Effects of mercury stress on methylmercury production in rice rhizosphere, methylmercury uptake in rice and physiological changes of leaves

Converting flooded rice to dry farming can alleviate MeHg accumulation in grains

The study explored the impact of water management on rice cultivation in mercury-contaminated paddy soil. The objective was to analyze the characteristics of mercury translocation by converting flooded soils to dry farming (non-flooded) to alleviate mercury accumulation in rice grains. The experiment was conducted over three consecutive rice-growing seasons, employing two distinct water management models: a continuously flooded rice cultivation mode and a flooded rice planting mode in the first season, followed by a non-flooded rice farming mode in the second and third seasons. The results showed that the change from flooded to non-flooded rice cultivation patterns presented extremely excellent environmental potential for inhibiting the uptake of both methylmercury and total mercury in rice. When transitioning from flooded cultivation to dry farming, the concentration of methylmercury and total mercury in the grains of non-flooded rice decreased by 87.15 % and 9.57 %, respectively, compared to that in the grains of flooded rice. In the third season, the methylmercury and total mercury in the grains of non-flooded rice decreased further by 95.03 % and 69.45 %, respectively. This study verified that the conversion of rice cultivation from flooded to non-flooded is an efficient strategy for suppressing the accumulation of methylmercury in rice grains, and it might offer a promising solution for managing soil mercury risks and ensuring the safety of rice for human consumption.

The duality of sulfate-reducing bacteria: Reducing methylmercury production in rhizosphere but enhancing accumulation in rice plants

Sulfate-reducing bacteria (SRB) are known to alter methylmercury (MeHg) production in paddy soil, but the effect of SRB on MeHg dynamics in rhizosphere and rice plants remains to be fully elucidated. The present study investigated the impact of SRB on MeHg levels in unsterilized and γ-sterilized mercury-polluted paddy soils, with the aim to close this knowledge gap. Results showed that the presence of SRB reduced MeHg production by ∼22 % and ∼17 % in the two soils, but elevated MeHg contents by approximately 55 % and 99 % in rice grains, respectively. Similar trend at smaller scales were seen in roots and shoots. SRB inoculation exerted the most profound impact on amino acid metabolism in roots, with the relative response of L-arginine positively linking to MeHg concentrations in rhizosphere. The SRB-induced enrichment of MeHg in rice plants may be interpreted by the stronger presence of endophytic nitrogen-related microbes (e.g. Methylocaldum, Hyphomicrobium and Methylocystis) and TGA transcription factors interacting with glutathione metabolism and calmodulin. Our study provides valuable insights into the complex effects of SRB inoculation on MeHg dynamics in rice ecosystems, and may help to develop strategies to effectively control MeHg accumulation in rice grains.

Pan-transcriptomic analysis reveals alternative splicing control of cold tolerance in rice

Plants have evolved complex mechanisms to adapt to harsh environmental conditions. Rice (Oryza sativa) is a staple food crop that is sensitive to low temperatures. However, its cold stress responses remain poorly understood, thus limiting possibilities for crop engineering to achieve greater cold tolerance. In this study, we constructed a rice pan-transcriptome and characterized its transcriptional regulatory landscape in response to cold stress. We performed Iso-Seq and RNA-Seq of 11 rice cultivars subjected to a time-course cold treatment. Our analyses revealed that alternative splicing-regulated gene expression plays a significant role in the cold stress response. Moreover, we identified CATALASE C (OsCATC) and Os03g0701200 as candidate genes for engineering enhanced cold tolerance. Importantly, we uncovered central roles for the 2 serine-arginine-rich proteins OsRS33 and OsRS2Z38 in cold tolerance. Our analysis of cold tolerance and resequencing data from a diverse collection of 165 rice cultivars suggested that OsRS2Z38 may be a key selection gene in japonica domestication for cold adaptation, associated with the adaptive evolution of rice. This study systematically investigated the distribution, dynamic changes, and regulatory mechanisms of alternative splicing in rice under cold stress. Overall, our work generates a rich resource with broad implications for understanding the genetic basis of cold response mechanisms in plants.

Suppression of mercury methylation in soil and methylmercury accumulation in rice by dissolved organic matter derived from sulfur-rich rape straw

Straw amendment significantly enhances mercury (Hg) methylation and subsequent methylmercury (MeHg) bioaccumulation in Hg-contaminated paddy fields by releasing dissolved organic matter (DOM). This study comprehensively investigates the regulatory mechanisms of DOM and its different molecular weights derived from sulfur-rich rape straw (RaDOM) and composted rape straw (CRaDOM) applied in the rice-filling stage on soil MeHg production and subsequent bioaccumulation in rice grains. The results indicated that the amendment of RaDOM and CRaDOM significantly reduced soil MeHg content by 42.40-62.42%. This reduction can be attributed to several factors, including the suppression of Hg-methylating bacteria in soil, the supply of sulfate from RaDOM and CRaDOM, and the increase in the humification, molecular weight, and humic-like fractions of soil DOM. Additionally, adding RaDOM increased the MeHg bioaccumulation factor in roots by 27.55% while inhibiting MeHg transportation by 12.24% and ultimately reducing MeHg content in grains by 21.24% compared to the control group. Similarly, CRaDOM enhanced MeHg accumulation by 25.19%, suppressed MeHg transportation by 39.65%, and reduced MeHg levels in the grains by 27.94%. The assimilation of sulfate derived from RaDOM and CRaDOM into glutathione may be responsible for the increased retention of MeHg in the roots. Over the three days, there was a significant decrease in soil MeHg content as the molecular weight of RaDOM increased; conversely, altering the molecular weight of CRaDOM demonstrated an inverse trend. However, this pattern was not observed after 12 days. Applying sulfur-rich rape DOM can help mitigate MeHg accumulation in paddy fields by regulating the quality of soil DOM, sulfur cycling, and Hg-methylating bacteria.

Selenium- and chitosan-modified biochars reduce methylmercury contents in rice seeds with recruiting Bacillus to inhibit methylmercury production

Biochar could reshape microbial communities, thereby altering methylmercury (MeHg) concentrations in rice rhizosphere and seeds. However, it remains unclear whether and how biochar amendment perturbs microbe-mediated MeHg production in mercury (Hg) contaminated paddy soil. Here, we used pinecone-derived biochar and its six modified biochars to reveal the disturbance. Results showed that selenium- and chitosan-modified biochar significantly reduced MeHg concentrations in the rhizosphere by 85.83% and 63.90%, thereby decreasing MeHg contents in seeds by 86.37% and 75.50%. The two modified bicohars increased the abundance of putative Hg-resistant microorganisms Bacillus, the dominant microbe in rhizosphere. These reductions about MeHg could be facilitated by biochar sensitive microbes such as Oxalobacteraceae and Subgroup_7. Pinecone-derived biochar increased MeHg concentration in rhizosphere but unimpacted MeHg content in seeds was observed. This biochar decreased the abundance in Bacillus but enhanced in putative Hg methylator Desulfovibrio. The increasing MeHg concentration in rhizosphere could be improved by biochar sensitive microbes such as Saccharimonadales and Clostridia. Network analysis showed that Saccharimonadales and Clostridia were the most prominent keystone taxa in rhizosphere, and the three biochars manipulated abundances of the microbes related to MeHg production in rhizosphere by those biochar sensitive microbes. Therefore, selenium- and chitosan-modified biochar could reduce soil MeHg production by these microorganisms, and is helpful in controlling MeHg contamination in rice.

Combined exposure of PVC-microplastic and mercury chloride (HgCl2) in sorghum (Pennisetum glaucum L.) when its seeds are primed titanium dioxide nanoparticles (TiO2-NPs)

The present work studied the impact of different levels of PVC-microplastics (PVC-MPs), namely 0 (no PVC-MPs), 2, and 4 mg L-1, along with mercury (Hg) levels of 0 (no Hg), 10, and 25 mg kg-1 in the soil, while concurrently applying titanium dioxide-nanoparticles (TiO2-NPs) at 0 (no TiO2-NPs), 50, and 100 µg mL-1 to sorghum (Pennisetum glaucum L.) plants. This study aimed to examine plant growth and biomass, photosynthetic pigments and gas exchange characteristics, oxidative stress indicators, and the response of various antioxidants (enzymatic and non-enzymatic) and their specific gene expression, proline metabolism, the AsA-GSH cycle, and cellular fractionation in the plants. The research outcomes indicated that elevated levels of PVC-MPs and Hg stress in the soil notably reduced plant growth and biomass, photosynthetic pigments, and gas exchange attributes. However, PVC-MPs and Hg stress also induced oxidative stress in the roots and shoots of the plants by increasing malondialdehyde (MDA), hydrogen peroxide (H2O2), and electrolyte leakage (EL) which also induced increased compounds of various enzymatic and non-enzymatic antioxidants and also the gene expression and sugar content. Furthermore, a significant increase in proline metabolism, the AsA-GSH cycle, and the pigmentation of cellular components was observed. Although, the application of TiO2-NPs showed a significant increase in plant growth and biomass, gas exchange characteristics, enzymatic and non-enzymatic compounds, and their gene expression and also decreased oxidative stress. In addition, the application of TiO2-NPs enhanced cellular fractionation and decreased the proline metabolism and AsA-GSH cycle in P. glaucum plants. These results open new insights for sustainable agriculture practices and hold immense promise in addressing the pressing challenges of heavy metal contamination in agricultural soils.

Microbial community function and methylmercury production in oxygen-limited paddy soil

Methylmercury is a neurotoxic compound that can enter rice fields through rainfall or irrigation with contaminated wastewater, and then contaminate the human food chain through the consumption of rice. Flooded paddy soil has a porous structure that facilitates air exchange with the atmosphere, but the presence of trace amounts of oxygen in flooded rice field soil and its impact on microbial-mediated formation of methylmercury is still unclear. We compared the microbial communities and their functions in oxygen-depleted and oxygen-limited paddy soil. We discovered that oxygen-limited paddy soil had higher methylmercury concentration, which was strongly correlated with soil properties and methylation potential. Compared with oxygen-depleted soil, oxygen-limited soil altered the microbial composition based on 16 S rRNA sequences, but not based on hgcA sequences. Moreover, oxygen-limited soil enhanced microbial activity significantly, increasing the abundance of more than half of the KEGG pathways, especially the metabolic pathways that might be involved in methylation. Our study unveils how microbial communities influence methylmercury formation in oxygen-limited paddy soil. ENVIRONMENTAL IMPLICATIONS: This study examined how low oxygen input affects microbial-induced MeHg formation in anaerobic paddy soil. We found that oxygen-limited soil produced more MeHg than oxygen-depleted soil. Oxygen input altered the microbial community structure of 16 S rRNA sequencing in anaerobic paddy soil, but had little impact on the hgcA sequencing community structure. Microbial activity and metabolic functions related to MeHg formation were also higher in oxygen-limited paddy soil. We suggest that oxygen may not be a limiting factor for Hg methylators, and that insufficient oxygen input in flooded paddy soil increases the risk of human exposure to MeHg from rice consumption.

Bacterial assemblages imply methylmercury production at the rice-soil system

The plant microbiota can affect plant health and fitness by promoting methylmercury (MeHg) production in paddy soil. Although most well-known mercury (Hg) methylators are observed in the soil, it remains unclear how rice rhizosphere assemblages alter MeHg production. Here, we used network analyses of microbial diversity to identify bulk soil (BS), rhizosphere (RS) and root bacterial networks during rice development at Hg gradients. Hg gradients greatly impacted the niche-sharing of taxa significantly relating to MeHg/THg, while plant development had little effect. In RS networks, Hg gradients increased the proportion of MeHg-related nodes in total nodes from 37.88% to 45.76%, but plant development enhanced from 48.59% to 50.41%. The module hub and connector in RS networks included taxa positively (Nitrososphaeracea, Vicinamibacteraceae and Oxalobacteraceae) and negatively (Gracilibacteraceae) correlating with MeHg/THg at the blooming stage. In BS networks, Deinococcaceae and Paludibacteraceae were positively related to MeHg/THg, and constituted the connector at the reviving stage and the module hub at the blooming stage. Soil with an Hg concentration of 30 mg kg-1 increased the complexity and connectivity of root microbial networks, although microbial community structure in roots was less affected by Hg gradients and plant development. As most frequent connector in root microbial networks, Desulfovibrionaceae did not significantly correlate with MeHg/THg, but was likely to play an important role in the response to Hg stress.

Differentially-expressed genes related to glutathione metabolism and heavy metal transport reveals an adaptive, genotype-specific mechanism to Hg2+ exposure in rice (Oryza sativa L.)

Rice consumption is an essential cause of mercury (Hg) exposure for humans in Asia. However, the mechanism of Hg transport and accumulation in rice plants (Oryza sativa L.) remains unclear. Here, rice genotypes with contrasting Hg uptake and translocation abilities, i.e. H655 (high Hg-accumulator) and H767 (low Hg-accumulator), were selected from 261 genotypes. Through comparative physiological and transcriptome analyses, we investigated the processes responsible for the relationship between Hg accumulation, transport and tolerance. The results showed significant stimulation of antioxidative metabolism, particularly glutathione (GSH) accumulation, and up-regulated expression of regulatory genes of glutathione metabolism for H655, but not for H767. In addition, up-regulated expression of GSH S-transferase (GST) and OsPCS1 in H655 that catalyzes the binding of Hg and GSH, enhances the Hg detoxification capacity, while high-level expression of YSL2 in H655 enhances the transport ability for Hg. Conclusively, Hg accumulation in rice is a consequence of enhanced expression of genes related to Hg binding with GSH and Hg transport. With these results, the present study contributes to the selection of rice genotypes with limited Hg accumulation and to the mitigation of Hg migration in food chains thereby enhancing nutritional safety of Hg-polluted rice fields.

Integrated genomics and transcriptomics reveal the extreme heavy metal tolerance and adsorption potentiality of Staphylococcus equorum

In this study, we successfully isolated 11 species of cadmium-tolerant bacterium from Pu-erh rhizosphere soil, of which Staphylococcus equorum PU1 showed the highest cadmium tolerance, with a minimum inhibitory concentration (MIC) value of 500 mg/L. The cadmium removal efficiency of PU1 in 400 mg/L cadmium medium reached 58.7 %. Based on the Nanopore PromethION and Illumina NovaSeq platforms, we successfully obtained the complete PU1 genome with a size of 2,705,540 bp, which encoded 2729 genes. We further detected 82 and 44 indel mutations in the PU1 genome compared with the KS1039 and KM1031 genomes from the database. Transcriptional analysis showed that the expression of 11 genes in PU1 increased with increasing cadmium concentrations (from 0 to 200, then to 400 mg/L), which encoded cadmium resistance, cadmium transport, and mercury resistance genes. In addition, some genes showed differential expression patterns with changes in cadmium concentration, including quinone oxidoreductase-like protein, ferrous iron transport protein, and flavohemoprotein. Gene Ontology (GO) functions, including oxidation reduction process and oxidoreductase activity functions, and KEGG pathways, including glycolysis/gluconeogenesis and biosynthesis of secondary metals, were also considered closely related to the extreme cadmium tolerance of PU1. This study provides novel insight into the cadmium tolerance mechanism of bacteria.

Elevated CO2 may increase the health risks of consuming leafy vegetables cultivated in flooded soils contaminated with Cd and Pb

Elevated CO₂ levels threat the crop quality by altering the environmental behavior of heavy metals (HMs) in soils. In reality, multiple HMs often co-exist in field, while details regarding coexisting HMs migration in flooded soil at elevated CO₂ levels remain unclear. A pot experiment in open-top chambers (CO₂ at 400 and 600 μmol mol^-1) was conducted to explore the uptake and transfer of cadmium (Cd) and lead (Pb) in water dropwort (Oenanthe javanica DC.) grown in flooded soils contaminated with Cd and Pb. Results showed that elevated CO₂ significantly reduced soil pH, promoting the release of Cd and Pb (by 63.64-106.90% and 10.66-30.99%, respectively) into soil porewater. In the harvested O. javanica, elevated CO₂ decreased the root uptake of Cd but promoted that of Pb. Further mechanism analysis showed that elevated CO₂ promoted the formation of iron plaque on root surface by 44.60-139.57%, with lower adsorption capacity to HMs (0-34.93% and 63.61-67.69% for Cd and Pb, respectively). Meanwhile, Pb showed lower adsorbability in iron plaque but higher transfer capacity when compared with Cd. Ultimately, elevated CO₂ increased the target hazard quotient values of Pb in O. javanica. These findings provide new insights on the effects of elevated CO₂ on the transfer of coexisting HMs in soil-plant system, and the risk of HMs pollution under climate changes needs to be more fully assessed.

Nano mercury selenide as a source of mercury for rice

Mercury (Hg) is a persistent and toxic metal while mercury selenide (HgSe) is generally considered as the environmental sink of Hg in its biogeochemical cycle. Recent studies found nano-sized HgSe (nano-HgSe) could be transformed by certain bacteria. This raises safety concerns about the application of selenium (Se) to curb Hg contamination in farmlands. Therefore, hydroponic experiments were performed in which rice plants were cultured with different concentrations of nano-HgSe and micro-sized HgSe (micro-HgSe) to explore their bioavailability and toxicity. It was found that both nano-HgSe and micro-HgSe did not affect the germination of rice seeds but affected the growth of rice seedlings. However, nano-HgSe could be more readily absorbed by roots and transferred to the aboveground parts compared to micro-HgSe. The highest Hg and Se levels were found to be 5255.67 ± 2496.14 μg/g and 1743.75 ± 61.87 μg/g, respectively in roots when exposed to 5000 mg/L nano-HgSe. Besides, small portion (1.2%) of methylmercury (MeHg) to total Hg was found accumulated in rice stem when exposed to 100 mg/L nano-HgSe, suggesting that nano-HgSe could be decomposed. Furthermore, nano-HgSe exposure brought oxidative damage to rice with decreased chlorophyll content and GSH-Px activity. In all, nano-HgSe was found to be more absorbable, transportable and methylated in rice plant compared to micro-HgSe. This suggests that although Se application in Hg contaminated farmland is an effective way to reduce the bioavailability of Hg, the risk of the possible remobilization of HgSe should not be neglected. Besides, the finding that nano-HgSe can act as an environmental source of Hg for plants deepens the understanding of biogeochemical cycle of Hg. More works are required to study the factors affecting the formation of nano-HgSe in the environment and the mechanisms of Hg methylation in rice plants after exposure to nano-HgSe.

Changes in Microbial Diversity, Soil Function, and Plant Biomass of Cotton Rhizosphere Soil Under the Influence of Chlorpyrifos

Chlorpyrifos (CPF), a common organophosphorus pesticide, is extensively used in agricultural practices. However, we lack sound evidence for the linkage between soil microbial diversity, soil function, and plant biomass under the influence of CPF, which prevents us from assessing the actual impact of CPF on agricultural production. In this study, we used high-throughput sequencing to test the effects of CPF on soil microbial diversity, soil function, and cotton biomass in indoor pot experiments. The use of CPF leads to a significant reduction in cotton biomass until the concentration of CPF used reaches 15 mg kg^-1, and the cotton biomass is no longer significantly reduced. Compared with the original soil, the alpha-diversity of bacteria, which was significantly linearly related to cotton biomass, was significantly decreased when the soil was treated with 15 mg kg^-1 CPF. Affected by CPF, the overall soil microbial composition has changed significantly. Acidobacteria, Nitrospirae, Planctomycetes, and Actinobacteria were significantly regulated after CPF treatment. Correspondingly, key soil functions, including nitrogen metabolism and iron (III) transporter, have been significantly down-regulated. The reduction of nitrogen and Fe³⁺ should deprive the cotton of essential nutrients during the short crop cycle and thus affect cotton biomass. Our study provides experimental evidence that CPF affects cotton rhizosphere soil microbial diversity, the relative content of key bacterial genera, and soil function, which shows that it has an important impact on plant biomass, and provides a reference for studying the actual impact of CPF on the environment and agricultural production.

Roles of plant-associated microorganisms in regulating the fate of Hg in croplands: A perspective on potential pathways in maintaining sustainable agriculture

In heavy metal-contaminated croplands, plant-associated microorganisms play important roles in the adaptation of crops to heavy metals. Plant-associated microbes can interact with Hg and stimulate plant resistance to Hg toxicity, which is crucial for impeding Hg accumulation along the food chain. The roles of rhizosphere microorganisms for the improvement of plant growth and Hg resistance have drawn great research attention. However, the interactions among plant-endophyte-Hg have been neglected although they might be important for in vivo Hg detoxification. In this study, we systematically summarized 1) the roles of plant-associated microorganisms in Hg detoxification and plant growth, 2) Hg methylation and demethylation driven by plant-associated microbes, 3) the relationships between plant-associated microbes and Hg biogeochemical cycling. The possible mechanisms underlying crop-endophyte-Hg interactions were discussed, although limited studies on this aspect are available to date. The challenges and perspectives of plant-endophytes in dampening Hg phytotoxicity and controlling Hg accumulation in croplands were proposed on the basis of the present knowledge. Taken together, this work provides evidence for further understanding the interactions between soil-plant-endophyte-Hg systems and as well as new interpretations and perspectives into regulating the fate of Hg in croplands.

microRNAs: Key Players in Plant Response to Metal Toxicity

Environmental metal pollution is a common problem threatening sustainable and safe crop production. Heavy metals (HMs) cause toxicity by targeting key molecules and life processes in plant cells. Plants counteract excess metals in the environment by enhancing defense responses, such as metal chelation, isolation to vacuoles, regulating metal intake through transporters, and strengthening antioxidant mechanisms. In recent years, microRNAs (miRNAs), as a small non-coding RNA, have become the central regulator of a variety of abiotic stresses, including HMs. With the introduction of the latest technologies such as next-generation sequencing (NGS), more and more miRNAs have been widely recognized in several plants due to their diverse roles. Metal-regulated miRNAs and their target genes are part of a complex regulatory network. Known miRNAs coordinate plant responses to metal stress through antioxidant functions, root growth, hormone signals, transcription factors (TF), and metal transporters. This article reviews the research progress of miRNAs in the stress response of plants to the accumulation of HMs, such as Cu, Cd, Hg, Cr, and Al, and the toxicity of heavy metal ions.

Lake snow as a mercury methylation micro-environment in the oxic water column of a deep peri-alpine lake

Hg methylation in the oxic water column of marine environments has been linked to the presence of suspended and settling particles known as marine snow, which acts as a micro-niche for MeHg production. While marine snow has been thoroughly studied, its freshwater counterpart, lake snow, received less attention, even though few works have highlighted its ability to be a micro environment for Hg methylation in freshwater systems. Here we present new data of MeHg and THg concentrations in the lake snow of a deep peri-alpine lake (Lake Geneva, Switzerland-France). Particles were sampled from the lake and from its main tributaries using continuous flow filtration and continuous flow centrifugation, respectively. MeHg concentrations ranged from 0.48 ± 0.09 ng/g to 9.61 ± 0.67 ng/g in the lake particles, and from 0.30 ± 0.08 ng/g to 2.41 ± 0.14 ng/g in tributary particles. Our results suggest that lake snow is a likely micro-niche for Hg methylation, like marine snow, and that this methylation takes place inside the particles with a subsequent diffusion to the water column. Moreover, we propose a conceptual model to explain the MeHg behavior related to the lake snow along Lake Geneva water column and a mass balance model to estimate the time required to reach the steady state of MeHg in the water column. Our calculation indicates that the steady-state is reached after 37 days. This result is compatible with particles residence times from the literature on Lake Geneva. These particles forming the lake snow are probably a major entry point into the lake's food chain.

Fishing capacity evaluation of fishing vessel based on cloud model

In the evaluation problem of fishing vessel fishing capacity, the imperfect evaluation index system and the methods of evaluation indexes are mostly artificial qualitative evaluation methods, which lead to strong subjectivity and fuzziness as well as low accuracy of evaluation results. Therefore, this study introduces cloud model theory on the basis of improving the evaluation index system, converts the artificial qualitative evaluation results into the digital characteristics of clouds, realizes the mutual transformation of qualitative evaluation and quantitative evaluation, and improves the accuracy of evaluation results. Taking the trawler as an example, the cloud model method is used to evaluate the fishing capacity, and the result obtained is (77.1408, 1.6897, 0.0), the result obtained by the fuzzy comprehensive evaluation method is 76.664785, and the result obtained by the cloud center of gravity evaluation method is 0.7919. Compared with the other two methods, the cloud model method uses three numerical characteristics to describe the results, and combining the different numerical characteristics meanings, the evaluation results can be judged to be accurate, and the influence of ambiguity on the results is greatly reduced. Meanwhile, the evaluation results can be presented in the form of pictures, and the results are more intuitive; in addition, the cloud model of the evaluation results is compared with the standard cloud model for similarity, which improves the credibility and authenticity of the results.