Phosphorus functional microorganisms and genes: A novel perspective to ascertain phosphorus redistribution and bioavailability during copper and tetracycline-stressed composting

The community succession mechanisms and interactive dynamics of microorganisms under high salinity and alkalinity conditions during composting

Microorganisms drive organic matter degradation and humification during composting. However, the mechanisms underlying microbial community succession and their interactions under saline-alkali stress are poorly understood. In this study, we investigated the microbial community assembly processes and microbial niche dynamics during composting in the high-saline-alkaline region. The niche breadth of the microbial community expanded from 5.8 to 15 and salt-alkali conditions alleviation prompted a shift in microbial community assembly towards stochastic processes. Alkalinity (R = 69.08%) and available phosphorus (AP) (R = 45.70%) are identified as the primary environmental stress factors. Salinity primarily impacted the niche breadth, while alkalinity predominantly determined the assembly processes of microorganisms. The degradation of organic matter in high-temperature environments enhanced the release of AP, altering the processes of microbial community assembly and driving niche differentiation within the microbial community. The abundant taxa actively responded to the changes in the environmental conditions, while the rare taxa maintained the community stability by expanding their ecological niches. The interactions between microorganisms are mainly based on synergism. The native microorganisms, such as Alcanivorax, Corynebacterium, and Rhodohalobacter, played a key role in promoting compost maturity. They tolerated the high-salinity and alkaline environments and also withstood high temperatures. This study revealed for the first time the succession mechanisms and interaction characteristics of microbial communities under salinity and temperature stress, providing theoretical guidance for microbial inoculation during the composting of high-saline and alkaline organic waste.

Harnessing phosphate-solubilizing microorganisms for mitigation of nutritional and environmental stresses, and sustainable crop production

MAIN CONCLUSION

Phosphate-solubilizing microorganisms enhance nutrients availability, mitigate environmental stresses, and increase plant growth. The bioengineering of phosphate-solubilizing microbes and host plants may further improve their efficacy for increasing crop yield. Unsustainable agricultural practices are followed in current crop production systems worldwide for resolving food demand issues of ever-increasing human population. In addition, global food crop production is further affected due to continuous climatic change, erratic rains, and environmental stresses during the recent past causing threat to microbial as well as plant biodiversity. The application of plant beneficial microorganisms into agricultural practices has emerged recently as an innovative and sustainable approach to increase crop yield with limited resources and in vulnerable environment. These beneficial microbes improve crop productivity by enhancing nutrients' availability and mitigation of abiotic stresses along with suppression of plant diseases. However, there have been limited studies on the stress ameliorative role of phosphate-solubilizing microorganisms (PSMs), and there is still a need to elucidate the contribution of PSMs in improving plant health and crop productivity under harsh environmental conditions. This review summarizes the role of PSMs in improving phosphorus availability in soil through solubilization or mineralization of organic phosphate, and by assisting plants in amelioration of environmental stresses. Other beneficial activities of PSMs, such as release of phytohormones, production of ACC deaminase, strengthening of antioxidant system, and induction of systemic resistance, also contribute toward stress mitigation and plant growth promotion under stressful environments. Improvement in efficacy of PSMs and host plants using genetic engineering techniques has been discussed leading to increases in crop yields. However, further research is needed to develop sustainable climate-resilient approach by improving plant growth-promoting activities of PSMs even under environmental stresses to increase soil fertility and crop production in different agroecosystems.

Water-logged composting with sealed system enhances phosphorus availability and changes ecological attributes of bacterial community

Deciphering effects of sealed environment on phosphorus (P) availability and microbial community during water-logged composting is an essential but underestimated theme. Research targets are to unveil divergences in P fractions and bacterial landscapes between breathable and sealed systems using molecular and statistical tools. Water-logged composting with sealed system enhanced P availability, with soluble reactive P in overlying water notably increasing from 1.20 to 1.92 mg L-1 and available P in composting substrate significantly arising from 1.61 to 2.28 g kg-1. Higher abundances of organic P (Po)-mineralizing genes, including β-propeller phytase-encoding gene of bpp, acid phosphatase-encoding gene of phoC, alkaline phosphatase-encoding gene of phoD, and phosphonoacetaldehyde hydrolase-encoding gene of phnX, were found in sealed system than in breathable system. Bacterial community composition varied notably between sealed and breathable systems, with dominant bacterial phyla of Proteobacteria and Actinobacteriota in overlying water were notably more abundant in sealed and breathable systems, respectively. Bacteria in sealed system rather than breathable system displayed higher community complexity and stability, stronger migration potential and phylogenetic signal, and were affected more by determinism. Our findings highlight ecological consequences of water-logged composting with sealed system, and these findings might guide composting in a water-logged way to obtain P fertilizer.

Microbial fuel cell-assisted composting shows stronger capacity to immobilize phosphorus: Emphasized on bacterial structures and functional enzymes

Limited scientific evidence exists on phosphorus immobilization under autogenetic electrochemical reactions in composting systems. This study exploited a composting procedure using microbial fuel cell (MFC) to ascertain phosphorus redistribution during composting process. Compared to the control without MFC equipment, MFC-assisted treatment yielded a 13 % decrease in phosphorus availability due to the transformation of exchangeable fraction (Ex-P) to aluminum-bound (Al-P) and calcium-bound (Ca-P) fractions. During the composting process, organic humification primarily controlled phosphorus redistribution and immobilization. Biotic factors, including bacterial communities (i.e., Firmicutes, Proteobacteria, Bacteroidota, and Gemmatimonadota) and functional enzymes (i.e., acid phosphatase, alkaline phosphatase, phytase, and C-P lyase), significantly influenced phosphorus availability in the composting systems. Temperature-dependent composting phases restricted microbial actions on phosphorus transformation. These findings highlight the mechanisms underlying phosphorus transformation in composting systems, and provide valuable insights for advancing composting technology and protecting agricultural ecosystems.

Soil P-stimulating bacterial communities: response and effect assessment of long-term fertilizer and rhizobium inoculant application

BACKGROUND

Phosphorus (P) plays a vital role in plant growth. The pqqC and phoD genes serve as molecular markers for inorganic and organic P breakdown, respectively. However, the understanding of how P-mobilizing bacteria in soil respond to long-term fertilization and rhizobium application is limited. Herein, soil that had been treated with fertilizer and rhizobium for 10 years was collected to investigate the characteristics of P-mobilizing bacterial communities. Five treatments were included: no fertilization (CK), phosphorus fertilizer (P), urea + potassium fertilizer (NK), NPK, and PK + Bradyrhizobium japonicum 5821 (PK + R).

RESULTS

The soybean nodule dry weight was highest in the P treatment (1.93 g), while the soybean yield peaked in the PK + R treatment (3025.33 kg ha- 1). The abundance of the pqqC gene increased in the rhizosphere soil at the flowering-podding stage and in the bulk soil at the maturity stage under the P treatment, while its abundance increased in the bulk soil at the flowering-podding stage and in the rhizosphere soil at the maturity stage under the PK + R treatment. The abundance of the phoD gene was enhanced in the bulk soil at the flowering-podding stage under the PK + R treatment. The Shannon and Ace indexes of pqqC- and phoD-harboring bacteria were higher in the rhizosphere soil at maturity under the PK + R treatment compared to other treatments. Furthermore, a comprehensive analysis of the neutral community model and co-occurrence pattern demonstrated that the application of P fertilizer alone led to an increase in the distribution and dynamic movement of pqqC-harboring bacteria, but resulted in a decrease in complexity of network structure. On the other hand, rhizobium inoculation enhanced the distribution and dynamic movement of phoD-harboring bacteria, as well as the stability and complexity of the network structure. Pseudomonas and Nitrobacter, as well as Steptomyces, Stella, and Nonomuraea, may be crucial genera regulating the composition and function of pqqC- and phoD-harboring communities, respectively.

CONCLUSIONS

These findings affirm the crucial role of fertilization and rhizobium inoculation in regulating pqqC- and phoD-harboring bacterial communities, and highlight the significance of long-term phosphate-only fertilization and rhizobium inoculation in enhancing dissolved inorganic phosphorus and mineralized organophosphorus, respectively.

Redistribution of phosphorus fraction driven by organic carbon and microbial community during composting

Available information on the coupling relationship between phosphorus fraction and organic carbon during composting remains limited. Thus, this research investigated the changes of phosphorus fraction, dissolved organic carbon fluorescent components and microbial community in swine manure composting with different carbon sources including the maize straw (MS), garden waste (GW) and distillers' grains (DG), in order to investigate whether the distribution and availability of phosphorus are influenced by different carbon sources used in the composting of swine manure. The result showed that different carbon sources changed phosphorus availability variously mainly by altering the succession of fungal communities and phosphorus functional genes. The dissolved organic material including tyrosine and tryptophan facilitate the mineralization of organic phosphorus (Org-P) into water-soluble phosphorus, thereby improving phosphorus availability. However, humic acid-like carbon components promote the conversion of inorganic-phosphorus to Org-P, which is the direct cause of the reduced phosphorus availability during composting. The results of this study provide support for the development of phosphorus-rich, stable, and clean compost products.

The role of microorganisms in phosphorus cycling at river-lake confluences: Insights from a study on microbial community dynamics

River-lake confluences are key zones in the river-lake network, essential for managing contaminant transport and transformation. However, the role of biogeochemical transformations, particularly in phosphorus (P) dynamics, has been underexplored. As a result, this study looks into the dynamics of microbial communities and how important microbes are to the cycling of P. It was revealed that microorganisms contribute differently to phosphorus cycling in different hydraulic regions. Regions with higher-velocity and finer sediment showed increased microbial diversity and enhanced capabilities for organic phosphorus (OP) mineralization and inorganic phosphorus (IP) solubilization due to lower bio-available P (bio-P) concentrations. In areas characterized by flow deflection (FD), flow stagnation (FST), and flow separation (FSE), distinct P fraction distributions were observed: Total phosphorus (TP) and bio-P were found to be more abundant in the FST and FD regions, but residual phosphorus (Res-P) and calcium phosphorus (Ca-P) were more prevalent in the FSE region. Sediment characteristics, including P species like aluminum-phosphorus (Al-P), OP, iron-associate phosphorus (BD-P), and sediment mid-diameter (D50), significantly influence microbial community composition. These results improve our comprehension of the distribution of microbial community distribution and its role in the phosphorus cycle at river-lake confluence, providing useful provide valuable information for managing river-lake confluences and protecting aquatic ecosystems.

Modifying humus-phosphorus-arsenic interactions in sludge composting: The strengthening of phosphorus availability and arsenic efflux detoxification mechanisms

Arsenic (As) in sewage sludge poses a significant threat to environmental and human health, which has attracted widespread attention. This study investigated the value of adding sodium percarbonate (SP) on phosphorus (P) availability and As efflux detoxification through HS-P-As interactions. Due to the unique structure of humus (HS) and the similar chemical properties of P and As, the conditions for HS-P-As interaction are provided. This study discussed the content, morphology and microbial communities of HS, P and As by using metagenomic and correlation analysis. The results showed that the humification index in the experiment group (SPC) was 2.34 times higher than that in the control group (CK). The available phosphorus (AP) content of SPC increased from 71.09 mg/kg to 126.14 mg/kg, and SPC was 1.11 times that of CK. The relative abundance of ACR3/ArsB increased. Pst, Actinomyces and Bacillus commonly participated in P and As conversion. The correlation analysis revealed that the humification process was enhanced, the AP was strengthened, and the As was efflux detoxified after SP amendment. All in all, this study elucidated the key mechanism of HS-P-As interaction and put forward a new strategy for sewage sludge resource utilization and detoxification.

Soil amendments reduce CH4 and CO2 but increase N2O and NH3 emissions in saline-alkali paddy fields

Limited research has been conducted on ammonia (NH3) volatilization and greenhouse gases (GHGs) emissions in saline-alkali paddy fields, along with complex interaction involving various genes (16sRNA, amoA, narG, nirK, nosZ, and nifH). This study employed mesocosm-scale experiment to investigate NH3 volatilization and GHGs emissions, focusing on bacterial communities and genic abundance, in saline-alkali paddy fields with desulfurized gypsum (DG) and organic fertilizer (OF) amendments. Compared to the control (CK) treatment, DG and OF treatments reduced methane (CH4) and carbon dioxide (CO2) emissions by 78.05 % and 26.18 %, and 65.84 % and 11.62 %, respectively. However, these treatments increased NH3 volatilization by 26.26 % and 45.23 %, and nitrous oxide (N2O) emission by 41.00 % and 12.31 %. Notably, NH3 volatilization primarily stemmed from ammonia nitrogen (NH4+-N), rather than total nitrogen (TN) in soil and water. N2O was mainly produced from nitrate nitrogen (NO3--N) in soil and water, as well as NH4+-N in water. The increase in NH3 volatilization and N2O emission in DG and OF treatments, was attributed to the reduced competition among bacterial communities, rather than the increased bacterial activity and genic copies. These findings offer valuable insights for managing nutrient loss and gaseous emissions in saline-alkali paddy fields.

Enhancing phosphorus source apportionment in watersheds through species-specific analysis

Phosphorus (P) is a pivotal element responsible for triggering watershed eutrophication, and accurate source apportionment is a prerequisite for achieving the targeted prevention and control of P pollution. Current research predominantly emphasizes the allocation of total phosphorus (TP) loads from watershed pollution sources, with limited integration of source apportionment considering P species and their specific implications for eutrophication. This article conducts a retrospective analysis of the current state of research on watershed P source apportionment models, providing a comprehensive evaluation of three source apportionment methods, inventory analysis, diffusion models, and receptor models. Furthermore, a quantitative analysis of the impact of P species on watersheds is carried out, followed by the relationship between P species and the P source apportionment being critically clarified within watersheds. The study reveals that the impact of P on watershed eutrophication is highly dependent on P species, rather than absolute concentration of TP. Current research overlooking P species composition of pollution sources may render the acquired results of source apportionment incapable of assessing the impact of P sources on eutrophication accurately. In order to enhance the accuracy of watershed P pollution source apportionment, the following prospectives are recommended: (1) quantifying the P species composition of typical pollution sources; (2) revealing the mechanisms governing the migration and transformation of P species in watersheds; (3) expanding the application of traditional models and introducing novel methods to achieve quantitative source apportionment specifically for P species. Conducting source apportionment of specific species within a watershed contributes to a deeper understanding of P migration and transformation, enhancing the precise of management of P pollution sources and facilitating the targeted recovery of P resources.

Effects of Bacillus-based inoculum on odor emissions co-regulation, nutrient element transformations and microbial community tropological structures during chicken manure and sawdust composting

This study aims to evaluate whether different doses of Bacillus-based inoculum inoculated in chicken manure and sawdust composting will provide distinct effects on the co-regulation of ammonia (NH3) and hydrogen sulfide (H2S), nutrient conversions and microbial topological structures. Results indicate that the Bacillus-based inoculum inhibits NH3 emissions mainly by regulating bacterial communities, while promotes H2S emissions by regulating both bacterial and fungal communities. The inoculum only has a little effect on total organic carbon (TOC) and inhibits total sulfur (TS) and total phosphorus (TP) accumulations. Low dose inoculation inhibits total potassium (TK) accumulation, while high dose inoculation promotes TK accumulation and the opposite is true for total nitrogen (TN). The inoculation slightly affects the bacterial compositions, significantly alters the fungal compositions and increases the microbial cooperation, thus influencing the compost substances transformations. The microbial communities promote ammonium nitrogen (NH4+-N), TN, available phosphorus (AP), total potassium (TK) and TS, but inhibit nitrate nitrogen (NO3--N), TP and TK. Additionally, the bacterial communities promote, while the fungal communities inhibit the nitrite nitrogen (NO2--N) production. The core bacterial and fungal genera regulate NH3 and H2S emissions through the secretions of metabolic enzymes and the promoting or inhibiting effects on NH3 and H2S emissions are always opposite. Hence, Bacillus-based inoculum cannot regulate the NH3 and H2S emissions simultaneously.

Nutrient-cycling functional gene diversity mirrors phosphorus transformation during chicken manure composting

Elucidating ecological mechanism underlying phosphorus transformation mediated by phosphate-solubilizing bacteria (PSB) during manure composting is an important but rarely investigated subject. The research objective is to disentangle ecological functions of the inoculation of PSB Pseudomonas sp. WWJ-22 during chicken manure composting based on gene quantification and amplicon sequencing. There are large dynamic changes in phosphorus fractions, gene abundances, and bacterial community structure. The PSB addition notably increased available phosphorus from 0.29-0.89 g kg-1 to 0.49-1.39 g kg-1 and significantly affected phosphorus fractionation. The PSB inoculation significantly affected composition of nutrient-cycling functional genes (NCFGs), and notably influenced bacterial community composition and function. Compost bacteria showed significant phylogenetic signals in response to phosphorus fractions, and stochastic processes dominated bacterial community assembly. Results emphasized that PSB addition increased functional redundancy, phylogenetic conservatism, and stochasticity-dominated assembly of bacterial community. Overall, findings highlight NCFG diversity can be a bio-indicator to mirror phosphorus transformation.