Ammonium Availability Research Articles

Mechanisms underlying the responses of soil N2O production by ammonia oxidizers to nitrogen addition are mediated by topography in a subtropical forest

Anthropogenic nitrogen (N) deposition may substantially affect the contributions of ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) to soil nitrous oxide (N2O) production. Nevertheless, it is still unclear whether topography modulates the responses of AOA– and AOB–derived N2O to elevated N deposition. We conducted an ex-situ experiment with organic and mineral soils collected from the valley and slope, respectively, of a subtropical karst forest with three N addition levels, i.e., 0 (control), 50 and 100 kg N ha−1 year−1 for each topographic position. Soil ecoenzymatic stoichiometry indexes were calculated as indicators of microbial resource limitation. AOA– and AOB–derived N2O were distinguished by inhibitors. AOB was primarily responsible for soil N2O production under the control regardless of topographic position. For the organic horizon, N addition stimulated AOA–derived N2O by 112.5–138.2% in the valley because of increased N mineralization due to alleviated microbial carbon limitation; but suppressed AOA and AOB–derived N2O by 40.2–53.5% and 35.6–46.8%, respectively, on the slope because of decreased N mineralization attributed to aggravated microbial phosphorus limitation. For the mineral horizon, N addition enhanced AOB–derived N2O by 104.5–143% in the valley because of increased ammonia availability, but stimulated AOA and AOB–derived N2O by 149.8–1162.5% and 26–64.5%, respectively, on the slope because of increased N mineralization and ammonia availability owing to aggravated microbial C limitation and alleviated phosphorus limitation. Our results indicate that the mechanisms underlying the impacts of N deposition on soil N2O production by ammonia oxidizers are topography–dependent, so that topography-specific niche specialization between AOA and AOB should be integrated into Earth system models in order to better predict soil N2O production under elevated atmospheric N deposition.

Nitrogen availability determines plant growth promotion and the induction of root branching by the probiotic fungus Trichoderma atroviride in Arabidopsis seedlings.

Plant growth-promoting fungi are integral components of the root microbiome that help the host resist biotic and abiotic stress while improving nutrient acquisition. Trichoderma atroviride is a common inhabitant of the rhizosphere, which establishes a perdurable symbiosis with plants through the emission of volatiles, diffusible compounds, and robust colonization. Currently, little is known on how the environment influences the Trichoderma-plant interaction. In this report, we assessed plant growth and root architectural reconfiguration of Arabidopsis seedlings grown in physical contact with T. atroviride under contrasting nitrate and ammonium availability. The shoot and root biomass accumulation and lateral root formation triggered by the fungus required high nitrogen supplements and involved nitrate reduction via AtNIA1 and NIA2. Ammonium supplementation did not restore biomass production boosted by T. atroviride in nia1nia2 double mutant, but instead fungal inoculation increased nitric oxide accumulation in Arabidopsis primary root tips depending upon nitrate supplements. N deprived seedlings were largely resistant to the effects of nitric oxide donor SNP triggering lateral root formation. T. atroviride enhanced expression of CHL1:GUS in root tips, particularly under high N supplements and required an intact CHL1 nitrate transporter to promote lateral root formation in Arabidopsis seedlings. These data imply that the developmental programs strengthened by Trichoderma and the underlying growth promotion in plants are dependent upon adequate nitrate nutrition and may involve nitric oxide as a second messenger.

Microalgae Cultivation on Nutrient Rich Digestate: The Importance of Strain and Digestate Tailoring under PH Control

The bioremediation of digestate using microalgae presents a solution to the current eutrophication issue in Northwest Europe, where the use of digestate as soil fertiliser is limited, thus resulting in an excess of digestate. Ammonium is the main nutrient of interest in digestate for microalgal cultivation, and improving its availability and consequent uptake is crucial for optimal bioremediation. This work aimed to determine the influence of pH on ammonium availability in cultures of two green microalgae, additionally screened for their growth performances on three digestates produced from different feedstocks, demonstrating the importance of tailoring a microalgal strain and digestate for bioremediation purposes. Results showed that an acidic pH of 6–6.5 resulted in a better ammonium availability in the digestate media, translated into better growth yields for both S. obliquus (GR: 0.099 ± 0.001 day−1; DW: 0.23 ± 0.02 g L−1) and C. vulgaris (GR: 0.09 ± 0.001 day−1; DW: 0.49 ± 0.012 g L−1). This result was especially true when considering larger-scale applications where ammonium loss via evaporation should be avoided. The results also demonstrated that digestates from different feedstocks resulted in different growth yields and biomass composition, especially fatty acids, for which, a digestate produced from pig manure resulted in acid contents of 6.94 ± 0.033% DW and 4.91 ± 0.3% DW in S. obliquus and C. vulgaris, respectively. Finally, this work demonstrated that the acclimation of microalgae to novel nutrient sources should be carefully considered, as it could convey significant advantages in terms of biomass composition, especially fatty acids and carbohydrate, for which, this study also demonstrated the importance of harvesting time.

Synergistic HNO3–H2SO4–NH3 upper tropospheric particle formation

New particle formation in the upper free troposphere is a major global source of cloud condensation nuclei (CCN)1–4. However, the precursor vapours that drive the process are not well understood. With experiments performed under upper tropospheric conditions in the CERN CLOUD chamber, we show that nitric acid, sulfuric acid and ammonia form particles synergistically, at rates that are orders of magnitude faster than those from any two of the three components. The importance of this mechanism depends on the availability of ammonia, which was previously thought to be efficiently scavenged by cloud droplets during convection. However, surprisingly high concentrations of ammonia and ammonium nitrate have recently been observed in the upper troposphere over the Asian monsoon region5,6. Once particles have formed, co-condensation of ammonia and abundant nitric acid alone is sufficient to drive rapid growth to CCN sizes with only trace sulfate. Moreover, our measurements show that these CCN are also highly efficient ice nucleating particles—comparable to desert dust. Our model simulations confirm that ammonia is efficiently convected aloft during the Asian monsoon, driving rapid, multi-acid HNO3–H2SO4–NH3 nucleation in the upper troposphere and producing ice nucleating particles that spread across the mid-latitude Northern Hemisphere.

Long-term trends and factors influencing rainwater chemistry in the Tatra Mountains, Poland

The results of rainwater chemistry monitoring in the Tatra Mountains, Poland, during the periods1993–1994 and 2002–2019 were used to determine long-term trends and the factors influencing rainwater chemistry in the last two decades. In the early 1990’s, the study area was characterized by prominent acid rains with a pH of 4.4 that affected surface water, meadows, and forest ecosystems. A rising pH temporal trend has been observed during the following years, indicating improving air quality. This trend has also been observed in measured ionic concentrations and reduced wet deposition loads of sulfur- and nitrogen-containing acid-forming compounds. The neutralization capacity of rainwater in Kasprowy Wierch increased over the last twenty years and has mostly been dominated by NH4+. The ammonium availability index has been steadily increasing between years 2002 and 2019 but remains less than 1. This statistically significant relationship also indicates that a portion of neutralization occurs in the lower part of the atmosphere due to ammonium-related neutralization processes. The acidic potential (AP) and the ratio AP/NP (acidic potential/neutralization potential) have been declining during the same time. The stated trends in rainwater chemistry reflect the transformation to more environmentally sustainable economies in the region. Similar changes have been observed in neighboring countries in the region, including Slovakia, the Czech Republic, and Lithuania.

Long Term Influence of Fertility and Rotation on Soil Nitrification Potential and Nitrifier Communities

The agricultural imprints on soil microbial processes manifest at various timescales, leaving many temporal patterns to present slowly. Unfortunately, the lack of long-term continuous agricultural field sites in North America has left gaps in our understanding of agricultural management on biogeochemical processes and their controlling microbiota. Nitrification, ammonium oxidation by bacteria and archaea, is a critical control point in terrestrial nitrogen fluxes by oxidizing cationic ammonium to anionic nitrate, promoting nitrate leaching. Moreover, nitrous oxide is produced during nitrification, contributing to massive nitrous oxide emissions from fertilized agroecosystems. Nitrification is sensitive to many macro and micro-ecological filters, as nitrifiers are obligate aerobes and are sensitive to numerous non-growth substrates and metal ions. This study sought to understand the long-term implications of various rotation and fertilizer regimes on nitrification potential and nitrifying bacterial communities in the Morrow Plots (Urbana, IL). The Morrow Plots was established in 1876 and are the longest continuous field experiments in North America, making it the only site in America capable of assessing the impact of over 140 years of agricultural management on nitrification. The Morrow Plots contrasts fertilizer (manure, inorganic, unfertilized) and rotation (continuous corn, corn-soy, corn-oat alfalfa), allowing us to explore how conventional vs. regenerative agriculture practices impact nitrifier communities. The results of this study suggest that fertilizer and rotation interact to promote distinct bacterial nitrifier communities. Nitrification potential is highest in manure corn-oat-alfalfa plots, suggesting ammonium availability is not solely responsible for active nitrifier communities. Various soil chemical variables, like CEC, Mg, and Ca, significantly influenced nitrifier community beta-diversity, using 16S rRNA amplicon sequencing, suggesting long-term accumulation of specific cations diverge microbial community assembly. While this study only uses nitrification potential enzyme activity instead of isotope analyses, it sheds light on the importance of various physiochemical drivers on nitrification potential and communities. The results support the need for a more precise exploration of the mechanisms controlling field-scale nitrification rates over large temporal scales. Put together, this study supports the importance of long-term field sites for understanding agricultural manipulations of microbial biogeochemical cycling and sheds light on the micronutrients influencing nitrifier communities and potential activity.

Cometabolic biodegradation of antibiotics by ammonia oxidizing microorganisms during wastewater treatment processes

Studies on antibiotic removal during wastewater treatment processes are crucial since their release into the environment could bring potential threats to human health and ecosystem. Cometabolic biodegradation of antibiotics by ammonia oxidizing microorganisms (AOMs) has received special attentions due to the enhanced removal of antibiotics during nitrification processes. However, the interactions between antibiotics and AOMs are less well-elucidated. In this review, the recent research proceedings on cometabolic biodegradation of antibiotics by AOMs were summarized. Ammonia oxidizing bacteria (AOB), ammonia oxidizing archaea (AOA) and complete ammonia oxidizers (comammox) played significant roles in both nitrification and cometabolic biodegradation of antibiotics. Antibiotics at varying concentrations might pose inhibiting or stimulating effect on AOMs, influencing the microbial activity, community abundance and ammonia monooxygenase subunit A gene expression level. AOMs-induced cometabolic biodegradation products were analyzed as well as the corresponding pathways for each type of antibiotics. The effects of ammonium availability, initial antibiotic concentration, sludge retention time and temperature were assessed on the cometabolic biodegradation efficiencies of antibiotics. This work might provide further insights into the fate and removal of antibiotics during nitrification processes.

Estimation and variation analysis of secondary inorganic aerosols across the Greater Bay Area in 2005 and 2015

As the concentrations of primary components of fine particulate matter (PM2.5) have substantially decreased, the contribution of secondary inorganic aerosols to PM2.5 pollution has become more prominent. Therefore, understanding the variations in and characteristics of secondary inorganic aerosols is vital to further reducing PM2.5 concentrations in the future. In this study, an ensemble back-propagation neural network model was built by combining 3D numerical models, observation data, and machine learning methods, to estimate the concentrations of secondary inorganic aerosols (SO2-4, NO-3, and NH+4) across the Greater Bay Area (GBA) in 2005 and 2015. The ensemble model provided a better estimation than the 3D numerical air quality model, with higher correlation coefficients (approximately 0.85) and lower root mean square errors. The model revealed that the concentrations of the SO2-4, NO-3, and NH+4 decreased by 1.91, 0.20, and 0.49 μg/m3, respectively, from 2005 to 2015. To investigate the oxidation and acidy of sulfate, the sulfur oxidation ratio (SOR), degree of sulfate neutralization (DSN), and particle neutralization ratio (PNR) were calculated and analyzed for 2005 and 2015 across the GBA region. The SOR slightly increased in summer, but decreased in other seasons in 2015, indicating the overall weaker sulfate chemical formation due to sulfur emission control measures. The increasing DSN and PNR indicated that more sulfate was neutralized due to reduced sulfur emission and increased ammonia availability. Our study suggests that more effort is needed to control ammonia emission to further reduce the concentrations of SO2-4, NO-3, and NH+4 across the GBA region in the future.

Nitrogen Kinetic Isotope Effects of Nitrification by the Complete Ammonia Oxidizer Nitrospira inopinata.

ABSTRACTAnalysis of nitrogen isotope fractionation effects is useful for tracing biogeochemical nitrogen cycle processes. Nitrification can cause large nitrogen isotope effects through the enzymatic oxidation of ammonia (NH3) via nitrite (NO2−) to nitrate (NO3−) (15εNH4+→NO2- and 15εNO2-→NO3-). The isotope effects of ammonia-oxidizing bacteria (AOB) and archaea (AOA) and of nitrite-oxidizing bacteria (NOB) have been analyzed previously. Here, we studied the nitrogen isotope effects of the complete ammonia oxidizer (comammox) Nitrospira inopinata that oxidizes NH3 to NO3−. At high ammonium (NH4+) availability (1 mM) and pH between 6.5 and 8.5, its 15εNH4+→NO2- ranged from −33.1 to −27.1‰ based on substrate consumption (residual substrate isotopic composition) and −35.5 to −31.2‰ based on product formation (cumulative product isotopic composition), while the 15εNO2-→NO3- ranged from 6.5 to 11.1‰ based on substrate consumption. These values resemble isotope effects of AOB and AOA and of NOB in the genus Nitrospira, suggesting the absence of fundamental mechanistic differences between key enzymes for ammonia and nitrite oxidation in comammox and canonical nitrifiers. However, ambient pH and initial NH4+ concentrations influenced the isotope effects in N. inopinata. The 15εNH4+→NO2- based on product formation was smaller at pH 6.5 (−31.2‰) compared to pH 7.5 (−35.5‰) and pH 8.5 (−34.9‰), while 15εNO2-→NO3- was smaller at pH 8.5 (6.5‰) compared to pH 7.5 (8.8‰) and pH 6.5 (11.1‰). Isotopic fractionation via 15εNH4+→NO2- and 15εNO2-→NO3- was smaller at 0.1 mM NH4+ compared to 0.5 to 1.0 mM NH4+. Environmental factors, such as pH and NH4+ availability, therefore need to be considered when using isotope effects in 15N isotope fractionation models of nitrification.IMPORTANCE Nitrification is an important nitrogen cycle process in terrestrial and aquatic environments. The discovery of comammox has changed the view that canonical AOA, AOB, and NOB are the only chemolithoautotrophic organisms catalyzing nitrification. However, the contribution of comammox to nitrification in environmental and technical systems is far from being completely understood. This study revealed that, despite a phylogenetically distinct enzymatic repertoire for ammonia oxidation, nitrogen isotope effects of 15εNH4+→NO2- and 15εNO2-→NO3- in comammox do not differ significantly from those of canonical nitrifiers. Thus, nitrogen isotope effects are not suitable indicators to decipher the contribution of comammox to nitrification in environmental samples. Moreover, this is the first systematic study showing that the ambient pH and NH4+ concentration influence the isotope effects of nitrifiers. Hence, these key parameters should be considered in comparative analyses of isotope effects of nitrifiers across different growth conditions and environmental samples.

Role of protein phosphatases in the regulation of nitrogen nutrition in plants

The reversible protein phosphorylation and dephosphorylation mediated by protein kinases and phosphatases regulate different biological processes and their response to environmental cues, including nitrogen (N) availability. Nitrate assimilation is under the strict control of phosphorylation-dephosphorylation mediated post-translational regulation. The protein phosphatase family with approximately 150 members in Arabidopsis and around 130 members in rice is a promising player in N uptake and assimilation pathways. Protein phosphatase 2A (PP2A) enhances the activation of nitrate reductase (NR) by deactivating SnRK1 and reduces the binding of inhibitory 14-3-3proteins on NR. The functioning of nitrate transporter NPF6.3 is regulatedby phosphorylation of CBL9 (Calcineurin B like protein 9) and CIPK23 (CBL interacting protein kinase 23) module. Phosphorylation by CIPK23 inhibits theactivity of NPF6.3, whereas protein phosphatases (PP2C) enhance the NPF6.3-dependentnitrate sensing. PP2Cs and CIPK23 also regulate ammonium transporters (AMTs). Under either moderate ammonium supply or high N demand, CIPK23 is bound and inactivated by PP2Cs. Ammoniumuptake is mediated by nonphosphorylated and active AMT1s. Whereas, under high ammonium availability, CIPK23 gets activated and phosphorylate AMT1;1 and AMT1;2 rendering them inactive. Recent reports suggest the critical role of protein phosphatases in regulating N use efficiency (NUE). In rice, PP2C9 regulates NUE by improving N uptake and assimilation. Comparative leaf proteome of wild type and PP2C9 over-expressing transgenic rice lines showed 30 differentially expressed proteins under low N level. These proteins are involved in photosynthesis, N metabolism, signalling, and defence.

Metabolic Remodeling during Nitrogen Fixation in Zymomonas mobilis.

ABSTRACTZymomonas mobilis is an ethanologenic bacterium currently being developed for production of advanced biofuels. Recent studies have shown that Z. mobilis can fix dinitrogen gas (N2) as a sole nitrogen source. During N2 fixation, Z. mobilis exhibits increased biomass-specific rates of ethanol production. In order to better understand the physiology of Z. mobilis during N2 fixation and during changes in ammonium (NH4+) availability, we performed liquid chromatography-mass spectrometry (LC-MS)-based targeted metabolomics and shotgun proteomics under three regimes of nitrogen availability: continuous N2 fixation, gradual NH4+ depletion, and acute NH4+ addition to N2-fixing cells. We report dynamic changes in abundance of proteins and metabolites related to nitrogen fixation, motility, ammonium assimilation, amino acid biosynthesis, nucleotide biosynthesis, isoprenoid biosynthesis, and Entner-Doudoroff (ED) glycolysis, providing insight into the regulatory mechanisms that control these processes in Z. mobilis. Our analysis identified potential physiological mechanisms that may contribute to increased specific ethanol production during N2 fixation, including decreased activity of biosynthetic pathways, increased protein abundance of alcohol dehydrogenase (ADHI), and increased thermodynamic favorability of the ED pathway. Of particular relevance to advanced biofuel production, we found that intermediates in the methylerythritol phosphate (MEP) pathway for isoprenoid biosynthesis were depleted during N2 fixation, coinciding with decreased protein abundance of deoxyxylulose 5-phosphate synthase (DXS), the first enzyme in the pathway. This implies that DXS protein abundance serves as a native control point in regulating MEP pathway activity in Z. mobilis. The results of this study will inform metabolic engineering to further develop Z. mobilis as a platform organism for biofuel production.IMPORTANCE Biofuels and bioproducts have the potential to serve as environmentally sustainable replacements for petroleum-derived fuels and commodity molecules. Advanced fuels such as higher alcohols and isoprenoids are more suitable gasoline replacements than bioethanol. Developing microbial systems to generate advanced biofuels requires metabolic engineering to reroute carbon away from ethanol and other native products and toward desired pathways, such as the MEP pathway for isoprenoid biosynthesis. However, rational engineering of microbial metabolism relies on understanding metabolic control points, in terms of both enzyme activity and thermodynamic favorability. In Z. mobilis, the factors that control glycolytic rates, ethanol production, and isoprenoid production are still not fully understood. In this study, we performed metabolomic, proteomic, and thermodynamic analysis of Z. mobilis during N2 fixation. This analysis identified key changes in metabolite levels, enzyme abundance, and glycolytic thermodynamic favorability that occurred during changes in NH4+ availability, helping to inform future efforts in metabolic engineering.

Inter-microbial competition for N and plant NO3− uptake rather than BNI determines soil net nitrification under intensively managed Brachiaria humidicola

Brachiaria humidicola (syn. Urochloa humidicola) has been acknowledged to control soil nitrification through release of nitrification inhibitors (NI), a phenomenon conceptualized as biological nitrification inhibition (BNI). Liming and N fertilization as features of agricultural intensification may suppress BNI performance, due to a decrease in NI exudation, increased NH3 availability and promotion of ammonia oxidizing bacteria (AOB) over archaea (AOA). A 2-year three-factorial pot trial was conducted to investigate the influence of soil pH and soil microbial background (ratio of archaea to bacteria) on BNI performance of B. humidicola. The study verified the capacity of B. humidicola to reduce net nitrification rates by 50 to 85% compared to the non-planted control, irrespective of soil pH and microbial background. The reduction of net nitrification, however, was largely dependent on microbial N immobilization and efficient plant N uptake. A reduction of gross nitrification could not be confirmed for the AOA dominated soil, but possibly contributed to reduced net nitrification rates in the AOB-dominated soil. However, this putative reduction of gross nitrification was attributed to plant-facilitated inter-microbial competition between bacterial heterotrophs and nitrifiers rather than BNI. It was concluded that BNI may play a dominant role in extensive B. humidicola pasture systems, while N immobilization and efficient plant N uptake may display the dominant factors controlling net nitrification rates under intensively managed B. humidicola.

Seasonal dynamics of soil pH and N transformation as affected by N fertilization in subtropical China: An in situ 15N labeling study

Nitrogen (N)-induced soil acidification has received much attention worldwide. Nitrification and soil N mineralization are two key N cycle processes that affect soil acidification. However, the seasonal dynamics of soil pH under their combined influence is unclear. We studied the effect of N fertilization on soil pH and N transformations using 15N tracing in field lysimeters with soils developed from different parent materials (Quaternary red clay, sandstone, and basalt). Maize was planted with 200 kg N ha−1 yr−115N-labeled urea addition. During 7–45 days after fertilization, proton (H+) production due to nitrification of fertilizer N, nitrate (NO3−) leaching, and plant uptake exceeded H+ consumption by base cations mobilization and leaching, resulting in a significant soil pH decline. When nitrification activity decreased (after 45 days), due to exhausted ammonium (NH4+) availability, soil pH rose again. During the fallow period, acid neutralization due to base cation mobilization, and ammonification of soil organic N (SON) offset H+ production caused by nitrification of mineralized SON, leading to a sustained rise in soil pH. After the one-year experiment, no significant soil pH decrease was observed in any of the soils. Parent material had little effect on the seasonal dynamics of soil acidification, which appeared to be controlled by fertilization, environmental factors (temperature and moisture), and plant uptake. In subtropical regions, monitoring of soil pH on an annual basis may mask the effect of N fertilization on soil acidification.

Storage of soil samples leads to over-representation of the contribution of nitrate to plant-available nitrogen

Delays between soil sampling and processing for analysis are common in both research and agronomy, but the effects of storage conditions on measurements of plant-available nitrogen (N) are rarely considered. With increasing recognition of organic N pools in soils, such as amino acids and peptides, it is necessary to determine how sample handling impacts the outcomes of soil N quantification. In this study, we used in situ microdialysis to approximate plant availability of amino acids, ammonium and nitrate, then compared to both potassium chloride (KCl) extract and microdialysis samples taken from excavated soil samples when in the field, after 24 h refrigerated storage, and after storage for 1 month, either refrigerated or air-dried. Nitrate levels measured with microdialysis and KCl extracts increased immediately after soil sampling and continued to accumulate in the next day and 1 month stored samples. Amino acid and ammonium measurements remained more constant; however, microdialysis showed a decline in amino acid-N between in situ and next day samples. The proportional representation of N pools in the in-field extracts was most similar to in situ microdialysis. Soil samples should be processed for N analysis as close to sampling as possible, and the storage duration and conditions reported. The influence of storage must be considered in interpreting soil test results.

Reformulation of dairy cow diets based on rumen degradable protein and total digestible nutrient with varying levels on in vitro fermentability and digestibility

Rumen degradable protein (RDP) needs to be balanced with the adequacy of rumen undegradable protein (RUP) and energy for optimal microbial growth. Therefore, this study aimed to determine the optimal level of the RDP:RUP ratio and the energy level of dairy cattle rations using the in vitro method. The rumen inoculum used to carry out this research, was obtained from two bull rumen fistulated of Friesian Holstein. The treatments consisted of 3 levels of RDP:RUP ratio, namely 50:50, 55:45 and 60:40, while the energy levels consisted of total digestible nutrient (TDN) levels of 65.6% and 68.6%. The experimental design was a factorial randomized block, while data were analyzed using ANOVA and Duncan multi range’s test. The result showed the ratio of RDP:RUP had an effect on DMD, OMD, NH3, and rumen microbe. Furthermore, the higher TDN content increased significantly DMD, OMD, total VFA, and partial VFA. The increase in the microbial population was associated with a rise in total VFA and NH3 concentrations. This research concluded, the rations with RDP:RUP (60:40) ratio increased the population of bacteria and protozoa, while the availability of ammonia in the rumen, and the high level of TDN provided a higher supply of VFA, DMD, and OMD.

A mesocosm study on bacteria-kelp interactions: Importance of nitrogen availability and kelp genetics.

Macroalgal holobiont studies involve understanding interactions between the host, its microbiota, and theenvironment. We analyzed the effect of bacteria-kelp interactions on phenotypic responses of two genetically distinct populations of giant kelp, Macrocystis pyrifera (north and south), exposed to different nitrogen (N) concentrations. In co-culture experiments with different N concentration treatments, we evaluated kelp growth responses and changes in three specific molecular markers associated with the N cycle, both in epiphytic bacteria (relative abundance of nrfA-gene: cytochrome c nitrite reductase) and macroalgae (expression of NR-gene: nitrate reductase; GluSyn-gene: glutamate synthase). Both kelp populations responded differently to N limitation, with M. pyrifera-south sporophytes having a lower specific growth rate (SGR) under N-limiting conditions than the northern population; M. pyrifera-north sporophytes showed no significant differences in SGR when exposed to low-N and high-N concentrations. This corresponded to a higher GluSyn-gene expression in the M. pyrifera-north sporophytes and the co-occurrence of specific nrfA bacterial taxa. These bacteria may increase ammonium availability under low-N concentrations, allowing M. pyrifera-north to optimize nutrient assimilation by increasing the expression of GluSyn. We conclude that bacteria-kelp interactions are important in enhancing kelp growth rates under low N availability, although this effect may be regulated by the genetic background of kelp populations.

Valorisation of waste cooking oil using mixed culture into short- and medium-chain length polyhydroxyalkanoates: Effect of concentration, temperature and ammonium

The production of polyhydroxyalkanoates (PHAs) from waste cooking oil (WCO) by a mixed culture was investigated in the present study at increasing WCO concentrations, temperature and ammonium availability. The PHA production was done in two steps: in the first step, a mixed culture was enriched in PHA-accumulating bacteria from activated sludge in a sequencing batch reactor operated in a feast-famine mode and in the second step the PHA accumulation by the enriched mixed culture was assessed in a batch reactor. In the enrichment step, two substrates, WCO and nonanoic acid were used for enrichment and in the PHA accumulation step only WCO was used. It was not possible to enrich a mixed culture in PHA-accumulating bacteria using WCO as substrate due to the development of filamentous bacteria causing foam formation and bulking in the reactor. However, our results showed that the mixed culture continuously fed with nonanoic acid was enriched in PHA-accumulating bacteria. This enriched culture accumulated both scl- and mcl-PHA using WCO as substrate. The maximum PHA accumulation capacity of this mixed culture from WCO was 38.2% cdw. Increasing the temperature (30–40 ℃) or WCO concentrations (5–20 g/l) increased the PHA accumulation capacity of the mixed culture and the ratios of scl-PHA to mcl-PHA. The presence of ammonium increased PHA accumulation (21.9% cdw) compared to the complete absence of ammonium (5.8% cdw). The thermal characterization of the PHA exhibited the advantageous properties of both scl- and mcl-PHA, i.e., higher melting temperature (152–172 ℃) similar to scl-PHA and a lower degree of crystallinity (12%) similar to mcl-PHA. This is the first study to report the potential of open mixed culture to produce scl- and mcl-PHA from WCO and thus contributing to the understanding of sustainable polymer production.

Nonlinear response of nitrate to NOx reduction in China during the COVID-19 pandemic

In recent years, nitrate plays an increasingly important role in haze pollution and strict emission control seems ineffective in reducing nitrate pollution in China. In this study, observations of gaseous and particulate pollutants during the COVID-19 lockdown, as well as numerical modelling were integrated to explore the underlying causes of the nonlinear response of nitrate mitigation to nitric oxides (NOx) reduction. We found that, due to less NOx titration effect and the transition of ozone (O3) formation regime caused by NOx emissions reduction, a significant increase of O3 (by ∼ 69%) was observed during the lockdown period, leading to higher atmospheric oxidizing capacity and facilitating the conversion from NOx to oxidation products like nitric acid (HNO3). It is proven by the fact that 26–61% reduction of NOx emissions only lowered surface HNO3 by 2–3% in Hebi and Nanjing, eastern China. In addition, ammonia concentration in Hebi and Nanjing increased by 10% and 40% during the lockdown, respectively. Model results suggested that the increasing ammonia can promote the gas-particle partition and thus enhance the nitrate formation by up to 20%. The enhanced atmospheric oxidizing capacity together with increasing ammonia availability jointly promotes the nitrate formation, thereby partly offsetting the drop of NOx. This work sheds more lights on the side effects of a sharp NOx reduction and highlights the importance of a coordinated control strategy.

Variation of Isoprenoid GDGTs in the Stratified Marine Water Column: Implications for GDGT-Based TEX86 Paleothermometry

Isoprenoid glycerol dialkyl glycerol tetraethers (isoGDGTs) derived from archaea are lipid biomarkers that exhibit high sensitivity to changes in water temperature, leading to the widespread application of the isoGDGT-based tetraether index of 86 carbon atoms (TEX86) in surface seawater temperature (SST) reconstruction. However, there remain some uncertainties regarding the robustness of TEX86 under changing water conditions (e.g., variations in water depth, oxygen and pH). Here, we analyzed isoGDGTs in suspended particles at different depths of the East China Sea (ECS) during summer 2020, aiming to constrain the applicability of the TEX86 proxy in coastal waters. Our data showed that the isoGDGTs were mainly derived from planktonic Thaumarchaeota, as revealed by the low ratio of GDGT-0/crenarchaeol (<0.5). The vertical distribution of isoGDGT concentration depicted a downward increase from the surface to the bottom. This observation was likely shaped by Thaumarchaeota, which regulate the extent of ammonia oxidation based on the availability of ammonium. The occurrence of maximal isoGDGT concentrations in the bottom layer suggests that the isoGDGTs in sediments are mainly controlled by bottom archaeal production rather than surface archaeal production. By reanalyzing the published isoGDGT data of surface sediments in the ECS inner shelf, we found that the sedimentary TEX86 relates much better to the annual mean bottom seawater temperature (BST) than to the annual mean SST, indicating that sedimentary TEX86 is more inclined to be a proxy for the BST in the shallow ECS. In addition, the positive bias of TEX86 driven by low dissolved oxygen and low pH was observed under the pycnocline, indicating that the application of TEX86 to reconstruct seawater temperature should be carefully appraised in coastal environments with strong water column stratification.

Root hair phenotypes influence nitrogen acquisition in maize.

Background and AimsThe utility of root hairs for nitrogen (N) acquisition is poorly understood.MethodsWe explored the utility of root hairs for N acquisition in the functional–structural model SimRoot and with maize genotypes with variable root hair length (RHL) in greenhouse and field environments.Key ResultsSimulation results indicate that long, dense root hairs can improve N acquisition under varying N availability. In the greenhouse, ammonium availability had no effect on RHL and low nitrate availability increased RHL, while in the field low N reduced RHL. Longer RHL was associated with 216 % increase in biomass and 237 % increase in plant N content under low-N conditions in the greenhouse and a 250 % increase in biomass and 200 % increase in plant N content in the field compared with short-RHL phenotypes. In a low-N field environment, genotypes with long RHL had 267 % greater yield than those with short RHL. We speculate that long root hairs improve N capture by increased root surface area and expanded soil exploration beyond the N depletion zone surrounding the root surface.ConclusionsWe conclude that root hairs play an important role in N acquisition. We suggest that root hairs merit consideration as a breeding target for improved N acquisition in maize and other crops.