The drivers of bacterial community underlying biogeographical pattern in Mollisol area of China

Composition, distribution, health risks, and drivers of phthalates in typical red paddy soils

The accelerated accumulation of phthalate esters (PAEs) in paddy soils poses a serious threat to human health. However, related studies mainly focus on facility vegetable fields, drylands, and orchards, and little is known about paddy soils. In this study, 125 samples were collected from typical red paddy fields to investigate the pollution characteristics, sources, health risks, and main drivers of PAEs. Soil physicochemical properties, enzyme activity, and bacterial community composition were also measured simultaneously. The results showed that eight PAE congeners were detected ranging from 0.17 to 1.97 mg kg-1. Di-n-butyl phthalate (DBP), di-(2-ethylhexyl) phthalate (DEHP), and di-isobutyl phthalate (DIBP) were the most abundant PAE congeners, accounting for 81% of the total PAEs. DEHP exhibited a potential carcinogenic risk to humans through the intake route. The main PAEs were positively correlated with soil organic matter (SOM) and soil water content (SWC) contents. Low levels of PAEs increased bacterial abundance. Furthermore, most PAE congeners were positively correlated with hydrolase activity. Soil acidity and nutrient dynamics played a dominant role in the bacterial community composition, with PAE congeners playing a secondary role. These findings suggest that there may be a threshold response between PAEs and organic matter and nutrient transformation in red paddy soils, and that microbial community should be the key driver. Overall, this study deepens the understanding of ecological risks and microbial mechanisms of PAEs in red paddy soils.

Bacterial Diversity Analysis of Chaozhou Sauerkraut Based on High-Throughput Sequencing of Different Production Methods

In this study, high-throughput sequencing technology was used to analyze the bacterial diversity of sauerkraut produced at home and in factories in Chaozhou. The differences in bacterial community structure among different sauerkraut samples were studied by diversity analysis and heat map analysis, and the dominant bacterial genera were analyzed. The results showed that 54 phyla and 622 genera were identified from 10 Chaozhou sauerkraut samples. The bacterial community structures of Chaozhou sauerkraut produced by five factories were similar, and the dominant bacterial genera were the same, which were Lactobacillus, Pediococcus and Weissella. The dominant genus in the sauerkraut samples produced by three families was similar to that in samples produced by the factories. However, the samples from two other families were quite different, and there may be environmental pollution. The samples may also contain possible pathogenic microorganisms such as Pseudomonas and Vibrio. Overall, there were still some differences in the bacterial community structure of Chaozhou sauerkraut factory-produced and household-handmade samples. To the best of our knowledge, this paper is the first to compare the bacterial diversity of homemade and factory-produced Chaozhou sauerkraut, laying the foundation for further research on Chaozhou sauerkraut.

Dimethyl phthalate destroys the cell membrane structural integrity of Pseudomonas fluorescens

A Gram-negative bacteria (Pseudomonas fluorescens) was exposed to different concentrations (0, 20, and 40 mg/L) of dimethyl phthalate (DMP) for 8 h, and then Fourier transform infrared spectroscopy (FTIR) analysis, lipopolysaccharide content detection, analysis of fatty acids, calcein release test, proteomics, non-targeted metabolomics, and enzyme activity assays were used to evaluate the toxicological effect of DMP on P. fluorescens. The results showed that DMP exposure caused an increase in the unsaturated fatty acid/saturated fatty acid (UFA/SFA) ratio and in the release of lipopolysaccharides (LPSs) from the cell outer membrane (OM) of P. fluorescens. Moreover, DMP regulated the abundances of phosphatidyl ethanolamine (PE) and phosphatidyl glycerol (PG) of P. fluorescens and induced dye leakage from an artificial membrane. Additionally, excessive reactive oxygen species (ROS), malondialdehyde (MDA), and changes in antioxidant enzymes (i.e., catalase [CAT] and superoxide dismutase [SOD]) activities, as well as the inhibition of Ca²⁺-Mg²⁺-ATPase and Na⁺/K⁺-ATPase activities in P. fluorescens, which were induced by the DMP. In summary, DMP could disrupt the lipid asymmetry of the outer membrane, increase the fluidity of the cell membrane, and destroy the integrity of the cell membrane of P. fluorescens through lipid peroxidation, oxidative stress, and ion imbalance.

Stochastic processes drive bacterial and fungal community assembly in sustainable intensive agricultural soils of Shanghai, China

Sustainable intensive cropping systems have been implemented for three decades in suburban agricultural districts of Shanghai, China. These human-managed soils have been developed from paleosol or alluvial soils across different regions. However, little is known about the geographical distribution patterns of microbes and microbial community assembly in the sustainable intensive soils after decades of anthropogenic disturbances. Here, we investigated the impact of local geochemical properties and geographic distance on stochastic/deterministic microbial community assembly processes using high-throughput sequencing and phylogenetic null modeling analysis. Our results showed that soil pH was the most important environmental factor determining bacterial and fungal community structure. Importantly, only soil organic matter was positively correlated with fungal α-diversity, suggesting the efficient use of carbon substrates in sustainable agricultural systems, compensating for the lack of chemical fertilization and reduced tillage in these systems. Both bacterial and fungal communities had robust distance-decay patterns, but the rate of turnover of bacterial taxa was faster than that of fungi. Variation in bacterial and fungal communities was mostly attributed to the simultaneous effects of environmental variables and spatial factors. We also mapped the spatial distributions of the dominant bacterial and fungal taxa across the sustainable agricultural fields, making it possible to forecast the responses of agricultural ecosystems to anthropogenic disturbance. Based on the patterns of the β-nearest taxon index, this study demonstrated that stochastic processes shaped substantial bacterial and fungal community variation in sustainable intensive agricultural soils of the Shanghai suburbs. This variation may be attributed to the increasing microbial dispersal caused by hydrological connectivity in the agricultural fields or the release from environmental stress and weakened environmental filtering across the suitable pH range preferable for most soil microbes. These results unveil assembly mechanisms of soil microbial community after several decades of sustainable intensive management, and contribute to understand the role of microbes in ecosystems in establishing a functional equilibrium which may enable sustainability to be preserved.

Biostimulation of Rhodovulum sp., for enhanced degradation of di-n-butyl phthalate under optimum conditions

Di-butyl phthalate (DBP) is an extensively applied synthetic plasticizer, toxic organic compound with elevated concentrations in aquatic and terrestrial ecosystem that cause serious risk to the human health. A marine bacterium Rhodovulum sp. DBP07 isolated from sea water with proficient of efficiently degrading DBP. The maximum DBP degradation (70.2%) and the cell growth (1.3 OD_600nm) were observed at 600 mg/L. The DBP degradation characteristics of the isolate Rhodovulum sp. DBP07 with diverse preliminary concentrations of DBP was found to be 200 ˃ 400 ˃ 600 ˂ 800 ˂ 1000 mg/L DBP. Glucose was identified as most favorable nutrient factor for the enhanced growth and showed 79.8 and 77.4% of degradation rate at 5.0 and 2.0 g/L respectively. The influence of the carbon sources on DBP degradation was found to be Glucose ˃ fructose ˃ sucrose ˃ maltose ˃ lactose ˃ citric acid ˃ starch. Box-Behnken (BBD) statistical optimization results showed enhanced DBP biodegradation rate (91.1%) at pH 7.0, 3% of NaCl concentration with 3 days of incubation. Two intermediate compounds were observed in the retention times of 10.8 and 12.2 which are identified as diethyl phthalate (DEP) and mono-nbutyl phthalate (MBP) using Gas chromatography mass spectroscopy (GC-MS). Furthermore, the phthalate (pht) gene expression pattern under DBP stress was analyzed using RT-qPCR and the maximum fold change (5.7 fold) was observed at 3 day of incubation. Overall, the observed results indicate the possibility of utilizing Rhodovulum sp. for remediation of DBP contaminated environment.

Physiological responses of Arthrobacter sp. JQ-1 cell interfaces to co-existed di-(2-ethylhexyl) phthalate (DEHP) and copper

Arthrobacter sp. JQ-1 can completely degrade 500 mg/L of DEHP within 3 days. The minimum inhibitory concentrations (MICs) of Cu²⁺ could reach 1.56 mM, however, 5.0 mg/L Cu²⁺ apparently inhibited DEHP degradation and bacterial growth. Consequently, JQ-1 was exposed to the DEHP-copper environment to verify the toxicity mechanism based on the physiological responses of cellular multiple interfaces (cellular surface, membrane and intracellular characteristics). The results showed the combination of 500 mg/L DEHP and 5.0 mg/L Cu²⁺ significantly decreased cell surface hydrophobicity (CSH) and the absolute value of zeta potential, which implied the bioavailability of DEHP was decreased. The cellular surface changes were mainly due to the interaction between Cu²⁺ and some functional groups (CH₂, CH₃, aromatic rings, and amide). The weakened proton-motive force (PMF) across the plasma membrane may interfere the formation and utilization of energy, which is not conducive to the repair process of cellular damages. In this study, Non-invasive micro-test technology (NMT) was applied to the research of combined toxicity of DEHP and heavy metal ions for the first time. DEHP-copper intensified K⁺ efflux and Ca²⁺ influx across the plasma membrane, which disturbed ion homeostasis of K⁺ and Ca²⁺ and might induce apoptosis and further inhibit DEHP degradation. The decline of intracellular esterase activity indicated that the metabolic capacity is apparently restrained. This study enhances our understanding of cellular different interface processes responding to combined pollutants.

Effects of di-n-butyl phthalate and di-2-ethylhexyl phthalate on pollutant removal and microbial community during wastewater treatment

Due to the wide use of plastic products and the releasability of plasticizer into surrounding environment, the hazards, residues and effects of phthalic acid esters (PAEs) in ecosystems have been paid more and more attention. Little information is available about the effects of PAEs on the normal wastewater treatment, although the distribution of PAEs in soil and other ecosystems is closely related to the discharge of sewage. In this study, the effects of high concentrations of di-n-butyl phthalate (DBP) and di-2-ethylhexyl phthalate (DEHP) on pollutant removal and the microbial community during landfill leachate treatment was investigated. After domestication, the activated sludge was used in the co-treatment of landfill leachate and simulated domestic wastewater. We verified that this process reduced the toxicity of landfill leachate. However, high concentrations of added DBP and DEHP were removed first, while the removal of these pollutants from raw landfill leachate was limited. The results of high-throughput sequencing revealed that the bacterial diversity was diminished and the microbial community structure was significantly affected by the addition of DBP and DEHP. The DBP and DEHP samples had 79.05% and 82.25% operational taxonomic units (OTU), respectively, in common with the raw activated sludge. Many genera of PAE-degrading bacteria that had no significant evolutionary relationship were found in the raw activated sludge. And the widespread presence of PAE-degrading bacteria could effectively keep the concentrations of PAEs low during the wastewater treatment.

Bioremediation of Historically Chlorimuron-Ethyl-Contaminated Soil by Co-Culture Chlorimuron-Ethyl-Degrading Bacteria Combined with the Spent Mushroom Substrate

In this study, a novel chlorimuron-ethyl-degrading Pleurotus eryngiu-SMS-CB was successfully constructed for remediation of soil historically contaminated with chlorimuron-ethyl. The P. eryngiu-SMS-CB was prepared using efficient chlorimuron-ethyl-degrading cocultured bacteria, Rhodococcus sp. D310-1 and Enterobacter sp. D310-5, with spent mushroom substrate (SMS, a type of agricultural waste containing laccase) of Pleurotus eryngiu as a carrier. The chlorimuron-ethyl degradation efficiency in historically chlorimuron-ethyl-contaminated soil reached 93.1% at the end of 80 days of treatment with the P. eryngiu-SMS-CB. Although the P. eryngiu-SMS-CB altered the microbial community structure at the beginning of the 80 days, the bacterial population slowly recovered after 180 days; thus, the P. eryngiu-SMS-CB does not have an excessive effect on the long-term microbial community structure of the soil. Pot experiments indicated that contaminated soil remediation with P. eryngiu-SMS-CB reduced the toxic effects of chlorimuron-ethyl on wheat. This paper is the first to attempt to use chlorimuron-ethyl-degrading bacterial strains adhering to P. eryngiu-SMS to remediate historically chlorimuron-ethyl-contaminated soil, and the microbial community structure and P. eryngiu-SMS-CB activity in chlorimuron-ethyl-contaminated soil were traced in situ to evaluate the long-term effects of this remediation.

Metabolic process of di-n-butyl phthalate (DBP) by Enterobacter sp. DNB-S2, isolated from Mollisol region in China

The accumulation of phthalate acid esters (PAEs) in the environment has aroused a global concern. Microbial degradation is the most promising method for removing PAEs from polluted environment. Di-n-butyl phthalate (DBP) is one of the most widely used PAEs. In this study, a highly efficient DBP-degrading strain, Enterobacter sp. DNB-S2 was isolated from Mollisol in northeast China, and the degradation rate of 500 mg L^-1 DBP reached 44.10% at 5 °C and 91.08% at 50 °C within 7 days. A new intermediate, n-butyl benzoate BP, was detected, implying a new degradation pathway. The complete genome of the strain DNB-S2 was successfully sequenced to comprehensively understand of the entire DBP catabolic process. Key genes were proposed to be involved in DBP degradation, such as esterases, 3,4-dihydroxybenzoate decarboxylase and catechol 2,3-dioxygenase genes. Intermediate-utilization tests and real-time quantitative polymerase chain reaction (RT-qPCR) validated the proposed DBP catabolic pathway. The aboriginal bacterium DNB-S2 is a promising germplasm for restoring PAE-contaminated Mollisol regions at low temperature. This study provides novel insight into the catabolic mechanisms and abundant gene resources of PAE biodegradation.