Effect of formaldehyde exposure on bacterial communities in simulating indoor environments.

Indoor formaldehyde (CH2O) exceeding the recommended level is a severe threat to human health. Few studies have investigated its effect on indoor surface bacterial communities, affecting habitants' health. This study used 20-L glass containers to mimic the indoor environment with bacterial inputs from human oral respiration. The behavior of bacterial communities responding to CH2O varied among the different CH2O levels. The bacterial community structure significantly changed over time in the 0.054 mg·m-3 CH2O group, which varied from the 0.1 mg·m-3 and 0.25 mg·m-3 CH2O groups. The Chao1 and Shannon index significantly increased in the 0.054 mg·m-3 CH2O group at 6 week, while they remained unchanged in the 0.25 mg·m-3 CH2O group. At 12 week, the Chao1 significantly increased in the 0.25 mg·m-3 CH2O group, while it remained unchanged in the 0.054 mg·m-3 CH2O group. Only a few Operational Taxonomic Units (OTUs) significantly correlated with the CH2O concentration. CH2O-induced OTUs mainly belong to the Proteobacteria and Firmicutes. Furthermore, bacterial communities formed at 6 or 12 weeks differed significantly among different CH2O levels. Functional analysis of bacterial communities showed that inferred genes related to chemical degradation and diseases were the highest in the 0.25 mg·m-3 CH2O group at 12 weeks. The development of nematodes fed with bacteria collected at 12 weeks was applied to evaluate the bacterial community's hazards. This showed significantly impaired growth in the 0.1 mg·m-3 and 0.25 mg·m-3 CH2O groups. These findings confirmed that CH2O concentration and exposure time could affect the indoor bacterial community and formed bacterial communities with a possibly more significant hazard to human health after long-term exposure to high CH2O levels.

Influence of elemental sulfur on cadmium bioavailability, microbial community in paddy soil and Cd accumulation in rice plants.

Cadmium (Cd) is highly toxic to living organisms and the contamination of Cd in paddy soil in China has received much attention. In the present study, by conducting pot experiment, the influence of S fertilizer (S0) on rice growth, iron plaque formation, Cd accumulation in rice plants and bacterial community in rice rhizosphere soil was investigated. The biomass of rice plants was significantly increased by S0 addition (19.5-73.6%). The addition of S0 increased the formation of iron plaque by 24.3-45.8%, meanwhile the amount of Cd sequestered on iron plaque increased. In soil treated with 5 mg/kg Cd, addition of 0.2 g/kg S0 decreased the diffusive gradients in thin films (DGT) extractable Cd by 60.0%. The application of S0 significantly decreased the concentration of Cd in rice grain by 12.1% (0.1 g/kg) and 36.6% (0.2 g/kg) respectively. The addition of S0 significantly increased the ratio of Acidobacteria, Bacteroidetes in rice rhizosphere soil. Meanwhile, the ratio of Planctomycetes and Chloroflexi decreased. The results indicated that promoting Fe- and S-reducing and residue decomposition bacterial in the rhizosphere by S0 may be one biological reason for reducing Cd risk in the soil-rice system.

Steel slag amendment impacts on soil microbial communities and activities of rice (Oryza sativa L.).

With the increase in iron/steel production, the higher volume of by-products (slag) generated necessitates its efficient recycling. Because the Linz-Donawitz (LD) slag is rich in silicon (Si) and other fertilizer components, we aim to evaluate the impact of the LD slag amendment on soil quality (by measuring soil physicochemical and biological properties), plant nutrient uptake, and strengthens correlations between nutrient uptake and soil bacterial communities. We used 16 S rRNA illumine sequencing to study soil bacterial community and APIZYM assay to study soil enzymes involved in C, N, and P cycling. The LD slag was applied at 2 Mg ha-1 to Japonica and Indica rice cultivated under flooded conditions. The LD slag amendment significantly improved soil pH, plant photosynthesis, soil nutrient availability, and the crop yield, irrespective of cultivars. It significantly increased N, P, and Si uptake of rice straw. The slag amendment enhanced soil microbial biomass, soil enzyme activities and enriched certain bacterial taxa featuring copiotrophic lifestyles and having the potential role for ecosystem services provided to the benefit of the plant. The study evidenced that the short-term LD slag amendment in rice cropping systems is useful to improve soil physicochemical and biological status, and the crop yield.

Cellular changes of microbial consortium GY1 during decabromodiphenyl ether (BDE-209) biodegradation and identification of strains responsible for BDE-209 degradation in GY1.

Microbial consortium remediation has been considered to be a promising technique for BDE-209 elimination in water, soil and sediment. Herein, we studied malondialdehyde (MDA), membrane potential (MP), and reactive active species (ROS) of a microbial consortium GY1 exposed to BDE-209. The results indicated that the microbial antioxidant defense system was vulnerable by BDE-209. Both early and late apoptosis of microbial consortium induced by BDE-209 were observed. The sequencing results revealed that Stenotrophomonas, Microbacterium and Sphingobacterium in GY1 played major roles in BDE-209 degradation. Moreover, a novel facultative anaerobic BDE-209 degrading strain named Microbacterium Y2 was identified from GY1, by which approximately 56.1% of 1 mg/L BDE-209 was degraded within 7 days, and intracellular enzymes of which contributed great to the result. Overall, the current study provided new insights to deeply understand the mechanisms of BDE-209 degradation by microbial consortium.

Response of microbial communities to different organochlorine pesticides (OCPs) contamination levels in contaminated soils.

Understanding microbial community structure and diversity in contaminated soils helps optimize the bioremediation strategies and performance. This study investigated the roles of environmental variables and contamination levels of organochlorine pesticides (OCPs) in shaping microbial community structure at an abandoned aged insecticide plant site. In total, 28 bacterial phyla were identified across soils with different physiochemical properties and OCPs levels. Proteobacteria, Bacterioidetes and Firmicutes represented the dominant lineages, and accounted for 60.2%-69.2%, 5.6%-9.7% and 6.7%-9.4% of the total population, respectively. The overall microbial diversities, in terms of phylogenetic diversity and phylotype richness, were correlated with the contents of hexachlorocyclohexanes (HCHs) and dichlorodiphenyltrichloroethanes (DDTs) in soils, as well as other soil properties including total nitrogen, dissolved organic carbon, pH and vegetation. The multivariate regression tree (MRT) analysis revealed that the soil microbial diversity was significantly impacted by vegetation, which explained 31.8% of the total variation, followed by OCPs level (28.3%), total nitrogen (12.4%), dissolved organic carbon (6.3%) and pH (2.4%). Our findings provide new insights and implications into the impacts on soil microbial community by OCPs contamination and other environmental variables, and offer potential strategic bioremediation for the management of OCPs contaminated sites.

Toxicity responses of bacterial community as a biological indicator after repeated exposure to lead (Pb) in the presence of decabromodiphenyl ether (BDE209).

Continuous exposure of chemicals could cause various environmental impacts. Decabromodiphenyl ether (BDE209) and lead (Pb) can co-exist and are discharged simultaneously at e-waste recycling sites (EWRSs). Extensive concerns have been attracted by their toxic effects on soil microorganisms. Thus, by using high-throughput sequencing, this study explored bacterial community responses in a soil system after repeated Pb exposure in the presence of BDE209 in the laboratory during 90-day indoor incubation period. Gene sequencing of 16S rDNA performed on an Illumina MiSeq platform proved that one-off Pb exposure caused higher microbial abundance and community diversity. Additionally, both repetitive Pb treatment and exogenous BDE209 input could change bacterial community composition. Twenty-three different bacterial phyla were detected in the soil samples, while more than 90% of the sequences in each treatment belonged to a narrow variety. The sequence analyses elucidated that Proteobacteria, Acidobacteria, and Bacteroidetes were the top three dominant phyla. Our observations could provide a few insights into the ecological risks of Pb and BDE209 co-existed contamination in soils at EWRSs.

Monitoring bacterial communities in ε-Polylysine-treated bighead carp (Aristichthys nobilis) fillets using culture-dependent and culture-independent techniques.

The present study investigated the effect of ε-Polylysine on bacterial communities, sensorial, and chemical properties [total volatile basic nitrogen (TVB-N), biogenic amines, and breakdown products of adenosine triphosphate] of bighead carp (Aristichthys nobilis) fillets stored at 4 ±â€¯1 °C. Bacterial communities were explored by the culture-dependent method and the high-throughput sequencing targeting on 16S rRNA genes. The results showed that the major genera in spoiled control samples were Aeromonas, Pseudomonas, Shewanella, and Acinetobacter. ε-Polylysine inhibited the growth of Pseudomonas, Shewanella, and Acinetobacter. Consequently, Aeromonas and Janthinobacterium were dominant in spoiled treated samples. The sensorial shelf-life of the control and treated groups were 8 days and 10 days, respectively. Furthermore, due to the inhibitory effect of ε-Polylysine on bacteria, chemical changes of the treated group were slower, reflecting as lower concentrations of TVB-N, putrescine, cadaverine, and hypoxanthine, and higher contents of inosine 5'-monophosphate and hypoxanthine riboside at the end of storage. In conclusion, ε-Polylysine altered the bacterial communities and delayed quality deterioration of bighead carp fillets during chilled storage.

Structural and functional measures of marine microbial communities: An experiment to assess implications for oil spill management.

Microbial communities are ecologically important in aquatic environments and impacts on microbes have the potential to affect a number of functional processes. We have amended seawater with a crude oil and assessed changes in species composition as well as a measure of functional diversity (the ability of the community to utilise different carbon sources) and the community level metabolic signature. We found that there was a degree of functional redundancy in the community we tested. Oiled assemblages became less diverse and more dominated by specialist hydrocarbon degraders, carbon source utilisation increased initially but there was no change in metabolic signature in this small scale laboratory experiment. This study supports the decision framework around management of oil spills. This package of methods has the potential to be used in the testing and selection of new dispersants for use in oil spill response.

Decreased susceptibility of Streptococcus anginosus to vancomycin in a multispecies biofilm is due to increased thickness of the cell wall.

Background: Streptococcus anginosus, Pseudomonas aeruginosa and Staphylococcus aureus are often co-isolated from the sputum of cystic fibrosis patients. It was recently shown that S. anginosus is protected from the activity of vancomycin when it grows in a multispecies biofilm with P. aeruginosa and S. aureus. Objectives: Elucidating the underlying cause of the reduced susceptibility of S. anginosus to vancomycin when growing in a multispecies biofilm with P. aeruginosa and S. aureus. Methods: The transcriptome of S. anginosus growing in a multispecies biofilm was compared with that of a S. anginosus monospecies biofilm. Subsequently, transmission electron microscopy was performed to investigate changes in cell wall morphology in S. anginosus and S. aureus in response to growth in multispecies biofilm and to vancomycin treatment. Results: S. anginosus responds to growth in a multispecies biofilm with induction of genes involved in cell envelope biogenesis. Cell walls of S. anginosus cultured in a multispecies biofilm were thicker than in a monospecies biofilm, without antibiotic challenge. S. aureus, when cultured in a multispecies biofilm, does not respond to vancomycin treatment with cell wall thickening. Conclusions: Growth in multispecies biofilms can have an impact on the expression of genes related to cell wall synthesis and on the cell wall thickness of S. anginosus.

Effects of Ag and Ag2S nanoparticles on denitrification in sediments.

The widespread use of commercial silver nanoparticles (Ag NPs) inevitably results in their increased release into natural waters and subsequent deposition in sediments, requiring the environmental impact of such deposition to be closely investigated. Hence, the effects of Ag NPs, polyvinylpyrrolidone (PVP)-Ag NPs, and sliver sulfide nanoparticles (Ag2S NPs) on denitrification-induced gas production (N2O and 15N-N2), and denitrifying microbes in freshwater sediments were investigated. Slurry experiments (8 h) combined with a 15NO3- addition technique were performed to determine the gaseous production. The abundance of relative functional genes (nirK, nirS and nosZ) and the composition of functional community were determined through RT-PCR and high-throughput sequencing, respectively. The obtained results showed that the toxicity of NPs on denitrification depended on their type (Ag+ > Ag NPs > PVP-Ag NPs > Ag2S NPs) and concentration, e.g., all 1 mg/L NPs exhibited no effects on denitrification, whereas evident hormesis effect-induced acceleration was observed in the case of Ag+. Conversely, 10 mg/L Ag+ and Ag NPs significantly inhibited the release rates of N2O and N2 by decreasing the abundance of functional genes (nirK and/or nirS) and the predominant bacteria Paracoccus. PVP-Ag and Ag2S NPs had no effects on N2 release rates and the composition of denitrifiers, however, inhibited the emission of N2O (by reducing the abundance of nirK), suggesting that normal denitrification-induced N2 formation in sediments could still be sustained when the N2O production decrease lied within a certain range. Further, the inhibiting ability of Ag-containing NPs was caused by their intrinsic nanotoxicity to functional microbes rather than by the general toxicity of Ag+. Besides, Ag2S NPs (as a main detoxification form of AgNPs) were revealed to be intrinsically nanotoxic to denitrifiers, albeit showing the lowest inhibitory effect among the three tested NPs. Thus, this study demonstrated that the inhibitory effect of Ag-containing NPs on denitrification in sediments depends on their morphology and type, implying that the stability and toxicity of Ag-containing NPs should be considered with caution.

Lack of efficacy of Lactobacillus GG in reducing pulmonary exacerbations and hospital admissions in children with cystic fibrosis: A randomised placebo controlled trial.

BACKGROUND: Intestinal dysbiosis has been described in Cystic Fibrosis (CF) and probiotics have been proposed to restore microbial composition. Aim of the study was to investigate the effects of Lactobacillus rhamnosus GG (LGG) on clinical outcomes in children with cystic fibrosis (CF). METHODS: A multicentre, randomised double-blind, clinical trial was conducted in children with CF. After 6months of baseline assessment, enrolled children (2 to 16years of age) received Lactobacillus GG (6×109CFU/day) or placebo for 12months. Primary outcomes were proportion of subjects with at least one pulmonary exacerbation and hospitalisation over 12months. Secondary endpoints were total number of exacerbations and hospitalisations, pulmonary function, and nutritional status. RESULTS: Ninety-five patients were enrolled (51/95 female; median age of 103±50months). In a multivariate GEE logistic analysis, the odds of experiencing at least one exacerbation was not significantly different between the two groups, also after adjusting for the presence of different microbial organisms and for the number of pulmonary exacerbations within 6months before randomisation (OR 0.83; 95% CI 0.38 to 1.82, p=0.643). Similarly, LGG supplementation did not significantly affect the odds of hospitalisations (OR 1.67; 95% CI 0.75 to 3.72, p=0.211). No significant difference was found for body mass index and FEV1. CONCLUSIONS: LGG supplementation had no effect on respiratory and nutritional outcomes in this large study population of children with CF under stringent randomised clinical trial conditions. Whether earlier interventions, larger doses, or different strains of probiotics may be effective is unknown.

Biodegradation of dispersed oil in seawater is not inhibited by a commercial oil spill dispersant.

Chemical dispersants are well-established as oil spill response tools. Several studies have emphasized their positive effects on oil biodegradation, but recent studies have claimed that dispersants may actually inhibit the oil biodegradation process. In this study, biodegradation of oil dispersions in natural seawater at low temperature (5°C) was compared, using oil without dispersant, and oil premixed with different concentrations of Slickgone NS, a widely used oil spill dispersant in Europe. Saturates (nC10-nC36 alkanes), naphthalenes and 2- to 5-ring polycyclic aromatic hydrocarbons (PAH) were biotransformed at comparable rates in all dispersions, both with and without dispersant. Microbial communities differed primarily between samples with or without oil, and they were not significantly affected by increasing dispersant concentrations. Our data therefore showed that a common oil spill dispersant did not inhibit biodegradation of oil at dispersant concentrations relevant for response operations.

Effects of different substrates/growth media on microbial community of saliva-derived biofilm.

The aims of this study were to investigate the effects of substrates (glass versus hydroxyapatite [HA]) and growth media (SHI medium versus a modified artificial saliva medium with cysteine) on the microbial community of saliva-derived biofilm in vitro. 16S rRNA gene sequencing technology was used to analyze the microbial community of saliva-derived biofilm cultured for 72 h anaerobically. The metagenomes of biofilms were predicted from the clusters of orthologous groups. No significant difference was found between the saliva-derived biofilms grown on HA and glass in ACE, Chao, Shannon and Simpson indices. The abundances of only a few bacteria on HA were significantly different from those on glass with a low relative abundance (<0.5%). Compared with the biofilms developed in a modified artificial saliva medium with cysteine, biofilms in SHI medium were significantly higher (P < 0.05) in diversity. Linear discriminant analysis coupled with effect size measurement showed that some obligate anaerobic genera (Lactobacillus, Veillonella, Porphyromonas and Leptotrichia) were more abundant in SHI medium biofilms. The biofilms grown in different media were also significantly different in predicted gene categories. In conclusion, the growth media, not the substrates, have significant effects on the microbial community of saliva-derived biofilm in vitro.

How do physicochemical properties influence the toxicity of silver nanoparticles on freshwater decomposers of plant litter in streams?

AgNP physicochemical properties may affect AgNP toxicity, but their effects on plant litter decomposition and the species driving this key ecosystem process in freshwaters have been poorly investigated. We assessed the impacts of AgNPs with different size and surface coating (100nm PVP (polyvinylpyrrolidone)-dispersant, 50-60nm and 35nm uncoated) on freshwater decomposers of leaf litter by exposing leaf associated microbial assemblages to increasing concentrations of AgNPs (up to 200mgL-1) and of AgNO3 (up to 25mgL-1). We further conducted a feeding preference experiment with a common invertebrate shredder, Limnephilus sp., which was allowed to feed on microbially-colonized leaves previously exposed to AgNPs and AgNO3. Leaf decomposition and microbial activity and diversity were inhibited when exposed to increased concentrations of 100nm AgNPs (≥25mgL-1), while microbial activity was stimulated by exposure to 35nm AgNPs (≥100mgL-1). Invertebrate shredders preferred leaves exposed to 35nm AgNPs (25mgL-1) and avoided leaves exposed to AgNO3 (≥2mgL-1). Results from the characterization of AgNPs by dynamic light scattering revealed that AgNps with PVP-dispersant were more stable than the uncoated AgNPs. Our results highlight the importance of considering the physicochemical properties of NPs when assessing their toxicity to litter decomposers in freshwaters.

Benzene degradation in a denitrifying biofilm reactor: activity and microbial community composition.

Benzene is an aromatic compound and harmful for the environment. Biodegradation of benzene can reduce the toxicological risk after accidental or controlled release of this chemical in the environment. In this study, we further characterized an anaerobic continuous biofilm culture grown for more than 14 years on benzene with nitrate as electron acceptor. We determined steady state degradation rates, microbial community composition dynamics in the biofilm, and the initial anaerobic benzene degradation reactions. Benzene was degraded at a rate of 0.15 µmol/mg protein/day and a first-order rate constant of 3.04/day which was fourfold higher than rates reported previously. Bacteria belonging to the Peptococcaceae were found to play an important role in this anaerobic benzene-degrading biofilm culture, but also members of the Anaerolineaceae were predicted to be involved in benzene degradation or benzene metabolite degradation based on Illumina MiSeq analysis of 16S ribosomal RNA genes. Biomass retention in the reactor using a filtration finger resulted in reduction of benzene degradation capacity. Detection of the benzene carboxylase encoding gene, abcA, and benzoic acid in the culture vessel indicated that benzene degradation proceeds through an initial carboxylation step.

Characterization of microbial population of breba and main crops (Ficus carica) during cold storage: Influence of passive modified atmospheres (MAP) and antimicrobial extract application.

The purpose of this work was to study the changes of bacterial and fungal population of breba fruits such as 'Banane' and 'San Antonio' as well as 'Cuello Dama Negro', 'Cuello Dama Blanco' and 'San Antonio' fig cultivars stored in passive modified atmospheres (MAP) by the use of three different microperforated films (M10 with 16 holes; M30 with five holes and M50 with three holes). Moreover the effects of the application of aqueous soy polyphenolic antimicrobial extract (APE), alone or combined with MAP, were also studied for 'Cuello Dama Negro' and 'Cuello Dama Blanco' fig cultivars. Bacteria and fungi isolates were identified by PCR-RFLP of 16S rRNA and ITS regions, respectively, and subsequently sequence of the different patterns obtained. The results indicated that Pseudomonas gessardii, Pantoea agglomerans and Enterobacter asburiae were the main species of bacteria found in all the treatments studied. The fungal species identified were Aureobasidium pulullans, Cladosporium cladosporioides and Alternaria alternata, which were found in a lower percentage in fruit stored in MAP and fruits treated with antimicrobial extracts, as this treatments allowed to reduce the microbial growth of moulds and yeasts. Thus, the application of treatments such as M30, M50 or the combination of MAP with antimicrobial extract was highly effective to control fruit spoilage in fig and breba crops.

Effect of nickel on the flocculability, settleability, and dewaterability of activated sludge.

Short-term and long-term effects of nickel (Ni) (0.1-10mg/L) on the physicochemical properties of activated sludge, including the flocculability, settleability, and dewaterability, were investigated. It was found that these properties were unaffected after short-term exposure (1day) to Ni(II) even at the level of 10mg/L. After long-term exposure (60days) to 1 and 10mg/L of Ni(II), however, the sludge flocculability has seriously deteriorated, while the settleability, and dewaterability became gradually better than the control. The mechanism studies revealed that long-term exposure to Ni(II) resulted in the decrease of protein content in extracellular polymeric substances (EPS) and the damage to EPS structures. Although Ni(II) did not bring any adverse effect on the cell membrane, the relative hydrophobicity of activated sludge was significantly decreased. The negative effects on the flocculability and phosphorus removal performance of activated sludge could be completely eliminated by adding the chelator such as EDTA and citrate.

An investigation into the effects of silver nanoparticles on natural microbial communities in two freshwater sediments.

The expanding production and usage of commercial silver nanoparticles (AgNPs) will inevitably increase their environmental release, with sediments as a substantial sink. However, little knowledge is available about the potential impacts of AgNPs on freshwater sediment microbial communities, as well as the interactions between microbial communities and biogeochemical factors in AgNPs polluted sediment. To address these issues, two different sediments: a eutrophic freshwater sediment and an oligotrophic freshwater sediment, were exposed to 1 mg/g of either AgNO3, uncoated AgNPs (35-nm and 75-nm), or polyvinylpyrrolidone coated AgNPs (PVP-AgNPs) (30-50 nm) for 45 days. High-throughput sequencing of 16S ribosomal ribonucleic acid (16S rRNA) genes using the Illumina MiSeq platform was conducted to evaluate the effects of Ag addition on bacterial community composition. Moreover, sediment microbial biomass and activity were assessed by counting cultivable bacterial number and determining enzyme activities. During the 45-day exposure, compared with no amendment control, some treatments had resulted in significant changes and alterations of sediment biomass or bacterial enzyme activities shortly. While the microbial components at phylum level were rarely affected by AgNPs addition, and as confirmed by the statistical analysis with two-factor analysis of similarities (ANOSIM), there were no significant differences on bacterial community structure across the amended treatments. Redundancy analysis further demonstrated that chemical parameters acid-volatile sulfide (AVS) and simultaneously extracted silver (SE-Ag) in sediment significantly structured the overall bacterial community in sediments spiked with various silver species. In summary, these findings suggested that the ecotoxicity of AgNPs may be attenuated by the transformation under complex environmental conditions and the self-adaption of sediment microbial communities.

Polyphenolic extracts of cherry (Prunus cerasus L.) and blackcurrant (Ribes nigrum L.) leaves as natural preservatives in meat products.

The objective of this study was to evaluate the possibility of using polyphenolic extracts from cherry and blackcurrant leaves as natural antimicrobial agents in meat products. The polyphenolic composition of the extracts was analyzed and their impact on the microbial quality, lipid oxidation, color, and sensory evaluation of pork sausages was studied. Polyphenolic extracts were obtained from leaves collected in September. The total polyphenolic content in sour cherry leaf extract was 1.5 times higher than that found in blackcurrant leaf extract. Analysis of the polyphenol profile of each extract revealed two major groups: phenolic acids and flavonoids, including epigallocatechin and glycosides of quercetin and kaempferol. After chilling the sausages for 14 and 28 days, the extracts caused significantly lower MDA generation, indicating an antioxidant effect. Color changes after 28 days of storage were perceptible in the case of all treatments, with and without polyphenols. The application of sour cherry and black currant leaf extracts increased the shelf life of vacuum-packed sausages. Both extracts enhanced the microbial quality of the pork sausages over 14 days of refrigerated storage. Sour cherry leaf polyphenols were more effective against almost all studied groups of microorganisms.

Microbial Community and Greenhouse Gas Fluxes from Abandoned Rice Paddies with Different Vegetation.

The area of rice paddy fields has declined continuously in East Asian countries due to abandonment of agriculture and concurrent socioeconomic changes. When they are abandoned, rice paddy fields generally transform into wetlands by natural succession. While previous studies have mainly focused on vegetation shifts in abandoned rice paddies, little information is available about how these changes may affect their contribution to wetland functions. As newly abandoned fields proceed through succession, their hydrology and plant communities often change. Moreover, the relationships between these changes, soil microbial characteristics, and emissions of greenhouse gasses are poorly understood. In this study, we examined changes over the course of secondary succession of abandoned rice paddies to wetlands and investigated their ecological functions through changes in greenhouse gas fluxes and microbial characteristics. We collected gas and soil samples in summer and winter from areas dominated by Cyperaceae, Phragmites, and Sphagnum in each site. We found that CO2 emissions in summer were significantly higher than those in winter, but CH4 and N2O emission fluxes were consistently at very low levels and were similar among seasons and locations, due to their low nutrient conditions. These results suggest that microbial activity and abundance increased in summer. Greenhouse gas flux, soil properties, and microbial abundance were not affected by plant species, although the microbial community composition was changed by plant species. This information adds to our basic understanding of the contribution of wetlands that are transformed from abandoned rice paddy systems.