Effect of microbial community structures and metabolite profile on greenhouse gas emissions in rice varieties

Brownification increases the abundance of microorganisms related to carbon and nitrogen cycling in shallow lakes

Brownification in aquatic ecosystems under global change has attracted attention. The composition and quantity of dissolved organic matter transported from various land use types to lakes differ significantly, causing varying ecological effects of lake brownification by region. Bacterial communities make a significant contribution to the material cycle of ecosystems and are sensitive to environmental changes. In this study, a series of mesocosm systems were used to simulate forest lakes and urban lakes with different degrees of brownification, and a high-throughput amplicon sequencing technique was used to explore the changes in the composition, structure, and function of bacterial communities in shallow lakes undergoing brownification. Principal coordinate analysis (PCoA) and Jensen‒Shannon distance typing analysis both indicated significant differences in bacterial communities between forest lakes and urban lakes. The α diversity of bacterial communities in urban lakes increased with the degree of brownification. However, whether forest lakes or urban lakes, brownification increased the abundance of carbon cycling-related bacterial phyla (Proteobacteria, Poribacteria, and Chloroflexi) and nitrogen cycling-related bacterial genera (Microbacteriaceae, Limnohabitans, Comamonadaceae, Bacillus, and Rhizobiales_Incertae_Sedis). Additionally, the carbon and nitrogen cycling functions of bacterial communities in forest lakes are dominant, while those in urban lakes are dominated by functions related to light. Our study has preliminarily revealed that lake brownification promotes the growth of carbon and nitrogen cycling microorganisms, providing a new paradigm for understanding the response of lake ecosystems in different catchment areas to environmental changes and the carbon and nitrogen cycling processes in shallow lake ecosystems.

Impact of Plant Community Diversity on Greenhouse Gas Emissions in Riparian Zones

Plant community succession can impact greenhouse gas (GHG) emissions from the soil by altering the soil carbon and nitrogen cycles. However, the effects of community landscape diversity on soil GHG emissions have rarely been fully understood. Therefore, this study investigated how plant landscape diversity, structure type, and species composition, affect soil GHG emissions in a riparian zone. Soil GHG emissions were assessed by measuring the air samples collected from four study sites, which have different plant community structure types and species compositions (natural sites with complex plants, landscaped sites with fruit trees and grasses, untended sites with ruderals, and farmland sites), using the static chamber method. Significant differences were observed in soil carbon dioxide (CO2; p < 0.001), nitrous oxide (N2O; p < 0.001), and methane (CH4; p = 0.005) emissions. The untended site with ruderals exhibited the highest CO2 emissions, while N2O emissions increased as plant community diversity decreased. All sites acted as sinks for CH4 emissions, with decreased CH4 uptake efficiency in more diverse plant communities. The Mantel test and variance partitioning analysis revealed soil microbial biomass as an indirect influencer of GHG emissions. This study could help predict soil GHG emissions and their global warming potential under future changes in the island riparian zones.

Aromatic compound 2-acetyl-1-pyrroline coordinates nitrogen assimilation and methane mitigation in fragrant rice

Rice paddy has been the main source of anthropogenic methane (CH4) emissions, with significant variations among rice varieties. 2-Acetyl-1-pyrroline (2-AP) is the key component of the pleasant aroma in fragrant rice. Here, we show that fragrant rice is metabolically active in nitrogen assimilation and exhibits high levels of 2-AP and that CH4 fluxes at the booting stage and cumulative emissions are 25.5% and 14.8% lower, respectively, in fragrant rice paddies compared with nonfragrant rice paddies. Three precursors involved in 2-AP synthesis-proline, glutamic acid, and ornithine-are identified as crucial nitrogen compounds that significantly promote CH4 oxidation in the rhizosphere. Augmenting 2-AP synthesis, either through foliar spraying or by utilizing CRISPR-Cas9 technology to generate knockout lines of BETAINE ALDEHYDE DEHYDROGENASE 2 gene, effectively enhances CH4 oxidation and reduces CH4 fluxes. Our findings reveal that the 2-AP metabolic pathway coordinates the carbon/nitrogen cycle to improve nitrogen assimilation along with high 2-AP levels and mitigate CH4 emissions in paddy ecosystems.

Fumarate reductase drives methane emissions in the genus Oryza through differential regulation of the rhizospheric ecosystem

The emergence of waterlogged Oryza species ∼15Mya (million years ago) supplied an anoxic warm bed for methane-producing microorganisms, and methane emissions have hence accompanied the entire evolutionary history of the genus Oryza. However, to date no study has addressed how methane emission has been altered during Oryza evolution. In this paper we used a diverse collection of wild and cultivated Oryza species to study the relation between Oryza evolution and methane emissions. Phylogenetic analyses and methane detection identified a co-evolutionary pattern between Oryza and methane emissions, mediated by the diversity of the rhizospheric ecosystems arising from different oxygen levels. Fumarate was identified as an oxygen substitute used to retain the electron transport/energy production in the anoxic rice root, and the contribution of fumarate reductase to Oryza evolution and methane emissions has also been assessed. We confirmed the between-species patterns using genetic dissection of the traits in a cross between a low and high methane-emitting species. Our findings provide novel insights on the evolutionary processes of rice paddy methane emissions: the evolution of wild rice produces different Oryza species with divergent rhizospheric ecosystem attributing to the different oxygen levels and fumarate reductase activities, methane emissions are comprehensively assessed by the rhizospheric environment of diversity Oryza species and result in a co-evolution pattern.

Metabolic and elemental profiling as potential discriminating features among the black mahlab seeds (Monechma ciliatum) grown in three different regions

INTRODUCTION

Black mahlab (Monechma ciliatum) seed is a rich source of metabolites and minerals and is usually believed to have a similar composition between different areas of cultivation. Until now, no studies have assessed changes in black mahlab seeds (BMSs) to determine those constituents that help to discriminate them according to geographical origin.

OBJECTIVES

The present study attempted to compare the metabolomics and elemental profiles of BMSs of different geographical origins and identified the potential markers using ultrahigh-performance liquid chromatography quadrupole Orbitrap tandem mass spectrometry (UHPLC-Q-Orbitrap-MS2), and inductively coupled plasma mass spectrometry (ICP-MS) techniques and established the chemometric model to identify the potential markers and discriminate them according to cultivation sites.

MATERIAL AND METHODS

In this work, data from metabolites analysis by UHPLC-Q-Orbitrap-MS2 and multi-elemental data obtained from ICP-MS were combined with chemometrics for tracing the geographical origin of BMSs. Principal component analysis (PCA) was used to evaluate the overall grouping of samples. In contrast, partial least squares-discriminant analysis (PLS-DA) and orthogonal partial least squares discriminant analysis (OPLS-DA) were employed for authentication.

RESULTS

PLS-DA and OPLS-DA models were fully validated (R2Y and Q2 values > 0.5). Variable importance of various projections was applied to obtain valuable data about differential elements (seven markers were identified) and metabolites (23 markers were identified) with high discrimination potential. The outcomes presented in this study serve as an appropriate framework for developing novel discrimination approaches in food origin screening.

Reducing greenhouse gas intensity using a mixture of controlled-release urea and common urea combining suitable maize varieties in a summer maize system

The one-time application of common urea blended with controlled-release urea (CRU) is considered effective for improving nitrogen use efficiency and grain yield and reducing the greenhouse gas emissions of summer maize in intensive agricultural systems. However, the trade-off between the economic and environmental performances of different blended fertilizer treatments for different maize varieties remains unclear. Therefore, a consecutive two-year field experiment was conducted in the North China Plain to study the effects of different ratios of CRU and common urea on the yield, nitrous oxide (N2O) emissions, yield-scaled total N2O emissions, greenhouse gas intensity (GHGI), and net ecosystem economic benefit (NEEB) in 2021 and 2022. Four N fertilizer treatments with equal rate at 180 kg N ha-1 were applied as N180U (all Urea), N180C1(1/3CRU), N180C2(2/3CRU), and N180C (all CRU), and two maize varieties (JNK728-yellow ripe variety and ZD958-green ripe variety) were used. The N180C1 and N180C2 treatments produced the highest grain yield in varieties JNK728 and ZD958 (9.4-11.5 t ha-1 and 9.0-11.0 t ha-1), respectively. Compared to the N180U treatment (conventional method), the N180C1 treatment reduced the GHGI (24.8 %-25.9 %) and increased the NEEB (33.1 %-33.4 %) in the JNK728 variety, whereas the N180C2 treatment reduced the GHGI (16.9 %-28.8 %) and increased the NEEB (27.2 %-48.1 %) in the ZD958 variety. The study concludes that a one-time application of blended nitrogen fertilizer in suitable varieties can minimize the GHGI and maximize the NEEB, which is an effective strategy for balancing yield and nitrogen efficiency in the summer maize system in the North China Plain.

N-methyl pyrrolidone manufacturing wastewater as the electron donor for denitrification: From bench to pilot scale

Actual wastewater generated from N-methylpyrrolidone (NMP) manufacture was used as electron donor for tertiary denitrification. The organic components of NMP wastewater were mainly NMP and monomethylamine (CH3NH2), and their biodegradation released ammonium that was nitrified to nitrate that also had to be denitrified. Bench-scale experiments documented that alternating denitrification and nitrification realized effective total‑nitrogen removal. Ammonium released from NMP was nitrified in the aerobic reactor and then denitrified when actual NMP wastewater was used as the electron donor for endogenous and exogenous nitrate. Whereas TN and NMP removals occurred in the denitrification step, dissolved organic carbon (DOC) and CH3NH2 removals occurred in the denitrification and nitrification stages. The genera Thauera and Paracoccus were important for NMP biodegradation and denitrification in the denitrification reactor; in the nitrification stage, Amaricoccus and Sphingobium played key roles for biodegrading intermediates of NMP, while Nitrospira was responsible for NH4+ oxidation to NO3-. Pilot-scale demonstration was achieved in a two-stage vertical baffled bioreactor (VBBR) in which total‑nitrogen removal was realized sequential anoxic-oxic treatment without biomass recycle. Although the bench-scale reactors and the VBBR had different configurations, both effectively removed total nitrogen through the same mechanisms. Thus, an N-containing organic compound in an industrial wastewater could be used to drive total-N removal in a tertiary-treatment scenario.

Long-term performance and biofilms of the novel nano manganese dioxide coupling carbon source pre-loaded biological activated carbon filters for drinking water

In order to accelerate the start-up of biological activated carbon (BAC) filters and enhance ammonium (NH4+-N) removal performance, three substrates (sucrose and/or nano manganese dioxide (nMnO2)) pre-loaded BAC filters were set up to investigate the pollutants removals and microbiological characteristics for a long-term operation of 197 days. The average NH4+-N removal performance treated by the sucrose coupled with nMnO2 loaded BAC filter was the highest (71.18 %), which was 3.83 times of that by the control filter (18.58 %). 29 % of NH4+-N treated by the sucrose coupled with nMnO2 loaded BAC removed through the traditional nitrification and denitrification, or simultaneous nitrification and denitrification (SND) pathways according to the calculation of the alkalinity consumption (6.12 mmol/L). There was no leakage of carbon source and Mn, and no accumulation of nitrite from the substrates loaded BAC. The dominant bacteria in the sucrose coupled with nMnO2 loaded BAC were Dechloromona (accounting for 8.02% of the total bacterial) and Acidaminobacter (accounting for 15.16% of total bacterial) on the Day 180, which had the capacity of nitrification or denitrification. NH4+-N and micropollutants removals treated by the combined process of peracetic acid (PAA) pre-oxidation and substrates loaded BAC were significant due to the generation of assimilable organic carbon (AOC) (5.98 ± 1.93 μg-C/mL) by PAA (100 μM)/Fe2+ pre-oxidation and the higher biomass ((4.57 ± 3.07) × 107 cells/g DW BAC) in the sucrose coupled with nMnO2 loaded BAC filter. Therefore, nMnO2 coupling carbon source pre-loading strategy could not only enhance initial colonization, but also promote pollutants removals for long-term operation.

Shift in rhizospheric and endophytic microbial communities of dominant plants around Sunit Alkaline Lake

Alkaline lakes are a special type of extreme saline-alkali ecosystem, and the dominant plants store a large number of microbial resources with salinity-tolerant or growth-promoting properties in the littoral zones. In this study, high-throughput sequencing technology and molecular ecological networks were used to analyze the bacteria and fungi from different rhizocompartments of three dominant plants along the salinity gradient in the littoral zones of Sunit Alkali Lake. The study found that fungal communities were more tolerant of environmental abiotic stress, and salinity was not the main environmental factor affecting the composition of microbial communities. Mantel test analysis revealed that SOC (soil organic carbon) was the primary environmental factor affecting the rhizosphere bacterial community as well as the rhizosphere endophyte bacteria and fungi, while CO₃^2- (carbonate ions) had a greater impact on the rhizosphere fungal communities. In addition, keystones identified through the associated molecular network play an important role in helping plants resist saline-alkali environments. There were significant differences in the metabolic pathways of microorganisms from different rhizocompartments predicted by the PICRUSt2 database, which may help to understand how microorganisms resist environmental stress. This study is of great importance for understanding the salt environments around alkaline lakes and excavating potential microbial resources.

Insights into the enhanced effect of biochar on cadmium removal in vertical flow constructed wetlands

Biochar has been increasingly applied in constructed wetlands (CWs) to remediate heavy metal (HM)-polluted water. Nevertheless, only few studies have elucidated the enhanced mechanism and potential synergies related to the HM removal from biochar-based CWs (BC-CWs) for HMs removal. This study used cadmium (Cd) as the target HM and added biochar into CWs to monitor physicochemical parameters, plant' physiological responses, substrate accumulation, and microbial metabolites and taxa. In comparison with the biochar-free CW (as CWC), a maximum Cd²⁺ removal of 99.7% was achieved in the BC-CWs, associated with stable physicochemical parameters. Biochar preferentially adsorbed the available Cd²⁺ and significantly accumulated Fe/Mn oxides-bond and the exchangeable Cd fraction. Moreover, biochar alleviated the lipid peroxidation (decreased by 36.4%) of plants, resulting in improved growth. In addition, extracellular polymeric substances were increased by 376.9-396.8 mg/L in BC-CWs than compared to CWC, and N and C cycling was enhanced through interspecific positive connectivity. In summary, this study explored comprehensively the performance and mechanism of BC-CWs in the treatment of Cd²⁺-polluted water, suggesting a promising approach to promote the plant-microbe-substrate synergies under HM toxicity.

Role of polyamide microplastic in altering microbial consortium and carbon and nitrogen cycles in a simulated agricultural soil microcosm

Microplastics (MPs) are persistent organic pollutants globally, with a continuous increase in MP wastes near and away from the regions of human activities. Studies to date aimed to explore the impact of MPs on ecosystems, but the area of research could not go beyond environmental pollution caused by MPs. To address the menace of MPs, scientists need to pay enough attention to the biogeochemical cycles, microbial communities, and functional microorganisms. Hence, this study aimed to evaluate the impact of adding 0.3% (mass ratio) [low-concentration (LC) group] and 1% [high-concentration (HC) group] of polyamide (PA) MP to the soil microenvironment with regard to the aforementioned parameters. PA MP decreased the soil microbial diversity (Shannon and Simpson indices, P < 0.05). At the phylum level, PA MP increased the abundance of Acidobacteria, Firmicutes, and Crenarchaeota (P < 0.05); at the genus level, it enhanced that of Geobacter, Thiobacillus, Pseudomonas, and Bradyrhizobium (P < 0.01) while decreased that of Bacillus, Flavisolibacter, Geothrix, and Pseudarthrobacter (P < 0.05). PA MP affected the carbon (C) cycle. PA MP accelerated the soil C fixation by enhancing the abundance of the genes accA and pccA. The LC PA MP accelerated organic C degradation and methane metabolism by changing the abundance of mnp, chiA, mcrA, pmoA, and mmoX genes, while the HC PA MP inhibited them with increasing the experimental time. Regarding the effects of PA on the nitrogen (N) cycle, the PA MP promoted N assimilation and ammonification by increasing the abundance of the genes gdh and ureC, the impact of PA MP on N fixation and denitrification depended on its concentration and treating time. This study showed that PA MP impacted the microbial consortium, it also affected the C and N cycles and its effect depended on its concentration and the treating time.

Characteristics of sludge-based pyrolysis biochar and its application of enhancing denitrification

A modified biochar for enhanced denitrification was developed through a facile pyrolysis method using sewage sludge as raw material and melamine as nitrogen source. Through electrochemical analysis, sludge-based pyrolysis biochar (SPBC) has superior electrical conductivity and poor redox activity. SPBC can increase the electron transfer through the geoconductor mechanism. The effect and the mechanism of SPBC on denitrification were studied. The nitrate treatment efficiency increased with the increase of SPBC dosage. From the perspective of molecular biology, the activities of NAR and NIR enzymes, the degradation efficiency of glucose and the ETSA of bacteria were all promoted with the increase of SPBC, thereby promoting the removal of NO₃^-. In addition, SPBC had a certain screening effect on microbial communities, and biodiversity decreased with the increase of SPBC dosage. Although the biodiversity decreased, the relative abundance of microorganisms conducive to denitrification increased with the increase of SPBC dosage. The transformation strategy of SPBC proposed in this paper provides a technical solution for sludge recycling and application for strengthening denitrification.

Long-term exposure to nano-TiO2 interferes with microbial metabolism and electron behavior to influence wastewater nitrogen removal and associated N2O emission

The extensive use of nano-TiO₂ has caused concerns regarding their potential environmental risks. However, the stress responses and self-recovery potential of nitrogen removal and greenhouse gas N₂O emissions after long-term nano-TiO₂ exposure have seldom been addressed yet. This study explored the long-term effects of nano-TiO₂ on biological nitrogen transformations in a sequencing batch reactor at four levels (1, 10, 25, and 50 mg/L), and the reactor's self-recovery potential was assessed. The results showed that nano-TiO₂ exhibited a dose-dependent inhibitory effect on the removal efficiencies of ammonia nitrogen and total nitrogen, whereas N₂O emissions unexpectedly increased. The promoted N₂O emissions were probably due to the inhibition of denitrification processes, including the reduction of the denitrifying-related N₂O reductase activity and the abundance of the denitrifying bacteria Flavobacterium. The inhibition of carbon source metabolism, the inefficient electron transfer efficiency, and the electronic competition between the denitrifying enzymes would be in charge of the deterioration of denitrification performance. After the withdrawal of nano-TiO₂ from the influent, the nitrogen transformation efficiencies and the N₂O emissions of activated sludge recovered entirely within 30 days, possibly attributed to the insensitive bacteria survival and the microbial community diversity. Overall, this study will promote the current understanding of the stress responses and the self-recovery potential of BNR systems to nanoparticle exposure.