An Overview of Important Enzymes Involved in Nitrogen Assimilation of Plants

Exploring the phytotoxicity mechanisms of PET nanoplastics and 6:2 FTSA in water hyacinth under individual and combined exposure scenarios

Due to its similarity in hydrophobic properties to perfluorooctanesulfonic acid (PFOS), 6:2 fluorotelomer sulfonic acid (6:2 FTSA) has emerged as a key substitute for PFOS. Its presence in aquatic environments, along with the coexistence of polyethylene terephthalate (PET), may impact the growth of aquatic plants and ecosystem stability. This study explored the changes in antioxidant defense, photosynthetic system, and metabolic responses of water hyacinths (Eichhornia crassipes) under individual and combined exposure conditions. The results indicated that water hyacinth efficiently accumulated 6:2 FTSA, with notably higher accumulation levels in leaves compared to roots, leading to a more pronounced stress response in leaves. The contents of nitrate, nitrite, ammonium, and the activities of nitrogen assimilation enzymes in leaves increased significantly, which in turn boosted the levels of reactive oxygen species (ROS) scavengers such as glutamic acid and glutathione, as well as antioxidant defense enzymes. Meanwhile, leaf photosynthesis was significantly suppressed due to the resource reallocation. This was corroborated by disruptions in the chloroplast thylakoid structure and alterations in chlorophyll fluorescence parameters. Metabolomics analysis further revealed that the contents of monosaccharides and organic acids decreased markedly, whereas amino acid levels increased significantly, suggesting that water hyacinths prioritized antioxidant defense mechanisms at the expense of growth. Additionally, we observed that the phytotoxic effects of 6:2 FTSA were exacerbated in the presence of PET nanoplastics, with the aforementioned indicators exhibiting synergistic effects. This study provides phenotypic, physiological, metabolic, and transcriptional insights into the toxic effects of the coexistence of PET nanoplastics and 6:2 FTSA on water hyacinths, offering toxicological data (e.g., oxidative stress markers and gene expression profiles) for assessing the environmental risks associated with emerging contaminants and proposing management strategies.

Genome-Wide Analysis of the Aspartate Aminotransferase Family in Brassica rapa and the Role of BraASP1 in Response to Nitrogen Starvation

Nitrogen (N) is the most important fertilizer for increasing crop production, as it is absorbed by various N transporters and metabolized by a series of enzymes. Aspartate aminotransferase (ASP) facilitates the conversion of Glu to Asp for N storage. Chinese cabbage is a typical leafy vegetable that requires a large amount of N for growth. To investigate the functions of BraASPs, 10 members of the ASP gene family in Brassica rapa (B. rapa) were identified. Phylogenetic analysis and collinearity comparisons of ASP members among B. rapa, Arabidopsis thaliana (A. thaliana), Oryza sativa (O. sativa), Brassica napus (B. napus), and Brassica oleracea (B. oleracea) were conducted to examine evolutionary associations and genome duplication events across species. Multiple cis-acting elements associated with stress responses were identified in the promoters of BraASPs, suggesting their diverse roles. Members of BraASPs were expressed in roots, stems, flowers, siliques, and leaves, with the highest expression in leaves. Their expression levels increased rapidly at 3 h under low N conditions, peaked at 6 h, and returned to low levels at 24 h. Based on transcriptomic data, BraASP1b was identified as a candidate gene in B. rapa under low N stress, localized in the nucleus and cytoplasm. Overexpression of BraASP1b in A. thaliana resulted in a higher biomass than Col-0 under low N conditions.

Effects of Source on the Nitrogen Uptake, Allocation Patterns, and Performance of Strawberry (Fragaria × ananassa Duch.): A 15N-Tracer Study

Nitrogen (N) is an essential determinant of strawberry growth and productivity. However, plants exhibit varying preferences for sources of nitrogen, which ultimately affects its use efficiency. Thus, it is imperative to determine the preferred N source for the optimization of indoor strawberry production. This study employed the 15N-tracer technique to investigate the effects of N sources on N uptake, distribution, and use efficiency, as well as the plants' growth, for 'Praratchatan 80' strawberries in a greenhouse. Five treatments were applied: T1 (5.0 mM 15NO3-), T2 (2.5 mM 15NO3- + 2.5 mM NH4+), T3 (5.0 mM 15NH4+), T4 (2.5 mM 15NH4+ + 2.5 mM NO3-), and T5 (N-free, control) in a completely randomized design. Significant (p < 0.05) differences were observed in N uptake and distribution and total N concentration among the treatments. Sole NH4+ promoted early N uptake and accelerated flowering, while NO3- enhanced vegetative growth and later-stage nitrogen use efficiency (NUE). The application of combined NO3- and NH4+ was most efficacious, balancing the benefits of both N forms. NO3- treatment enhanced 15NUE by 46% compared to NH4+, and mixed N sources demonstrated superior and consistent 15NUE over time. NH4+, alone or with NO3-, expedited flowering by 20 days compared to sole NO3- and N-free treatments. This study elucidates the importance of the sources of N in optimizing strawberry growth and flowering, providing a foundation for developing tailored N-management strategies. Future research should focus on refining mixed N application ratios and timings, exploring molecular mechanisms of N metabolism, and evaluating long-term impacts on strawberry production sustainability.

Brassinosteroid Enhances Cucumber Stress Tolerance to NaHCO3 by Modulating Nitrogen Metabolism, Ionic Balance and Phytohormonal Response

Under NaHCO3 stress, exogenous 24-epibrassinolide (EBR) markedly alleviated Na+ accumulation in cucumber plants, thereby decreasing the Na+/K+, Na+/Mg2+, and Na+/Ca2+ ratios. This mitigation was accompanied by elevated concentrations of K+, Ca2+, and Mg2+, as well as enhanced expression of the NHX and SOS1 genes. In addition, the activities of plasma membrane H+-ATPase, vesicular membrane H+-ATPase, and vesicular membrane H+-PPase were significantly increased, contributing to the maintenance of ionic balance in cucumber plants. NaHCO3 stress disrupted nitrogen metabolism, as evidenced by reductions in the activities of NR, GS, GOGAT, GOT, and GPT, along with altered GDH activity. These disruptions led to an accumulation of NH4+ and substantial decreases in NO3--N and total nitrogen content. Exogenous EBR alleviated these effects by enhancing the activities of NR, GS, GOGAT, GOT, and GPT, countering the prolonged suppression of GDH activity, and restoring NO3--N and total nitrogen levels. Consequently, EBR application reduced NH4+ toxicity induced by alkali stress. Additionally, NaHCO3 stress increased ABA accumulation while decreasing IAA and GA3 content in cucumber seedlings. In contrast, exogenous EBR application elevated IAA and GA3 levels and increased the IAA/ABA and GA3/ABA ratios, thus maintaining hormonal equilibrium under alkali stress. Collectively, these findings highlight that exogenous EBR enhances the alkaline tolerance of cucumber plants by regulating nitrogen metabolism, ion homeostasis, and phytohormonal responses.

Nitrate assimilation pathway is impacted in young tobacco plants overexpressing a constitutively active nitrate reductase or displaying a defective CLCNt2

BACKGROUND

We have previously shown that the expression of a constitutively active nitrate reductase variant and the suppression of CLCNt2 gene function (belonging to the chloride channel (CLC) gene family) in field-grown tobacco reduces tobacco-specific nitrosamines (TSNA) accumulation in cured leaves and cigarette smoke. In both cases, TSNA reductions resulted from a strong diminution of free nitrate in the leaf, as nitrate is a precursor of the TSNA-producing nitrosating agents formed during tobacco curing and smoking. These nitrosating agents modify tobacco alkaloids to produce TSNAs, the most problematic of which are NNN (N-nitrosonornicotine) and NNK (4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone). The expression of a deregulated nitrate reductase enzyme (DNR) that is no longer responsive to light regulation is believed to diminish free nitrate pools by immediately channeling incoming nitrate into the nitrate assimilation pathway. The reduction in nitrate observed when the two tobacco gene copies encoding the vacuolar nitrate transporter CLCNt2 were down-regulated by RNAi-mediated suppression or knocked out using the CRISPR-Cas technology was mechanistically distinct; likely attributable to the inability of the tobacco cell to efficiently sequester nitrate into the vacuole where this metabolite is protected from further assimilation. In this study, we used transcriptomic and metabolomic analyses to compare the nitrate assimilation response in tobacco plants either expressing DNR or lacking CLCNt2 function.

RESULTS

When grown in a controlled environment, both DNR and CLCNt2-KO (CLCKO) plants exhibited (1) reduced nitrate content in the leaf; (2) increased N-assimilation into the amino acids Gln and Asn; and (3) a similar pattern of differential regulation of several genes controlling stress responses, including water stress, and cell wall metabolism in comparison to wild-type plants. Differences in gene regulation were also observed between DNR and CLCKO plants, including genes encoding nitrite reductase and asparagine synthetase.

CONCLUSIONS

Our data suggest that even though both DNR and CLCKO plants display common characteristics with respect to nitrate assimilation, cellular responses, water stress, and cell wall remodeling, notable differences in gene regulatory patterns between the two low nitrate plants are also observed. These findings open new avenues in using plants fixing more nitrogen into amino acids for plant improvement or nutrition perspectives.

Root morphology, nitrogen metabolism and amino acid metabolism in soybean under low phosphorus stress

Phosphorus deficiency is a major influence on growth and development of soybean. Therefore, improving phosphorus utilization efficiency in soybean is a research priority for the soybean community. In this experiment, Liaodou 13 (high phosphorus utilization: HPE) and Tiefeng 3 (low phosphorus utilization: LPE) were used as test varieties. We investigated changes in root morphology, amino acid content, and content of key substances of the nitrogen metabolic pathway with normal phosphorus (0.5 mM) and low phosphorus (0.005 mM) treatments. The results showed that the root length, root surface area and number of lateral roots of HPE roots were higher than those of LPE roots under normal and low phosphorus conditions. The contents of different types of amino acids showed different trends in two varieties. The HPE showed small change in the content of total hydrolyzed amino acids under the low phosphorus condition when compared to the normal phosphorus treatment by a 6.67% decrease, on the contrary LPE showed a drastic decrease by 20.36%. However, HPE exhibited similar decreasing trends in the contents of hydrolyzed and free aspartic acid with the low phosphorus treatment. Moreover, the contents of free histidine and valine in LPE were significantly increased by 657.84% and 149.29% respectively, in contrast to significant decreases in HPE. In aspects of major nutrient elements, the contents of phosphorus, total nitrogen and ammonia nitrogen in both HPE and LPE varieties decreased to dramatic levels. However, the nitrate nitrogen content significantly increased 78.51% for HPE and 65.12% for LPE. Compare to the normal condition, the GOGAT activity in HPE decreased by 5.18% but increased by 33.10% in LPE. Compare to the normal condition, the GS activity in HPE increased by 7.26% but decreased by 21.72% in LPE under phosphorus deficiency. In summary, the phosphorus-efficient soybean variety HPE exhibited superior tolerance to low phosphorus deficiency through advantageous root morphology, phosphorus uptake and transfer capability, and balanced amino acid metabolism and nitrogen metabolism pathways.

Physiological and biochemical responses in a cadmium accumulator of traditional Chinese medicine Ligusticum sinense cv. Chuanxiong under cadmium condition

Ligusticum sinense cv. Chuanxiong (L. Chuanxiong), one of the widely used traditional Chinese medicines (TCM), is currently facing the problem of excessive cadmium (Cd) content. This problem has significantly affected the quality and safety of L. Chuanxiong and become a vital factor restricting its clinical application and international trade development. Currently, to solve the problem of excessive Cd, it is essential to research the response mechanisms of L. Chuanxiong to Cd stress. However, there are few reports on its physiological and biochemical responses under Cd stress. In this study, we conducted the hydroponic experiment under 25 μM Cd stress, based on the Cd content of the genuine producing areas soil. The results showed that 25 μM Cd stress not only had no significant inhibitory effect on the growth of L. Chuanxiong seedlings but also significantly increased the chlorophyll a content (11.79%) and root activity (51.82%) compared with that of the control, which might be a hormesis effect. Further results showed that the absorption and assimilation of NH4+ increased in seedlings under 25 μM Cd stress, which was associated with high photosynthetic pigments. Here, we initially hypothesized and confirmed that Cd exceedance in the root system of L. Chuanxiong was due to the thickening of the root cell wall, changes in the content of the cell wall components, and chelation of Cd by GSH. There was an increase in cell wall thickness (57.64 %) and a significant increase in cellulose (25.48%) content of roots under 25 μM Cd stress. In addition, L. Chuanxiong reduced oxidative stress caused by 25 μM Cd stress mainly through the GSH/GSSG cycle. Among them, GSH-Px (48.26%) and GR (42.64%) activities were significantly increased, thereby maintaining a high GSH/GSSG ratio. This study preliminarily reveals the response of L. Chuanxiong to Cd stress and the mechanism of Cd enrichment. It provides a theoretical basis for solving the problem of Cd excessive in L. Chuanxiong.

Physiological response to low-nitrogen stress and comprehensive evaluation in four rice varieties

Rice (Oryza sativa L.) research has rarely focused on the response to low-nitrogen stress in different subtypes previously and lacked a low-nitrogen tolerance evaluation system. Here, we investigated the physiological characteristics under moderate and low-nitrogen stress conditions in two japonica cultivars (NG46 and NG9108) and two indica cultivars (LYP9 and 9311). Using subordinate function analysis and principal component analysis, the low-nitrogen tolerance of four rice varieties was comprehensively evaluated; stomatal conductance, total carotenoid content, and nitrate reductase NR activity were taken as the low-nitrogen tolerance evaluation system. Among the four rice cultivars, NG46 and LYP9 had significant advantages in photosynthetic gas-exchange capacity, optimizing the balance between light-harvesting capacity, the ratio of reaction center inactivation, the magnitude of decrease in heat dissipation, and nitrogen-metabolism enzyme activities. The results investigated the physiological mechanisms of rice adaptation to low-nitrogen stress and offered a reliable method for assessing low-nitrogen tolerance in rice.

Comparative Proteomic Analysis of Two Wild Soybean (Glycine soja) Genotypes Reveals Positive Regulation of Saline-Alkaline Stress Tolerance by Tonoplast Transporters

Soil saline-alkalization is a significant constraint for soybean production. Owing to higher genetic diversity of wild soybean, we compared the proteomic landscape of saline-alkaline stress-tolerant (SWBY032) and stress-sensitive (SWLJ092) wild soybean (Glycine soja) strains under saline and saline-alkaline stress. Out of 346 differentially expressed proteins (DEPs) specifically involved in saline-alkaline stress, 159 and 133 DEPs were identified in only SWLJ092 and SWBY032, respectively. Functional annotations revealed that more ribosome proteins were downregulated in SWLJ092, whereas more membrane transporters were upregulated in SWBY032. Moreover, protein-protein interaction analysis of 133 DEPs revealed that 14 protein-synthesis- and 2 TCA-cycle-related DEPs might alter saline-alkaline tolerance by affecting protein synthesis and amino acid metabolism. Furthermore, we confirmed G. soja tonoplast intrinsic protein (GsTIP2-1 and GsTIP2-2), inositol transporter (GsINT1), sucrose transport protein (GsSUC4), and autoinhibited Ca2+-ATPase (GsACA11) as tonoplast transporters can synergistically improve saline-alkaline tolerance in soybean, possibly by relieving the inhibition of protein synthesis and amino acid metabolism. Overall, our findings provided a foundation for molecular breeding of a saline-alkaline stress-tolerant soybean.

Specific response of soil properties to microplastics pollution: A review

The soil environment is a critical component of the global ecosystem and is essential for nutrient cycling and energy flow. Various physical, chemical, and biological processes occur in the soil and are affected by environmental factors. Soil is vulnerable to pollutants, especially emerging pollutants, such as microplastics (MPs). MPs pollution has become a significant environmental problem, and its harm to human health and the environment cannot be underestimated. However, most studies on MPs pollution have focused on marine ecosystems, estuaries, lakes, rivers, and other aquatic environments, whereas few considered the effects and hazards of MPs pollution of the soil, especially the responses of different environmental factors to MPs. In addition, when many MPs pollutants produced by agricultural activities (mulching film, organic fertilizer) and atmospheric sedimentation enter the soil environment, it will cause changes in soil pH, organic matter composition, microbial community, enzyme activity, animals and plants and other environmental factors. However, due to the complex and changeable soil environment, the heterogeneity is very strong. The changes of environmental factors may react on the migration, transformation and degradation of MPs, and there are synergistic or antagonistic interactions among different factors. Therefore, it is very important to analyze the specific effects of MPs pollution on soil properties to clarify the environmental behavior and effects of MPs. This review focuses on the source, formation, and influencing factors of MPs pollution in soil and summarizes its effect and influence degree on various soil environmental factors. The results provide research suggestions and theoretical support for preventing or controlling MPs soil pollution.

Effects of Valine and Urea on Carbon and Nitrogen Accumulation and Lignin Content in Peach Trees

Nitrogen availability and uptake levels can affect nutrient accumulation in plants. In this study, the effects of valine and urea supplementation on the growth of new shoots, lignin content, and carbon and the nitrogen metabolism of 'Ruiguang 39/peach' were investigated. Relative to fertilization with urea, the application of valine inhibited shoot longitudinal growth, reduced the number of secondary shoots in autumn, and increased the degree of shoot lignification. The application of valine also increased the protein level of sucrose synthase (SS) and sucrose phosphate synthase (SPS) in plant leaves, phloem, and xylem, thereby increasing the soluble sugar and starch content. It also resulted in an increase in nitrate reductase (NR), glutamine synthase (GS), and glutamate synthase (GOGAT) protein levels, with an increase in plant contents of ammonium nitrogen, nitrate nitrogen, and soluble proteins. Although urea application increased the protein level of carbon- and nitrogen-metabolizing enzymes, the increase in plant growth reduced the overall nutrient accumulation and lignin content per unit tree mass. In conclusion, the application of valine has a positive effect on increasing the accumulation of carbon and nitrogen nutrients in peach trees and increasing the lignin content.

Transcriptome analysis and identification of genes associated with leaf crude protein content in foxtail millet [Setaria italica (L.) P. Beauv.]

Introduction: Spruce spider mite is a primary insect pest of Chinese chestnut in China and seriously influences its yield and quality. However, the current management against this mite is costly and poorly effective. In previous research, we bred several foxtail millet materials for interplanting with chestnut tree, and found that they had high levels of crude protein (CP) in leaves and attracted spruce spider mite to feed on the leaves, thereby reducing chestnut damage. Methods: In this study, four foxtail millet varieties with significant differences in leaf crude protein content were used for high-throughput sequencing and identification of genes associated with leaf crude protein content. Gene enrichment analyses were carried out to comprehend the functions of these genes and the biological processes in which they are involved. In addition, transcription factors (TFs) were evaluated. Results: 435 differentially expressed genes (DEGs) were identified, suggesting their potential role in crude protein accumulation. Some differentially expressed genes were found to be associated with nitrogen metabolism and ubiquitin-mediated proteolysis pathways. Moreover, we identified 40 TF genes categorized into 11 transcription factor families. Discussion: Our findings represent an important resource that clarifies the mechanisms of accumulation and control of leaf crude protein in foxtail millet, and provide an opportunity for suppression of spruce spider mite attack on Chinese chestnut by interplanting with foxtail millet varieties with high concentrations of leaf crude protein.

The source, level, and balance of nitrogen during the somatic embryogenesis process drive cellular differentiation

Since the discovery of somatic embryogenesis (SE), it has been evident that nitrogen (N) metabolism is essential during morphogenesis and cell differentiation. Usually, N is supplied to cultures in vitro in three forms, ammonium (NH₄⁺), nitrate (NO₃^-), and amino N from amino acids (AAs). Although most plants prefer NO₃^- to NH₄⁺, NH₄⁺ is the primary form route to be assimilated. The balance of NO₃^- and NH₄⁺ determines if the morphological differentiation process will produce embryos. That the N reduction of NO₃^- is needed for both embryo initiation and maturation is well-established in several models, such as carrot, tobacco, and rose. It is clear that N is indispensable for SE, but the mechanism that triggers the signal for embryo formation remains unknown. Here, we discuss recent studies that suggest an optimal endogenous concentration of auxin and cytokinin is closely related to N supply to plant tissue. From a molecular and biochemical perspective, we explain N's role in embryo formation, hypothesizing possible mechanisms that allow cellular differentiation by changing the nitrogen source.

Citizen Science as an Innovative Approach to Analyze Spatial and Temporal Influences on Nitrate Pollution of Water Bodies: Results of a Participatory Research Project in Germany

Anthropogenic influences and the excessive input of reactive nitrogen compounds into the environment have already severely destabilized the natural nitrogen cycle. Especially in northwestern Germany, many water bodies are polluted by nitrate, inducing negative effects on the ecosystem and drinking water as well as possible risks to human health. In cooperation with almost 600 citizens and 200 students, this issue was addressed in a citizen science project carried out by the Universities of Osnabrück and Oldenburg, gathering 8754 nitrate measurements at 545 monitoring sites from September 2019 to March 2021. The data were used to evaluate the potential of citizen science for research on nitrogen pollution of water bodies. In a pre-investigation, we proved that nitrate test strips are suitable as a measurement method for the citizen science approach to provide an overview of nitrate pollution. We then analyzed whether the citizen science approach can be used to establish an area-wide representative measurement network, to what extent the data can be used for spatial and temporal analyses, and whether the data are consistent with the results of other monitoring initiatives. For this purpose, geoprocessing tools, such as spatial joins and heatmaps, were combined with descriptive statistics and nonparametric statistical tests. Although it was not possible to establish a representative monitoring network due to the uneven spatial distribution of monitoring sites, a large part of the intended area was covered by monitoring sites. Thus, the data provide a good overview of the nitrate pollution in the region and shed light on influencing factors. Spatial impacts, such as land cover and use and hydrogeological conditions, as well as seasonal impacts were statistically evidenced with the citizen science data. Furthermore, the consistency of the data with the measurement results of established measurement initiatives confirm the quality of the citizen science dataset. Accordingly, citizen science can be used to investigate spatial and temporal factors influencing nitrogen pollution, and thus contributes to water conservation research as an innovative approach.

Moderately Reducing Nitrogen Application Ameliorates Salt-Induced Growth and Physiological Damage on Forage Bermudagrass

Nitrogen (N) application is one of the most effective methods to alleviate salt-induced damage on plants. Forage bermudagrass has higher utilization potential on saline soil, but whether its N requirement changed under high salt stress has not been studied. Through examining plant growth-related traits, salt-stress-responsive physiological traits, photosynthesis, N metabolism, and forage quality supplied with different N concentrations under high salt stress (200 mM NaCl), we noticed that the optimum N requirement of forage bermudagrass reduced. When supplied with 10 mM N under higher salt stress, plants had a similar biomass, turf color, and chlorophyll content with plants supplied with 15 mM N, accompanied by a lower firing rate and Na+ content of leaves. The N content, crude protein, crude fat content, the expression of AMTs (ammonium transporters), NR (nitrate reductase), GS (glutamine synthetase), and GOGAT (glutamate synthetase), the chlorophyll fluorescence curve, and parameters of leaves (e.g., PIABS; PICS; ABS/RC; TRo/RC; ETo/RC) all peaked under 10 mM N under high salt stress instead of 15 mM N. Through exploring the proper N application under higher salt stress and its alleviation mechanisms, our results indicated that moderate reduction in N application under high salt level had a maximum promotion effect on the salt tolerance of forage bermudagrass without growth or forage quality inhibition. These response mechanisms obtained can provide a useful reference for N application in moderation rather than in excess on forage bermudagrass, especially in higher salinity areas.

Protein Tyrosine Nitration in Plant Nitric Oxide Signaling

Nitric oxide (NO), which is ubiquitously present in living organisms, regulates many developmental and stress-activated processes in plants. Regulatory effects exerted by NO lies mostly in its chemical reactivity as a free radical. Proteins are main targets of NO action as several amino acids can undergo NO-related post-translational modifications (PTMs) that include mainly S-nitrosylation of cysteine, and nitration of tyrosine and tryptophan. This review is focused on the role of protein tyrosine nitration on NO signaling, making emphasis on the production of NO and peroxynitrite, which is the main physiological nitrating agent; the main metabolic and signaling pathways targeted by protein nitration; and the past, present, and future of methodological and strategic approaches to study this PTM. Available information on identification of nitrated plant proteins, the corresponding nitration sites, and the functional effects on the modified proteins will be summarized. However, due to the low proportion of in vivo nitrated peptides and their inherent instability, the identification of nitration sites by proteomic analyses is a difficult task. Artificial nitration procedures are likely not the best strategy for nitration site identification due to the lack of specificity. An alternative to get artificial site-specific nitration comes from the application of genetic code expansion technologies based on the use of orthogonal aminoacyl-tRNA synthetase/tRNA pairs engineered for specific noncanonical amino acids. This strategy permits the programmable site-specific installation of genetically encoded 3-nitrotyrosine sites in proteins expressed in Escherichia coli, thus allowing the study of the effects of specific site nitration on protein structure and function.

Sulfide and transition metals - A partnership for life

Sulfide and transition metals often came together in Biology. The variety of possible structural combinations enabled living organisms to evolve an array of highly versatile metal-sulfide centers to fulfill different physiological roles. The ubiquitous iron‑sulfur centers, with their structural, redox, and functional diversity, are certainly the best-known partners, but other metal-sulfide centers, involving copper, nickel, molybdenum or tungsten, are equally crucial for Life. This review provides a concise overview of the exclusive sulfide properties as a metal ligand, with emphasis on the structural aspects and biosynthesis. Sulfide as catalyst and as a substrate is discussed. Different enzymes are considered, including xanthine oxidase, formate dehydrogenases, nitrogenases and carbon monoxide dehydrogenases. The sulfide effect on the activity and function of iron‑sulfur, heme and zinc proteins is also addressed.

Altitudinal Variation of Metabolites, Mineral Elements and Antioxidant Activities of Rhodiola crenulata (Hook.f. & Thomson) H.Ohba

Rhodiolacrenulata (Hook.f. & Thomson) H.Ohba is an alpine medicinal plant that can survive in extreme high altitude environments. However, its changes to extreme high altitude are not yet clear. In this study, the response of Rhodiola crenulata to differences in altitude gradients was investigated through chemical, ICP-MS and metabolomic methods. A targeted study of Rhodiola crenulata growing at three vertical altitudes revealed that the contents of seven elements Ca, Sr, B, Mn, Ni, Cu, and Cd, the phenolic components, the ascorbic acid, the ascorbic acid/dehydroascorbate ratio, and the antioxidant capacity were positively correlated with altitude, while the opposite was true for total ascorbic acid content. Furthermore, 1165 metabolites were identified: flavonoids (200), gallic acids (30), phenylpropanoids (237), amino acids (100), free fatty acids and glycerides (56), nucleotides (60), as well as other metabolites (482). The differential metabolite and biomarker analyses suggested that, with an increasing altitude: (1) the shikimic acid-phenylalanine-phenylpropanoids-flavonoids pathway was enhanced, with phenylpropanoids upregulating biomarkers much more than flavonoids; phenylpropanes and phenylmethanes upregulated, and phenylethanes downregulated; the upregulation of quercetin was especially significant in flavonoids; upregulation of condensed tannins and downregulation of hydrolyzed tannins; upregulation of shikimic acids and amino acids including phenylalanine. (2) significant upregulation of free fatty acids and downregulation of glycerides; and (3) upregulation of adenosine phosphates. Our findings provide new insights on the responses of Rhodiola crenulata to extreme high altitude adversity.

Transcriptome Analysis of Two Near-Isogenic Lines with Different NUE under Normal Nitrogen Conditions in Wheat

Simple Summary

High nitrogen use efficiency (NUE) in wheat (Triticum aestivum L.) is the key to ensure high yield and reduce pollution. Understanding the physiological and molecular changes that regulate NUE is important for the breeding of high-NUE wheat varieties. Carbon and nitrogen metabolism are the basic metabolic pathways in plants. It becomes important to reveal the underlying molecular mechanisms related to carbon and nitrogen metabolism, which may be helpful to improve NUE. In this paper, two wheat near-isogenic lines (NILs) with contrasting NUE were performed RNA-Sequencing (RNA-Seq) to identify candidate genes associated with carbon/nitrogen metabolism under normal nitrogen conditions. Our research may provide new insights into the comprehensive understanding of the molecular mechanism underlying NUE.

Abstract

Nitrogen (N) is an essential nutrient element for crop productivity. Unfortunately, the nitrogen use efficiency (NUE) of crop plants gradually decreases with the increase of the N application rate. Nevertheless, little has been known about the molecular mechanisms of differences in NUE among genotypes of wheat. In this study, we used RNA-Sequencing (RNA-Seq) to compare the transcriptome profiling of flag leaves at the stage of anthesis in wheat NILs (1Y, high-NUE, and 1W, low-NUE) under normal nitrogen conditions (300 kg N ha⁻¹, corresponding to 1.6 g N pot⁻¹). We identified 7023 DEGs (4738 upregulated and 2285 downregulated) in the comparison between lines 1Y and 1W. The responses of 1Y and 1W to normal N differed in the transcriptional regulatory mechanisms. Several genes belonging to the GS and GOGAT gene families were upregulated in 1Y compared with 1W, and the enhanced carbon metabolism might lead 1Y to produce more C skeletons, metabolic energy, and reductants for nitrogen metabolism. A subset of transcription factors (TFs) family members, such as ERF, WRKY, NAC, and MYB, were also identified. Collectively, these identified candidate genes provided new information for a further understanding of the genotypic difference in NUE.

Biochar induced improvement in root system architecture enhances nutrient assimilation by cotton plant seedlings

BACKGROUND

Raising nitrogen use efficiency of crops by improving root system architecture is highly essential not only to reduce costs of agricultural production but also to mitigate climate change. The physiological mechanisms of how biochar affects nitrogen assimilation by crop seedlings have not been well elucidated.

RESULTS

Here, we report changes in root system architecture, activities of the key enzymes involved in nitrogen assimilation, and cytokinin (CTK) at the seedling stage of cotton with reduced urea usage and biochar application at different soil layers (0-10 cm and 10-20 cm). Active root absorption area, fresh weight, and nitrogen agronomic efficiency increased significantly when urea usage was reduced by 25% and biochar was applied in the surface soil layer. Glutamine oxoglutarate amino transferase (GOGAT) activity was closely related to the application depth of urea/biochar, and it increased when urea/biochar was applied in the 0-10 cm layer. Glutamic-pyruvic transaminase activity (GPT) increased significantly as well. Nitrate reductase (NR) activity was stimulated by CTK in the very fine roots but inhibited in the fine roots. In addition, AMT1;1, gdh3, and gdh2 were significantly up-regulated in the very fine roots when urea usage was reduced by 25% and biochar was applied.

CONCLUSION

Nitrogen assimilation efficiency was significantly affected when urea usage was reduced by 25% and biochar was applied in the surface soil layer at the seedling stage of cotton. The co-expression of gdh3 and gdh2 in the fine roots increased nitrogen agronomic efficiency. The synergistic expression of the ammonium transporter gene and gdh3 suggests that biochar may be beneficial to amino acid metabolism.