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Hydrophilic and hydrophobic organic compounds extracted from 13C-labelled maize residues were incubated with soils to evaluate their mineralization and priming effect (PE) caused by their utilization by microbial groups. Two soils with contrasting soil properties were collected from well-drained upland and water-logged paddy. Mineralization of the 13C-labelled fractions and their PE were quantified by monitoring the CO2 efflux and 13C enrichment during a 40-day incubation. The composition of main microbial groups (bacteria and fungi) involved in the utilization of 13C-labelled fractions was determined based on phospholipid fatty acids (PLFAs) analysis. At the initial stage (6–24 h), hydrophilic fraction had faster mineralization rate (3.6–70 times) and induced 1.5–10 times stronger PE (positive in upland soil and negative in paddy soil) than those of hydrophobic fraction. The 13C-PLFAs data showed that the incorporation of hydrophilic fraction into bacteria was 11.4–16.4 times greater than that into fungi, whereas the hydrophobic fraction incorporated into fungi was 1.0–1.5 times larger than that into bacteria at day 2. This indicated greater contributions of r-strategists (fast-growing bacteria) for the uptake of hydrophilic fraction versus K-strategists (slow-growing fungi) for hydrophobic fraction. Compared with K-strategists, the r-strategists possessed a much faster metabolism and thus triggered stronger apparent PE by accelerating microbial biomass turnover, resulting in higher mineralization and stronger PE for the hydrophilic than hydrophobic fraction. The slower and less mineralization of both fractions in paddy than in upland soils is due to the suppression of microbial activity and substrate utilization under flooding. At the end of 40-day incubation, the cumulative mineralization of hydrophilic and hydrophobic fractions was similar. Consequnently, microbial mechanisms underlying the utilization of organic compounds with contrasting solubility (hydrophilic or hydrophobic) are crucial for evaluating the stabilization and destabilization (e.g., priming) processes of soil organic matter.

Rice is a worldwide staple food and heavy metal contamination is often reported in rice production. Heavy metal can originate from natural sources or be present through anthropogenic contamination. Therefore, this review summarizes the current status of heavy metal contamination in paddy soil and plants, highlighting the mechanism of uptake, bioaccumulation, and health risk assessment. A scoping search employing Google Scholar, Science Direct, Research Gate, Scopus, and Wiley Online was carried out to build up the review using the following keywords: heavy metals, absorption, translocation, accumulation, uptake, biotransformation, rice, and human risk with no restrictions being placed on the year of study. Cadmium (Cd), arsenic (As), and lead (Pb) have been identified as the most prevalent metals in rice cultivation. Mining and irrigation activities are primary sources, but chemical fertilizer and pesticide usage also contribute to heavy metal contamination of paddy soil worldwide. Further to their adverse effect on the paddy ecosystem by reducing the soil fertility and grain yield, heavy metal contamination represents a risk to human health. An in-depth discussion is further offered on health risk assessments by quantitative measurement to identify potential risk towards heavy metal exposure via rice consumption, which consisted of in vitro digestion models through a vital ingestion portion of rice.

Although cumulative N2O emissions are greater in the winter fallow season than in the rice-growing period, the mechanisms by which the emissions affect fallow paddy fields remain unclear. We aimed to identify N2O flux characteristics and illustrate how key nirS-, nirK- and nosZ-containing denitrifiers affect N2O emission levels in acidic fallow paddy soil. Five water-filled pore space (WFPS) levels were set at 25%, 50%, 75%, 100% and 125%, respectively. During the 48-h-long, high-flux incubation period, the N2O flux was the highest in soil samples with 75% WFPS, followed by those with 100% WFPS. The size of nirS-containing denitrifier community was more sensitive to the shifts in soil moisture and showed a stronger correlation with N2O flux than that of nirK-containing denitrifiers, whereas higher N2O concentrations induced an increase in the levels of nosZ-containing bacteria. After incubation for 48 h, nirK- and nosZ-denitrifying bacterial composition varied remarkably under 50%, 75%, and 100% WFPS treatments. However, the composition of nirS-containing denitrifying bacterial community gradually varied with an increase in soil moisture from 25% to 100% WFPS. Certain dominant OTUs of nirK- nirS- and nosZ-containing denitrifiers were highly abundant, especially under treatments of 50%, 75% and 100% WFPS, which were closely associated with the N2O flux. Thus, nirK, nirS and nosZ-containing denitrifiers respond to soil moisture differently, and enriched species might mainly be involved in controlling N2O flux in fallow paddy soils via denitrification, while the abundance of nirS-containing denitrifiers might affect N2O emission levels more significantly than that of nirK-containing denitrifiers.

Rice straw (RS) was incorporated into paddy soil together with leguminous green manure (e.g., Chinese milk vetch, Astragalus sinicus L., MV) in a mesocosm-scale experiment and the enzyme activity and composition of main microbial groups were measured. Mixing MV and RS caused a synergistic release of residual C and N, leading to a low C/N ratio at the middle and late decomposition stages of the mixture and shortening the time to complete decomposition. Furthermore, the highest abundances of Gram-negative (G−) bacteria and fungi and the highest activities of α- and β-glucosidase, β-cellobiosidase, β-xylosidase, N-acetyl-glucosaminidase, and acid phosphomonoesterase were observed in the residue mixture, especially at the middle and late stages of the experiment. The residue decomposition rate was positively correlated with residual N and mineral N concentrations. Most hydrolases and both oxidase (phenol oxidase and peroxidase) activities, and G− bacterial (especially 18:1 ω5c, Photobacterium) abundance explained the decomposition of mixing residues. In conclusion, co-incorporation of MV and RS could stimulate their decomposition by retaining a relatively low C/N ratio, enhancing G− bacterial abundance and hydrolase activities. Introducing leguminous green manures in paddy fields may be an effective way to accelerate the decomposition of rice straw.

Rice is a staple food by an increasing number of people in China. As more issues have arisen in China due to rice contaminated by cadmium (Cd), Cd contamination in arable soils has become a severe problem. In China, many studies have examined Cd contamination in arable soils on a national scale, but little studies have focused on the distribution of Cd in paddy fields. This study explored the spatial pattern of Cd in paddy soils in China, made a preliminary evaluation of the potential risk, and identified the most critically contaminated regions based on the domestic rough rice trade flow. The results showed that Cd concentrations in paddy soils in China ranged from 0.01 to 5.50 mg/kg, with a median value of 0.23 mg/kg. On average, the highest Cd concentrations were in Hunan (0.73 mg/kg), Guangxi (0.70 mg/kg), and Sichuan (0.46 mg/kg) provinces. Cd concentrations in paddy soils in central and western regions were higher than those in eastern regions, especially the southeastern coastal regions. Of the administrative regions, Cd standard exceedance rate was 33.2 %, and the heavy pollution rate was 8.6 %. Regarding to Cd of paddy soil, soil environmental quality was better in Northeast China Plain than in Yangtze River Basin and southeastern coastal region. Mining activities were the main anthropogenic pollution source of Cd in Chinese paddy soil. Based on rice trade, more of the Chinese population would be exposed to Cd through intake of rice produced in Hunan province. Certain regions that output rice, especially Hunan province, should be given priority in the management and control of Cd contamination in paddy soil.

Phosphorus (P) cycling in paddy soil is closely related to iron (Fe) redox wheel; its availability to rice has thus generally been ascribed to Fe minerals reductive dissolution. However, the literature aimed to identify the best method for predicting rice available P does not uniformly point to Fe reductants. Rice plants can indeed solubilize and absorb P through many strategies as a function of P supply, modifying the chemical environment. Therefore, this study aims to estimate P availability in paddy soils coupling the redox mechanisms driving P cycling with concurrent plant responses. Soil available P was estimated in three groups of paddy soils with low, medium, or high P content assessing easily desorbable pools (0.01 M calcium chloride, Olsen, Mehlich-III, anion exchanging resins) and Fe-bound P pools (EDTA, citrate-ascorbate, and oxalate). Rice P uptake and responses to P availability were assessed by a mesocosm cultivation trial. Although P released in porewater positively correlated with dissolved Fe(II), it did not with plant P uptake, and readily desorbable P pools were better availability predictors than Fe-bound pools, mainly because of the asynchrony observed between Fe reduction and plant P demand. Moreover, in low P soils, plants showed higher Fe(II) oxidation, enhanced root growth, and up-regulation of P root transporter encoding genes, plant responses being related with changes in P pools. These results indicate the generally assumed direct link between Fe reduction and rice P nutrition in paddy soils as an oversimplification, with rice P nutrition appearing as the result of a complex trade-off between soil redox dynamics, P content, and plant responses.

Irrigated and rain-fed rice fields are unique agroecosystems and anthropogenic wetlands whose main feature is seasonal flooding. Flooded soils are characterized by spatiotemporal shifts and oscillation of the oxygen status and redox potential, sustaining varieties of microbial metabolisms, where bacteria and methanogenic archaea play principal roles and thus have been the major research targets. In this review, we focus on the diversity and ecology of protists—often overlooked biological entities—in wetland rice field soils. Protists with different ecological functions, i.e., phagotrophs, phototrophs, saprotrophs, and parasites, inhabit a rice field soil with a community- and individual-level adaptation to the wide range of oxygen tensions and redox potential. Other agricultural managements like fertilization and char application also influence the protist community. They link to the material cycling in rice soil and affect the activities and community composition of the microorganisms involved in the biogeochemical cycles. Rice roots are the hot spot for protists, which control the rhizospheric bacterial community and could increase the plant productivity through enhancing nutrient release and altering bacterial activities. This review highlights the essential roles of protists in a wetland rice field soil and needs for further research to fill the gaps in knowledge regarding the diversity and functions of the protists in this unique agroecosystem.

Agriculture wastes returning to soil is one of common ways to reuse crop straws in China. The returned straws are expected to improve the fertility and structural stability of soil during the degradation of straw it selves. The in situ effect of different straw (wheat, rice, maize, rape, and broad bean) applications for soil aggregate stability and soil organic carbon (SOC) distribution were studied at both dry land soil and paddy soil in this study. Wet sieving procedures were used to separate soil aggregate sizes. Aggregate stability indicators including mean weight diameter, geometric mean diameter, mean weight of specific surface area, and the fractal dimension were used to evaluate soil aggregate stability after the incubation of straws returning. Meanwhile, the variation and distribution of SOC in different-sized aggregates were further studied. Results showed that the application of straws, especially rape straw at dry land soil and rice straw at paddy soil, increased the fractions of macro-aggregate (> 0.25 mm) and micro-aggregate (0.25–0.053 mm). Suggesting the nutrients released from straw degradation promotes the growing of soil aggregates directly and indirectly. The application of different straws increased the SOC content at both soils and the SOC mainly distributed at < 0.53 mm aggregates. However, the contribution of SOC in macro- and micro-aggregates increased. Straw-applied paddy soil have a higher total SOC content but lower SOC contents at > 0.25 and 0.25–0.053 mm aggregates with dry land soil. Rape straw in dry land and rice straw in paddy field could stabilize soil aggregates and increasing SOC contents best.

Background and Aims Abandonment of paddy fields is a significant threat to soil organic carbon (SOC) stocks owing to the associated shift from anaerobic to aerobic conditions. However, the impact of this transition on the dynamics of soil total nitrogen (TN) and its relationship with SOC in bulk soil and soil aggregates remains unclear. Methods A long-term experiment was conducted to examine abandoned paddy fields with different fertilizer treatments over a 16-year period before abandonment, followed by an 8-year period after abandonment. Results The abandonment of paddy fields led to a significant decrease in TN content by an average of 14.0%, resulting in a mean annual loss rate of 0.08 t N ha −1 . The loss of TN was as sensitive as that of SOC, and there was a positive correlation between SOC and TN in both bulk soil and soil aggregates. The loss of SOC and TN was mainly caused by reductions in the middle- and micro-aggregate-associated SOC and TN, which together explained approximately 87.3% of C loss and 81.3% of N loss. The weaker protective capacity of soil aggregates (> 53 μm) was evidenced by a significant decrease in aggregate-associated C (average of 8.7%) and N (average of 9.1%). Abandonment maintained stoichiometric stability, with bulk soil C:N ratios ranging from 9.4 to 9.6 following abandonment. Conclusions Paddy soil aggregate-associated SOC and TN were sensitive to loss owing to the weaker protective capacity of soil aggregates following the abandonment of paddy fields. The C:N ratios remained relatively consistent after abandonment.

In order to mitigate methane emissions from paddy fields, it is important to understand the sources and sinks. Most paddy fields are heavily fertilized with nitrite and nitrate, which can be used as electron acceptors by anaerobic methanotrophs. Here we show that slurry incubations of Italian paddy field soil with nitrate and 13C-labelled methane have the potential for nitrate-dependent anaerobic oxidation of methane (79.9 nmol g−1 dw d−1). Community analysis based on 16S rRNA amplicon sequencing and qPCR of the water-logged soil and the rhizosphere showed that anaerobic oxidation of methane-associated archaea (AAA), including Methanoperedens nitroreducens, comprised 9% (bulk soil) and 1% (rhizosphere) of all archaeal reads. The NC10 phylum bacteria made up less than 1% of all bacterial sequences. The phylogenetic analysis was complemented by qPCR showing that AAA ranged from 0.28 × 106 to 3.9 × 106 16S rRNA gene copies g−1 dw in bulk soil and 0.27 × 106 to 2.8 × 106 in the rhizosphere. The abundance of NC10 phylum bacteria was an order of magnitude lower. Revisiting published diversity studies, we found that AAA have been detected, but not linked to methane oxidation, in several paddy fields. Our data suggest an important role of AAA in methane cycling in paddy fields. Italian paddy soil contains a considerable population of anaerobic methane oxidizing archaea.