Regulation of sulfate uptake and assimilation--the same or not the same?

High-Altitude Open-Pit Coal Mining has Changed the Sulfur Cycle and Ecological Network of Plant Rhizosphere Microorganisms

Ecological restoration of mining sites has a considerable effect on microbial community dynamics; however, its impact on sulfur cycling is unclear. This study explored the changes in functional genes related to sulfur cycling and microbial diversity during different stages of succession following the ecological restoration of a mining site in a cold arid area. A total of three succession stages were selected-natural, secondary, and artificial. The expression of sulfur cycle-related genes and associated microbial drivers was investigated using metagenomics and network analysis. The dominant bacteria in the secondary succession were found to be r-strategy-adopting Proteobacteria and Cyanobacteria. Natural succession primarily comprised Aspergillus and Thermus, whereas artificial succession comprised Proteobacteria, Chlorophyta, and Actinobacteria. Mining disturbances were determined to significantly reduce the abundance of sulfur-cycling archaea. Secondary succession was primarily influenced by soil total phosphorus in the sulfur-cycle gene network. The key bacteria and archaea involved in the sulfur cycle were found to be Bradyrhizobium and Nitrosopumilus, respectively. The abundance of Streptomyces was significantly higher in natural succession than in artificial or secondary succession. Burkholderia, which has biological control and bioremediation effects, was abundant during artificial succession. These results provide a theoretical basis for restoring the sulfur cycle and promoting a positive succession of ecosystems in mining areas.

Extracellular Vesicle-Driven Crosstalk between Legume Plants and Rhizobia: The Peribacteroid Space of Symbiosomes as a Protein Trafficking Interface

Prokaryotes and eukaryotes secrete extracellular vesicles (EVs) into the surrounding milieu to preserve and transport elevated concentrations of biomolecules across long distances. EVs encapsulate metabolites, DNA, RNA, and proteins, whose abundance and composition fluctuate depending on environmental cues. EVs are involved in eukaryote-to-prokaryote communication owing to their ability to navigate different ecological niches and exchange molecular cargo between the two domains. Among the different bacterium-host relationships, rhizobium-legume symbiosis is one of the closest known to nature. A crucial developmental stage of symbiosis is the formation of N2-fixing root nodules by the plant. These nodules contain endocytosed rhizobia─called bacteroids─confined by plant-derived peribacteroid membranes. The unrestricted interface between the bacterial external membrane and the peribacteroid membrane is the peribacteroid space. Many molecular aspects of symbiosis have been studied, but the interbacterial and interdomain molecule trafficking by EVs in the peribacteroid space has not been questioned yet. Here, we unveil intensive EV trafficking within the symbiosome interface of several rhizobium-legume dual systems by developing a robust EV isolation procedure. We analyze the EV-encased proteomes from the peribacteroid space of each bacterium-host partnership, uncovering both conserved and differential traits of every symbiotic system. This study opens the gates for designing EV-based biotechnological tools for sustainable agriculture.

Nutritional convergence in plants growing on gypsum soils in two distinct climatic regions

BACKGROUND AND AIMS

Soil endemics have long fascinated botanists owing to the insights they can provide about plant ecology and evolution. Often, these species have unique foliar nutrient composition patterns that reflect potential physiological adaptations to these harsh soil types. However, understanding global nutritional patterns to unique soil types can be complicated by the influence of recent and ancient evolutionary events. Our goal was to understand whether plant specialization to unique soils is a stronger determinant of nutrient composition of plants than climate or evolutionary constraints.

METHODS

We worked on gypsum soils. We analysed whole-plant nutrient composition (leaves, stems, coarse roots and fine roots) of 36 native species of gypsophilous lineages from the Chihuahuan Desert (North America) and the Iberian Peninsula (Europe) regions, including widely distributed gypsum endemics, as specialists, and narrowly distributed endemics and non-endemics, as non-specialists. We evaluated the impact of evolutionary events and soil composition on the whole-plant composition, comparing the three categories of gypsum plants.

KEY RESULTS

Our findings reveal nutritional convergence of widely distributed gypsum endemics. These taxa displayed higher foliar sulphur and higher whole-plant magnesium than their non-endemic relatives, irrespective of geographical location or phylogenetic history. Sulphur and magnesium concentrations were mainly explained by non-phylogenetic variation among species related to gypsum specialization. Other nutrient concentrations were determined by more ancient evolutionary events. For example, Caryophyllales usually displayed high foliar calcium, whereas Poaceae did not. In contrast, plant concentrations of phosphorus were mainly explained by species-specific physiology not related to gypsum specialization or evolutionary constraints.

CONCLUSIONS

Plant specialization to a unique soil can strongly influence plant nutritional strategies, as we described for gypsophilous lineages. Taking a whole-plant perspective (all organs) within a phylogenetic framework has enabled us to gain a better understanding of plant adaptation to unique soils when studying taxa from distinct regions.

The impact of single and combined amendment of elemental sulphur and graphene oxide on soil microbiome and nutrient transformation activities

Background

Sulphur (S) deficiency has emerged in recent years in European soils due to the decreased occurrence of acid rains. Elemental sulphur (S0) is highly beneficial as a source of S in agriculture, but it must be oxidized to a plant-accessible form. Micro- or nano-formulated S0 may undergo accelerated transformation, as the oxidation rate of S0 indirectly depends on particle size. Graphene oxide (GO) is a 2D-carbon-based nanomaterial with benefits as soil amendment, which could modulate the processes of S0 oxidation. Micro-and nano-sized composites, comprised of S0 and GO, were tested as soil amendments in a pot experiment with unplanted soil to assess their effects on soil microbial biomass, activity, and transformation to sulphates. Fourteen different variants were tested, based on solely added GO, solely added micro- or nano-sized S0 (each in three different doses) and on a combination of all S0 doses with GO.

Results

Compared to unamended soil, nano-S0 and nano-S0+GO increased soil pH(CaCl2). Micro-S0 (at a dose 4 g kg-1) increased soil pH(CaCl2), whereas micro-S0+GO (at a dose 4 g kg-1) decreased soil pH(CaCl2). The total bacterial and ammonium oxidizer microbial abundance decreased due to micro-S0 and nano-S0 amendment, with an indirect dependence on the amended dose. This trend was alleviated by the co-application of GO. Urease activity showed a distinct response to micro-S0+GO (decreased value) and nano-S0+GO amendment (increased value). Arylsulfatase was enhanced by micro-S0+GO, while sulphur reducing bacteria (dsr) increased proliferation due to high micro-S0 and nano-S0, and co-amendment of both with GO. In comparison to nano-S0, the amendment of micro-S0+GO more increased soluble sulphur content more significantly.

Conclusions

Under the conditions of this soil experiment, graphene oxide exhibited a significant effect on the process of sulphur oxidation.

Bio sulfur granules developed with Methylobacterium thiocyanatum promoted black gram growth and yield in sulfur-deficient calcareous vertisol

High soil pH and excess CaCO3 are major contributors to calcareous soil limitations on crops' access to essential nutrients, especially phosphorus (P) and micronutrients, which in turn impact pulses yields and growth. The purpose of this study was to determine the effect of bio sulfur granules (BSG) on the growth of black gram and the availability of nutrients in calcareous vertisols deficient in sulfur. BSG was developed by using sulfur-oxidizing bacteria (SOB) and elemental sulfur (ES) through an incubation study. Developed BSG was tested in a pot and field conditions to evaluate their effectiveness on black gram growth and yield. In the incubation study, soil treated with Methylobacterium thiocyanatum VRI7-A4 and ES (40 kg S/ha) significantly decreased pH and increased available S (SO42-) in calcareous soils. After 40 days of incubation, the solubility of P, Fe, and Zn was greatly increased by the addition of ES @ 40 kg S/ ha in combination with M. thiocyanatum VRI7-A4 or Pandoraea thiooxydans ATSB16. Black gram in S-deficient calcareous soil was improved by the application of BSG (ES @ 40 kg S/ ha with M. thiocyanatum VRI7-A7) in terms of root and shoot lengths, nodule number, plant biomass, pod yield, and biological yield as compared to control. The same treatment greatly increased plant nutrient intake as well as the concentrations of P, Fe, and Zn in the soil. The results showed that the addition of BSG granules (ES @ 40 kg S/ha + M. thiocyanatum VRI7-A4) to calcareous vertisol deficient in S enhanced the nutrient solubility through S oxidation. The developed bio sulfur granules may be added to the fertilizer schedule of the pulses growers to get improved crop growth and yield of black gram in calcareous soil.

Genome-Wide Identification of the Sulfate Transporters Gene Family in Blueberry (Vaccinium spp.) and Its Response to Ericoid Mycorrhizal Fungi

Sulfur metabolism plays a major role in plant growth and development, environmental adaptation, and material synthesis, and the sulfate transporters are the beginning of sulfur metabolism. We identified 37 potential VcSULTR genes in the blueberry genome, encoding peptides with 534 to 766 amino acids. The genes were grouped into four subfamilies in an evolutionary analysis. The 37 putative VcSULTR proteins ranged in size from 60.03 to 83.87 kDa. These proteins were predicted to be hydrophobic and mostly localize to the plasma membrane. The VcSULTR genes were distributed on 30 chromosomes; VcSULTR3;5b and VcSULTR3;5c were the only tandemly repeated genes. The VcSULTR promoters contained cis-acting elements related to the fungal symbiosis and stress responses. The transcript levels of the VcSULTRs differed among blueberry organs and changed in response to ericoid mycorrhizal fungi and sulfate treatments. A subcellular localization analysis showed that VcSULTR2;1c localized to, and functioned in, the plasma membrane and chloroplast. The virus-induced gene knock-down of VcSULTR2;1c resulted in a significantly decreased endogenous sulfate content, and an up-regulation of genes encoding key enzymes in sulfur metabolism (VcATPS2 and VcSiR1). These findings enhance our understanding of mycorrhizal-fungi-mediated sulfate transport in blueberry, and lay the foundation for further research on blueberry-mycorrhizal symbiosis.

Sulfate reduction behavior in response to landfill dynamic pressure changes

During the long-term stabilization process of landfills, the pressure field undergoes constant changes. This study constructed dynamic pressure changes scenarios of high-pressure differentials (0.6 MPa) and low-pressure differentials (0.2 MPa) in the landfill pressure field at 25 °C and 50 °C, and investigated the sulfate reduction behavior in response to landfill dynamic pressure changes. The results showed that the pressurization or depressurization of high-pressure differentials caused more significant differences in sulfate reduction behavior than that of low-pressure differentials. The lowest hydrogen sulfide (H2S) release peak concentration under pressurization was only 29.67% of that under initial pressure condition; under depressurization, the highest peak concentration of H2S was up to 21,828 mg m-3, posing a serious risk of H2S pollution. Microbial community and correlation analysis showed that pressure had a negative impact on the sulfate-reducing bacteria (SRB) community, and the SRB community adjusted its structure to adapt to pressure changes. Specific SRBs were further enriched with pressure changes. Differential H2S release behavior under pressure changes in the 25 °C pressure environments were mediated by Desulfofarcimen (ASV343) and Desulfosporosinus (ASV1336), while Candidatus Desulforudis (ASV24) and Desulfohalotomaculum (ASV94) played a key role at 50 °C. This study is helpful in the formulation of control strategies for the source of odor pollution in landfills.

The serine-glycine-one-carbon metabolic network orchestrates changes in nitrogen and sulfur metabolism and shapes plant development

L-serine (Ser) and L-glycine (Gly) are critically important for the overall functioning of primary metabolism. We investigated the interaction of the phosphorylated pathway of Ser biosynthesis (PPSB) with the photorespiration-associated glycolate pathway of Ser biosynthesis (GPSB) using Arabidopsis thaliana PPSB-deficient lines, GPSB-deficient mutants, and crosses of PPSB with GPSB mutants. PPSB-deficient lines mainly showed retarded primary root growth. Mutation of the photorespiratory enzyme Ser-hydroxymethyltransferase 1 (SHMT1) in a PPSB-deficient background resumed primary root growth and induced a change in the plant metabolic pattern between roots and shoots. Grafting experiments demonstrated that metabolic changes in shoots were responsible for the changes in double mutant development. PPSB disruption led to a reduction in nitrogen (N) and sulfur (S) contents in shoots and a general transcriptional response to nutrient deficiency. Disruption of SHMT1 boosted the Gly flux out of the photorespiratory cycle, which increased the levels of the one-carbon (1C) metabolite 5,10-methylene-tetrahydrofolate and S-adenosylmethionine. Furthermore, disrupting SHMT1 reverted the transcriptional response to N and S deprivation and increased N and S contents in shoots of PPSB-deficient lines. Our work provides genetic evidence of the biological relevance of the Ser-Gly-1C metabolic network in N and S metabolism and in interorgan metabolic homeostasis.

The nitrate transporter-sensor MtNPF6.8 regulates the branched chain amino acid/pantothenate metabolic pathway in barrel medic (Medicago truncatula Gaertn.) root tip

Nitrogen is the most limiting nutrient for plants, and it is preferentially absorbed in the form of nitrate by roots, which adapt to nitrate fluctuations by remodelling their architecture. Although core mechanisms of the response to nitrate availability are relatively well-known, signalling events controlling root growth and architecture have not all been identified, in particular in Legumes. However, the developmental effect of nitrate in Legumes is critical since external nitrate not only regulates root architecture but also N2-fixing nodule development. We have previously shown that in barrel medic (Medicago truncatula), the nitrate transporter MtNPF6.8 is required for nitrate sensitivity in root tip. However, uncertainty remains as to whether nitrogen metabolism itself is involved in the MtNPF6.8-mediated response. Here, we examine the metabolic effects of MtNPF6.8-dependent nitrate signalling using metabolomics and proteomics in WT and mtnpf6.8 root tips in presence or absence of nitrate. We found a reorchestration of metabolism due to the mutation, in favour of the branched chain amino acids/pantothenate metabolic pathway, and lipid catabolism via glyoxylate. That is, the mtnpf6.8 mutation was likely associated with a specific rerouting of acetyl-CoA production (glyoxylic cycle) and utilisation (pantothenate and branched chain amino acid synthesis). In agreement with our previous findings, class III peroxidases were confirmed as the main protein class responsive to nitrate, although in an MtNPF6.8-independent fashion. Our data rather suggest the involvement of other pathways within mtnpf6.8 root tips, such as Ca2+ signalling or cell wall methylation.

The crucial elements for lettuce (Lactuca sativa L.) growth under DMA stress and the linkage with DMA behavior: A new application of ionome

Dimethylarsinic acid (DMA) is one of the common arsenic (As) species present in soil and is more toxic to plants than others. Identifying the crucial elements for plant growth under DMA stress is essential to enhance plant tolerance to DMA. Herein, we provided for the first time an ionome-based approach to address this issue. The phenotype, As species and concentrations of 11 essential elements in lettuce tissues were monitored under exposures of 0.1, 0.5, 1, 2, 5 mg L-1 DMA in hydroponic culture for 32 days. Lettuces remained normal (no significant difference in phenotype from the control) under 0.1-2 mg L-1 DMA stress, and were inhibited with fresh weights of leaf and root under 5 mg L-1 DMA stress. Integrating the difference in ionome profiles between the two growth states (normal and inhibited) and the responses of the individual element, Mg and S were clarified as the most possible candidates for the crucial elements for lettuce growth under DMA stress. Under 5 mg L-1 DMA stress, the accumulation of Mg and S declined, yet their BCF values were significantly increased, which was consistent with the change in BCF of DMA. Based on the physiological functions of Mg and S and the toxicity of DMA, it could be inferred that the enhanced transfer of Mg and S to leaves should be induced by the potential damage caused by the increased DMA accumulation in leaves, and would result in a shortage of both elements in roots as well as the growth inhibition.

Impact of foliar spray with Se, nano-Se and sodium sulfate on growth, yield and metabolic activities of red kidney bean

Sulfur (S) is an essential microelement for plants. Based on the chemical similarity between Se and S, selenium may affects sulphur uptake by plants. This work aimed at investigating the effect of foliar spray with sodium selenate, gum arabic coated selenium nanoparticles (GA-SeNPs ≈ 48.22 nm) and sodium sulfate on red kidney bean (Phaseolus vulgaris L.) plants. Each treatment was used at 0.0, 1, 5, 10 and 50 µM, alone or combination of sodium sulfate with either Se or nano-Se, each at 0.5, 2.5 and 5 µM concentrations. The effect of foliar spray on vegetative growth, seed quality, and some metabolic constituents of red kidney bean (Phaseolus vulgaris L.) plants were investigated. Selenium nanoparticles have been synthesized through the green route using gum arabic (as a stabilizing and coating agent. Foliar application of different concentrations of Se, nano-Se, Na2SO4 up to 10 μM and their interaction were effective in increasing the growth criteria (i.e. shoot and root lengths, plant fresh and dry weights, number of leaves and photosynthetic area (cm2 plant-1).There was also a significant increase in photosynthetic pigment contents, yield (i.e., 100-seed weight), total carbohydrate, crude proteins and mineral contents in both leaf as compared to their untreated control plants. Furthermore, interaction between sodium sulfate with nano-Se or Se, each at 5 µM significantly increased the vegetative growth, 100-seed weight, and pigment contents in leaves and improved the nutritional value and quality of red kidney bean seeds.

Melatonin Reverses High-Temperature-Stress-Inhibited Photosynthesis in the Presence of Excess Sulfur by Modulating Ethylene Sensitivity in Mustard

Melatonin is a pleiotropic, nontoxic, regulatory biomolecule with various functions in abiotic stress tolerance. It reverses the adverse effect of heat stress on photosynthesis in plants and helps with sulfur (S) assimilation. Our research objective aimed to find the influence of melatonin, along with excess sulfur (2 mM SO42-), in reversing heat stress's impacts on the photosynthetic ability of the mustard (Brassica juncea L.) cultivar SS2, a cultivar with low ATP-sulfurylase activity and a low sulfate transport index (STI). Further, we aimed to substantiate that the effect was a result of ethylene modulation. Melatonin in the presence of excess-S (S) increased S-assimilation and the STI by increasing the ATP-sulfurylase (ATP-S) and serine acetyltransferase (SAT) activity of SS2, and it enhanced the content of cysteine (Cys) and methionine (Met). Under heat stress, melatonin increased S-assimilation and diverted Cys towards the synthesis of more reduced glutathione (GSH), utilizing excess-S at the expense of less methionine and ethylene and resulting in plants' reduced sensitivity to stress ethylene. The treatment with melatonin plus excess-S increased antioxidant enzyme activity, photosynthetic-S use efficiency (p-SUE), Rubisco activity, photosynthesis, and growth under heat stress. Further, plants receiving melatonin and excess-S in the presence of norbornadiene (NBD; an ethylene action inhibitor) under heat stress showed an inhibited STI and lower photosynthesis and growth. This suggested that ethylene was involved in the melatonin-mediated heat stress reversal effects on photosynthesis in plants. The interaction mechanism between melatonin and ethylene is still elusive. This study provides avenues to explore the melatonin-ethylene-S interaction for heat stress tolerance in plants.

Different nitrogen acquirement and utilization strategies might determine the ecological competition between ferns and angiosperms

BACKGROUND AND AIMS

The abundance or decline of fern populations in response to environmental change has been found to be largely dependent on specific physiological properties that distinguish ferns from angiosperms. Many studies have focused on water use efficiency and stomatal behaviours, but the effects of nutrition acquirement and utilization strategies on niche competition between ferns and flowering plants are rarely reported.

METHODS

We collected 34 ferns and 42 angiosperms from the Botanic Garden of Hokkaido University for nitrogen (N), sulphur (S), NO3- and SO42- analysis. We then used a hydroponic system to compare the different N and S utilization strategies between ferns and angiosperms under N deficiency conditions.

KEY RESULTS

Ferns had a significantly higher NO3--N concentration and NO3--N/N ratio than angiosperms, although the total N concentration in ferns was remarkably lower than that in the angiosperms. Meanwhile, a positive correlation between N and S was found, indicating that nutrient concentration is involved in assimilation. Pteris cretica, a fern species subjected to further study, maintained a slow growth rate and lower N requirement in response to low N stress, while both the biomass and N concentration in wheat (Triticum aestivum) responded quickly to N deficiency conditions.

CONCLUSIONS

The different nutritional strategies employed by ferns and angiosperms depended mainly on the effects of phylogenetic and evolutionary diversity. Ferns tend to adopt an opportunistic strategy of limiting growth rate to reduce N demand and store more pooled nitrate, whereas angiosperms probably utilize N nutrition to ensure as much development as possible under low N stress. Identifying the effects of mineral nutrition on the evolutionary results of ecological competition between plant species remains a challenge.

Selection of oat (Avena sativa L.) drought-tolerant genotypes based on multiple yield-associated traits

BACKGROUND

Most plant breeding and agricultural practices are based on selecting genotypes for yield. However, this is inadequate to screen crop varieties for specific attributes, such as drought tolerance. In this study, we quantified the response of oat (Avena sativa L.) plant physiological and morphological traits to drought stress and selected some key traits to establish a genotype by yield*trait (GYT)-based method for ranking 30 oat genotypes. The effectiveness of this method was also evaluated under drought conditions.

RESULTS

Water-deficit treatment significantly reduced leaf chlorophyll, root morphological traits, groat yield and associated components, such as mean grain weight. We observed that the genotypes 'JUSTICE' and 'BOLINA' had the smallest and largest yield loss, respectively, after exposure to drought stress, but showed opposite trends in the biomass allocation of roots and grains. This indicated that drought tolerance was highly dependent on the distribution of photoassimilates. Our results also illustrated that the GYT method is a trade-off approach and more effective in selecting oat ideotypes under drought conditions than the yield-related index method because it combines yield, yield stability, and related agronomic traits in the calculation process.

CONCLUSION

Drought-tolerant genotypes had more biomass allocated to roots and grains with higher chlorophyll content and better root structure, e.g. longer root lengths than drought-sensitive lines. By integrating yield and yield-related traits, the GYT approach is more practical than traditional single-trait selection methods when assessing drought tolerance. © 2023 His Majesty the King in Right of Canada. Journal of The Science of Food and Agriculture published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry. Reproduced with the permission of the Minister of Agriculture and Agri-Food Canada.

New insights into the regulation of plant metabolism by O-acetylserine: sulfate and beyond

Under conditions of sulfur deprivation, O-acetylserine (OAS) accumulates, which leads to the induction of a common set of six genes, called OAS cluster genes. These genes are induced not only under sulfur deprivation, but also under other conditions where OAS accumulates, such as shift to darkness and stress conditions leading to reactive oxygen species (ROS) or methyl-jasmonate accumulation. Using the OAS cluster genes as a query in ATTED-II, a co-expression network is derived stably spanning several hundred conditions. This allowed us not only to describe the downstream function of the OAS cluster genes but also to score for functions of the members of the co-regulated co-expression network and hence the effects of the OAS signal on the sulfate assimilation pathway and co-regulated pathways. Further, we summarized existing knowledge on the regulation of the OAS cluster and the co-expressed genes. We revealed that the known sulfate deprivation-related transcription factor EIL3/SLIM1 exhibits a prominent role, as most genes are subject to regulation by this transcription factor. The role of other transcription factors in response to OAS awaits further investigation.

Autophagy and multivesicular body pathways cooperate to protect sulfur assimilation and chloroplast functions

Autophagy and multivesicular bodies (MVBs) represent 2 closely related lysosomal/vacuolar degradation pathways. In Arabidopsis (Arabidopsis thaliana), autophagy is stress-induced, with deficiency in autophagy causing strong defects in stress responses but limited effects on growth. LYST-INTERACTING PROTEIN 5 (LIP5) is a key regulator of stress-induced MVB biogenesis, and mutation of LIP5 also strongly compromises stress responses with little effect on growth in Arabidopsis. To determine the functional interactions of these 2 pathways in Arabidopsis, we generated mutations in both the LIP5 and AUTOPHAGY-RELATED PROTEIN (ATG) genes. atg5/lip5 and atg7/lip5 double mutants displayed strong synergistic phenotypes in fitness characterized by stunted growth, early senescence, reduced survival, and greatly diminished seed production under normal growth conditions. Transcriptome and metabolite analysis revealed that chloroplast sulfate assimilation was specifically downregulated at early seedling stages in the atg7/lip5 double mutant prior to the onset of visible phenotypes. Overexpression of adenosine 5'-phosphosulfate reductase 1, a key enzyme in sulfate assimilation, substantially improved the growth and fitness of the atg7/lip5 double mutant. Comparative multi-omic analysis further revealed that the atg7/lip5 double mutant was strongly compromised in other chloroplast functions including photosynthesis and primary carbon metabolism. Premature senescence and reduced survival of atg/lip5 double mutants were associated with increased accumulation of reactive oxygen species and overactivation of stress-associated programs. Blocking PHYTOALEXIN DEFICIENT 4 and salicylic acid signaling prevented early senescence and death of the atg7/lip5 double mutant. Thus, stress-responsive autophagy and MVB pathways play an important cooperative role in protecting essential chloroplast functions including sulfur assimilation under normal growth conditions to suppress salicylic-acid-dependent premature cell-death and promote plant growth and fitness.

Mercury and methylmercury in Hg-contaminated paddy soil and their uptake in rice as regulated by DOM from different agricultural sources

In this study, from the perspectives of structural and compositional variations of soil-dissolved organic matter (DOM), we explored the effects of agricultural DOM inputs on methylmercury (MeHg) accumulation in the soil and mercury (Hg) bioaccumulation in rice grains. Pot experiments with the addition of DOMs from maize straw (MaS), rape straw (RaS), rice straw (RiS), composted rice straw (CRiS), cow dung (CD), and composted cow dung (CCD) were then conducted. Results showed that, relative to the control, the DOM amendment from each agricultural source elevated MeHg concentrations in the soil, with an increase of 18-227%, but only parts of DOMs elevated total dissolved Hg (DHg) and MeHg (DMeHg) concentrations in pore water. Among all DOM species, RiS, CRiS, and CCD significantly increased total Hg (THg) and MeHg contents in rice grains by 34-64% and 32-118%, respectively. Compared with RiS, THg and MeHg contents in rice grains in the CRiS treatment decreased slightly, which was consistent with the distributions of DHg and DMeHg concentrations in pore water and the aromaticity variation of soil DOM. In contrast, the CCD input significantly enhanced the enrichment of THg and MeHg in rice grains relative to CD because it significantly reduced the humification of soil DOM at all rice-growing stages while increasing the low-molecular-weight fractions in soil DOM. The THg and MeHg contents in the rice grains were significantly lower treated by RaS than those by MaS and RiS, which may be related to the higher sulfur-containing compounds such as sulfate and cysteine in rape straw or its DOM solution. Overall, DOM amendment from different agricultural sources resulted in significantly discriminative effects on the MeHg accumulation in soil and Hg enrichment in rice in the Hg-contaminated paddy field by shaping soil DOM properties.

Interaction between Sulfate and Selenate in Tetraploid Wheat (Triticum turgidum L.) Genotypes

Selenium (Se) is an essential micronutrient of fundamental importance to human health and the main Se source is from plant-derived foods. Plants mainly take up Se as selenate (SeO42−), through the root sulfate transport system, because of their chemical similarity. The aims of this study were (1) to characterize the interaction between Se and S during the root uptake process, by measuring the expression of genes coding for high-affinity sulfate transporters and (2) to explore the possibility of increasing plant capability to take up Se by modulating S availability in the growth medium. We selected different tetraploid wheat genotypes as model plants, including a modern genotype, Svevo (Triticum turgidum ssp. durum), and three ancient Khorasan wheats, Kamut, Turanicum 21, and Etrusco (Triticum turgidum ssp. turanicum). The plants were cultivated hydroponically for 20 days in the presence of two sulfate levels, adequate (S = 1.2 mM) and limiting (L = 0.06 mM), and three selenate levels (0, 10, 50 μM). Our findings clearly showed the differential expression of genes encoding the two high-affinity transporters (TdSultr1.1 and TdSultr1.3), which are involved in the primary uptake of sulfate from the rhizosphere. Interestingly, Se accumulation in shoots was higher when S was limited in the nutrient solution.

Sulfate supplementation affects nutrient and photosynthetic status of Arabidopsis thaliana and Nicotiana tabacum differently under prolonged exposure to cadmium

Hydroponic experiments were performed to examine the effect of prolonged sulfate limitation combined with cadmium (Cd) exposure in Arabidopsis thaliana and a potential Cd hyperaccumulator, Nicotiana tabacum. Low sulfate treatments (20 and 40 µM MgSO₄) and Cd stress (4 µM CdCl₂) showed adverse effects on morphology, photosynthetic and biochemical parameters and the nutritional status of both species. For example, Cd stress decreased NO₃^- root content under 20 µM MgSO₄ to approximately 50% compared with respective controls. Interestingly, changes in many measured parameters, such as chlorophyll and carotenoid contents, the concentrations of anions, nutrients and Cd, induced by low sulfate supply, Cd exposure or a combination of both factors, were species-specific. Our data showed opposing effects of Cd exposure on Ca, Fe, Mn, Cu and Zn levels in roots of the studied plants. In A. thaliana, levels of glutathione, phytochelatins and glucosinolates demonstrated their distinct involvement in response to sub-optimal growth conditions and Cd stress. In shoot, the levels of phytochelatins and glucosinolates in the organic sulfur fraction were not dependent on sulfate supply under Cd stress. Altogether, our data showed both common and species-specific features of the complex plant response to prolonged sulfate deprivation and/or Cd exposure.

The role of sulfur nutrition in plant response to metal(loid) stress: Facilitating biofortification and phytoremediation

Metal(loid)s contamination poses a serious threat to ecosystem biosafety and human health. Phytoremediation is a cost-effective and eco-friendly technology with good public acceptance, although the process does require a significant amount of time for success. To enhance the phytoremediation efficiency, numerous approaches have been explored, including soil amendments application with chelators to facilitate remediation. Sulfur (S), a macronutrient for plant growth, plays vital roles in several metabolic pathways that can actively affect metal(loid)s phytoextraction, as well as attenuate metal(loid) toxicity. In this review, different forms of S-amendments (fertilizers) on uptake and translocation in plants upon exposure to various metal(loid) are evaluated. Possible mechanisms for S application alleviating metal(loid) toxicity are documented at the physiological, biochemical and molecular levels. Furthermore, this review highlights the crosstalk between S-assimilation and other biomolecules, such as phytohormones, polyamines and nitric oxide, which are also important for metal(loid) stress tolerance. Given the effectiveness and potential of S amendments on phytoremediation, future studies should focus on optimizing phytoremediation efficiency in long-term field studies and on investigating the appropriate S dose to maximize the food safety and ecosystem health.

Dynamic regulation of DNA methylation and histone modifications in response to abiotic stresses in plants

DNA methylation and histone modification are evolutionarily conserved epigenetic modifications that are crucial for the expression regulation of abiotic stress-responsive genes in plants. Dynamic changes in gene expression levels can result from changes in DNA methylation and histone modifications. In the last two decades, how epigenetic machinery regulates abiotic stress responses in plants has been extensively studied. Here, based on recent publications, we review how DNA methylation and histone modifications impact gene expression regulation in response to abiotic stresses such as drought, abscisic acid, high salt, extreme temperature, nutrient deficiency or toxicity, and ultraviolet B exposure. We also review the roles of epigenetic mechanisms in the formation of transgenerational stress memory. We posit that a better understanding of the epigenetic underpinnings of abiotic stress responses in plants may facilitate the design of more stress-resistant or -resilient crops, which is essential for coping with global warming and extreme environments.

Spatial variation and allocation of sulfur among major plant organs in China

Sulfur (S) is a functional element that plays an important role in abiotic stress resistance and environmental adaptation in plants. However, knowledge of the biogeographic patterns of S among major plant organs remains limited. We conducted a methodologically consistent field survey of 2745 plant species across 78 typical communities throughout China. From this, we constructed a new matched database of S content in leaves, twigs, trunks, and roots to explore S allocation strategies in plants to better understand the regulatory mechanisms on a large scale. The average S content in leaves, twigs, trunks, and roots of plants in China was 2.32 ± 0.04, 1.13 ± 0.02, 0.15 ± 0.01, and 1.23 ± 0.02 g kg^-1, respectively. S content was significantly higher in leaves than in other organs, and S content of plants in deserts was higher than that of plants in forests and grasslands. S content changed faster in roots and showed divergent allocation relationships among organs across communities at different scales. Climate and soil properties jointly regulated the spatial variation and allocation relationships of S among different organs. This study further broadens our understanding of the biological functions of S and their role in the interactions between plants and the environment.

Roles of non-coding RNAs in the hormonal and nutritional regulation in nodulation and nitrogen fixation

Symbiotic nitrogen fixation is an important component in the nitrogen cycle and is a potential solution for sustainable agriculture. It is the result of the interactions between the plant host, mostly restricted to legume species, and the rhizobial symbiont. From the first encounter between the host and the symbiont to eventual successful nitrogen fixation, there are delicate processes involved, such as nodule organogenesis, rhizobial infection thread progression, differentiation of the bacteroid, deregulation of the host defense systems, and reallocation of resources. All these processes are tightly regulated at different levels. Recent evidence revealed that non-coding RNAs (ncRNAs), including microRNAs (miRNAs), long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs), participate in these processes by controlling the transcription and translation of effector genes. In general, ncRNAs are functional transcripts without translation potential and are important gene regulators. MiRNAs, negative gene regulators, bind to the target mRNAs and repress protein production by causing the cleavage of mRNA and translational silencing. LncRNAs affect the formation of chromosomal loops, DNA methylation, histone modification, and alternative splicing to modulate gene expression. Both lncRNAs and circRNAs could serve as target mimics of miRNA to inhibit miRNA functions. In this review, we summarized and discussed the current understanding of the roles of ncRNAs in legume nodulation and nitrogen fixation in the root nodule, mainly focusing on their regulation of hormone signal transduction, the autoregulation of nodulation (AON) pathway and nutrient homeostasis in nodules. Unraveling the mediation of legume nodulation by ncRNAs will give us new insights into designing higher-performance leguminous crops for sustainable agriculture.

The Role of Sulfur in Agronomic Biofortification with Essential Micronutrients

Sulfur (S) is an essential macronutrient for plants, being necessary for their growth and metabolism and exhibiting diverse roles throughout their life cycles. Inside the plant body, S is present either in one of its inorganic forms or incorporated in an organic compound. Moreover, organic S compounds may contain S in its reduced or oxidized form. Among others, S plays roles in maintaining the homeostasis of essential micronutrients, e.g., iron (Fe), copper (Cu), zinc (Zn), and manganese (Mn). One of the most well-known connections is homeostasis between S and Fe, mainly in terms of the role of S in uptake, transportation, and distribution of Fe, as well as the functional interactions of S with Fe in the Fe-S clusters. This review reports the available information describing the connections between the homeostasis of S and Fe, Cu, Zn, and Mn in plants. The roles of S- or sulfur-derived organic ligands in metal uptake and translocation within the plant are highlighted. Moreover, the roles of these micronutrients in S homeostasis are also discussed.

Gypsum endemics accumulate excess nutrients in leaves as a potential constitutive strategy to grow in grazed extreme soils

Extreme soils often have mineral nutrient imbalances compared to plant nutritional requirements and co-occur in open areas where grazers thrive. Thus, plants must respond to both constraints, which can affect nutrient concentrations in all plant organs. Gypsum soil provides an excellent model system to study adaptations to extreme soils under current grazing practices as it harbours two groups of plant species that differ in their tolerance to gypsum soils and foliar composition. However, nutrient concentrations in organs other than leaves, and their individual responses to simulated herbivory, are still unknown in gypsum plants. We studied plant biomass, root mass ratio and nutrient partitioning among different organs (leaves, stems, coarse roots, fine roots) in five gypsum endemics and five generalists cultivated in gypsum and calcareous soils and subjected to different levels of simulated browsing. Gypsum endemics tended to have higher elemental concentration in leaves, stems and coarse roots than generalist species in both soil types, whereas both groups tended to show similar high concentrations in fine roots. This behaviour was especially clear with sulphur (S), which is found in excess in gypsum soils, and which endemics accumulated in leaves as sulphate (>50% of S). Moreover, plants subjected to clipping, regardless of their affinity to gypsum, were unable to compensate for biomass losses and showed similar elemental composition to unclipped plants. The accumulation of excess mineral nutrients by endemic species in aboveground organs may be a constitutive nutritional strategy in extreme soils and is potentially playing an anti-herbivore role in grazed gypsum outcrops.

S-Assimilation Influences in Carrageenan Biosynthesis Genes during Ethylene-Induced Carposporogenesis in Red Seaweed Grateloupia imbricata

The synthesis of cell-wall sulfated galactans proceeds through UDP galactose, a major nucleotide sugar in red seaweed, whilst sulfate is transported through S-transporters into algae. Moreover, synthesis of ethylene, a volatile plant growth regulator that plays an important role in red seaweed reproduction, occurs through S-adenosyl methionine. This means that sulfur metabolism is involved in reproduction events as well as sulfated galactan synthesis of red seaweed. In this work we study the effects of methionine and MgSO4 on gene expression of polygalactan synthesis through phosphoglucomutase (PGM) and galactose 1 phosphate uridyltransferase (GALT) and of sulfate assimilation (S-transporter and sulfate adenylyltransferase, SAT) using treatment of ethylene for 15 min, which elicited cystocarp development in Grateloupia imbricata. Also, expressions of carbohydrate sulfotransferase and galactose-6-sulfurylase in charge of the addition and removal of sulfate groups to galactans backbone were examined. Outstanding results occurred in the presence of methionine, which provoked an increment in transcript number of genes encoding S-transporter and assimilation compared to controls regardless of the development stage of thalli. Otherwise, methionine diminished the transcript levels of PGM and GALT and expressions are associated with the fertilization stage of thalli of G. imbricata. As opposite, methionine and MgSO4 did not affect the transcript number of carbohydrate sulfotransferase and galactose-6-sulfurylase. Nonetheless, differential expression was obtained for sulfurylases according to the development stages of thalli of G. imbricata.

Plant DNA Methylation Responds to Nutrient Stress

Nutrient stress as abiotic stress has become one of the important factors restricting crop yield and quality. DNA methylation is an essential epigenetic modification that can effectively regulate genome stability. Exploring DNA methylation responses to nutrient stress could lay the foundation for improving plant tolerance to nutrient stress. This article summarizes the plant DNA methylation patterns, the effects of nutrient stress, such as nitrogen, phosphorus, iron, zinc and sulfur stress, on plant DNA methylation and research techniques for plant DNA methylation, etc. Our discussion provides insight for further research on epigenetics response to nutrient stress in the future.

Isotope Fingerprints of Common and Tartary Buckwheat Grains and Milling Fractions: A Preliminary Study

The grains and milling fractions of common buckwheat (Fagopyrum esculentum Moench) and Tartary buckwheat (Fagopyrum tataricum (L.) Gaertn.) are widely used for both industrial and small-scale food and non-food products. This paper represents a preliminary study of the isotopic signature (δ¹³C, δ¹⁵N, and δ³⁴S) to differentiate between buckwheat species (common vs. Tartary), organic and conventional cultivation farming, and different buckwheat fractions (light flour, semolina, and hulls) obtained by a traditional cereal stone-mill. Stable isotope ratios were analyzed using an elemental analyzer coupled to an isotope ratio mass spectrometer (EA/IRMS). The results indicated that δ¹³C, δ¹⁵N, and δ³⁴S values could be used to verify the origin and production practices of buckwheat and even its products.

Sulfur Starvation in Extremophilic Microalga Galdieria sulphuraria: Can Glutathione Contribute to Stress Tolerance?

This study reports the effects of sulfur (S) deprivation in cultures of Galdieria sulphuraria (Cyanidiophyceae). Galdieria is a unicellular red alga that usually grows, forming biomats on rocks, in S-rich environments. These are volcanic areas, where S is widespread since H₂S is the prevalent form of gas. The glutathione content in Galdieria sulphuraria is much higher than that found in the green algae and even under conditions of S deprivation for 7 days, it remains high. On the other hand, the S deprivation causes a decrease in the total protein content and a significant increase in soluble protein fraction. This suggests that in the conditions of S starvation, the synthesis of enzymatic proteins, that metabolically support the cell in the condition of nutritional stress, could be up regulated. Among these enzymatic proteins, those involved in cell detoxification, due to the accumulation of ROS species, have been counted.

Sulfur in Seeds: An Overview

Sulfur is a growth-limiting and secondary macronutrient as well as an indispensable component for several cellular components of crop plants. Over the years various scientists have conducted several experiments on sulfur metabolism based on different aspects of plants. Sulfur metabolism in seeds has immense importance in terms of the different sulfur-containing seed storage proteins, the significance of transporters in seeds, the role of sulfur during the time of seed germination, etc. The present review article is based on an overview of sulfur metabolism in seeds, in respect to source to sink relationships, S transporters present in the seeds, S-regulated seed storage proteins and the importance of sulfur at the time of seed germination. Sulfur is an essential component and a decidable factor for seed yield and the quality of seeds in terms of oil content in oilseeds, storage of qualitative proteins in legumes and has a significant role in carbohydrate metabolism in cereals. In conclusion, a few future perspectives towards a more comprehensive knowledge on S metabolism/mechanism during seed development, storage and germination have also been stated.

Role of Sulfate Transporters in Chromium Tolerance in Scenedesmus acutus M. (Sphaeropleales)

Sulfur (S) is essential for the synthesis of important defense compounds and in the scavenging potential of oxidative stress, conferring increased capacity to cope with biotic and abiotic stresses. Chromate can induce a sort of S-starvation by competing for uptake with SO₄²⁻ and causing a depletion of cellular reduced compounds, thus emphasizing the role of S-transporters in heavy-metal tolerance. In this work we analyzed the sulfate transporter system in the freshwater green algae Scenedesmus acutus, that proved to possess both H⁺/SO₄²⁻ (SULTRs) and Na⁺/SO₄²⁻ (SLTs) plasma membrane sulfate transporters and a chloroplast-envelope localized ABC-type holocomplex. We discuss the sulfate uptake system of S. acutus in comparison with other taxa, enlightening differences among the clade Sphaeropleales and Volvocales/Chlamydomonadales. To define the role of S transporters in chromium tolerance, we analyzed the expression of SULTRs and SULPs components of the chloroplast ABC transporter in two strains of S. acutus with different Cr(VI) sensitivity. Their differential expression in response to Cr(VI) exposure and S availability seems directly linked to Cr(VI) tolerance, confirming the role of sulfate uptake/assimilation pathways in the metal stress response. The SULTRs up-regulation, observed in both strains after S-starvation, may directly contribute to enhancing Cr-tolerance by limiting Cr(VI) uptake and increasing sulfur availability for the synthesis of sulfur-containing defense molecules.

Genome-Wide Investigation of the Cysteine Synthase Gene Family Shows That Overexpression of CSase Confers Alkali Tolerance to Alfalfa (Medicago sativa L.)

Alfalfa is widely grown worldwide as a perennial high-quality legume forage and as a good ecological landcover. The cysteine synthase (CSase) gene family is actively involved in plant growth and development and abiotic stress resistance but has not been systematically investigated in alfalfa. We identified 39 MsCSase genes on 4 chromosomes of the alfalfa genome. Phylogenetic analysis demonstrated that these genes were clustered into six subfamilies, and members of the same subfamily had similar physicochemical properties and sequence structures. Overexpression of the CSase gene in alfalfa increased alkali tolerance. Compared with control plants, the overexpression lines presented higher proline, soluble sugars, and cysteine and reduced glutathione contents and superoxide dismutase and peroxidase activities as well as lower hydrogen peroxide and superoxide anion contents after alkali stress. The relative expression of γ-glutamyl cysteine synthetase gene (a downstream gene of CSase) in the overexpression lines was much higher than that in the control line. The CSase gene enhanced alkalinity tolerance by regulating osmoregulatory substances and improving antioxidant capacity. These results provide a reference for studying the CSase gene family in alfalfa and expanding the alkali tolerance gene resources of forage plants.

Sulfur Compounds in Regulation of Stomatal Movement

Sulfur, widely present in the soil and atmosphere, is one of the essential elements for plants. Sulfate is a dominant form of sulfur in soils taken up by plant roots. In addition to the assimilation into sulfur compounds essential for plant growth and development, it has been reported recently that sulfate as well as other sulfur containing compounds can also induce stomatal movement. Here, we first summarized the uptake and transport of sulfate and atmospheric sulfur, including H₂O and SO₂, and then, focused on the effects of inorganic and organic sulfur on stomatal movement. We concluded all the transporters for different sulfur compounds, and compared the expression level of those transporters in guard cells and mesophyll cells. The relationship between abscisic acid and sulfur compounds in regulation of stomatal movement were also discussed.

Identification of flux trade-offs in metabolic networks

Trade-offs are inherent to biochemical networks governing diverse cellular functions, from gene expression to metabolism. Yet, trade-offs between fluxes of biochemical reactions in a metabolic network have not been formally studied. Here, we introduce the concept of absolute flux trade-offs and devise a constraint-based approach, termed FluTO, to identify and enumerate flux trade-offs in a given genome-scale metabolic network. By employing the metabolic networks of Escherichia coli and Saccharomyces cerevisiae, we demonstrate that the flux trade-offs are specific to carbon sources provided but that reactions involved in the cofactor and prosthetic group biosynthesis are present in trade-offs across all carbon sources supporting growth. We also show that absolute flux trade-offs depend on the biomass reaction used to model the growth of Arabidopsis thaliana under different carbon and nitrogen conditions. The identified flux trade-offs reflect the tight coupling between nitrogen, carbon, and sulphur metabolisms in leaves of C₃ plants. Altogether, FluTO provides the means to explore the space of alternative metabolic routes reflecting the constraints imposed by inherent flux trade-offs in large-scale metabolic networks.

Role of source-to-sink transport of methionine in establishing seed protein quantity and quality in legumes

Grain legumes such as pea (Pisum sativum L.) are highly valued as a staple source of protein for human and animal nutrition. However, their seeds often contain limited amounts of high-quality, sulfur (S) rich proteins, caused by a shortage of the S-amino acids cysteine and methionine. It was hypothesized that legume seed quality is directly linked to the amount of organic S transported from leaves to seeds, and imported into the growing embryo. We expressed a high-affinity yeast (Saccharomyces cerevisiae) methionine/cysteine transporter (Methionine UPtake 1) in both the pea leaf phloem and seed cotyledons and found source-to-sink transport of methionine but not cysteine increased. Changes in methionine phloem loading triggered improvements in S uptake and assimilation and long-distance transport of the S compounds, S-methylmethionine and glutathione. In addition, nitrogen and carbon assimilation and source-to-sink allocation were upregulated, together resulting in increased plant biomass and seed yield. Further, methionine and amino acid delivery to individual seeds and uptake by the cotyledons improved, leading to increased accumulation of storage proteins by up to 23%, due to both higher levels of S-poor and, most importantly, S-rich proteins. Sulfate delivery to the embryo and S assimilation in the cotyledons were also upregulated, further contributing to the improved S-rich storage protein pools and seed quality. Overall, this work demonstrates that methionine transporter function in source and sink tissues presents a bottleneck in S allocation to seeds and that its targeted manipulation is essential for overcoming limitations in the accumulation of high-quality seed storage proteins.

Comparative Omics Analysis of Brassica napus Roots Subjected to Six Individual Macronutrient Deprivations Reveals Deficiency-Specific Genes and Metabolomic Profiles

The early and specific diagnosis of a macronutrient deficiency is challenging when seeking to better manage fertilizer inputs in the context of sustainable agriculture. Consequently, this study explored the potential for transcriptomic and metabolomic analysis of Brassica napus roots to characterize the effects of six individual macronutrient deprivations (N, Mg, P, S, K, and Ca). Our results showed that before any visual phenotypic response, all macronutrient deprivations led to a large modulation of the transcriptome and metabolome involved in various metabolic pathways, and some were common to all macronutrient deprivations. Significantly, comparative transcriptomic analysis allowed the definition of a subset of 3282, 2011, 6325, 1384, 439, and 5157 differentially expressed genes (DEGs) specific to N, Mg, P, S, K, and Ca deprivations, respectively. Surprisingly, gene ontology term enrichment analysis performed on this subset of specific DEGs highlighted biological processes that are common to a number of these macronutrient deprivations, illustrating the complexity of nutrient interactions. In addition, a set of 38 biochemical compounds that discriminated the macronutrient deprivations was identified using a metabolic approach. The opportunity to use these specific DEGs and/or biochemical compounds as potential molecular indicators to diagnose macronutrient deficiency is discussed.

Potential Use of Copper-Contaminated Soils for Hemp (Cannabis sativa L.) Cultivation

To mitigate climate change, reducing greenhouse gas emissions can be achieved by decreasing the use of fossil fuels and increasing that of alternative sources, such as energy crops. However, one of the most important problems in the use of biomass as a fuel is that of changing soil use and consumption, leading to competition with food crops. We addressed the topic by evaluating the possibility to exploit contaminated areas for energy crops cultivation. Indeed, soil contamination makes land inappropriate for cultivation, with damaging consequences for ecosystems, as well as posing serious health hazards to living beings. Specifically, this work aimed to evaluate the ability of hemp (Cannabis sativa L.) plants to grow on a copper (Cu)-contaminated medium. In addition, the effectiveness of an environment-friendly treatment with sulfate in improving plant ability to cope with Cu-induced oxidative stress was also explored. Results showed that plants were able to grow at high Cu concentrations. Therefore, hemp could represent an interesting energy crop in Cu-contaminated soils. Although the response of Cu-treated plants was evidenced by the increase in thiol content, following modulation of sulfur metabolism, it remains to be clarified whether the use of exogenous sulfate could be an agronomic practice to improve crop performance under these edaphic conditions.

Noncoding-RNA-Mediated Regulation in Response to Macronutrient Stress in Plants

Macronutrient elements including nitrogen (N), phosphorus (P), potassium (K), calcium (Ca), magnesium (Mg), and sulfur (S) are required in relatively large and steady amounts for plant growth and development. Deficient or excessive supply of macronutrients from external environments may trigger a series of plant responses at phenotypic and molecular levels during the entire life cycle. Among the intertwined molecular networks underlying plant responses to macronutrient stress, noncoding RNAs (ncRNAs), mainly microRNAs (miRNAs) and long ncRNAs (lncRNAs), may serve as pivotal regulators for the coordination between nutrient supply and plant demand, while the responsive ncRNA-target module and the interactive mechanism vary among elements and species. Towards a comprehensive identification and functional characterization of nutrient-responsive ncRNAs and their downstream molecules, high-throughput sequencing has produced massive omics data for comparative expression profiling as a first step. In this review, we highlight the recent findings of ncRNA-mediated regulation in response to macronutrient stress, with special emphasis on the large-scale sequencing efforts for screening out candidate nutrient-responsive ncRNAs in plants, and discuss potential improvements in theoretical study to provide better guidance for crop breeding practices.

Quantitative Proteome and PTMome Analysis of Arabidopsis thaliana Root Responses to Persistent Osmotic and Salinity Stress

Abiotic stresses such as drought result in large annual economic losses around the world. As sessile organisms, plants cannot escape the environmental stresses they encounter but instead must adapt to survive. Studies investigating plant responses to osmotic and/or salt stress have largely focused on short-term systemic responses, leaving our understanding of intermediate to longer-term adaptation (24 h to d) lacking. In addition to protein abundance and phosphorylation changes, evidence suggests reversible lysine acetylation may also be important for abiotic stress responses. Therefore, to characterize the protein-level effects of osmotic and salt stress, we undertook a label-free proteomic analysis of Arabidopsis thaliana roots exposed to 300 mM mannitol and 150 mM NaCl for 24 h. We assessed protein phosphorylation, lysine acetylation and changes in protein abundance, detecting significant changes in 245, 35 and 107 total proteins, respectively. Comparison with available transcriptome data indicates that transcriptome- and proteome-level changes occur in parallel, while post-translational modifications (PTMs) do not. Further, we find significant changes in PTMs, and protein abundance involve different proteins from the same networks, indicating a multifaceted regulatory approach to prolonged osmotic and salt stress. In particular, we find extensive protein-level changes involving sulfur metabolism under both osmotic and salt conditions as well as changes in protein kinases and transcription factors that may represent new targets for drought stress signaling. Collectively, we find that protein-level changes continue to occur in plant roots 24 h from the onset of osmotic and salt stress and that these changes differ across multiple proteome levels.

Identification and functional analysis of the mitochondrial cysteine synthase TtCsa2 from Tetrahymena thermophila

Cysteine is a crucial component for all organisms and plays a critical role in the structure, stability, and catalytic functions of many proteins. Tetrahymena has reverse transsulfuration and de novo pathways for cysteine biosynthesis. Cysteine synthase is involved in the de novo cysteine biosynthesis and catalyzes the production of cysteine from O-acetylserine. The novel cysteine synthase TtCSA2 was identified from Tetrahymena thermophila. The TtCSA2 showed high expression levels at the log-phase and the sexual development stage. The TtCsa2 was localized on the outer mitochondrial membrane throughout different developmental stages. However, the truncated N-terminal signal peptide mutant TtCsa2-ΔN23 was localized into the mitochondria. His-TtCsa2 was expressed in Escherichia coli and purified using affinity chromatography. The His-TtCsa2 showed O-acetylserine sulfhydrylase and serine sulfhydrylase activities. Cysteine and glutathione contents decreased in the csa2KD mutant. Furthermore, mutant cells were sensitive to cadmium and copper stresses. This study indicated that the TtCSA2 was involved in the cysteine synthesis in mitochondria and related to heavy metal stresses resistance in Tetrahymena.

Bioinformatics analysis of enzymes involved in cysteine biosynthesis: first evidence for the formation of cysteine synthase complex in cyanobacteria

The biosynthesis of cysteine is crucial and critically regulated by two enzymes. i.e., serine acetyl transferase (SAT) and O-acetyl serine (thiol) lyase (OAS-TL). A descriptive account on the activity and regulatory mechanism of the enzyme is available in bacteria and plants. But no such studies yet performed in cyanobacteria, to understand the evolutionary aspect of cysteine biosynthesis and its regulation. Therefore, in our study a detailed bioinformatic analysis has been performed to understand all the possible features of cyanobacterial SATs and OAS-TLs. The analysis of SAT and OAS-TL sequences from cyanobacteria depicted that the large genome and morphological complexities favoured acquisition of these genes. Besides, conserved function of these enzymes was presumed by their sequence similarity. Further, the phylogenetic tree consisted of distinct clusters for unicellular, filamentous, and heterocytous strains. Nevertheless, the specificity pocket, SVKDR for OAS-TL having K as catalytic residue was also identified. Additionally, in silico protein modelling of SAT (SrpG) and OAS-TL (SrpH) of Synechococcus elongatus PCC 7942 was performed to gain insight into the structural attributes of the proteins. Finally, here we showed the possibility of hetero-oligomeric bi-enzyme cysteine synthase complex formation upon interaction of SAT and OAS-TL through protein-protein docking analysis thus provides a way to understand the regulation of cysteine biosynthesis in cyanobacteria.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s13205-021-02899-1.

Sulfur transfer from the endophytic fungus Serendipita indica improves maize growth and requires the sulfate transporter SiSulT

A deficiency of the essential macronutrient sulfur leads to stunted plant growth and yield loss; however, an association with a symbiotic fungus can greatly improve nutrient uptake by the host plant. Here, we identified and functionally characterized a high-affinity sulfate transporter from the endophytic fungus Serendipita indica. SiSulT fulfills all the criteria expected of a functional sulfate transporter responding to sulfur limitation: SiSulT expression was induced when S. indica was grown under low-sulfate conditions, and heterologous expression of SiSulT complemented a yeast mutant lacking sulfate transport. We generated a knockdown strain of SiSulT by RNA interference to investigate the consequences of the partial loss of this transporter for the fungus and the host plant (maize, Zea mays) during colonization. Wild-type (WT) S. indica, but not the knockdown strain (kd-SiSulT), largely compensated for low-sulfate availability and supported plant growth. Colonization by WT S. indica also allowed maize roots to allocate precious resources away from sulfate assimilation under low-sulfur conditions, as evidenced by the reduction in expression of most sulfate assimilation genes. Our study illustrates the utility of the endophyte S. indica in sulfur nutrition research and offers potential avenues for agronomically sound amelioration of plant growth in low-sulfate environments.

Ethylene regulates sulfur acquisition by regulating the expression of sulfate transporter genes in oilseed rape

To manage nutrient deficiencies, plants develop both morphological and physiological responses. The studies on the regulation of these responses are limited; however, certain hormones and signaling components have been largely implicated. Several studies depicted ethylene as a regulator of the response of some nutrient deficiencies like iron, phosphorous and potassium. The present study focused on the response of sulfur in the presence and absence of ethylene. The experiments were performed in hydroponic nutrient media, using oilseed rape grown with or without sulfur deficiency and ethylene treatments for 10 days. The ACC oxidase and ACC synthase were observed significantly reduced in sulfur-deficient plants treated with ethylene compared to control. The biomass and photosynthetic parameters, including the expression of multicomplex thylakoidal proteins showed a significant increase in sulfur deficient plants supplemented with ethylene. The enzymes related to sulfur regulation such as sulfate adenyltransferase, glutamine synthetase and O-acetylserine (thiol)lyase also showed similar results as shown by the morphological data. The relative expression of the sulfur transporter genes BnSultr1, 1, BnSultr1, 2, BnSultr4,1, BnSultr 4,2, ATP sulfurylase and OASTL increased in sulfur-deficient plants, whereas their expression decreased when ethylene was given to the plants. Fe and S nutritional correlations are already known; therefore, Fe-transporters like IRT1 and FRO1 were also evaluated, and similar results as for the sulfur transporter genes were observed. The overall results indicated that ethylene regulates sulfur acquisition by regulating the expression of sulfur transporter genes in oilseed rape (Brassica napus).

Fe-S Protein Synthesis in Green Algae Mitochondria

Iron and sulfur are two essential elements for all organisms. These elements form the Fe-S clusters that are present as cofactors in numerous proteins and protein complexes related to key processes in cells, such as respiration and photosynthesis, and participate in numerous enzymatic reactions. In photosynthetic organisms, the ISC and SUF Fe-S cluster synthesis pathways are located in organelles, mitochondria, and chloroplasts, respectively. There is also a third biosynthetic machinery in the cytosol (CIA) that is dependent on the mitochondria for its function. The genes and proteins that participate in these assembly pathways have been described mainly in bacteria, yeasts, humans, and recently in higher plants. However, little is known about the proteins that participate in these processes in algae. This review work is mainly focused on releasing the information on the existence of genes and proteins of green algae (chlorophytes) that could participate in the assembly process of Fe-S groups, especially in the mitochondrial ISC and CIA pathways.

The Versatile Roles of Sulfur-Containing Biomolecules in Plant Defense-A Road to Disease Resistance

Sulfur (S) is an essential plant macronutrient and the pivotal role of sulfur compounds in plant disease resistance has become obvious in recent decades. This review attempts to recapitulate results on the various functions of sulfur-containing defense compounds (SDCs) in plant defense responses to pathogens. These compounds include sulfur containing amino acids such as cysteine and methionine, the tripeptide glutathione, thionins and defensins, glucosinolates and phytoalexins and, last but not least, reactive sulfur species and hydrogen sulfide. SDCs play versatile roles both in pathogen perception and initiating signal transduction pathways that are interconnected with various defense processes regulated by plant hormones (salicylic acid, jasmonic acid and ethylene) and reactive oxygen species (ROS). Importantly, ROS-mediated reversible oxidation of cysteine residues on plant proteins have profound effects on protein functions like signal transduction of plant defense responses during pathogen infections. Indeed, the multifaceted plant defense responses initiated by SDCs should provide novel tools for plant breeding to endow crops with efficient defense responses to invading pathogens.

OsSQD1 at the crossroads of phosphate and sulfur metabolism affects plant morphology and lipid composition in response to phosphate deprivation

In phosphate (Pi)-deprived Arabidopsis (Arabidopsis thaliana), phosphatidylglycerol (PG) is substituted by sulfolipid for maintaining Pi homeostasis. Sulfoquinovosyl diacylglycerol1 (AtSQD1) encodes a protein, which catalyzes uridine diphosphate glucose (UDPG) and sulfite (SO₃^2- ) to UDP-sulfoquinovose, which is a key component in the sulfolipid biosynthetic pathway. In this study, a reverse genetics approach was employed to decipher the function of the AtSQD1 homolog OsSQD1 in rice. Differential expressions of OsSQD1 in different tissue and response to -P and -S also detected, respectively. The in vitro protein assay and analysis suggests that OsSQD1 is a UDP-sulfoquinovose synthase. Transient expression analysis showed that OsSQD1 is located in the chloroplast. The analyses of the knockout (ossqd1) and knockdown (Ri1 and Ri2) mutants demonstrated reductions in Pi and total P concentrations, ³² Pi uptake rate, expression levels of Pi transporters and altered developmental responses of root traits, which were accentuated during Pi deficiency. The inhibitory effects of the OsSQD1 mutation were also evident in the development of reproductive tissue. Furthermore, OsSQD1 differently affects lipid composition under different Pi regime affects sulfur (S) homeostasis. Together, the study revealed that OsSQD1 affects Pi and S homeostasis, and lipid composition in response to Pi deprivation.

Effect of rhizospheric inoculation of isolated arsenic (As) tolerant strains on growth, As-uptake and bacterial communities in association with Adiantum capillus-veneris

Two arsenic (As) hyper-tolerant bacterial strains NM01 Paracoccus versutus and NM04 Aeromonas caviae were isolated from As polluted site of West Bengal, India. The strains not only possess the potential to tolerate up to 20,000 mgl^-1 As(V) and 10,000 mgl^-1 As(III) but also possess plant growth promoting (PGP) traits like phosphate solubilization, siderophore production, IAA production. Greenhouse pot experiments were conducted to assess the effect of rhizospheric inoculation of both the strains individually and in consortia in As accumulation by Adiantum capillus-veneries. It was observed that the microbial inoculation significantly (p < 0.05) increased the synthesis of thiolic compounds and thus, enhanced As accumulation with translocation factor (TF) > 1. The strains regulated endogenous phytohormone up to 90% and 77.9% increase in auxin of consortia inoculated root and shoot, respectively. Interestingly, inoculation of the isolated strains augmented rhizospheric microbial diversity which was negatively affected by heavy metal. The results of high-throughput Illumina MiSeq sequencing technique to observe the composition of the bacterial community revealed 11,536 unique bacterial operational taxonomic units (OTUs) from As + S (non-inoculated), whereas 11,884 from Consortia As + S (inoculated) rhizospheric soil samples. Inoculated soil displayed higher bacterial diversity indices (ACE and Chao 1) with the dominant bacterial phyla Proteobacteria, Actinobacteria and Firmicutes. Our results highlight the innate PGP abilities of the strains and its potential to facilitate phytoextraction by enhancing As accumulation in the shoot.

Comparative assessment of Brassica pekinensis L. genotypes for phytoavoidation of nitrate, cadmium and lead in multi-pollutant field

Information is needed for comparative assessment and agronomic practices for phytoavoidation in multi-pollutant field. A field study was conducted to explore 97 Brassica pekinensis L. genotypes with permissible limit of contaminants growing in a severely Cd, moderately nitrate and slightly Pb multi-polluted field. Thirteen genotypes, i.e. KGZY, CXQW, CAIB, JINL, JQIN, JFEN, WMQF, XLSH, TAIK, BJXS, JUKA, XYJQ and GQBW, were identified with permissible limit for nitrate, Cd and Pb based on their resistance to heavy metal and nitrate accumulation in leaves when grown in co-contaminated soils. Furthermore, the correlation between essential and toxic elements concentrations in plant of B. pekinensis were inconsistent. Generally speaking, application of increasing Ca, K and S fertilizers in appropriate forms and dosages tended to increase the yield and quality of B. pekinensis cultivated in multi-pollutant field.

Can We Discover Truffle's True Identity?

This study used elemental and stable isotope composition to characterize Slovenian truffles and used multi-variate statistical analysis to classify truffles according to species and geographical origin. Despite the fact that the Slovenian truffles shared some similar characteristics with the samples originating from other countries, differences in the element concentrations suggest that respective truffle species may respond selectively to nutrients from a certain soil type under environmental and soil conditions. Cross-validation resulted in a 77% correct classification rate for determining the geographical origin and a 74% correct classification rate to discriminate between species. The critical parameters for geographical origin discriminations were Sr, Ba, V, Pb, Ni, Cr, Ba/Ca and Sr/Ca ratios, while from stable isotopes δ18O and δ13C values are the most important. The key variables that distinguish T.magnatum from other species are the levels of V and Zn and δ15N values. Tuber aestivum can be separated based on the levels of Ni, Cr, Mn, Mg, As, and Cu. This preliminary study indicates the possibility to differentiate truffles according to their variety and geographical origin and suggests widening the scope to include stable strontium isotopes.