Global patterns of phosphatase activity in natural soils

Strengthen sunflowers resilience to cadmium in saline-alkali soil by PGPR-augmented biochar

In the center of the Nile Delta in Egypt, the Kitchener drain as the primary drainage discharges about 1.9 billion m3 per year of water, which comprises agricultural drainage (75 %), domestic water (23 %), and industrial water (2 %), to the Mediterranean Sea. Cadmium (Cd) stands out as a significant contaminant in this drain; therefore, this study aimed to assess the integration of biochar (0, 5, and 10 ton ha-1) and three PGPRs (PGPR-1, PGPR-2, and PGPR-3) to alleviate the negative impacts of Cd on sunflowers (Helianthus annuus L.) in saline-alkali soil. The treatment of biochar (10 ton ha-1) and PGPR-3 enhanced the soil respiration, dehydrogenase, nitrogenase, and phosphatase activities by 137 %, 129 %, 326 %, and 127 %, while it declined soil electrical conductivity and available Cd content by 31.7 % and 61.3 %. Also, it decreased Cd content in root, shoot, and seed by 55.3 %, 50.7 %, and 92.5 %, and biological concentration and translocation factors by 55 % and 5 %. It also declined the proline, lipid peroxidation, H2O2, and electrolyte leakage contents by 48 %, 94 %, 80 %, and 76 %, whereas increased the catalase, peroxidase, superoxide dismutase, and polyphenol oxidase activities by 80 %, 79 %, 61 %, and 116 %. Same treatment increased seed and oil yields increased by 76.1 % and 76.2 %. The unique aspect of this research is its investigation into the utilization of biochar in saline-alkali soil conditions, coupled with the combined application of biochar and PGPR to mitigate the adverse effects of Cd contamination on sunflower cultivation in saline-alkali soil.

Root phosphatase activity is coordinated with the root conservation gradient across a phosphorus gradient in a lowland tropical forest

Soil phosphorus (P) is a growth-limiting nutrient in tropical ecosystems, driving diverse P-acquisition strategies among plants. Particularly, mining for inorganic P through phosphomonoesterase (PME) activity is essential, given the substantial proportion of organic P in soils. Yet, the relationship between PME activity and other nutrient-acquisition root traits remains unclear. We measured root PME activity and commonly measured root traits, including root diameter, specific root length (SRL), root tissue density (RTD), and nitrogen concentration ([N]) in 18 co-occurring species across soils with varying P availability to better understand trees response to P supply. Root [N] and RTD were inversely related, and that axis was not clearly related to soil P supply. Both traits, however, correlated positively and negatively with PME activity, which responded strongly to P supply. Conversely, root diameter was inversely related to SRL, but this axis was not related to P supply. This pattern suggests that limiting similarity influenced variation along the diameter-SRL axis, explaining local trait diversity. Meanwhile, variation along the root [N]-RTD axis might best reflect environmental filtering. Overall, P availability indicator traits such as PME activity and root hairs only tended to be associated with these axes, highlighting limitations of these axes in describing convergent adaptations at local sites.

Effects of Short-Term Nitrogen Additions on Biomass and Soil Phytochemical Cycling in Alpine Grasslands of Tianshan, China

The nitrogen deposition process, as an important phenomenon of global climate change and an important link in the nitrogen cycle, has had serious and far-reaching impacts on grassland ecosystems. This study aimed to investigate the survival adaptation strategies of plants of different functional groups under nitrogen deposition, and the study identified the following outcomes of differences in biomass changes by conducting in situ simulated nitrogen deposition experiments while integrating plant nutrient contents and soil physicochemical properties: (1) nitrogen addition enhanced the aboveground biomass of grassland communities, in which Poaceae were significantly affected by nitrogen addition. Additionally, nitrogen addition significantly influenced plant total nitrogen and total phosphorus; (2) nitrogen addition improved the plant growth environment, alleviated plant nitrogen limitation, and promoted plant phosphorus uptake; and (3) there was variability in the biomass responses of different functional groups to nitrogen addition. The level of nitrogen addition was the primary factor affecting differences in biomass changes, while nitrogen addition frequency was an important factor affecting changes in plant community structure.

Synergistic variation of rhizosphere soil phosphorus availability and microbial diversity with stand age in plantations of the endangered tree species Parashorea chinensis

Introduction

Soil physicochemical properties and nutrient composition play a significant role in shaping microbial communities, and facilitating soil phosphorus (P) transformation. However, studies on the mechanisms of interactions between P transformation characteristics and rhizosphere microbial diversity in P-deficient soils on longer time scales are still limited.

Methods

In this study, rhizosphere soils were collected from a pure plantation of Parashorea chinensis (P. chinensis) at six stand ages in the subtropical China, and the dynamic transformation characteristics of microbial diversity and P fractions were analyzed to reveal the variation of their interactions with age.

Results

Our findings revealed that the rhizosphere soils across stand ages were in a strongly acidic and P-deficient state, with pH values ranging from 3.4 to 4.6, and available P contents ranging from 2.6 to 7.9 mg·kg-1. The adsorption of P by Fe3+ and presence of high levels of steady-state organic P highly restricted the availability of P in soil. On long time scales, acid phosphatase activity and microbial biomass P were the main drivers of P activation. Moreover, pH, available P, and ammonium nitrogen were identified as key factors driving microbial community diversity. As stand age increased, most of the nutrient content indicators firstly increased and then decreased, the conversion of other forms of P to bio-available P became difficult, P availability and soil fertility began to decline. However, bacteria were still able to maintain stable species abundance and diversity. In contrast, stand age had a greater effect on the diversity of the fungal community than on the bacteria. The Shannon and Simpson indices varied by 4.81 and 0.70 for the fungi, respectively, compared to only 1.91 and 0.06 for the bacteria. Microorganisms play a dominant role in the development of their relationship with soil P.

Discussion

In conclusion, rhizosphere microorganisms in P. chinensis plantations gradually adapt to the acidic, low P environment over time. This adaptation is conducive to maintaining P bioeffectiveness and alleviating P limitation.

Selenium and Bacillus proteolyticus SES increased Cu-Cd-Cr uptake by ryegrass: highlighting the significance of key taxa and soil enzyme activity

Many studies have focused their attention on strategies to improve soil phytoremediation efficiency. In this study, a pot experiment was carried out to investigate whether Se and Bacillus proteolyticus SES promote Cu-Cd-Cr uptake by ryegrass. To explore the effect mechanism of Se and Bacillus proteolyticus SES, rhizosphere soil physiochemical properties and rhizosphere soil bacterial properties were determined further. The findings showed that Se and Bacillus proteolyticus SES reduced 23.04% Cu, 36.85% Cd, and 9.85% Cr from the rhizosphere soil of ryegrass. Further analysis revealed that soil pH, organic matter, soil enzyme activities, and soil microbial properties were changed with Se and Bacillus proteolyticus SES application. Notably, rhizosphere key taxa (Bacteroidetes, Actinobacteria, Firmicutes, Patescibacteria, Verrucomicrobia, Chloroflexi, etc.) were significantly enriched in rhizosphere soil of ryegrass, and those taxa abundance were positively correlated with soil heavy metal contents (P < 0.01). Our study also demonstrated that in terms of explaining variations of soil Cu-Cd-Cr content under Se and Bacillus proteolyticus SES treatment, soil enzyme activities (catalase and acid phosphatase) and soil microbe properties showed 42.5% and 12.2% contributions value, respectively. Overall, our study provided solid evidence again that Se and Bacillus proteolyticus SES facilitated phytoextraction of soil Cu-Cd-Cr, and elucidated the effect of soil key microorganism and chemical factor.

Characterization of an extremophile bacterial acid phosphatase derived from metagenomics analysis

Acid phosphatases are enzymes that play a crucial role in the hydrolysis of various organophosphorous molecules. A putative acid phosphatase called FS6 was identified using genetic profiles and sequences from different environments. FS6 showed high sequence similarity to type C acid phosphatases and retained more than 30% of consensus residues in its protein sequence. A histidine-tagged recombinant FS6 produced in Escherichia coli exhibited extremophile properties, functioning effectively in a broad pH range between 3.5 and 8.5. The enzyme demonstrated optimal activity at temperatures between 25 and 50°C, with a melting temperature of 51.6°C. Kinetic parameters were determined using various substrates, and the reaction catalysed by FS6 with physiological substrates was at least 100-fold more efficient than with p-nitrophenyl phosphate. Furthermore, FS6 was found to be a decamer in solution, unlike the dimeric forms of crystallized proteins in its family.

Nutrient Uptake Potential of Nonleguminous Species and Its Interaction with Soil Characteristics and Enzyme Activities in the Agro-ecosystem

The potential nutrient uptake abilities of a plant are essential for improving the yield and quality. Green manures can take up a huge amount of macronutrients from the soil. The mechanisms underlying the differences in nutrient uptake capacity among different nonlegume species remain unclear. The plot experiments were conducted to investigate the performance of nonlegume species including forage radish (Raphanus raphanistrum subsp. sativus), oil radish (Raphanus sativus var. Longipinnatus), February orchid (Orychophragmus violaceus L), and rapeseed (Baricca napus), while a ryegrass (Lolium perenne L.) species was used as a control. The study results showed that forage radish had the highest nutrient uptake (N and P), i.e., 322 and 101% in Hunan and 277 and 469% in the Sichuan site, respectively, compared with the control. While the greatest K uptake was found in forage radish, i.e., 123%, and February orchid, 243%, in the Hunan and Sichuan sites. Forage radish also presented higher phosphorus use efficiency in both experimental areas: Hunan by 301% and Sichuan by 633% compared to the control. Significant modifications were found in nutrient availability and enzyme activities after the cultivation of various species. The oil radish enhanced the β-glucosidase (BG) and leucine-aminopeptidase enzyme activities by 324 and 367%, respectively, while forage radish developed the highest phosphatase (Phase) and N-acetyl-glucosaminidase (NAG) activities compared to the ryegrass in Hunan. In the Sichuan site, the oil radish promotes enzyme activities such as Phase (126%), BG (19%), and NAG (17%), compared to the control. It is concluded that forage radish, oil radish, and February orchid can easily improve soil nutrient quality in green manuring practices and provide valuable nutrient management systems.

Living mulch enhances soil enzyme activities, nitrogen pools and water retention in giant reed (Arundo donax L.) plantations

Giant reed (Arundo donax L.) is one of the most well-studied perennial biomass crops because of its high productivity and potential to store carbon. Yet, little information on controlling weeds in giant reed plantations and their influences on the soil ecosystem is available. In the present study, three different weed control methods, i.e., intercropping (living mulch) with sweet clover (Melilotus officinalis L.), herbicide (glyphosate), and hoeing, were investigated in a 2-year giant reed farm. The intercropping presented significantly higher values (on average) of all the tested soil properties than herbicide and hoeing, except for the catalase activity and pH. The dehydrogenase, phosphatase, and urease activities in the soil under intercropping were higher than the herbicide by 75%, 65%, and 80% (on average), respectively. Also, the soil under intercropping had higher soil organic matter (SOM) and soil respiration than the herbicide by 20% and 25%, respectively. Intercropping also increased the content of N pools, i.e., NO3--N, NH4+-N, Org-N, and Total-N by 517%, 356%, 38%, and 137%, respectively, compared to herbicide. These findings illustrated that controlling weeds in biomass plantations through legume intercropping brings benefits not only to soil properties but also to biomass productivity.

Machine learning prediction and interpretation of the impact of microplastics on soil properties

The annual microplastic (MP) release into soils is 4-23 times higher than that into oceans, significantly impacting soil quality. However, the mechanisms underlying how MPs impact soil properties remain largely unknown. Soil-MP interactions are complex because of soil heterogeneity and varying MP properties. This lack of understanding was exacerbated by the diverse experimental conditions and soil types used in this study. Predicting changes in soil properties in the presence of MPs is challenging, laborious, and time-consuming. To address these issues, machine learning was applied to fit datasets from peer-reviewed publications to predict and interpret how MPs influence soil properties, including pH, dissolved organic carbon (DOC), total P, NO3--N, NH4+-N, and acid phosphatase enzyme activity (acid P). Among the developed models, the gradient boost regression (GBR) model showed the highest R2 (0.86-0.99) compared to the decision tree and random forest models. The GBR model interpretation showed that MP properties contributed more than 50% to altering the acid P and NO3--N concentrations in soils, whereas they had a negligible impact on total P and 10-20% impact on soil pH, DOC, and NH4+-N. Specifically, the size of MPs was the dominant factor influencing acid P (89.3%), pH (71.6%), and DOC (44.5%) in soils. NO3--N was mainly affected by the MP type (52.0%). The NH4+-N was mainly affected by the MP dose (46.8%). The quantitative insights into the impact of MPs on soil properties of this study could aid in understanding the roles of MPs in soil systems.

Keystone taxa of phoD-harboring bacteria mediate alkaline phosphatase activity during biochar remediation of Cd-contaminated soil

Phosphorus (P)-modified biochar can efficiently remediate cadmium (Cd)-contaminated soil. However, the mechanisms of responses of alkaline phosphatase (ALP) and phoD-harboring microorganisms, which are notably sensitive to Cd and P, are not clear during the remediation process. In this study, apple (Malus domestica) tree branches were co-pyrolyzed with tripotassium phosphate (K3PO4) to prepare P-modified biochar, which was used to remediate Cd-soil contaminated soil collected near a mine site. The effect of P-modified biochar on the composition of the phoD-harboring microbial community and its mechanism of interacting with ALP were analyzed. The results showed that the application of P-modified biochar to Cd-contaminated soil promoted the co-precipitation of Cd and phosphate and reduced the content of bioavailable Cd by 69.77 %. P-modified biochar improved the complexity and stability of the soil phoD-harboring microbial community. Furthermore, this study clarified that ALP activity was not completely regulated by the abundance of phoD, but Priestia and Massilia that contain phoD genes dominated the activity of ALP in rhizosphere and bulk soils, respectively. It is notable that bioavailable Cd significantly stimulated Priestia, Massilia, and ALP activity. These findings provide a theoretical basis for the application of P-modified biochar to the remediation of soil contaminated with Cd with respect to P functional microorganisms.

Analysis of element yield, bacterial community structure and the impact of carbon sources for bioleaching rare earth elements from high grade monazite

Rare earth element (REE) recovery from waste streams, mine tailings or recyclable components using bioleaching is gaining traction due to the shortage and security of REE supply as well as the environmental problems that occur from processing and refining. Four heterotrophic microbial species with known phosphate solubilizing capabilities were evaluated for their ability to leach REE from a high-grade monazite when provided with either galactose, fructose or maltose. Supplying fructose resulted in the greatest amount of REE leached from the ore due to the largest amount of organic acid produced. Gluconic acid was the dominant organic acid identified produced by the cultures, followed by acetic acid. The monazite proved difficult to leach with the different carbon sources, with preferential release of Ce over La, Nd and Pr.

Elevated CO2 interacts with nutrient inputs to restructure plant communities in phosphorus-limited grasslands

Globally pervasive increases in atmospheric CO2 and nitrogen (N) deposition could have substantial effects on plant communities, either directly or mediated by their interactions with soil nutrient limitation. While the direct consequences of N enrichment on plant communities are well documented, potential interactions with rising CO2 and globally widespread phosphorus (P) limitation remain poorly understood. We investigated the consequences of simultaneous elevated CO2 (eCO2 ) and N and P additions on grassland biodiversity, community and functional composition in P-limited grasslands. We exposed soil-turf monoliths from limestone and acidic grasslands that have received >25 years of N additions (3.5 and 14 g m-2  year-1 ) and 11 (limestone) or 25 (acidic) years of P additions (3.5 g m-2  year-1 ) to eCO2 (600 ppm) for 3 years. Across both grasslands, eCO2 , N and P additions significantly changed community composition. Limestone communities were more responsive to eCO2 and saw significant functional shifts resulting from eCO2 -nutrient interactions. Here, legume cover tripled in response to combined eCO2 and P additions, and combined eCO2 and N treatments shifted functional dominance from grasses to sedges. We suggest that eCO2 may disproportionately benefit P acquisition by sedges by subsidising the carbon cost of locally intense root exudation at the expense of co-occurring grasses. In contrast, the functional composition of the acidic grassland was insensitive to eCO2 and its interactions with nutrient additions. Greater diversity of P-acquisition strategies in the limestone grassland, combined with a more functionally even and diverse community, may contribute to the stronger responses compared to the acidic grassland. Our work suggests we may see large changes in the composition and biodiversity of P-limited grasslands in response to eCO2 and its interactions with nutrient loading, particularly where these contain a high diversity of P-acquisition strategies or developmentally young soils with sufficient bioavailable mineral P.

Effects of conservation tillage on soil enzyme activities of global cultivated land: A meta-analysis

The negative impacts of conventional agriculture and the imperative to adopt conservation tillage garnered significant attention. However, the effects of conservation tillage on soil enzyme activities still lack comprehensive cognition. Here, we collected 14,308 pairwise observations from 369 publications worldwide to systematically evaluate the effects of different conservation tillage practices (reduced tillage (T), reduced tillage with straw return (TS), reduced tillage with straw mulch return (TSO), no-tillage (NT), no-tillage with straw return (NTS), and no-tillage with straw mulch return (NTSO)) on the activities of 35 enzymes in soil. The results showed that: (1) the effect of conservation tillage on soil enzyme activity varied by enzyme type, except for peroxidase (-12.34%), which showed an overall significant positive effect (10.28-89.76%); (2) the NTS and TS demonstrated strong potential to improve soil enzyme activities by increasing a wide variety of soil enzyme activities (12-15) and efficacy (9.76-75.56%) than other conservation tillage (8.60-68.68%); (3) in addition, the effect of conservation tillage on soil enzyme activity was regulated by soil depth, crop type, years of conservation tillage, climate (mean annual precipitation and temperature), and soil physicochemical properties (e.g., pH, bulk density, electrical conductivity, organic matter, ammonium nitrogen, total phosphorus, available phosphorus, total potassium, available potassium, etc.). Overall, our quantitative analysis clearly suggests that conservation tillage is an effective measure for improving soil enzyme activity on global croplands, where combination of reduced tillage or no-till with straw return are considered to have great potential and promise. The results contribute to better comprehend the effects of conservation tillage on soil activity and provide a valuable insight for agricultural management.

Unveiling novel perspectives on niche differentiation and plasticity in rhizosphere phosphorus forms of submerged macrophytes with different stoichiometric homeostasis

Stoichiometric homeostasis is the ability of organisms to maintain their element composition through various physiological mechanisms, regardless of changes in nutrient availability. Phosphorus (P) is a critical limiting element for eutrophication. Submerged macrophytes with different stoichiometric homeostasis regulated sediment P pollution by nutrient resorption, but whether and how P homeostasis and resorption in submerged macrophytes changed under variable plant community structure was unclear. Increasing evidence suggests that rhizosphere microbes drive niche overlap and differentiation for different P forms to constitute submerged macrophyte community structure. However, a greater understanding of how this occurs is required. This study examined the process underlying the metabolism of different rhizosphere P forms of submerged macrophytes under different cultivation patterns by analyzing physicochemical data, basic plant traits, microbial communities, and transcriptomics. The results indicate that alkaline phosphatase serves as a key factor in revealing the existence of a link between plant traits (path coefficient = 0.335, p < 0.05) and interactions with rhizosphere microbial communities (average path coefficient = 0.362, p < 0.05). Moreover, this study demonstrates that microbial communities further influence the niche plasticity of P by mediating plant root P metabolism genes (path coefficient = 0.354, p < 0.05) and rhizosphere microbial phosphorus storage (average path coefficient = 0.605, p < 0.01). This research not only contributes to a deeper comprehension of stoichiometric homeostasis and nutrient dynamics but also provides valuable insights into potential strategies for managing and restoring submerged macrophyte-dominated ecosystems in the face of changing nutrient conditions.

Potential of root acid phosphatase activity to reduce phosphorus fertilization in maize cultivated in Brazil

It is urgent to mitigate the environmental impacts resulting from agriculture, especially in highly biodiverse and threatened areas, as the Brazilian Cerrado. We aim to investigate whether root acid phosphatase activity is alternative plant strategies for nutrient acquisition in maize genotypes cultivated under fertilized and unfertilized conditions in Brazil, potentially contributing to reducing the use of phosphate fertilizers needed for production. Three experiments were performed: the first was conducted in a glasshouse, with 17 experimental maize inbred lines and two phosphorus (P) treatments; the second in the field, with three maize inbred lines and two treatments, one without fertilization and another with NPK fertilization; and the third was also carried out in the field, with 13 commercial hybrids, grown either under NK or under NPK treatment. Plant variables were measured and tested for the response to fertilization, differences amongst genotypes and response to root acid phosphatase activity. The activity of root acid phosphatase was modulated by the availability of P and nitrogen (N) in the soil and promoted grain filling of commercial hybrids in soils with low P availability. These results demonstrate that it is possible to select genotypes that are more adapted to low soil P availability aiming at organic production, or to use genotypes that have high phosphatase activity under P fertilization to reduce the amount of added P needed for maize production in Brazil.

Abundance and phylogenetic distribution of eight key enzymes of the phosphorus biogeochemical cycle in grassland soils

Grassland biomes provide valuable ecosystem services, including nutrient cycling. Organic phosphorus (Po) represents more than half of the total P in soils. Soil microorganisms release organic P through enzymatic processes, with alkaline phosphatases, acid phosphatases and phytases being the key P enzymes involved in the cycling of organic P. This study analysed 74 soil metagenomes from 17 different grassland biomes worldwide to evaluate the distribution and abundance of eight key P enzymes (PhoD, PhoX, PhoA, Nsap-A, Nsap-B, Nsap-C, BPP and CPhy) and their relationship with environmental factors. Our analyses showed that alkaline phosphatase phoD was the dataset's most abundant P-enzyme encoding genes, with a wide phylogenetic distribution. Followed by the acid phosphatases Nsap-A and Nsap-C showed similar abundance but a different distribution in their respective phylogenetic trees. Multivariate analyses revealed that pH, Tmax , SOC and soil moisture were associated with the abundance and diversity of all genes studied. PhoD and phoX genes strongly correlated with SOC and clay, and the phoX gene was more common in soils with low to medium SOC and neutral pH. In particular, P-enzyme genes tended to respond in a positively correlated manner among them, suggesting a complex relationship of abundance and diversity among them.

Bisphenols-A Threat to the Natural Environment

Negative public sentiment built up around bisphenol A (BPA) follows growing awareness of the frequency of this chemical compound in the environment. The increase in air, water, and soil contamination by BPA has also generated the need to replace it with less toxic analogs, such as Bisphenol F (BPF) and Bisphenol S (BPS). However, due to the structural similarity of BPF and BPS to BPA, questions arise about the safety of their usage. The toxicity of BPA, BPF, and BPS towards humans and animals has been fairly well understood. The biodegradability potential of microorganisms towards each of these bisphenols is also widely recognized. However, the scale of their inhibitory pressure on soil microbiomes and soil enzyme activity has not been estimated. These parameters are extremely important in determining soil health, which in turn also influences plant growth and development. Therefore, in this manuscript, knowledge has been expanded and systematized regarding the differences in toxicity between BPA and its two analogs. In the context of the synthetic characterization of the effects of bisphenol permeation into the environment, the toxic impact of BPA, BPF, and BPS on the microbiological and biochemical parameters of soils was traced. The response of cultivated plants to their influence was also analyzed.

Compost with spent mushroom substrate and chicken manure enhances rice seedling quality and reduces soil-borne pathogens

Using cultivated soils for rice seedlings can reduce the sustainability of arable land and thus giving negative impacts to food production. As a substitute, spent mushroom compost (SMC), which has high water-holding capacity and nutrient content, shows great potentials. To determine the impacts of the proportion of SMC and paddy soil on seedling quality, rhizosphere microbial characteristics, and fungal pathogens in rice seedling substrates, we conducted a 21-day pot experiment for rice seedling under five treatments: CK, 100% paddy soil; R1, 20% SMC and 80% paddy soil; R2, 50% SMC and 50% paddy soil; R3, 80% SMC and 20% paddy soil; and R4, 100% SMC. The results showed that incorporating SMC into the substrate, especially at 50% volume (R2), increased seedling growth and vitality at the seedling growth stage without external fertilization. Moreover, the SMC amendment increased microbial activity and promoted rice seedling recruitment of plant growth-promoting rhizobacteria (PGPR) and fungi (PGPF). In addition, using SMC significantly reduced the abundance of pathogenic fungi, especially Magnaporthe grisea. Overall, the multi-faceted benefits exhibit the strong possibilities of using SMC in sustainable rice productions.

Exploring the Biologically Active Metabolites Produced by Bacillus cereus for Plant Growth Promotion, Heat Stress Tolerance, and Resistance to Bacterial Soft Rot in Arabidopsis

Eight gene clusters responsible for synthesizing bioactive metabolites associated with plant growth promotion were identified in the Bacillus cereus strain D1 (BcD1) genome using the de novo whole-genome assembly method. The two largest gene clusters were responsible for synthesizing volatile organic compounds (VOCs) and encoding extracellular serine proteases. The treatment with BcD1 resulted in an increase in leaf chlorophyll content, plant size, and fresh weight in Arabidopsis seedlings. The BcD1-treated seedlings also accumulated higher levels of lignin and secondary metabolites including glucosinolates, triterpenoids, flavonoids, and phenolic compounds. Antioxidant enzyme activity and DPPH radical scavenging activity were also found to be higher in the treated seedlings as compared with the control. Seedlings pretreated with BcD1 exhibited increased tolerance to heat stress and reduced disease incidence of bacterial soft rot. RNA-seq analysis showed that BcD1 treatment activated Arabidopsis genes for diverse metabolite synthesis, including lignin and glucosinolates, and pathogenesis-related proteins such as serine protease inhibitors and defensin/PDF family proteins. The genes responsible for synthesizing indole acetic acid (IAA), abscisic acid (ABA), and jasmonic acid (JA) were expressed at higher levels, along with WRKY transcription factors involved in stress regulation and MYB54 for secondary cell wall synthesis. This study found that BcD1, a rhizobacterium producing VOCs and serine proteases, is capable of triggering the synthesis of diverse secondary metabolites and antioxidant enzymes in plants as a defense strategy against heat stress and pathogen attack.

Foliar nutrient resorption stoichiometry and microbial phosphatase catalytic efficiency together alleviate the relative phosphorus limitation in forest ecosystems

Understanding how plants adapt to spatially heterogeneous phosphorus (P) supply is important to elucidate the effect of environmental changes on ecosystem productivity. Plant P supply is concurrently controlled by plant internal conservation and external acquisition. However, it is unclear how climate, soil, and microbes influence the contributions and interactions of the internal and external pathways for plant P supply. Here, we measured P and nitrogen (N) resorption efficiency, litter and soil acid phosphatase (AP) catalytic parameters (V_max(s) and K_m ), and soil physicochemical properties at four sites spanning from cold temperate to tropical forests. We found that the relative P limitation to plants was generally higher in tropical forests than temperate forests, but varied greatly among species and within sites. In P-impoverished habitats, plants resorbed more P than N during litterfall to maintain their N : P stoichiometric balance. In addition, once ecosystems shifted from N-limited to P-limited, litter- and soil-specific AP catalytic efficiency (V_max(s) /K_m ) increased rapidly, thereby enhancing organic P mineralization. Our findings suggested that ecosystems develop a coupled aboveground-belowground strategy to maintain P supply and N : P stoichiometric balance under P-limitation. We also highlighted that N cycle moderates P cycles and together shape plant P acquisition in forest ecosystems.

Assessing the Fate of Superparamagnetic Iron Oxide Nanoparticles Carrying Usnic Acid as Chemical Cargo on the Soil Microbial Community

In the present study we evaluate the effect of superparamagnetic iron oxide nanoparticles (SPIONs) carrying usnic acid (UA) as chemical cargo on the soil microbial community in a dystrophic red latosol (oxysol). Herein, 500 ppm UA or SPIONs-framework carrying UA were diluted in sterile ultrapure deionized water and applied by hand sprayer on the top of the soil. The experiment was conducted in a growth chamber at 25 °C, with a relative humidity of 80% and a 16 h/8 h light-dark cycle (600 lx light intensity) for 30 days. Sterile ultrapure deionized water was used as the negative control; uncapped and oleic acid (OA) capped SPIONs were also tested to assess their potential effects. Magnetic nanostructures were synthesized by a coprecipitation method and characterized by scanning and transmission electron microscopy (SEM and TEM), X-ray diffraction (XRD), Fourier-transform infrared spectroscopy (FTIR), zeta potential, hydrodynamic diameter, magnetic measurements, and release kinetics of chemical cargo. Uncapped and OA-capped SPIONs did not significantly affect soil microbial community. Our results showed an impairment in the soil microbial community exposed to free UA, leading to a general decrease in negative effects on soil-based parameters when bioactive was loaded into the nanoscale magnetic carrier. Besides, compared to control, the free UA caused a significant decrease in microbial biomass C (39%), on the activity of acid protease (59%), and acid phosphatase (23%) enzymes, respectively. Free UA also reduced eukaryotic 18S rRNA gene abundance, suggesting a major impact on fungi. Our findings indicate that SPIONs as bioherbicide nanocarriers can reduce the negative impacts on soil. Therefore, nanoenabled biocides may improve agricultural productivity, which is important for food security due to the need of increasing food production.

Biotic and abiotic effects of soil organic matter on the phytoavailable phosphorus in soils: a review

Soil organic matter (SOM) has a critical role in regulating soil phosphorus (P) dynamics and producing phytoavailable P. However, soil P dynamics are often explained mainly by the effects of soil pH, clay contents, and elemental compositions, such as calcium, iron, and aluminum. Therefore, a better understanding of the mechanisms of how SOM influences phytoavailable P in soils is required for establishing effective agricultural management for soil health and enhancement of soil fertility, especially P-use efficiency. In this review, the following abiotic and biotic mechanisms are discussed; (1) competitive sorption between SOM with P for positively charged adsorption sites of clays and metal oxides (abiotic reaction), (2) competitive complexations between SOM with P for cations (abiotic reaction), (3) competitive complexations between incorporation of P by binary complexations of SOM and bridging cations with the formation of stable P minerals (abiotic reaction), (4) enhanced activities of enzymes, which affects soil P dynamics (biotic reaction), (5) mineralization/immobilization of P during the decay of SOM (biotic reaction), and (6) solubilization of inorganic P mediated by organic acids released by microbes (biotic reaction).

Can arbuscular mycorrhizal fungi and rhizobacteria facilitate 33P uptake in maize plants under water stress?

Arbuscular mycorrhizal fungi (AMF) and plant growth-promoting rhizobacteria (PGPR) are able to provide key ecosystem services, protecting plants against biotic and abiotic stresses. Here, we hypothesized that a combination of AMF (Rhizophagus clarus) and PGPR (Bacillus sp.) could enhance ³³P uptake in maize plants under soil water stress. A microcosm experiment using mesh exclusion and a radiolabeled phosphorus tracer (³³P) was installed using three types of inoculation: i) only AMF, ii) only PGPR, and iii) a consortium of AMF and PGPR, alongside a control treatment without inoculation. For all treatments, a gradient of three water-holding capacities (WHC) was considered i) 30% (severe drought), ii) 50% (moderate drought), and iii) 80% (optimal condition, no water stress). In severe drought conditions, AMF root colonization of dual-inoculated plants was significantly lower compared to individual inoculation of the AMF, whilst ³³P uptake by dual-inoculated plants or plants inoculated with bacteria was 2.4-fold greater than the uninoculated treatment. Under moderate drought conditions the use of AMF promoted the highest ³³P uptake by plants, increasing it by 2.1-fold, when compared to the uninoculated treatment. Without drought stress, AMF showed the lowest ³³P uptake and, overall, plant P acquisition was lower for all inoculation types when compared to the severe and moderate drought treatments. The total shoot P content was modulated by the water-holding capacity and inoculation type, with the lowest values observed under severe drought and the highest values under moderate drought. The highest soil electrical conductivity (EC) values were found under severe drought in AMF-inoculated plants and the lowest EC for no drought in single or dual-inoculated plants. Furthermore, water-holding capacity influenced the total soil bacterial and mycorrhizal abundance over time, with the highest abundances being found under severe and moderate drought. This study demonstrates that the positive influence of microbial inoculation on ³³P uptake by plants varied with soil water gradient. Furthermore, under severe stress conditions, AMF invested more in the production of hyphae, vesicles and spore production, indicating a significant carbon drain from the host plant as evidenced by the lack of translation of increased ³³P uptake into biomass. Therefore, under severe drought the use of bacteria or dual-inoculation seems to be more effective than individual AMF inoculation in terms of ³³P uptake by plants, while under moderate drought, the use of AMF stood out.

The spatio-temporal distribution of alkaline phosphatase activity and phoD gene abundance and diversity in sediment of Sancha Lake

The bacterial phoD gene encoding alkaline phosphatase (ALP) plays an important role in the release of soluble reactive phosphorus (SRP) from organic phosphorus in ecosystems. However, phoD gene diversity and abundance in ecosystems is poorly understood. In the present study, we sampled the surface sediments and the overlying water of Sancha Lake at 9 different sampling sites, a typical eutrophic sub-deep freshwater lake in China, in April 15 (spring) and November 3 (autumn), 2017. High-throughput sequencing and qPCR were performed to analyze the diversity and abundance of the bacterial phoD gene in the sediments. We further discussed the relationships between the diversity and abundance of the phoD gene and environmental factors and ALP activity. A total of 881,717 valid sequences were obtained from 18 samples and were classified into 41 genera, 31 families, 23 orders, 12 classes, and 9 phyla and grouped into 477 OTUs. The dominant phyla were Proteobacteria and Actinobacteria. The phylogenetic tree based on the sequences of the phoD gene was plotted and composed of three branches. The genetic sequences were aligned predominantly with genera Pseudomonas, Streptomyces, Cupriavidus, and Paludisphaer. The phoD-harboring bacterial community structure showed a significant difference in spring and autumn, but no apparent spatial heterogeneity. The phoD gene abundances at different sampling points were significantly higher in autumn than in spring. In autumn and spring, the phoD gene abundance was significantly higher in the tail of lake and where cage culture used to be intensive. pH value, dissolved oxygen (DO), total organic carbon (TOC), ALP, and phosphorus were important environmental factors affecting the diversity of the phoD gene and the phoD-harboring bacterial community structure. Changes in phoD-harboring bacterial community structure, phoD gene abundance, and ALP activity were negatively correlated with SRP in overlying water. Our study indicated phoD-harboring bacteria in the sediments of Sancha Lake with the characteristics of high diversity and significant spatial and temporal heterogeneity in abundance and community structure, which played a important role in the release of SRP.

Altered microbial P cycling genes drive P availability in soil after afforestation

Soil Phosphorous (P) availability is a limiting factor for plant growth and regulates biological metabolism in plantation ecosystems. The effect of variations in soil microbial P cycling potential on the availability of soil P during succession in plantation ecosystems is unclear. In this study, a metagenomics approach was used to explore variations in the composition and diversity of microbial P genes along a 45-year recovery sequence of Robinia pseudoacacia on the Loess Plateau, as well soil properties were measured. Our results showed that the diversity of P cycling genes (inorganic P solubilization and organic P mineralization genes) increased significantly after afforestation, and the community composition showed clear differences. The gcd and ppx genes were dominant in inorganic P transformation, whereas phnM gene dominated the transformation of organic P. The abundance of genes involved in inorganic P solubilization and organic P mineralization was significantly positively correlated with P availability, particularly for phnM, gcd, ppx, and phnI genes, corresponding to the phyla Gemmatimonadetes, Acidobacteria, Bacteroidetes, and Planctomycetes. The critical drivers of the microbial main genes of soil P cycling were available P (AP) and total N (TN) in soil. Overall, these findings highlight afforestation-induced increases in microbial P cycling genes enhanced soil P availability. and help to better understand how microbial growth metabolism caused by vegetation restoration in ecologically fragile areas affects the soil P cycling.

Nutrient starvation and nitrate pollution impairs the assimilation of dissolved organic phosphorus in coral-Symbiodiniaceae symbiosis

Phosphorus (P) is an essential but limiting nutrient for coral growth due to low concentrations of dissolved inorganic concentrations (DIP) in reef waters. P limitation is often exacerbated when concentrations of dissolved inorganic nitrogen (DIN) increase in the reef. To increase their access to phosphorus, corals can use organic P dissolved in seawater (DOP). They possess phosphatase enzymes that transform DOP into DIP, which can then be taken up by coral symbionts. Although the concentration of DOP in reef waters is much higher than DIP, the dependence of corals on this P source is still poorly understood, especially with different concentrations of DIN in seawater. As efforts to predict the future of corals increase, improved knowledge of the P requirements of corals living under different DIN concentrations may be key to predicting coral health. In this study, we investigated P content and phosphatase activities (PAs) in Stylophora pistillata maintained under nutrient starvation, long-term nitrogen enrichment (nitrate or ammonium at 2 μM) and short-term (few hours) nitrogen pulses. Results show that under nutrient depletion and ammonium-enriched conditions, a significant increase in PAs was observed compared to control conditions, with no change in the N:P ratio of the coral tissue. On the contrary, under nitrate enrichment, there was no increase in PAs compared to control conditions, but an increase in the N:P ratio of the coral tissue. These results suggest that under nitrate enrichment, corals were unable to increase their ability to rely on DOP and replenish their cellular P content. An increase in cellular N:P ratio is detrimental to coral health as it increases the susceptibility of coral bleaching under thermal stress. These results provide an overall view of the P requirements of corals exposed to different nutrient conditions and improve our understanding of the effects of nitrogen enrichment on corals.

Speciation analysis and formation mechanism of iron-phosphorus compounds during chemical phosphorus removal process

Iron (Fe) salt was applied extensively to remove phosphorus (P) in wastewater treatment plants (WWTPs). Exploring the formation mechanism of iron-phosphorus compounds (FePs) during the chemical P removal (CPR) process is beneficial to P recovery. In this study, the performance of P removal, FePs speciation analysis and the kinetics of P removal under different conditions (pH, Fe/P molar ratio (Fe/P_mol), type of Fe salt, dissolved organic matters) were comprehensively investigated. More than 95% of P was removed under the optimal conditions with pH = 4.7, Fe/P_mol = 2, FeCl₃ or polymeric ferric sulfate (PFS) as the coagulant. The FePs formation mechanism was considerably influenced by reaction conditions. Iron-phosphate compounds were the dominant FePs species (>76%) at pH < 6.2, while more iron oxides were formed at pH ≥ 6.2 with decreased P removal efficiency. When the initial Fe/P_mol was 2, iron-phosphate compound was the only product that was formed by the reaction between PO₄^3- and Fe(III) or Fe(II) ions directly. More iron oxides were generated when the initial Fe/P_mol was 1 or 3. At Fe/P_mol = 1, the Fe(III) was hydrolyzed to form iron oxides and trapped PO₄^3-, while at Fe/P_mol = 3, iron-phosphate compounds were produced firstly and the remaining Fe(III) was hydrolyzed to form iron oxides. The pseudo-second-order kinetic model simulated the chemical P removal process well. The reaction rate of P with Fe(II) was slower than that with Fe(III), but complete removal was still achieved when the reaction time was more than 30 min. Poly-Fe salt exhibited a fast P removal rate, while the removal efficiency depended on its iron content. Organic matters in wastewater with large molecular weight and multiple functional groups (such as humic acids) inhibited P removal rate but hardly affect the removal amount. This study provides an insight into CPR by Fe salts and is beneficial for P recovery in WWTPs.

Purple acid phosphatases in coffee-genome-wide identification and the transcriptional profile of selected members in roots upon Pi starvation

Phosphorus (P) availability is determinant for crop productivity and, despite the sufficient amount of this nutrient in arable land, most of it remains insoluble, leading to the need of high fertilizer input. To cope with P scarcity forecasts and also for cropping costs alleviation, genotypes better adapted to promote P solubilization and absorption are required, especially for perennial crops. Coffee is one of these important perennial crops cultivated in soils with low P availability, and thus we aimed to study adaptive strategies to coffee genotypes in acquire phosphorus. In this study, we focused on rhizosphere phosphatase activity, a major characteristic related to P solubilization from organic pools. To explore the genetic basis of this characteristic, we firstly identified 29 Purple Acid Phosphatases (PAP) genes in C. canephora genome and selected five candidates with higher potential to encode secreted PAPs. We found that C. arabica genotypes have diverse profiles of rhizosphere phosphatase activity, as well as microbial biomass carbon, which we measured to explore the impact of the plant on microbiota and also to discriminate the phosphatase activity origin (plant or microorganism-derived). We selected two C. arabica cultivars with contrasting phosphatase activity and found that one PAP gene has a correlated gene expression profile with this characteristic. This work explores coffee adaptative responses to P starvation conditions, and the information provided can further contribute to breeding programs aiming better adapted genotypes for sustainable agriculture in face of current challenges.

Supplementary Information

The online version contains supplementary material available at 10.1007/s13205-022-03399-6.

N and P constrain C in ecosystems under climate change: Role of nutrient redistribution, accumulation, and stoichiometry

We use the Multiple Element Limitation (MEL) model to examine responses of 12 ecosystems to elevated carbon dioxide (CO₂ ), warming, and 20% decreases or increases in precipitation. Ecosystems respond synergistically to elevated CO₂ , warming, and decreased precipitation combined because higher water-use efficiency with elevated CO₂ and higher fertility with warming compensate for responses to drought. Response to elevated CO₂ , warming, and increased precipitation combined is additive. We analyze changes in ecosystem carbon (C) based on four nitrogen (N) and four phosphorus (P) attribution factors: (1) changes in total ecosystem N and P, (2) changes in N and P distribution between vegetation and soil, (3) changes in vegetation C:N and C:P ratios, and (4) changes in soil C:N and C:P ratios. In the combined CO₂ and climate change simulations, all ecosystems gain C. The contributions of these four attribution factors to changes in ecosystem C storage varies among ecosystems because of differences in the initial distributions of N and P between vegetation and soil and the openness of the ecosystem N and P cycles. The net transfer of N and P from soil to vegetation dominates the C response of forests. For tundra and grasslands, the C gain is also associated with increased soil C:N and C:P. In ecosystems with symbiotic N fixation, C gains resulted from N accumulation. Because of differences in N versus P cycle openness and the distribution of organic matter between vegetation and soil, changes in the N and P attribution factors do not always parallel one another. Differences among ecosystems in C-nutrient interactions and the amount of woody biomass interact to shape ecosystem C sequestration under simulated global change. We suggest that future studies quantify the openness of the N and P cycles and changes in the distribution of C, N, and P among ecosystem components, which currently limit understanding of nutrient effects on C sequestration and responses to elevated CO₂ and climate change.

Contrasting distribution of enzyme activities in the rhizosphere of European beech and Norway spruce

Recent policies and silvicultural management call for forest regeneration that involve the selection of tree species able to cope with low soil nutrient availability in forest ecosystems. Understanding the impact of different tree species on the rhizosphere processes (e.g., enzyme activities) involved in nutrient mobilisation is critical in selecting suitable species to adapt forests to environmental change. Here, we visualised and investigated the rhizosphere distribution of enzyme activities (cellobiohydrolase, leucine-aminopeptidase, and acid phosphomonoesterase) using zymography. We related the distribution of enzyme activities to the seedling root morphological traits of European beech (Fagus sylvatica) and Norway spruce (Picea abies), the two most cultivated temperate tree species that employ contrasting strategies in soil nutrient acquisition. We found that spruce showed a higher morphological heterogeneity along the roots than beech, resulting in a more robust relationship between rhizoplane-associated enzyme activities and the longitudinal distance from the root apex. The rhizoplane enzyme activities decreased in spruce and increased in beech with the distance from the root apex over a power-law equation. Spruce revealed broader rhizosphere extents of all three enzymes, but only acid phosphomonoesterase activity was higher compared with beech. This latter result was determined by a larger root system found in beech compared with spruce that enhanced cellobiohydrolase and leucine-aminopeptidase activities. The root hair zone and hair lengths were significant variables determining the distribution of enzyme activities in the rhizosphere. Our findings indicate that spruce has a more substantial influence on rhizosphere enzyme production and diffusion than beech, enabling spruce to better mobilise nutrients from organic sources in heterogeneous forest soils.

Selectivity in Enzymatic Phosphorus Recycling from Biopolymers: Isotope Effect, Reactivity Kinetics, and Molecular Docking with Fungal and Plant Phosphatases

Among ubiquitous phosphorus (P) reserves in environmental matrices are ribonucleic acid (RNA) and polyphosphate (polyP), which are, respectively, organic and inorganic P-containing biopolymers. Relevant to P recycling from these biopolymers, much remains unknown about the kinetics and mechanisms of different acid phosphatases (APs) secreted by plants and soil microorganisms. Here we investigated RNA and polyP dephosphorylation by two common APs, a plant purple AP (PAP) from sweet potato and a fungal phytase from Aspergillus niger. Trends of δ¹⁸O values in released orthophosphate during each enzyme-catalyzed reaction in ¹⁸O-water implied a different extent of reactivity. Subsequent enzyme kinetics experiments revealed that A. niger phytase had 10-fold higher maximum rate for polyP dephosphorylation than the sweet potato PAP, whereas the sweet potato PAP dephosphorylated RNA at a 6-fold faster rate than A. niger phytase. Both enzymes had up to 3 orders of magnitude lower reactivity for RNA than for polyP. We determined a combined phosphodiesterase-monoesterase mechanism for RNA and terminal phosphatase mechanism for polyP using high-resolution mass spectrometry and ³¹P nuclear magnetic resonance, respectively. Molecular modeling with eight plant and fungal AP structures predicted substrate binding interactions consistent with the relative reactivity kinetics. Our findings implied a hierarchy in enzymatic P recycling from P-polymers by phosphatases from different biological origins, thereby influencing the relatively longer residence time of RNA versus polyP in environmental matrices. This research further sheds light on engineering strategies to enhance enzymatic recycling of biopolymer-derived P, in addition to advancing environmental predictions of this P recycling by plants and microorganisms.

Effects of different pioneer and exotic species on the changes of degraded soils

Soil degradation resulting from deforestation contributes to a dramatic decline in soil quality whose restoration must go through reforestation with pioneer species. We investigated the effects of cypress and black locust, pioneer but exotic species, on soil chemical properties and microbial and enzymatic activities of two marginal soils. The sampling sites were Lama Giulia and Locone lake in the Murge plateau of the Apulia Region, Italy. The soils at Lama Giulia presented a silty loam texture, while at Locone Lake site were sandy, and most likely due to the different texture, the former exhibited higher organic C, N, P and micronutrients contents than Locone Lake under black locust reforestation, despite the latter was reforested earlier. In addition, the higher microbial entropy and turnover of Locone Lake's soils suggested a less conservative soil state than Lama Giulia's soils. The effects of black locust reforestation at Lama Giulia on almost all soil parameters considered did not differ from those of the corresponding pasture, confirming the more conservative soil state in that site and suggesting that the time of reforestation was not enough to get differences between the reforested and not reforested soil. The soils reforested with cypress showed the significantly highest SOC, N, dissolved organic C and microbial biomass C content. In addition, it presented also the numerically largest dehydrogenase, phosphatase and β-glucosidase activities, soluble carbohydrates, and phenolic compounds content. These results may be ascribed to the longer litter deposition occurred in cypress soils.

The spatio-temporal change in soil P and P-solubilizing bacteria under clover mulching in apple orchards of Loess Plateau

Cover crop is an effective practice for improving soil quality and increase soil nutrients. However, the spatio-temporal change of soil phosphorus (P) components and P-solubilizing microorganisms in the process of grass succession is not evident. Here, we studied the variation of soil P components and P-solubilizing bacteria at 0-60 cm soil layer under clean tillage (CT) and white clover (WC, Trifolium repens L.) grown for 5, 9, and 14 years in an apple test station on the Loess Plateau, China. This study suggested that clover cover could effectively increase the total P, available P (AP), microbial P, organic P (Po), and inorganic P (Al-P, Ca₂-P, Ca₈-P and Fe-P) in topsoil (0-20 cm) and AP, Po and inorganic P at 20-40 cm soil layer to improve the soil P bioavailability. The effects of WC living mulch on the soil P forms were more significant with the increase in grass growing years, but this effect was difficult to extend to deep soil. In addition, the WC treatments were beneficial to the growth of P-solubilizing microorganisms in surface soil and improved the alkaline phosphatase activity at 0-40 cm soil layer, mainly including Bacillus, Bradyrhizobium, Nocardioides, Sphingomonas and Streptomyces. This study provided a perspective on the dynamic changes of soil P forms and P-solubilizing microorganisms and under long-term cover crop.

Synthetic and biological surfactant effects on freshwater biofilm community composition and metabolic activity

Abstract

Surfactants are used to control microbial biofilms in industrial and medical settings. Their known toxicity on aquatic biota, and their longevity in the environment, has encouraged research on biodegradable alternatives such as rhamnolipids. While previous research has investigated the effects of biological surfactants on single species biofilms, there remains a lack of information regarding the effects of synthetic and biological surfactants in freshwater ecosystems. We conducted a mesocosm experiment to test how the surfactant sodium dodecyl sulfate (SDS) and the biological surfactant rhamnolipid altered community composition and metabolic activity of freshwater biofilms. Biofilms were cultured in the flumes using lake water from Lake Lunz in Austria, under high (300 ppm) and low (150 ppm) concentrations of either surfactant over a four-week period. Our results show that both surfactants significantly affected microbial diversity. Up to 36% of microbial operational taxonomic units were lost after surfactant exposure. Rhamnolipid exposure also increased the production of the extracellular enzymes, leucine aminopeptidase, and glucosidase, while SDS exposure reduced leucine aminopeptidase and glucosidase. This study demonstrates that exposure of freshwater biofilms to chemical and biological surfactants caused a reduction of microbial diversity and changes in biofilm metabolism, exemplified by shifts in extracellular enzyme activities.

Key points

• Microbial biofilm diversity decreased significantly after surfactant exposure.

• Exposure to either surfactant altered extracellular enzyme activity.

• Overall metabolic activity was not altered, suggesting functional redundancy.

Muz Atıkları Kompostunun Toprağın Azot ve Fosfor ile İlişkili Enzimatik Aktiviteleri Üzerine Kısa Süreli Etkisinin İzlenmesi

A large amount of plant pruning waste occurs after annual care in banana production areas. This waste material contains significant amounts of organic substances and nutrients. In this study, banana waste compost (BWC) was applied to the soil both alone and in mixture with leonardite (LT) and vinasse compost (VC). Treatments include: control (CL), banana waste compost alone (BWC-2: 2 t da-1; BWC-4: 4 t da-1; BWC-8: 8 t da-1), leonardite alone (LT: the recommended application rate), leonardite with banana waste compost (BWC-2+LT; BWC-4+LT; BWC-8+LT), vinasse compost alone (VC: the recommended application rate), vinasse compost with banana waste compost (BWC-2+VC; BWC-4+VC; BWC-8+VC). Afterwards, the changes in the activities of nitrogen (NH4+NO3) and phosphorus (available P) related enzymes (urease and alkaline phosphatase) were monitored through analyzes made on soil samples taken on certain days (0th, 10th, 20th, 40th, 80th). During this period, the pH and EC values of the soil were also measured. According to the results obtained; it was determined that banana waste compost combined with leonardite generally positively affects the pH, EC, exchangeable NH4-NO3 and, available P of the soil, as well as the activity of urease and alkaline phosphatase compared to other treatments. In this regard, according to the control, the urease activity of the soil increased by 875%, the alkaline phosphatase activity by 149%, the exchangeable NH4+NO3 by 188%, available P by 83%, and the EC value by 100%. However, the pH value decreased by about 5%. As a result, it can be stated that the application of banana waste compost combined with leonardite as a soil conditioner at least 4 t da-1 will be economical and 10 to 20 days after this application, nitrogen and phosphorus availability will increase in the soil.

Two-Phase Conceptual Framework of Phosphatase Activity and Phosphorus Bioavailability

The activity of extracellular phosphatases is a dynamic process controlled by both plant roots and microorganisms, which is responsible for the mineralization of soil phosphorus (P). Plants regulate the availability of soil P through the release of root mucilage and the exudation of low-molecular weight organic acids (LMWOAs). Mucilage increases soil hydraulic conductivity as well as pore connectivity, both of which are associated with increased phosphatase activity. The LMWOAs, in turn, stimulate the mineralization of soil P through their synergistic effects of acidification, chelation, and exchange reactions. This article reviews the catalytic properties of extracellular phosphatases and their interactions with the rhizosphere interfaces. We observed a biphasic effect of root metabolic products on extracellular phosphatases, which notably altered their catalytic mechanism. In accordance with the proposed conceptual framework, soil P is acquired by both plants and microorganisms in a coupled manner that is characterized by the exudation of their metabolic products. Due to inactive or reduced root exudation, plants recycle P through adsorption on the soil matrix, thereby reducing the rhizosphere phosphatase activity. The two-phase conceptual framework might assist in understanding P-acquisition (substrate turnover) and P-restoration (phosphatase adsorption by soil) in various terrestrial ecosystems.

Peltigera frigida Lichens and Their Substrates Reduce the Influence of Forest Cover Change on Phosphate Solubilizing Bacteria

Phosphorus (P) is one of the most critical macronutrients in forest ecosystems. More than 70 years ago, some Chilean Patagonian temperate forests suffered wildfires and the subsequent afforestation with foreign tree species such as pines. Since soil P turnover is interlinked with the tree cover, this could influence soil P content and bioavailability. Next to soil microorganisms, which are key players in P transformation processes, a vital component of Patagonian temperate forest are lichens, which represent microbial hotspots for bacterial diversity. In the present study, we explored the impact of forest cover on the abundance of phosphate solubilizing bacteria (PSB) from three microenvironments of the forest floor: Peltigera frigida lichen thallus, their underlying substrates, and the forest soil without lichen cover. We expected that the abundance of PSB in the forest soil would be strongly affected by the tree cover composition since the aboveground vegetation influences the edaphic properties; but, as P. frigida has a specific bacterial community, lichens would mitigate this impact. Our study includes five sites representing a gradient in tree cover types, from a mature forest dominated by the native species Nothofagus pumilio, to native second-growth forests with a gradual increase in the presence of Pinus contorta in the last sites. In each site, we measured edaphic parameters, P fractions, and the bacterial potential to solubilize phosphate by quantifying five specific marker genes by qPCR. The results show higher soluble P, labile mineral P, and organic matter in the soils of the sites with a higher abundance of P. contorta, while most of the molecular markers were less abundant in the soils of these sites. Contrarily, the abundance of the molecular markers in lichens and substrates was less affected by the tree cover type. Therefore, the bacterial potential to solubilize phosphate is more affected by the edaphic factors and tree cover type in soils than in substrates and thalli of P. frigida lichens. Altogether, these results indicate that the microenvironments of lichens and their substrates could act as an environmental buffer reducing the influence of forest cover composition on bacteria involved in P turnover.

Plant phosphorus acquisition links to phosphorus transformation in the rhizospheres of soybean and rice grown under CO2 and temperature co-elevation

Climate change is likely to influence the reservoir of soil phosphorus (P) as plants adaptably respond to climate change in the perspective of P acquisition capability via root proliferation and mediating biochemical properties in the rhizosphere to access various soil P fractions. It is particularly important in cropping soils where P fertilizer plus soil P is required to synchronize crop P demand for the production sustainability under climate change. However, few studies have examined the effect of CO2 and temperature co-elevation on plant P acquisition, P fractions and relevant functional genes in the rhizosphere of different crops. Thus, the present study investigated the effect of elevated CO2 and warming on P uptake of soybean and rice grown in Mollisols, and soil P fractions and relevant biochemical properties and microbial functions in the rhizosphere with or without P application. Open-top chambers were used to achieve elevated CO2 of 700 ppm combined with warming (+ 2 °C above ambient temperature). CO2 and temperature co-elevation increased P uptake in soybean by 23% and 28% under the no-P and P application treatments, respectively; and in rice, by 34% and 13%, respectively. CO2 and temperature co-elevation depleted organic P in the rhizosphere of soybean, but increased in the rhizosphere of rice. The phosphatase activity negatively correlated with organic P in the highland soil while positively in the paddy soil. The P mineralization likely occurs in soybean-grown soils under climate change, while the P immobilization in paddy soils. CO2 and temperature co-elevation increased the copy numbers of P functional genes including phoD, phoC, pstS and phnX, in soils with P application. These results indicate that the P application would be requested to satisfy the increased P demand in soybean under climate change, but not in rice in paddy soils where soil P availability is sufficient. Therefore, elevated CO2 and temperature facilitated the crop P uptake via biochemical and microbial pathways, and P functional genes played an essential role in the conversion of P.

Diverse responses of pqqC- and phoD-harbouring bacterial communities to variation in soil properties of Moso bamboo forests

Phosphate‐mobilizing bacteria (PMB) play a critical role in the regulation of phosphorus availability in the soil. The microbial genes pqqC and phoD encode pyrroloquinoline quinone synthase and bacterial alkaline phosphatase, respectively, which regulate inorganic and organic phosphorus mobilization, and are therefore used as PMB markers. We examined the effects of soil properties in three Moso bamboo forest sites on the PMB communities that were profiled using high‐throughput sequencing. We observed differentiated responses of pqqC‐ and phoD‐harbouring PMB communities to various soil conditions. There was significant variation among the sites in the diversity and structure of the phoD‐harbouring community, which correlated with variation in phosphorus levels and non‐capillary porosity; soil organic carbon and soil water content also affected the structure of the phoD‐harbouring community. However, no significant difference in the diversity of pqqC‐harbouring community was observed among different sites, while the structure of the pqqC‐harbouring bacteria community was affected by soil organic carbon and soil total nitrogen, but not soil phosphorus levels. Overall, changes in soil conditions affected the phoD‐harbouring community more than the pqqC‐harbouring community. These findings provide a new insight to explore the effects of soil conditions on microbial communities that solubilize inorganic phosphate and mineralize organic phosphate.

Diversity of Phosphate Chemical Forms in Soils and Their Contributions on Soil Microbial Community Structure Changes

In many soils, the bioavailability of Phosphorus (P), an essential macronutrient is a limiting factor for crop production. Among the mechanisms developed to facilitate the absorption of phosphorus, the plant, as a holobiont, can rely on its rhizospheric microbial partners. Therefore, microbial P-solubilizing inoculants are proposed to improve soil P fertility in agriculture. However, a better understanding of the interactions of the soil-plant-microorganism continuum with the phosphorus cycle is needed to propose efficient inoculants. Before proposing further methods of research, we carried out a critical review of the literature in two parts. First, we focused on the diversity of P-chemical forms. After a review of P forms in soils, we describe multiple factors that shape these forms in soil and their turnover. Second, we provide an analysis of P as a driver of microbial community diversity in soil. Even if no rule enabling to explain the changes in the composition of microbial communities according to phosphorus has been shown, this element has been perfectly targeted as linked to the presence/absence and/or abundance of particular bacterial taxa. In conclusion, we point out the need to link soil phosphorus chemistry with soil microbiology in order to understand the variations in the composition of microbial communities as a function of P bioavailability. This knowledge will make it possible to propose advanced microbial-based inoculant engineering for the improvement of bioavailable P for plants in sustainable agriculture.

Forest soil biotic communities show few responses to wood ash applications at multiple sites across Canada

There is interest in utilizing wood ash as an amendment in forestry operations as a mechanism to return nutrients to soils that are removed during harvesting, with the added benefit of diverting this bioenergy waste material from landfill sites. Existing studies have not arrived at a consensus on what the effects of wood ash amendments are on soil biota. We collected forest soil samples from studies in managed forests across Canada that were amended with wood ash to evaluate the effects on arthropod, bacterial and fungal communities using metabarcoding of F230, 16S, 18S and ITS2 sequences as well as enzyme analyses to assess its effects on soil biotic function. Ash amendment did not result in consistent effects across sites, and those effects that were detected were small. Overall, this study suggests that ash amendment applied to managed forest systems in amounts (up to 20 Mg ha^-1) applied across the 8 study sties had little to no detectable effects on soil biotic community structure or function. When effects were detected, they were small, and site-specific. These non-results support the application of wood ash to harvested forest sites to replace macronutrients (e.g., calcium) removed by logging operations, thereby diverting it from landfill sites, and potentially increasing stand productivity.

Biodiversity and Metabolic Potential of Bacteria in Bulk Soil from the Peri-Root Zone of Black Alder (Alnus glutinosa), Silver Birch (Betula pendula) and Scots Pine (Pinus sylvestris)

The formation of specific features of forest habitats is determined by the physical, chemical, and biological properties of the soil. The aim of the study was to determine the structural and functional biodiversity of soil microorganisms inhabiting the bulk soil from the peri-root zone of three tree species: Alnus glutinosa, Betula pendula, and Pinus sylvestris. Soil samples were collected from a semi-deciduous forest located in an area belonging to the Agricultural Experimental Station IUNG-PIB in Osiny, Poland. The basic chemical and biological parameters of soils were determined, as well as the structural diversity of bacteria (16S ribosomal RNA (rRNA) sequencing) and the metabolic profile of microorganisms (Biolog EcoPlates). The bulk soils collected from peri-root zone of A. glutinosa were characterized by the highest enzymatic activities. Moreover, the highest metabolic activities on EcoPlates were observed in bulk soil collected in the proximity of the root system the A. glutinosa and B. pendula. In turn, the bulk soil collected from peri-root zone of P. sylvestris had much lower biological activity and a lower metabolic potential. The most metabolized compounds were L-phenylalanine, L-asparagine, D-mannitol, and gamma-hydroxy-butyric acid. The highest values of the diversity indicators were in the soils collected in the proximity of the root system of A. glutinosa and B. pendula. The bulk soil collected from P. sylvestris peri-root zone was characterized by the lowest Shannon’s diversity index. In turn, the evenness index (E) was the highest in soils collected from the P. sylvestris, which indicated significantly lower diversity in these soils. The most abundant classes of bacteria in all samples were Actinobacteria, Acidobacteria_Gp1, and Alphaproteobacteria. The classes Bacilli, Thermoleophilia, Betaproteobacteria, and Subdivision3 were dominant in the B. pendula bulk soil. Streptosporangiales was the most significantly enriched order in the B. pendula soil compared with the A. glutinosa and P. sylvestris. There was a significantly higher mean proportion of aerobic nitrite oxidation, nitrate reduction, sulphate respiration, and sulfur compound respiration in the bulk soil of peri-root zone of A. glutinosa. Our research confirms that the evaluation of soil biodiversity and metabolic potential of bacteria can be of great assistance in a quality and health control tool in the soils of forested areas and in the forest production. Identification of bacteria that promote plant growth and have a high biotechnological potential can be assume a substantial improvement in the ecosystem and use of the forest land.

Effects of Plastic versus Straw Mulching Systems on Soil Microbial Community Structure and Enzymes in Strawberry Cultivation

This study aimed to evaluate changes in abundance, structure, and enzyme activity of the soil microbiome in response to 4 years of mulching using either black polyethylene plastic film (PM) or wheat straw (SM). Soil samples (depth 0–5 and 5–10 cm) were collected from conventional strawberry plots, in two samplings: 1 week prior (S1) and 7 weeks after straw application (S2). Selected soil properties were monitored in each system and the abundance and structure of microbial communities were characterized via phospholipid fatty acid (PLFA) analysis. The investigation of soil microbial functions included activities of the enzymes chitinase, leucine aminopeptidase, and acid phosphatase, as well as function genes involved in nitrogen transformation. Each mulch system resulted in distinct physicochemical properties. In particular, a pH value higher by one-unit under PM (7.6 ± 0.3) compared to SM (6.5 ± 0.3) was observed. Values for SOC, DOC, and total-N were 15%, 22%, and 16% higher in PM than in SM. The microbial biomass (total PLFAs) was 1.5-fold higher in SM compared to PM. The abundance of soil fungi (F) and bacteria (B) increased by 37% and 44% after straw incorporation compared to PM (S2). In particular, Gram-negative bacteria (gr–) increased by twofold in SM. Consequently, wider F:B and gr+:gr– ratios were observed in PM. According to the shifts in microbial abundance, the activity of the enzyme chitinase was lower by 27% in PM, while the activity of the acid phosphatase increased by 32%. Denitrification genes were not affected by the mulching systems. In conclusion, the abundance and structure of the investigated microbial groups and the enzyme activities were strongly influenced by the mulching system. In detail, effects on microbiota were primarily attributed to the altered soil pH and probably the input of degradable organic matter with straw mulching in SM. This resulted in higher abundance of soil microorganisms in SM, although measures within this cultivation system such as fungicide application may have exerted adverse effects on the microbiota.

Effects of 3,6-dichlorocarbazole on microbial ecology and its degradation in soil

The emerging contaminants polyhalogenated carbazoles (PHCZs) have been verified to be present in soils and sediments globally, and they show dioxin-like toxicity. However, there is a lack of soil ecological risk assessments on PHCZs despite their high detection rate and concentration in soils. The present study investigated the degradation and soil microbial influence of 3,6-dichlorocarbazole (3,6-DCCZ, a frequently detected PHCZ) in soil. The results showed that the half-lives of 3,6-DCCZ at concentrations of 0.100 mg/kg and 1.00 mg/kg were 7.75 d and 16.73 d, respectively. We found that 3,6-DCCZ was transformed into 3-chlorocarbazole (3-CCZ) by dehalogenation in soil. Additionally, intermediate products with higher molecular weights were detected, presumably because the -H on the carbazole ring was replaced by -CH₃, -CH₂-O-CH₃, or -CH₂-O-CH₂CH₃. 3,6-DCCZ exposure slightly increased the soil bacterial abundance and diversity and clearly changed the soil bacterial community structure. Through a comprehensive analysis of FAPROTAX, functional gene qPCR and soil enzyme tests, we concluded that 3,6-DCCZ exposure inhibited nitrification and nitrogen fixation but promoted denitrification, carbon dioxide fixation and hydrocarbon degradation processes in soil. This study provides valuable data for clarifying the PHCZ ecological risk in soil.

Temperature and pH mediate stoichiometric constraints of organically derived soil nutrients

It remains unclear how warming will affect resource flows during soil organic matter (SOM) decomposition, in part due to uncertainty in how exoenzymes produced by microbes and roots will function. Rising temperatures can enhance the activity of most exoenzymes, but soil pH can impose limitations on their catalytic efficiency. The effects of temperature and pH on enzyme activity are often examined in environmental samples, but purified enzyme kinetics reveal fundamental attributes of enzymes' intrinsic temperature responses and how relative release of decay-liberated resources (their flow ratios) can change with environmental conditions. In this paper, we illuminate the principle that fundamental, biochemical limitations on SOM release of C, N, and P during decay, and differential exoenzymes' responses to the environment, can exert biosphere-scale significance on the stoichiometry of bioavailable soil resources. To that end, we combined previously published intrinsic temperature sensitivities of two hydrolytic enzymes that release C and N during decay with a novel data set characterizing the kinetics of a P-releasing enzyme (acid phosphatase) across an ecologically relevant pH gradient. We use these data to estimate potential change in the flow ratios derived from these three enzymes' activities (C:N, C:P, and N:P) at the global scale by the end of the century, based on temperature projections and soil pH distribution. Our results highlight how the temperature sensitivity of these hydrolytic enzymes and the influence of pH on that sensitivity can govern the relative availability of bioavailable resources derived from these enzymes. The work illuminates the utility of weaving well-defined kinetic constraints of microbes' exoenzymes into models that incorporate changing SOM inputs and composition, nutrient availability, and microbial functioning into their efforts to project terrestrial ecosystem functioning in a changing climate.

Strategies of organic phosphorus recycling by soil bacteria: acquisition, metabolism, and regulation

Critical to meeting cellular phosphorus (P) demand, soil bacteria deploy a number of strategies to overcome limitation in inorganic P (P_i ) in soils. As a significant contributor to P recycling, soil bacteria secrete extracellular enzymes to degrade organic P (P_o ) in soils into the readily bioavailable P_i . In addition, several P_o compounds can be transported directly via specific transporters and subsequently enter intracellular metabolic pathways. In this review, we highlight the strategies that soil bacteria employ to recycle P_o from the soil environment. We discuss the diversity of extracellular phosphatases in soils, the selectivity of these enzymes towards various P_o biomolecules and the influence of the soil environmental conditions on the enzyme's activities. Moreover, we outline the intracellular metabolic pathways for P_o biosynthesis and transporter-assisted P_o and P_i uptake at different P_i availabilities. We further highlight the regulatory mechanisms that govern the production of phosphatases, the expression of P_o transporters and the key metabolic changes in P metabolism in response to environmental P_i availability. Due to the depletion of natural resources for P_i , we propose future studies needed to leverage bacteria-mediated P recycling from the large pools of P_o in soils or organic wastes to benefit agricultural productivity.

Extremophile enzymes for food additives and fertilizers

The use of extremophile enzymes for industrial purposes has become very significant since the beginning of this century and it is envisaged an ample use of enzymes for environmental applications (fertilisers, food and feed additives, biodegradation, pharma) as well as in the biosynthesis of compounds through design of novel biosynthetic pathways.

Nitrogen enrichment buffers phosphorus limitation by mobilizing mineral-bound soil phosphorus in grasslands

Phosphorus (P) limitation is expected to increase due to nitrogen (N)-induced terrestrial eutrophication, although most soils contain large P pools immobilized in minerals (P_i ) and organic matter (P_o ). Here we assessed whether transformations of these P pools can increase plant available pools alleviating P limitation under enhanced N availability. The mechanisms underlying these possible transformations were explored by combining results from a 10-year field N-addition experiment and a 3700-km transect covering wide ranges in soil pH, soil N, aridity, leaching, and weathering that can affect soil P status in grasslands. Nitrogen addition promoted dissolution of immobile P_i (mainly Ca-bound recalcitrant P) to more available forms of P_i (including Al- and Fe-bound P fractions and Olsen P) by decreasing soil pH from 7.6 to 4.7, but did not affect P_o . Soil total P declined by 10% from 385 ± 6.8 to 346 ± 9.5 mg kg^-1 , while available-P increased by 546% from 3.5 ± 0.3 to 22.6 ± 2.4 mg kg^-1 after 10-year N addition, associated with an increase in P_i mobilization, plant uptake, and leaching. Similar to the N-addition experiment, the drop in soil pH from 7.5 to 5.6 and increase in soil N concentration along the grassland transect were associated with an increased ratio between relatively mobile P_i and immobile P_i . Our results provide a new mechanistic understanding of the important role of soil P_i mobilization in maintaining plant P supply and accelerating biogeochemical P cycles under anthropogenic N enrichment. This mobilization process temporarily buffers ecosystem P-limitation or even causes P eutrophication but will extensively deplete soil P pools in the long run. This article is protected by copyright. All rights reserved.

Microbial Diversity and P Content Changes after the Application of Sewage Sludge and Glyphosate to Soil

Pesticides, despite their side effects, are still being used in almost every agriculture, horticulture, maintaining municipal greenery in urban areas and even in home gardens. They influence human life and health and the functioning of entire ecosystems, including inanimate elements such as water and soil. The aim of the study was the evaluation of the suitability of sewage sludge in improving the quality of soil treated with a non-selective herbicide-glyphosate, applied as Roundup 360 SL. A pot experiment was conducted with the use of two arable soils (MS and OS), which were amended with sewage sludge (SS), glyphosate (GL) and sewage sludge with glyphosate (SS+GL). Soil samples were taken after 24 h, 144 h and 240 h and total phosphorus (TP) content (TP), total number of bacteria/fungi, activity of dehydrogenases (Dha), acidic phosphatase (Acp), alkaline phosphatase (Alp), genetic biodiversity of bacteria/fungi using the terminal restriction fragment length polymorphism method were determined. The application of SS and GL to OS caused an increase in Acp (approximately 35%) and a decrease in Alp activity (approximately 20%). Additionally, GL may influence on an increase in the number of fungi and the decrease in the number of bacteria. In soil with SS+GL increase in the fungal diversity in MS and OS was also observed. Moreover, a positive between TP and the number of bacteria and the activity of phosphatases correlation was reported. The obtained results indicate that analyzed sewage sludge could be potentially applied into soil in in situ scale and could constitute a valuable reclamation material.