, such as Syntrophobacterales, Thermoleophilia, Geobacter, Spirochaeta, Gaiella, and Defluviicoccus. DOM composition was also associated with the relative abundances of the microbial metabolic pathways, such as anaerobic carbon fixation, glycolysis, lignolysis, fermentation, and methanogenesis.ConclusionsOur study demonstrates the continental-scale distribution of DOM is significantly correlated with the taxonomic profile and metabolic potential of the rice paddy microbiome. Abiotic factors that have a distinct effect on community structure can also influence the chemodiversity of DOM and vice versa. Deciphering these associations and the underlying mechanisms can precipitate understanding of the complex ecology of paddy soils, as well as help assess the effects of human activities on biogeochemistry and greenhouse gas emissions in paddy soils.Electronic supplementary materialThe online version of this article (10.1186/s40168-018-0561-x) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 52%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales

Li¹,

Wang²,

Wang³

et al. 2018

Microbiome

Self Cite

163

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“…FT-ICR MS analysis. Bulk DOM extractions were characterized by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) on a Bruker Apex-Ultra mass spectrometer equipped with a 9.4-T actively shielded superconducting magnet interfaced with a negative-ion-mode electrospray ionization system (31). Diluted Suwannee River natural organic matter solution (50 mg liter 21 ) (obtained from IHSS [the International Humic Substances Society]) was used as a control and injected every 18th sample to ensure instrument stability.…”

Section: Methodsmentioning

confidence: 99%

Evaluation of Microbe-Driven Soil Organic Matter Quantity and Quality by Thermodynamic Theory

Zhang

Feng

et al. 2021

mBio

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Microbial communities, coupled with substrate quality and availability, regulate the stock (formation versus mineralization) of soil organic matter (SOM) in terrestrial ecosystems. However, our understanding of how soil microbes interact with contrasting substrates influencing SOM quantity and quality is still very superficial. Here, we used thermodynamic theory principles and Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) to evaluate the linkages between dissolved organic matter (DOM [organic substrates in soil that are readily available]), thermodynamic quality, and microbial communities. We investigated soils from subtropical paddy ecosystems across a 1,000-km gradient and comprising contrasting levels of SOM content and nutrient availability. Our region-scale study suggested that soils with a larger abundance of readily accessible resources (i.e., lower Gibbs free energy) supported higher levels of microbial diversity and higher SOM content. We further advocated a novel phylotype-level microbial classification based on their associations with OM quantities and qualities and identified two contrasting clusters of bacterial taxa: phylotypes that are highly positively correlated with thermodynamically favorable DOM and larger SOM content versus those which are associated with less-favorable DOM and lower SOM content. Both groups are expected to play critical roles in regulating SOM contents in the soil. By identifying the associations between microbial phylotypes of different life strategies and OM qualities and quantities, our study indicates that thermodynamic theory can act as a proxy for the relationship between OM and soil microbial communities and should be considered in models of soil organic matter preservation. IMPORTANCE Microbial communities are known to be important drivers of organic matter (OM) accumulation in terrestrial ecosystems. However, despite the importance of these soil microbes and processes, the mechanisms behind these microbial-SOM associations remain poorly understood. Here, we used the principles of thermodynamic theory and novel Fourier transform ion cyclotron resonance mass spectrometry techniques to investigate the links between microbial communities and dissolved OM (DOM) thermodynamic quality in soils across a 1,000-km gradient and comprising contrasting nutrient and C contents. Our region-scale study provided evidence that soils with a larger amount of readily accessible resources (i.e., lower Gibbs free energy) supported higher levels of microbial diversity and larger SOM content. Moreover, we created a novel phylotype-level microbial classification based on the associations between microbial taxa and DOM quantities and qualities. We found two contrasting clusters of bacterial taxa based on their level of association with thermodynamically favorable DOM and SOM content. Our study advances our knowledge on the important links between microbial communities and SOM. Moreover, by identifying the associations between microbial phylotypes of different life strategies and OM qualities and quantities, our study indicates that thermodynamic theory can act as a proxy for the relationship between OM and soil microbial communities. Together, our findings support that the association between microbial species taxa and substrate thermodynamic quality constituted an important complement explanation for soil organic matter preservation.

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“…Two multivariate statistical methods, hierarchical cluster analysis (HCA) and principal component analysis (PCA), were used to evaluate the extent of similarities between the 113 samples (XLSTAT_2013 Version 19.03). With complex data sets, data compilation approaches are used to prepare data for multivariate analysis (Sleighter et al ; Li et al ). Three approaches based on the occurrence/absence of compounds in individual samples were used to generate sample‐specific chemical profiles that then served as inputs for the multivariate analyses.…”

Section: Methodsmentioning

confidence: 99%

Oxygen‐Containing Compounds Identified in Groundwater from Fuel Release Sites Using GCxGC‐TOF‐MS

O’Reilly

Mohler

Zemo³

et al. 2019

Groundwater Monitoring Rem

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This research continues a 7‐year study of oxygen‐containing organic compounds present in groundwater at gasoline and diesel fuel release sites that are quantified as diesel‐range “total petroleum hydrocarbons” when measured by methods utilizing solvent extraction and gas chromatography. Two‐dimensional gas chromatography with time‐of‐flight mass spectrometry was used to tentatively identify 1162 compounds (TICs) in 113 groundwater samples from 22 sites. Samples were collected from wells either upgradient of the release, within the source zone, or downgradient of the source but still within the plume of dissolved organics associated with release. The names and formulas of all TICs found in samples from each well type are presented and the results from upgradient and downgradient locations are compared in detail. About 60% of the most frequently detected TICs in downgradient wells were also detected in upgradient wells. A majority of these were saturated straight chain alkyl acids, commonly called fatty acids, or fatty acid esters. Of TICs frequently detected in downgradient wells but not upgradient wells, over half were branched alkyl alcohols. Hierarchical cluster analysis results suggest about 80% of the chemical composition of downgradient samples is more similar to upgradient samples than to source area samples. This similarity is due to the presence of the same types of fatty acids and esters. Principal component analysis indicates a continuum of biodegradation between the source area and downgradient samples with the latter becoming more consistent with upgradient samples. Results suggest some TICs may not be petroleum degradation intermediates but compounds synthesized by microorganisms through secondary production and carbon cycling.

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Molecular Chemodiversity of Dissolved Organic Matter in Paddy Soils

Cited by 190 publications

References 58 publications

The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales

The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales

Evaluation of Microbe-Driven Soil Organic Matter Quantity and Quality by Thermodynamic Theory

Oxygen‐Containing Compounds Identified in Groundwater from Fuel Release Sites Using GCxGC‐TOF‐MS

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