Major Source Of Nitrogen Research Articles

Influence of ecologically relevant urea fertilizer concentrations on nematodes: A microcosm experiment

Aim of study: Urea remains one of the most widely used chemical fertilisers in the world and is used extensively in the Philippines as a major source of nitrogen for crops. However, we have a very limited understanding of its impact on soil fauna such as nematodes. In this study, we demonstrated the suitability of the microcosm set-up to assess chemical effects on nematode communities under controlled conditions and determined the effects of urea on nematode communities. Area of study: The soil samples were obtained from a relatively “less disturbed” field in Bukidnon, Central Mindanao and were taken for experimentation in a greenhouse at Premier Research Institute of Science and Mathematics (PRISM), Mindanao State University - Iligan Institute of Technology (MSU-IIT), Iligan City, Philippines. Material and Methods: The soil was collected and analysed for its physiological properties. The soil was then exposed to urea concentrations (0 mg/kg, 19.67 mg/kg, 39.33 mg/kg and 78.66 mg/kg) in a microcosm for 45 days. Nematodes were then collected and processed using a modified dish method. Main results: Firstly, the natural microcosms (without urea) showed that nematode abundance and the number of genera decreased by 28% and 35%, respectively. The results suggest that the current microcosm setup may still be useful in testing the effects of certain chemicals of interest. Secondly, no significant effects on the number of genera and diversity indices were observed with urea, except on the day 15 when nematode abundance was significantly higher at 39.33 mg/kg than at 19.67 mg/kg. Research highlights: This study shows that the above ecologically relevant urea concentrations had no negative impact on nematode community structure during the 45-day exposure.

Spatial distribution and isotopic signatures of N and C in mosses across Europe.

The accumulation of nitrogen (N) in moss tissue has proven to be a reliable marker of increasing N deposition. However, this measurement does not offer additional data about the origin of pollution. In this respect, the analysis of the N isotopic ratios might be a helpful tool in providing supplementary information about the nature of the nitrogenous species in biomonitoring surveys. Furthermore, isotopic signatures have been extensively used in the study of N and carbon (C) biogeochemical cycles. The main purpose of this study was to determine N and C elemental contents and their stable isotopes in mosses to investigate atmospheric pollution patterns across Europe. We aimed at identifying the main N polluted areas and evaluating the potential use of isotopic signatures in the attribution of pollution sources at a regional scale. With these objectives in mind, >1300 samples from 15 countries from Europe, all of them participants of the ICP-Vegetation programme 2005-2006, were analyzed for their C and N contents and δ15N and δ13C. The results were compared to those derived from EMEP model, which provided modeled deposition and emission data, as well as to the predominant land uses at the sampling sites (based on CORINE Land Cover). This evaluation suggests that additional measurements of stable C and N isotopes in mosses could be a valuable tool in European environmental surveys. Such measurements not only provide useful information for identifying probable pollution sources but also enable the quantification of their contributions, serving as biological indicators of significant environmental processes. This study presents the first quantitative assessment of major atmospheric nitrogen (N) sources based on stable isotope analysis on a European scale, establishing a framework for evaluating historical changes in N across the region.

Studies on impact of different levels and frequencies of nitrogen fertigation on capsicum (Capsicum annuum) crop

Capsicum is a major nutrient-rich vegetable crop grown all over India. The drip irrigation method is the best suited for capsicum crop, particularly due to water scarcity. A study was carried out during 2019–20 at Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana to examine the influence of three different nitrogen fertigation level (75, 100, and 125% RDN) and three different combinations of fertigation frequency i.e. with every irrigation, weekly and fortnightly, with drip irrigation on different parameters of capsicum crop. Urea was applied on the experimental fields as the major source of nitrogen. Fertigation level of 125% RDN applied with every irrigation (FF1FL3) obtained the highest fruit yield (178.4 q/ha), while the lowest yield (158.2 q/ha) was recorded with 75% RDN in FF1FL1 treatment. In comparison to fertigation frequency with every irrigation and 75% RDN, 33.7% and 34.5% more yield was obtained in 100 and 125% RDN treatment. Average plant height, fruit width, fruit length, fruits/plant, and fruit weight were found maximum at 125% RDN, followed by 100% RDN under with every irrigation. The experiment results showed that the highest water use efficiency (3.7 kg/m3) was obtained with treatment FF1FL3, while lowest (3.2 kg/m3) was found in FF3FL1 treatment. However, the treatment with 75% RDN with every irrigation fertigation frequency showed maximum nitrogen use efficiency (134.8). The nitrogen use efficiency increased when the nitrogen fertigation level decreased from 125–75%.

Time-course analysis of the transcriptome of Arabidopsis thaliana leaves under high-concentration ammonium sulfate treatment

ABSTRACT Ammonium fertilization is of great interest for future agriculture, as unlike nitrate, ammonium use efficiency does not decrease in C3 plants, even in environments with elevated CO2 concentrations. However, excess ammonium often results in toxic effects such as growth suppression and chlorosis, i.e. ammonium toxicity. The addition of nitrate, a major source of nitrogen commonly found in soils, has been shown to alleviate these toxic effects. Understanding the mechanisms of ammonium toxicity in the presence of nitrate is crucial for the effective use of ammonium fertilizers in crop cultivation. To elucidate these responses, a time-course analysis of the transcriptome was performed on A. thaliana leaves treated with high concentrations of ammonium sulfate in the presence of sufficient nitrate. The expression of nitrate-inducible genes tended to be downregulated by the treatment. The expression of genes relating to abscisic acid (ABA), jasmonic acid (JA), salicylic acid (SA), and membrane trafficking was upregulated, whereas that of photosynthesis-, auxin-, and cytokinin-related genes involved in growth and development was downregulated. The induction of many osmotic stress-responsive genes and nitric oxide (NO)-inducible genes suggests the involvement of osmotic stress and NO signaling in the response. This study provides a novel and comprehensive overview of transcriptional changes occurring in response to high ammonium sulfate concentrations with sufficient nitrate, and sheds light on potential pathways involved in ammonium toxicity under these conditions.

Quantifying the relative importance of agricultural land use as a predictor of catchment nitrogen and phosphorus concentrations

Agriculture is a major source of nitrogen (N) and phosphorus (P) in freshwater ecosystems, and different management strategies exist to reduce farmland nutrient losses and thus mitigate freshwater eutrophication. The importance of agricultural sources of N and P as drivers of water quality is known to vary spatially, but quantification of the relative importance of the nutrient sources shaping this variability remains challenging, especially with reference to inputs from waste water treatment works. Addressing this knowledge gap is key for targeting management strategies to where they are likely to have the greatest effect. To advance our understanding in this area, this study assesses the impact of population density as a driver of the relative importance of agricultural land use for predicting mean Total Oxidised Nitrogen (TON) and Reactive Phosphorus (RP) concentrations in rivers in England, using two different data-driven, statistical approaches: a generalised linear model and random forest. Our results show that agricultural N and P sources dominate in catchments with low population density, where stream water concentrations are lower and waste water treatment works are numerous, but smaller in terms of the population equivalent served. Agricultural N and P sources are not important predictors of N and P in catchments with high population density, where contributions from waste water treatment works dominate. These results require cautious interpretation, as model validation outcomes show that high TON and RP concentrations are consistently underpredicted. Altogether, our results suggest that the relative contribution of agricultural sources may be overestimated in densely populated catchments, relative to point sources from waste water treatment works, and that management strategies to reduce the contribution of agriculture to N and P in rivers may be better targeted towards catchments with lower population density, as this is where agricultural land use is the primary source of N and P.

Nano urea and its Superiority Over urea as Fertilizer Elaborating some Applications - An Overview

Conventional urea, a major source of nitrogen for plants, suffers from losses due to ammonia volatilization and leaching. Nano-urea, with its reduced particle sizes (typically 1-100 nm), offers potential benefits like enhanced nutrient use efficiency and controlled release. This review explores the synthetic methods, characterization techniques, applications in fruit crops and food grains, grain viz. Kharif Paddy wheat Millette, etc. and the advantages and disadvantages of Nano-urea for sustainable and precision agriculture.

Reactive nitrogen losses from Canadian agricultural soils over 36 years

Agriculture is a major source of reactive nitrogen (Nr) losses through ammonia (NH3) volatilization, nitrous oxide (N2O) emissions and nitrate (NO3−) leaching. A Canadian Agricultural Nitrogen Budget for Reactive N (CANBNr) model was developed to estimate the nitrogen (N) balance in soils, including N removals by harvested crops and Nr losses for the years 1981–2016 across Canada. Annual N inputs to farmland include commercial fertilizer N, livestock manure N, symbiotic and asymbiotic biological N fixation and atmospheric N deposition of NOx and NH3. The total annual N input for Canadian farmland was 5528 Gg N (103.2 kg N ha−1) in 2016 where N removal by crops and Nr accounted for 72.5 % (74.9 kg N ha−1) and 13.4 % (13.9 kg N ha−1), respectively. The Nr losses from N2O emissions, NH3 volatilization and NO3− leaching accounted for 64 Gg N (1.2 kg N ha−1), 330 Gg N (6.2 kg N ha−1) and 348 Gg N (6.5 kg N ha−1), which represents between1.2–6.3 % of total N input. A total of 777 Gg N (14.5 kg N ha−1) remained in the soil as surplus N (14.1 % of total N input), which could be available to subsequent crops in dryer regions but might be subject to N2O loss through nitrification or denitrification processes or NO3− leaching following heavy rains in humid regions. Nitrous oxide and ammonia emissions increased over a 36-year period due to increased fertilizer N inputs. The percentage of N inputs that was estimated to be lost as Nr increased from 17.9 % in 1981 to the peak level of 19.8 % in 2001 and then declined to 13.4 % in 2016. Total N removal by crops increased at a greater rate than N input during the 2001–2016 period resulting in an increased N uptake by crops over the last 15 years. The improved management of fertilizer N for agricultural systems represents a key opportunity for both farmers and policy makers to further reduce Nr losses from Canadian farmland without negatively impacting productivity.

The jasmonate pathway promotes nodule symbiosis and suppresses host plant defense in Medicago truncatula

Root nodule symbiosis (RNS) between legumes and rhizobia is a major source of nitrogen in agricultural systems. Effective symbiosis requires precise regulation of plant defense responses. The role of the defense hormone jasmonic acid (JA) in the immune response has been extensively studied. Current research shows that JA can play either a positive or negative regulatory role in RNS depending on its concentration, but the molecular mechanisms remain to be elucidated. In this study, we found that inoculation with the rhizobia Sm1021 induces the JA pathway in Medicago truncatula, and blocking the JA pathway significantly reduces the number of infection threads. Mutations in the MtMYC2 gene, which encodes a JA signaling master transcription factor, significantly inhibited rhizobia infection, terminal differentiation, and symbiotic cell formation. Combining RNA sequencing and chromatin immunoprecipitation sequencing, we discovered that MtMYC2 regulates the expression of nodule-specific MtDNF2, MtNAD1, and MtSymCRK to suppress host defense, while it activates MtDNF1 expression to regulate the maturation of MtNCRs, which in turn promotes bacteroid formation. More importantly, MtMYC2 participates in symbiotic signal transduction by promoting the expression of MtIPD3. Notably, the MtMYC2-MtIPD3 transcriptional regulatory module is specifically present in legumes, and the Mtmyc2 mutants are susceptible to the infection by the pathogen Rhizoctonia solani. Collectively, these findings reveal the molecular mechanisms of how the JA pathway regulates RNS, broadening our understanding of the roles of JA in plant-microbe interactions.

Nitrate Signaling and Its Role in Regulating Flowering Time in Arabidopsis thaliana.

Plant growth is coordinated with the availability of nutrients that ensure its development. Nitrate is a major source of nitrogen (N), an essential macronutrient for plant growth. It also acts as a signaling molecule to modulate gene expression, metabolism, and a variety of physiological processes. Recently, it has become evident that the calcium signal appears to be part of the nitrate signaling pathway. New key players have been discovered and described in Arabidopsis thaliana (Arabidopsis). In addition, knowledge of the molecular mechanisms of how N signaling affects growth and development, such as the nitrate control of the flowering process, is increasing rapidly. Here, we review recent advances in the identification of new components involved in nitrate signal transduction, summarize newly identified mechanisms of nitrate signaling-modulated flowering time in Arabidopsis, and suggest emerging concepts and existing open questions that will hopefully be informative for further discoveries.

Chronic increasing nitrogen and endogenous phosphorus release from sediment threaten to the water quality in a semi-humid region reservoir

The water quality in the drinking water reservoir directly affects people's quality of life and health. When external pollution input is effectively controlled, endogenous release is considered the main cause of water quality deterioration. As the major nitrogen (N) and phosphorus (P) sources in reservoirs, sediment plays a vital role in affecting the water quality. To understand the spatial and temporal variation of N and P in the sediment, this study analyzed the current characteristics and cumulative effects of a semi-humid reservoir, Yuqiao Reservoir, in North China. The N and P concentrations in the reservoir sediment were decreased along the flow direction, while the minimum values were recorded at the central sediment profile. External input and algal deposition were the main factors leading to higher sediment concentrations in the east (Re-E) and west (Re-W) areas of reservoir sediment profiles. According to the long-term datasets, the peaks of both sediment total nitrogen content and deposition rate were observed in the 2010s, which has increased about three times and six times than in the1990s, respectively. Therefore, the increase in phosphorus concentration may be the main reason for eutrophication in water in recent years. The mineralization of organic matter has a significant promoting effect on releasing N and P from sediments, which will intensify eutrophication in water dominated by P and bring huge challenges to water environment management. This study highlights that the current imbalance in N and P inputs into reservoirs and the endogenous P release from sediment will have a significant impact on water quality.

Restoring soil properties in the Hyrcanian forests from machine induced compaction: Reforestation of N2‐fixing black alder (Alnus glutinosa (L.) Gaertn.)

AbstractAmong the various species of trees, black alder (Alnus glutinosa (L.) Gaertn.) is one of the most commonly used trees for the reforestation and restoration programs of degraded forestlands in the Hyrcanian forest, particularly in the skid trails. The effects of reforestation with black alder on the recovery of litter (thickness, C, N, C/N) and soil physicochemical, biochemical, biological, and microbial properties in the skid trails with three levels of compactions were examined over a 27‐year period. Results showed that the litter characteristics such as thickness, carbon (C), nitrogen (N), and C/N were at the highest level in low intensity traffic as compared to those of medium and frequent intensities. Results showed that the values of total porosity, macroporosity, aggregate stability, silt, and clay were at the lowest level in the natural stand. The highest values of soil pH, C, C/N ratio, and C storage were recorded under the skid trail with frequent machine passages. The restoration values of soil physical and chemical properties were significantly higher in the low level of machine traffic after a period of 27 years where black alder reforestation was performed on the skid trails, as compared to the medium and frequent machine traffic levels, as well as the undisturbed area. Black alder litter affected soil nitrogen and the maximum amounts of earthworm density and dry mass. This also includes fine root biomass. These data were recorded in the trails with low machine traffic as compared to those of medium and frequent traffic. The results clearly showed that black alder is effective in reaching the objectives of restoration programs, given that it promotes soil organic matter, builds up soil structure via root‐soil feedback, and improves the soil by creating a major source of nitrogen through enhancing the nitrogen cycle.

Genome-Wide Analysis of Sweet Potato Ammonium Transporter (AMT): Influence on Nitrogen Utilization, Storage Root Development and Yield.

Ammonium, as a major inorganic source of nitrogen (N) for sweet potato N utilization and growth, is specifically transported by ammonium transporters (AMTs). However, the activities of AMT family members in sweet potatoes have not been analyzed. In the present study, the sweet potato cultivar 'Pushu 32', which is planted in a large area in China, was used in field experiments at the Agricultural Base of Hainan University (20°06' N, 110°33' E) in 2021, and Sanya Nanfan Research Institute of Hainan University (18°30' N, 109°60' E) in 2022. Four N levels were tested: 0, 60, 120, and 180 kg ha-1. The results are as follows. Twelve IbAMT genes were identified in the sweet potato genome, which were classified into three distinct subgroups based on phylogeny; the same subgroup genes had similar properties and structures. IbAMT1.3 and IbAMT1.5 were mostly expressed in the storage roots under N deficiency. Compared with the NN and HN groups, IbAMT1.3 and IbAMT1.5 expressions, N content in storage roots, N uptake efficiency at the canopy closure, N fertilization contribution rates, number of storage roots per plant, storage root weight, and yield were all increased in the MN group. Furthermore, there was a significant positive correlation between the expressions of IbAMT1.3 and IbAMT1.5 with N content in the storage roots of sweet potato. In a word, IbAMT1.3 and IbAMT1.5 may regulate N utilization, affect the development of the storage root. and determine the yield of sweet potato. The results provide valuable insights into the AMT gene family's role in the use of N and effects on storage root development and yield in sweet potatoes.

Dissolved Inorganic Nutrient Biogeochemistry in an Urbanized Coastal Region: A Study of Dapeng Cove, Shenzhen

Dissolved inorganic nutrients are pivotal in maintaining the material and energy balance of marine ecosystems, impacting the survival and dynamic succession of marine organisms. To gain a deeper understanding of the source and sink characteristics of dissolved inorganic nutrients in bays affected by human activities and to elucidate the processes involving filter-feeding shellfish in relation to these nutrients, this study investigated the source and sink dynamics of dissolved inorganic nutrients in the Dapeng Cove sea area of Shenzhen. Over the past decade, a significant change in the N/P ratio within the survey area has been observed, suggesting a shift in nutrient limitation from nitrogen to phosphorus or phosphorus–silicon limitation. This induced change in the N/P ratio, along with Si/N and Si/P ratios, may facilitate the growth of cyanobacteria and, subsequently, alter the proportions of diatoms, dinoflagellates, and cyanobacteria. Seasonal fluctuations in human disturbance intensity and precipitation determine the seasonal and spatial distribution of nutrients in the bay, thereby influencing the bay ecosystem metabolism. The Land–Ocean Interactions in the Coastal Zone (LOICZ) model analysis revealed that the bay represents a major source of inorganic nitrogen and a source of phosphate in spring, summer, and autumn, while acting as a sink for phosphate in winter. Furthermore, rivers and groundwater represent the primary sources of phosphate and inorganic nitrogen in the bay. The bay exhibits an annual net ecosystem metabolic rate of 7.06 mmol C/m2/d, with denitrification dominating the nitrogen cycle at 12.65 mmol C/m2/d. Overall, the Dapeng Cove ecosystem displays net production exceeding respiration, classifying it as an autotrophic system. Additionally, the nitrogen cycle in the sea area is predominantly driven by denitrification. The analysis also revealed that the impact of oyster proliferation on the physical and chemical factors in the surveyed area is relatively weaker than that of surface runoff and groundwater inputs.

Drivers of ammonia volatilization in Mediterranean climate cropping systems

Ammonia (NH3) volatilization is the major source of nitrogen (N) loss resulting from the application of synthetic and organic N fertilizers to croplands. It is well known that in Mediterranean cropping systems, there is a relationship between the intrinsic characteristics of the climate and nitrous oxide (N2O) emissions, but whether the same relation exists for NH3 emissions remains uncertain. Here, we estimated the impact of edaphoclimatic conditions (including meteorological conditions after N fertilization), crop management factors, and the measurement technique on both the cumulative emissions and the NH3 emission factor (EF) in Mediterranean climate zones, drawing on a database of 234 field treatments. We used a machine learning method, random forest (RF), to predict volatilization and ranked variables based on their importance in the prediction. Random forest had a good predictive power for the NH3 EF and cumulative emissions, with an R2 of 0.69 and 0.76, respectively. Nitrogen fertilization rate (N rate) was the top-ranked predictor variable, increasing NH3 emissions substantially when N rate was higher than 170 kg N ha−1. Soil pH was the most important edaphoclimatic variable, showing greater emissions (36.7 kg NH3 ha−1, EF = 19.3%) when pH was above 8.2. Crop type, fertilizer type, and N application method also affected NH3 emission patterns, while water management, mean precipitation, and soil texture were ranked low by the model. Our results show that intrinsic Mediterranean characteristics had only an indirect effect on NH3 emissions. For instance, relatively low N fertilization rates result in small NH3 emissions in rainfed areas, which occupy a very significant surface of Mediterranean agricultural land. Overall, N fertilization management is a key driver in reducing NH3 emissions, but additional field factors should be studied in future research to establish more robust abatement strategies.

Submarine Groundwater Discharge Exceeds River Inputs as a Source of Nutrients to the Great Barrier Reef.

Rivers are often assumed to be the main source of nutrients triggering eutrophication in the Great Barrier Reef (GBR). However, existing nutrient budgets suggest a major missing source of nitrogen and phosphorus sustaining primary production. Here, we used radium isotopes to resolve submarine groundwater discharge (SGD)-derived, shelf-scale nutrient inputs to the GBR. The total SGD was ∼10-15 times greater than average river inputs, with nearshore groundwater discharge accounting for ∼30% of this. Total SGD accounted for >30% of all known dissolved inorganic N and >60% of inorganic P inputs and exceeded regional river inputs. However, SGD was only a small proportion of the nutrients necessary to sustain primary productivity, suggesting that internal recycling processes still dominate the nutrient budget. With millions of dollars spent managing surface water nutrient inputs to reef systems globally, we argue for a shift in the focus of management to safeguard reefs from the impacts of excess nutrients.

Transcriptomic and Non-Targeted Metabolomic Analyses Reveal Changes in Metabolic Networks during Leaf Coloration in Cyclocarya paliurus (Batalin) Iljinsk

Secondary metabolites in Cyclocarya paliurus (Batalin) Iljinsk. leaves are beneficial for human health. The synthesis and accumulation of secondary metabolites form a complex process that is influenced by the trade-off between primary and secondary metabolism and by the biosynthetic pathways themselves. In this study, we explored the relationship between secondary metabolite accumulation and the activity of metabolic networks in leaves of C. paliurus. Leaves at three different growth stages were subjected to transcriptomic and non-targeted metabolomic analyses. The results revealed that nitrogen assimilation increased and carbon assimilation decreased as leaves matured, and the patterns of secondary metabolite accumulation and gene expression differed among the leaves at different growth stages. Mature green leaves had higher nitrogen assimilation and lower carbon assimilation, which were correlated with variations in secondary metabolite accumulation. As a major source of carbon and nitrogen, glutamine accumulated in the mature green leaves of C. paliurus. The accumulation of glutamine inhibited phenylalanine biosynthesis by modulating the pentose phosphate pathway but promoted acetyl-CoA biosynthesis through the tricarboxylic acid cycle. These changes led to decreased flavonoid contents and increased triterpenoid contents in mature leaves. These metabolomic and transcriptomic data reveal the differential expression of metabolic regulatory networks during three stages of leaf development and highlight the trade-off between primary and secondary metabolism. Our results provide a comprehensive picture of the metabolic pathways that are active in the leaves of C. paliurus at different growth stages.

Diazotrophy in the Indian Ocean: Current understanding and future perspectives

AbstractDinitrogen (N2) fixation provides the major source of reactive nitrogen in the open ocean, sustaining biological productivity. The Indian Ocean (IO) covers 22% of the ocean surface, while it only represents 1% of the global diazotroph database. Hence, constraining the sources of nitrogen in the IO is crucial. Here, we compile three decades of N2 fixation and diazotroph DNA data in the IO. Our analysis reveals basin‐scale yearly rates between ~ 7 and 13 Tg N yr−1. These rates are in the range of previous modeling‐based estimates but may represent a lower bound estimate due to the lack of data in this basin. Diazotroph variability among sub‐basins may suggest endemicity but needs to be taken with caution due to biased sampling toward certain seasons and uneven spatial coverage. We provide recommendations for a more accurate representation of the IO in the global nitrogen budget and our knowledge of diazotroph biogeography.

Plastid-localized amino acid metabolism coordinates rice ammonium tolerance and nitrogen use efficiency.

Ammonium toxicity affecting plant metabolism and development is a worldwide problem impeding crop production. Remarkably, rice (Oryza sativa L.) favours ammonium as its major nitrogen source in paddy fields. We set up a forward-genetic screen to decipher the molecular mechanisms conferring rice ammonium tolerance and identified rohan showing root hypersensitivity to ammonium due to a missense mutation in an argininosuccinate lyase (ASL)-encoding gene. ASL localizes to plastids and its expression is induced by ammonium. ASL alleviates ammonium-inhibited root elongation by converting the excessive glutamine to arginine. Consequently, arginine leads to auxin accumulation in the root meristem, thereby stimulating root elongation under high ammonium. Furthermore, we identified natural variation in the ASL allele between japonica and indica subspecies explaining their different root sensitivity towards ammonium. Finally, we show that ASL expression positively correlates with root ammonium tolerance and that nitrogen use efficiency and yield can be improved through a gain-of-function approach.

Distribution and survival strategies of endemic and cosmopolitan diazotrophs in the Arctic Ocean

Dinitrogen (N2) fixation is the major source of reactive nitrogen in the ocean and has been considered to occur specifically in low-latitude oligotrophic oceans. Recent studies have shown that N2 fixation also occurs in the polar regions and thus is a global process, although the physiological and ecological characteristics of polar diazotrophs are not yet known. Here, we successfully reconstructed diazotroph genomes, including that of cyanobacterium UCYN-A (Candidatus ‘Atelocyanobacterium thalassa’), from metagenome data corresponding to 111 samples isolated from the Arctic Ocean. These diazotrophs were highly abundant in the Arctic Ocean (max., 1.28% of the total microbial community), suggesting that they have important roles in the Arctic ecosystem and biogeochemical cycles. Further, we show that diazotrophs within genera Arcobacter, Psychromonas, and Oceanobacter are prevalent in the <0.2 µm fraction in the Arctic Ocean, indicating that current methods cannot capture their N2 fixation. Diazotrophs in the Arctic Ocean were either Arctic-endemic or cosmopolitan species from their global distribution patterns. Arctic-endemic diazotrophs, including Arctic UCYN-A, were similar to low-latitude-endemic and cosmopolitan diazotrophs in genome-wide function, however, they had unique gene sets (e.g., diverse aromatics degradation genes), suggesting adaptations to Arctic-specific conditions. Cosmopolitan diazotrophs were generally non-cyanobacteria and commonly had the gene that encodes the cold-inducible RNA chaperone, which presumably makes their survival possible even in deep, cold waters of global ocean and polar surface waters. This study shows global distribution pattern of diazotrophs with their genomes and provides clues to answering the question of how diazotrophs can inhabit polar waters.

GmNAC039 and GmNAC018 activate the expression of cysteine protease genes to promote soybean nodule senescence.

Root nodules are major sources of nitrogen for soybean (Glycine max (L.) Merr.) growth, development, production, and seed quality. Symbiotic nitrogen fixation is time-limited, as the root nodule senesces during the reproductive stage of plant development, specifically during seed development. Nodule senescence is characterized by the induction of senescence-related genes, such as papain-like cysteine proteases (CYPs), which ultimately leads to the degradation of both bacteroids and plant cells. However, how nodule senescence-related genes are activated in soybean is unknown. Here, we identified 2 paralogous NAC transcription factors, GmNAC039 and GmNAC018, as master regulators of nodule senescence. Overexpression of either gene induced soybean nodule senescence with increased cell death as detected using a TUNEL assay, whereas their knockout delayed senescence and increased nitrogenase activity. Transcriptome analysis and nCUT&Tag-qPCR assays revealed that GmNAC039 directly binds to the core motif CAC(A)A and activates the expression of 4 GmCYP genes (GmCYP35, GmCYP37, GmCYP39, and GmCYP45). Similar to GmNAC039 and GmNAC018, overexpression or knockout of GmCYP genes in nodules resulted in precocious or delayed senescence, respectively. These data provide essential insights into the regulatory mechanisms of nodule senescence, in which GmNAC039 and GmNAC018 directly activate the expression of GmCYP genes to promote nodule senescence.