Biogeochemical Cycles Of Nitrogen Research Articles

Importance of extremophilic microorganisms in biogeochemical cycles

Extremophilic microorganisms are organisms capable of proliferating under extreme conditions that are generally detrimental to most life on Earth. They are organisms considered of importance in different areas of research, due to their ability to produce proteins and enzymes under inhospitable conditions. Therefore, in the present work, the information on their participation in the processes of biogeochemical cycles was collected and analyzed in order to demonstrate their ecological importance. Recent studies on the metabolic pathways of the Extremophilic microorganisms and their environment have shown that most of the archaea, some bacteria and cyanobacteria carry out metabolic activities essential for the biogeochemical cycles of sulfur, carbon and nitrogen. Archaea and bacteria being one of the main microorganisms that participate in a variety of processes such as sulfidogenesis, methanogenesis, ANAMMOX (anaerobic ammonium oxidation), among others. This has suggested that Extremophilic microorganisms and extreme ecosystems have a significant impact on global biogeochemical cycles.

Distribution of Dissolved Nitrogen Compounds in the Water Column of a Meromictic Subarctic Lake

In order to better understand the biogeochemical cycle of nitrogen in meromictic lakes, which can serve as a model for past aquatic environments, we measured dissolved concentrations of nitrate, nitrite, ammonium, and organic nitrogen in the deep (39 m maximal depth) subarctic Lake Svetloe (NW Russia). The lake is a rare type of freshwater meromictic water body with high concentrations of methane, ferrous iron, and manganese and low concentrations of sulfates and sulfides in the monimolimnion. In the oligotrophic mixolimnion, the concentration of mineral forms of nitrogen decreased in summer compared to winter, likely due to a phytoplankton bloom. The decomposition of the bulk of the organic matter occurs under microaerophilic/anaerobic conditions of the chemocline and is accompanied by the accumulation of nitrogen in the form of N-NH4 in the monimolimnion. We revealed a strong relationship between methane and nitrogen cycles in the chemocline and monimolimnion horizons. The nitrate concentrations in Lake Svetloe varied from 9 to 13 μM throughout the water column. This fact is rare for meromictic lakes, where nitrate concentrations up to 13 µM are found in the monimolimnion zone down to the bottom layers. We hypothesize, in accord with available data for other stratified lakes that under conditions of high concentrations of manganese and ammonium at the boundary of redox conditions and below, anaerobic nitrification with the formation of nitrate occurs. Overall, most of the organic matter in Lake Svetloe undergoes biodegradation essentially under microaerophilic/anaerobic conditions of the chemocline and the monimolimnion. Consequently, the manifestation of the biogeochemical nitrogen cycle is expressed in these horizons in the most vivid and complex relationship with other cycles of elements.

Possible response of N2O emission to marine redox fluctuation during the Ediacaran-Cambrian transition in Nanhua Basin, South China

The redox state of the ocean and atmosphere during the Ediacaran-Cambrian (E-C) transition is characterized by significant revolutions and perturbations, which had a major effect on the biogeochemical nitrogen cycle. Nitrous oxide (N2O), a powerful greenhouse gas that drives global warming, is primarily produced in the oxygen minimum zones of modern ocean through incomplete denitrification at low oxygen concentration, and its emission to the atmosphere has been closely tied to the redox state of the ocean. To better understand the relationship between the possible variation of N2O emission and its related marine redox fluctuation, a multi geochemical proxy approach was conducted on the upper Ediacaran to lower Cambrian marine successions spanning from platform to slope facies of the Yangtze Block. The results show that δ15N features during the late Ediacaran to Fortunian interval from platform facies displayed high values (up to 8.8‰), indicating a higher degree of denitrification. The Fe speciation data along with elevated Cu/Al ratios in contemporaneous sediments suggests that the gradual depletion of dissolved Cu in water column due to expanded euxinic conditions. Because Cu is the essential element in the terminal step of denitrification pathway, the Cu deficiency in water column could result in incomplete denitrification. We infer that the possible increase of N2O discharge in this interval could contribute to a greenhouse climate and intense the anoxic degree of water column. However, during the Cambrian Stage 2 continuous consumption of NO3– and NO2– in seawater by denitrification would limit denitrification rate and reduce N2O production, and finally N2 fixation dominated the nitrogen cycle in photic zone as evidenced by low δ15N value. Both progressive oxygenation of deep water during the Cambrian Stage 3, and habitable environment temperature caused by less N2O emission could stimulate subsequent biosphere revolution. Our study highlights that N2O emission due to marine redox fluctuations possibly played an important role in regulating environmental and metazoan diversification during the E-C transition.

Microbial activity responses to water stress in agricultural soils from simple and complex crop rotations

Abstract. Increasing climatic pressures such as drought and flooding challenge agricultural systems and their management globally. How agricultural soils respond to soil water extremes will influence biogeochemical cycles of carbon and nitrogen in these systems. We investigated the response of soils from long-term agricultural field sites under varying crop rotational complexity to either drought or flooding stress. Focusing on these contrasting stressors separately, we investigated soil heterotrophic respiration during single and repeated stress cycles in soils from four different sites along a precipitation gradient (Colorado, MAP 421 mm; South Dakota, MAP 580 mm; Michigan, MAP 893 mm; Maryland, MAP 1192 mm); each site had two crop rotational complexity treatments. At the driest (Colorado) and wettest (Maryland) of these sites, we also analyzed microbial biomass, six potential enzyme activities, and N2O production during and after individual and repeated stress cycles. In general, we found site specific responses to soil water extremes, irrespective of crop rotational complexity and precipitation history. Drought usually caused more severe changes in respiration rates and potential enzyme activities than flooding. All soils returned to control levels for most measured parameters as soon as soils returned to control water levels following drought or flood stress, suggesting that the investigated soils were highly resilient to the applied stresses. The lack of sustained responses following the removal of the stressors may be because they are well in the range of natural in situ soil water fluctuations at the investigated sites. Without the inclusion of plants in our experiment, we found that irrespective of crop rotation complexity, soil and microbial properties in the investigated agricultural soils were more resistant to flooding but highly resilient to drought and flooding during single or repeated stress pulses.

The Plenus Cold Event Record in the Abyssal DSDP Site 367 (Cape Verde, Central Atlantic): Environmental Perturbations and Impacts on the Nitrogen Cycle

The Oceanic Anoxic Event 2, at the Cenomanian-Turonian boundary (∼93.9 Ma), was an episode of widespread burial of organic matter in marine sediments, underlined by a positive carbon-isotope (δ13C) excursion observed worldwide. Within this episode of O2-depleted conditions, a short interval of cooling, termed as the Plenus Cold Event, has been recorded in many sites and sections in the northern hemisphere (Tethyan domain, Western Interior Seaway, proto-North Atlantic Ocean). But, its record and its impact on the biogeochemical cycles of carbon and nitrogen in the southern part of Central Atlantic Ocean has not been explored yet. Here, we present a detailed geochemical study of the Deep Sea Drilling Project site 367 (Cape Verde) based on a compilation of previous and new data of carbon and nitrogen isotope signals as well as trace element concentrations. The aim of this study is to better constrain the evolution of oxygenation in the water column and the associated changes in nitrogen cycle before and during the Oceanic Anoxic Event 2 in order to understand the paleoceanographic and environmental consequences of the Plenus Cold Event at one of the deepest site of the Central Atlantic Ocean. Our new dataset improves the resolution of the δ13C curve for this site, and we propose a new chemo-stratigraphic frame of the carbon excursion allowing for a better identification of the short-term negative carbon isotope excursion associated to the Plenus Cold Event. The detailed evolution of redox-sensitive proxies (Mo, U, V, Fe, Cu, Ni enrichments and Corg/Ptotal) and isotopic signals (δ13Corg and δ15Ntotal) evidence that this deep site was impacted by this cooling event. While anoxic conditions prevailed in bottom waters before and during the onset of the Oceanic Anoxic Event 2 characterized by euxinic NH4+-rich water column, this cooling event was accompanied by reoxygenation of the water column, which had affected the behavior of the redox-sensitive elements and caused changes in nitrogen biogeochemical cycling.

The stoichiometric signature of high‐frequency fire in forest floor food webs

AbstractFire regimes are shifting under climate change. Decadal‐scale shifts in fire regime can disrupt the biogeochemical cycling of carbon (C), nitrogen (N), and phosphorus (P) within forest ecosystems, but the full extent of these disruptions is unknown. It is also unclear whether these disruptions have consequences for the ecological characteristics (e.g., biomass, abundance, and composition) of microbial and invertebrate communities, which together comprise the majority of terrestrial biodiversity and underpin many ecosystem processes. The theoretical framework of ecological stoichiometry has great potential in this context, but it has rarely been used to develop an integrated understanding of the biogeochemical and ecological effects of altered fire regime across trophic levels. Using one of the world's longest‐running fire experiments, located in Queensland, Australia, we carried out a comprehensive investigation into the stoichiometric consequences of a decadal‐scale divergence in prescribed fire frequency and their links to coinciding changes in various ecological characteristics of forest floor microbial and invertebrate communities. Compared to long‐term fire exclusion, forty‐three years of biennial burning led to significantly N‐depleted and/or P‐enriched stoichiometry in soil, leaf litter, leaf litter–associated microbial biomass, and certain groups of invertebrates, although total invertebrate community stoichiometry was not affected. Microbial biomass was 42% lower in biennially burned soils. Invertebrate community composition differed between fire regime treatments on some sampling dates, but fire regime did not have consistent effects on invertebrate biomass or abundance. Microbial biomass and the abundances of some invertebrate taxa were depressed at particularly low and/or high resource N:P, consistent with a coupling of these variables to the stoichiometric effects of decadal‐scale fire regime. Litter transplants likewise indicated that some invertebrate abundances were sensitive to litter properties over 12 months. Together, our results indicate that long‐term changes in fire regime can decouple the within‐ecosystem cycling of N and P, with N and P cycling growing more and less conservative, respectively, under high‐frequency fire in a way that propagates throughout forest floor food webs. Our study provides new insights into the coupled biogeochemical and ecological responses of forest ecosystems to novel fire regimes and establishes a basis for a stoichiometric framework for fire ecology.

Ammonia-oxidizing archaea possess a wide range of cellular ammonia affinities

Nitrification, the oxidation of ammonia to nitrate, is an essential process in the biogeochemical nitrogen cycle. The first step of nitrification, ammonia oxidation, is performed by three, often co-occurring guilds of chemolithoautotrophs: ammonia-oxidizing bacteria (AOB), archaea (AOA), and complete ammonia oxidizers (comammox). Substrate kinetics are considered to be a major niche-differentiating factor between these guilds, but few AOA strains have been kinetically characterized. Here, the ammonia oxidation kinetic properties of 12 AOA representing all major cultivated phylogenetic lineages were determined using microrespirometry. Members of the genus Nitrosocosmicus have the lowest affinity for both ammonia and total ammonium of any characterized AOA, and these values are similar to previously determined ammonia and total ammonium affinities of AOB. This contrasts previous assumptions that all AOA possess much higher substrate affinities than their comammox or AOB counterparts. The substrate affinity of ammonia oxidizers correlated with their cell surface area to volume ratios. In addition, kinetic measurements across a range of pH values supports the hypothesis that—like for AOB—ammonia and not ammonium is the substrate for the ammonia monooxygenase enzyme of AOA and comammox. Together, these data will facilitate predictions and interpretation of ammonia oxidizer community structures and provide a robust basis for establishing testable hypotheses on competition between AOB, AOA, and comammox.

A comprehensive synthesis unveils the mysteries of phosphate-solubilizing microbes.

ABSTRACTPhosphate‐solubilizing microbes (PSMs) drive the biogeochemical cycling of phosphorus (P) and hold promise for sustainable agriculture. However, their global distribution, overall diversity and application potential remain unknown. Here, we present the first synthesis of their biogeography, diversity and utility, employing data from 399 papers published between 1981 and 2017, the results of a nationwide field survey in China consisting of 367 soil samples, and a genetic analysis of 12986 genome‐sequenced prokaryotic strains. We show that at continental to global scales, the population density of PSMs in environmental samples is correlated with total P rather than pH. Remarkably, positive relationships exist between the population density of soil PSMs and available P, nitrate‐nitrogen and dissolved organic carbon in soil, reflecting functional couplings between PSMs and microbes driving biogeochemical cycles of nitrogen and carbon. More than 2704 strains affiliated with at least nine archaeal, 88 fungal and 336 bacterial species were reported as PSMs. Only 2.59% of these strains have been tested for their efficiencies in improving crop growth or yield under field conditions, providing evidence that PSMs are more likely to exert positive effects on wheat growing in alkaline P‐deficient soils. Our systematic genetic analysis reveals five promising PSM genera deserving much more attention.

Dissolved organic carbon drives nutrient cycling via microbial community in paddy soil

Microbial mediated iron cycling drives the biogeochemical cycling of carbon, nitrogen, sulfur, and phosphorus. However, the fate of the microbial community and the relative metabolic pathways in paddy soil after the addition of biogas slurry are poorly understood. In this study, the response of functional genes was investigated by growing one-season rice in paddy soils in a pot experiment. Seven treatments were prepared: 1) control (CK); 2) organic carbon (OC); 3) fertilizer (F); 4) 5% of biogas slurry (B05); 5) 10% of biogas slurry (B10); 6) 15% of biogas slurry (B15); 7) 20% of biogas slurry (B20). In the biogas slurry treatments, Geobacter increased more than in the other treatments during rice growth, which were structured by TOC. Particularly, in the B10 treatment, the relative abundance of Geobacter was 1.6 and 14.8 times higher than that of CK at the heading and mature stages, respectively. At the heading stage, the addition of biogas slurry and OC shifted the microbial phosphorus-transformation communities differently. There were no significant differences in the carbon, nitrogen, and sulfur metabolic pathways between the two treatments. At the mature stage, the carbon: nitrogen: phosphorus balance was significantly influenced by the regulation of functional gene expression and metabolic activities. These findings provide insight into the key factors affecting carbon, nitrogen, sulfur, phosphorus, and iron during rice growth after carbon inputs.

Hydrographic fronts shape productivity, nitrogen fixation, and microbial community composition in the southern Indian Ocean and the Southern Ocean

Abstract. Biogeochemical cycling of carbon (C) and nitrogen (N) in the ocean depends on both the composition and activity of underlying biological communities and on abiotic factors. The Southern Ocean is encircled by a series of strong currents and fronts, providing a barrier to microbial dispersion into adjacent oligotrophic gyres. Our study region straddles the boundary between the nutrient-rich Southern Ocean and the adjacent oligotrophic gyre of the southern Indian Ocean, providing an ideal region to study changes in microbial productivity. Here, we measured the impact of C and N uptake on microbial community diversity, contextualized by hydrographic factors and local physico-chemical conditions across the Southern Ocean and southern Indian Ocean. We observed that contrasting physico-chemical characteristics led to unique microbial diversity patterns, with significant correlations between microbial alpha diversity and primary productivity (PP). However, we detected no link between specific PP (PP normalized by chlorophyll-a concentration) and microbial alpha and beta diversity. Prokaryotic alpha and beta diversity were correlated with biological N2 fixation, which is itself a prokaryotic process, and we detected measurable N2 fixation to 60∘ S. While regional water masses have distinct microbial genetic fingerprints in both the eukaryotic and prokaryotic fractions, PP and N2 fixation vary more gradually and regionally. This suggests that microbial phylogenetic diversity is more strongly bounded by physical oceanographic features, while microbial activity responds more to chemical factors. We conclude that concomitant assessments of microbial diversity and activity are central to understanding the dynamics and complex responses of microorganisms to a changing ocean environment.

DESIGN OF DYNAMIC FILTRATION TECHNOLOGY AUTOMATICATION IN SEA WATER RECIRCULATION SYSTEM FOR CORAL MANAGEMENT AND CULTURE

Damage to coral reefs that have a bad impact on marine ecosystems requires serious recovery efforts considering that coral growth can take a very long time. One of the efforts that can be done can be the maintenance and cultivation of coral reefs. Besides being useful for conservation purposes, this effort also has a profit-based orientation. In order to be widely used so that it can be implemented on various lands, this maintenance and cultivation effort requires technology that supports the minimum frequency of manual water changes through a seawater recirculation system by maximizing the best filtration system integrated with overall system automation. The design of the formulation is the goal of this activity. The activity method refers to the technical guidelines for engineering the Agency for the Assessment and Application of Technology (BPPT) which includes conceptual design, exploration, observation, measurement, calculation, preliminary design, and detailed design. The results achieved are in the form of an automated design of dynamic filtration technology on a seawater recirculation system for coral maintenance and cultivation, which consists of a Recirculation Aquaculture System (RAS) using dynamic filters in the form of biological and chemical filters to optimize the biogeochemical cycle of nitrogen with organic carbon and CO2 supply. Automatic monitoring and control is carried out by a micro controller that controls other mechanical and electronic devices. The conclusion that can be drawn is that the automatic design of dynamic filtration technology on a seawater recirculation system for coral maintenance and cultivation has been successfully made using a skimerless and automated system.

Soil Enzyme Activities and Their Relationships With Soil C, N, and P in Peatlands From Different Types of Permafrost Regions, Northeast China

Peatland is a key component of terrestrial ecosystems in permafrost regions and have important effects on climate warming. Soil enzymes are involved in biogeochemical cycle of soil carbon (C), nitrogen (N) and phosphorus (P), which can be used as early sensitive indicators of soil nutrient changes caused by climate change. To predict the possible effects of permafrost degradation on soil enzymes in peatlands, ten peatlands from three types of permafrost regions along the permafrost degradation sequence (predominantly continuous permafrost region-predominantly continuous and island permafrost region-sparsely island permafrost region) in northeast China were selected to examine the activities of soil invertase, β-glucosidase, urease and acid phosphatase and their relationships with soil physicochemical properties. The results demonstrated that permafrost type had significant effect on soil enzyme activities. Soil enzyme activities in predominantly continuous and island permafrost region were significantly higher than those in sparsely island permafrost region and predominantly continuous permafrost region. The activities of four soil enzymes were higher in 0–15 cm than 15–30 cm soil layer. Soil enzymes activities were positively correlated with soil ammonia nitrogen (NH4+-N), soil moisture content (SMC), total phosphorus (TP) and total nitrogen (TN), but negatively correlated with soil nitrate nitrogen (NO3−-N). Soil inorganic nitrogen and moisture contents were the main factors affecting soil enzyme activities, with NH4+-N accounted for 41.6% of the variance, SMC 29.6%, and NO3−-N 11.0%. These results suggested that permafrost degradation may change soil enzyme activities by changing soil physicochemical properties. In this study, only 0–30 cm peat soil in permafrost regions was collected during the complete thawing period of permafrost active layer, further studies should be placed on the change of soil enzyme activities in active layer and permafrost layer during freezing and thawing process in the southernmost location of northeast China in the Eurasia permafrost body and boreal forest belt.

Anaerobic ammonium oxidation (anammox) is the main microbial N loss pathway in alpine wetland soils of the Qinghai-Tibet Plateau

Anaerobic ammonium oxidation (anammox) is an important process in the biogeochemical cycle of nitrogen (N). However, knowledge remains limited on the anammox bacterial community, controlling factors, anammox rates and contributions to N loss in alpine wetland ecosystems with low temperatures and deficient oxygen concentrations. This study focused on the distribution, abundance and biodiversity of anammox bacteria and their contribution to N2 production in the rhizosphere and bulk soils of alpine wetlands from the Qinghai-Tibet Plateau along an altitude gradient and discussed their potential relationship with environmental variables. A high diversity of anammox bacteria was found in alpine wetland soils, with most of the detected anammox bacteria classified as unknown species. The anammox bacterial abundance based on the 16S rRNA gene ranged from 1.35 × 103 to 2.52 × 104 copies·g−1 in all the samples, and the anammox process generally contributed 62.66%–88.77% of the N2 production in rhizosphere and bulk soils among the sites at different altitudes, except for the summer bulk soil in Jiuzhi (30.52%) and Maduo (28.84%). The anammox bacterial community was closely linked to the NO2− concentration and water content, while the abundance and activity of anammox bacteria showed a significantly positive correlation with the NO3− concentrations and denitrification rates in both bulk and rhizosphere soils (p < 0.05). These results emphasized the key role of anammox in N cycling in the high-altitude alpine wetlands of Qinghai-Tibet, and extended our understanding of the community dynamics of anammox bacteria and their environmental importance.

Rapid Response of Nitrogen Cycling Gene Transcription to Labile Carbon Amendments in a Soil Microbial Community.

Episodic inputs of labile carbon (C) to soil can rapidly stimulate nitrogen (N) immobilization by soil microorganisms. However, the transcriptional patterns that underlie this process remain unclear. In order to better understand the regulation of N cycling in soil microbial communities, we conducted a 48-h laboratory incubation with agricultural soil where we stimulated the uptake of inorganic N by amending the soil with glucose. We analyzed the metagenome and metatranscriptome of the microbial communities at four time points that corresponded with changes in N availability. The relative abundances of genes remained largely unchanged throughout the incubation. In contrast, glucose addition rapidly increased the transcription of genes encoding ammonium and nitrate transporters, enzymes responsible for N assimilation into biomass, and genes associated with the N regulatory network. This upregulation coincided with an increase in transcripts associated with glucose breakdown and oxoglutarate production, demonstrating a connection between C and N metabolism. When concentrations of ammonium were low, we observed a transient upregulation of genes associated with the nitrogen-fixing enzyme nitrogenase. Transcripts for nitrification and denitrification were downregulated throughout the incubation, suggesting that dissimilatory transformations of N may be suppressed in response to labile C inputs in these soils. These results demonstrate that soil microbial communities can respond rapidly to changes in C availability by drastically altering the transcription of N cycling genes.IMPORTANCE A large portion of activity in soil microbial communities occurs in short time frames in response to an increase in C availability, affecting the biogeochemical cycling of nitrogen. These changes are of particular importance as nitrogen represents both a limiting nutrient for terrestrial plants as well as a potential pollutant. However, we lack a full understanding of the short-term effects of labile carbon inputs on the metabolism of microbes living in soil. Here, we found that soil microbial communities responded to labile carbon addition by rapidly transcribing genes encoding proteins and enzymes responsible for inorganic nitrogen acquisition, including nitrogen fixation. This work demonstrates that soil microbial communities respond within hours to carbon inputs through altered gene expression. These insights are essential for an improved understanding of the microbial processes governing soil organic matter production, decomposition, and nutrient cycling in natural and agricultural ecosystems.

Reconstructing Nitrogen Sources to Earth’s Earliest Biosphere at 3.7 Ga

Earth’s sedimentary record has preserved evidence of life in rocks of low metamorphic grade back to about 3.2–3.5 billion years ago (Ga). These lines of evidence include information about specific biological metabolisms, permitting the reconstruction of global biogeochemical cycles in the early Archean. Prior to 3.5 Ga, the geological record is severely compromised by pervasive physical and chemical alteration, such as amphibolite-granulite facies metamorphic overprinting. Despite this alteration, evidence of biogenic organic matter is preserved in rare localities, including meta-turbidites from the 3.8 to 3.7 Ga Isua Supracrustal Belt, Western Greenland. But detailed insights into metabolic strategies and nutrient sources during the time of deposition of these Eoarchean meta-sedimentary rocks are lacking. Here we revisit the Isua meta-turbidites and provide new data for metal abundances as well as organic carbon and nitrogen isotope values. Our results reveal mixing between authigenic and detrital nitrogen phases with the authigenic phase likely fractionated by metamorphic degassing. Rayleigh fractionation models of these 3.7 Ga samples indicate pre-metamorphic δ15N values of between −1 and −10‰. The most plausible initial values are below −5‰, in agreement with a prior study. While the upper endmember of −1‰ could indicate biological N2 fixation at 3.7 Ga, the more plausible lighter values may point toward a distinct biogeochemical nitrogen cycle at that time, relative to the rest of Earth’s history. In light of recent experimental and phylogenetic data aligned with observations from the modern atmosphere, we tentatively conclude that lightning and/or high-energy photochemical reactions in the early atmosphere may have contributed isotopically light nitrogen to surface environment(s) preserved in the Isua turbidites. In this case, recycling of Eoarchean sediments may have led to the isotopically light composition of the Earth’s upper mantle dating back to at least 3.2 Ga.

Variations in Nitrogen Isotope Composition in Clay Deposits of the Permian–Triassic Boundary Beds in the Verkhoyansk Region (Northeast Asia) and Their Implication for Reconstruction of Marine Environments

The first sediment N-isotope data on the Permian–Triassic boundary transition of the Verkhoyansk region are obtained. Together with the other published materials on other regions of eastern Russia allow us to distinguish a number of N-isotope intervals of various ranks in the Permian–Triassic of eastern Russia. In addition to the well-known method of reconstructing the redox conditions of the marine environment from N‑isotope data (in combination with data on elevated concentrations of redox-sensitive trace metals), the possibility of using N-isotope data also to determine the direction of temperature changes in the marine environment is substantiated. It is assumed that N-isotope signals are primarily a reflection of events associated with denitrification and N2 fixation, the main processes of the global nitrogen biogeochemical cycle (NBC). Deviations in the direction of increasing δ15N values in the considered sections are associated with an increase in upwelling activity and the supply of cool deep waters enriched in the heavy N isotope to the shelf zone; the opposite deviations are associated with a slowdown or cessation of inflow of cool deep waters. The N-isotope data obtained, in combination with the published materials on O-isotope thermometry in the Tethyan Superrealm during the Permian and Triassic, indicate a very likely coincidence of the direction of temperature changes caused by both regional (upwelling) and global (climatic) events of that time. In this regard, the reconstructions of the marine environment that we conduct by the example of the Permian–Triassic sections of Northeast Asia (Verkhoyansk, Kolyma–Omolon, and South Primorye) seem to be appropriate, although they require additional confirmation on the material from other sections of the world. The problems associated with differences in the average δ15N values in the Permian–Triassic sections of different provinces of the Boreal Superrealm, as well as other superrealms, are considered.

Community assembly mechanisms and co-occurrence patterns of nitrite-oxidizing bacteria communities in saline soils

Nitrite-oxidizing bacteria (NOB) catalyze the second step of nitrification by oxidizing nitrite to nitrate, which is a key process in the biogeochemical nitrogen cycling. However, little is known about the co-occurrence patterns and assembly processes of NOB communities in agricultural soils with different salinities. Here, we explored the effects of salinity on Nitrobacter and Nitrospira community using high-throughput sequencing and multivariate statistical analyses. Our results showed that high salinity significantly inhibited the nitrite oxidation rates and decreased the abundance of Nitrobacter and Nitrospira. Extreme salty conditions significantly altered the diversity and composition of Nitrospira community but had little effect on Nitrobacter community. Nitrobacter network in high salinity soils was more closely connected while the connectivity of Nitrospira network became weak. Nitrobacter and Nitrospira community exhibited distinct assembly processes at different salinity levels. Stochastic processes were dominant in the Nitrobacter community assembly in both low and high salinity soils. Interestingly, the assembly of Nitrospira community was governed by stochastic and deterministic processes in low and high salinity soils, respectively. To our knowledge, our study provides the first description of the co-occurrence patterns and assembly processes of NOB communities in agricultural soils with different salinities. These results can help us understand the NOB ecological roles and improve the nitrite oxidation activity in a high salinity environment.

Characterizing the impact of Three Gorges Dam on the Changjiang (Yangtze River): A story of nitrogen biogeochemical cycling through the lens of nitrogen stable isotopes

The alterations of nitrogen sources and cycling within the Three Gorges Reservoir (TGR) and downstream the Changjiang were investigated to understand the impacts of the construction of the Three Gorges Dam (TGD) and anthropogenic inputs from the associated watershed. Water samples collected in October 2016 were analyzed for hydrologic parameters, nutrient concentrations, and stable isotopes of nitrate (NO3−), ammonium (NH4+) and particulate matter. Nitrate dual stable isotope values ranged from +5.8‰ to +7.1‰ and −1.9‰ to +0.4‰ for δ15N and δ18O, respectively. δ15N values in particulate nitrogen (PN) ranged from +0.5‰ to +8.5‰, with slightly lower values before the dam. δ15N-NH4+ values ranged between +10.5‰ and +19.4‰, likely reflecting the presence of ammonium assimilation throughout the TGR. The contribution of different nitrogen sources was calculated using a Bayesian mixing model. These sources, including soil organic nitrogen, ammonium fertilizer, and sewage effluent, contributed to elevated DIN concentrations within the TGR (83.2 μM–178.5 μM). The construction of the dam has also likely induced changes in the river environment such as ammonium assimilation in the surface waters and nitrification and/or remineralization within the deep waters of the TGR. Overall, during this investigation period, the TGR acted as a sink of PN (retaining 29%), yet negligibly influenced levels of TDN with ~96.5% of TDN exported to the downstream Changjiang and estuary. It is important to understand the long-term impacts of the TGD on the ecological environment of the Changjiang. This study highlights the influence that anthropogenic nitrogen sources have on the natural biogeochemical cycling within the TGR, showing the urgent need to reduce anthropogenic nitrogen pollution.

Phanerozoic radiation of ammonia oxidizing bacteria

The modern nitrogen cycle consists of a web of microbially mediated redox transformations. Among the most crucial reactions in this cycle is the oxidation of ammonia to nitrite, an obligately aerobic process performed by a limited number of lineages of bacteria (AOB) and archaea (AOA). As this process has an absolute requirement for O2, the timing of its evolution—especially as it relates to the Great Oxygenation Event ~ 2.3 billion years ago—remains contested and is pivotal to our understanding of nutrient cycles. To estimate the antiquity of bacterial ammonia oxidation, we performed phylogenetic and molecular clock analyses of AOB. Surprisingly, bacterial ammonia oxidation appears quite young, with crown group clades having originated during Neoproterozoic time (or later) with major radiations occurring during Paleozoic time. These results place the evolution of AOB broadly coincident with the pervasive oxygenation of the deep ocean. The late evolution AOB challenges earlier interpretations of the ancient nitrogen isotope record, predicts a more substantial role for AOA during Precambrian time, and may have implications for understanding of the size and structure of the biogeochemical nitrogen cycle through geologic time.

Complete Genome Sequence of Geobacter sp. Strain FeAm09, a Moderately Acidophilic Soil Bacterium.

A moderately acidophilic Geobacter sp. strain, FeAm09, was isolated from forest soil. The complete genome sequence is 4,099,068 bp with an average GC content of 61.1%. No plasmids were detected. The genome contains a total of 3,843 genes and 3,608 protein-coding genes, including genes supporting iron and nitrogen biogeochemical cycling.