Gaining insight into the effect of laccase expression on humic substance formation during lignocellulosic biomass composting.

The aim is to enhance lignin humification by promoting laccase activities which can promote lignin depolymerization and reaggregation during composting. 1-Hydroxybenzotriazole (HBT) is employed to conduct laccase mediator system (LMS), application of oxidized graphene (GO) in combination to strengthen LMS. Compared with control, the addition of GO, HBT, and GH (GO coupled with HBT) significantly improved laccase expression and activities (P < 0.05), with lignin humification efficiency also increased by 68.6 %, 36.7 %, and 107.8 %. GH treatment induces microbial expression of laccase by increasing the abundance and synergy of core microbes. The unsupervised learning model, vector autoregressive model and Mantel test function were combined to elucidate the mechanism of action of exogenous materials. The results showed that GO stabilized the composting environment on the one hand, and acted as a support vector to stabilize the LMS and promote the function of laccase on the other. In GH treatment, degradation of macromolecules and humification of small molecules were promoted simultaneously by activating the dual function of laccase. Additionally, it also reveals the GH enhances the humification of lignocellulosic compost by converting phenolic pollutants into aggregates. These findings provide a new way to enhance the dual function of laccase and promote lignin humification during composting. It could effectively achieve the resource utilization of organic solid waste and reduce composting pollution.

The contribution of microbial shikimic acid to humus formation during organic wastes composting: a review.

Microbial shikimic acid is an important intermediate metabolite in the synthesis of aromatic amino acids which are precursors for forming humus during composting process. Generally, the pathways producing shikimic acid and its downstream products are collectively referred as shikimic acid pathway (SKP). Microbial SKP can produce phenols, and tyrosine. Pyrogallol is the precursor of phenols. And, tyrosine can form an ammoniated monomer. Therefore, regulation of SKP can promote shikimic acid production, which is beneficial in promoting humus production and humification. However, SKP present in microbial cells is distinctive because of providing precursors for humification process, which needs to be recognized during composting. Due to the different structures of various organic wastes, it is difficult to control the SKP efficiency and shikimic acid production. Therefore, it is valuable to review the synthesis of shikimic acid by microorganisms and propose how to promote SKP during different materials composting. Furthermore, we have attempted to illustrate the application of metabolites from SKP in forming humus during organic waste composting. Finally, a series of regulating methods has been outlined to enhance microbial SKP, which are effective to promote humus aromatization and to improve humus formation during different materials composting.

The reverse function of lignin-degrading enzymes: The polymerization ability to promote the formation of humic substances in domesticated composting.

This study aimed to confirm the ability of lignin peroxidase (LiP) and manganese peroxidase (MnP) in promoting the formation of humic substances (HS) during domesticated composting. Three raw materials with different lignin types were used for composting, including rice straw, tree branches, and pine needles. Results suggested that LiP and MnP activity increased during domesticated composting. But HS formation was only promoted by LiP. The effect of MnP was insignificant, which might be caused by the lack of enzyme cofactors like Mn2+. Meanwhile, bacteria highly associated with LiP and MnP production were identified as core bacteria. Function prediction of 16S-PICRUSt2 showed that the function of core bacteria was consistent with total bacterial functions which mainly promoted compost humification. Therefore, it speculated that LiP and MnP had the ability to promote HS formation during composting. Accordingly, it is a new understanding of the role of biological enzymes in composting.

Machine learning framework for intelligent prediction of compost maturity towards automation of food waste composting system.

Reactive composting is a promising technology for recovering valuable resources from food waste, while its manual regulation is laborious and time-consuming. In this study, machine learning (ML) technologies are adopted to enable automated composting by predicting compost maturity and providing process regulation. Four machine learning algorithms, namely random forest (RF), extreme gradient boosting (XGBoost), Light Gradient Boosting Machine (LightGBM) and Multilayer Perceptron (MLP) are employed to predict the seed germination index (GI) and C/N ratio. Based on the best fusion model with the highest R2 of 0.977 and 0.986 for the multi-task prediction of GI and C/N ratio, the critical factors and their interactions with maturity are identified. Moreover, the ML model is validated on a composting reactor and the ML-based prediction application can provide regulation to ensure food waste decompose within the required time. In conclusion, this compost maturity prediction system automates the reactive composting, thus reducing labor costs.

Slowed down nitrogen mineralization under bacterial community-driven conditions by adding inhibitors during rice straw composting.

The aim of this paper was to confirm the role of inhibitors addition, namely adenosine triphosphate (ATP) and malonic acid (MA), on nitrogen availability during rice straw (RS) composting. The results showed that inhibitors addition slowed down the mineralization of ammonium nitrogen and nitrate nitrogen compared to CK. Meanwhile, amino sugar nitrogen and hydrolysable unknown nitrogen contents in ATP and MA treatments were higher, indicating that their addition improved the retention of organic nitrogen components. Furthermore, inhibitors additions attenuated the responsive relationship between bacterial communities and nitrogen components. The main reason was that the addition changed the bacterial community structure of RS compost. The final structural equation verified that inhibitors addition enhanced conversion between nitrogen components, that was, to complex nitrogen components to improve the quality of compost, and the remodeling of bacterial community played an important role. Therefore, adding inhibitors had a driving effect on promoting nitrogen sequestration.

Insights into enzyme activity and phosphorus conversion during kitchen waste composting utilizing phosphorus-solubilizing bacterial inoculation.

The main objective of this research was to investigate the effects of Phosphorus-Solubilizing Bacterial (PSB) inoculant on the bacterial structure and phosphorus transformation during kitchen waste composting. High throughput sequencing, topological roles, and multiple analysis methods were conducted to explain the links between phosphorus fractions, enzyme contents, and microbial community structure and function. The findings indicated that bacterial inoculant improved environmental parameters and increased the concentration of total phosphorus, Olsen phosphorus, citric acid phosphorus, OM decomposition, and bacterial diversity. Network analysis concluded that the inoculation treatment was more complex (nodes and edges) and contained more positive links than the control, implying the inoculation effect. The structural equation model also displayed that pH and enzyme activity directly enhanced the phosphorus conversion and bacterial structure. Overall, these results suggest that bacterial inoculation may considerably increase enzyme activity, thus improving biological phosphorus transformation and nutrient content in composting products.

Identification of key drivers of the microbial shikimic acid pathway during different materials composting.

Metabolites of shikimic acid (SA) pathway can be used as humic substance (HS) precursors. Due to the complexity of SA anabolism, there were few studies on SA pathway during composting. The aim of this study was to identify the key drivers of SA pathway during different materials composting. During composting, the SA, protocatechuic acid (PA) and gallic acid (GA) decreased by 57.09%, 72.27% and 54.04% on average, respectively. The structural equation model showed that SA had key driving factors (organic matter and pH) during lawn waste composting. In addition, the complexity of material structure was the main factor affecting PA driving factors. The factors and degree of influence on GA varied with different materials. Accordingly, this study provided theoretical support for the improvement of SA metabolic intensity by single material and mixed material composting, and further provided a new direction for future HS research.

Photodegradation, bacterial metabolism, and photosynthesis drive the dissolved organic matter cycle in the Heilongjiang River.

Dissolved organic matter (DOM) plays a vital role in the biogeochemistry of aquatic ecosystems. However, the mechanisms of DOM cycling in the water column during different seasons have not been fully elucidated to date. The differences in DOM degradation in summer, autumn, and winter water columns were evaluated in this study. The results showed that bacteria played an essential role in the degradation of DOM in the summer water column. Photochemical degradation was the primary degradation pathway of DOM in the autumn and winter water columns. Notably, while DOM is degraded, photosynthetic bacteria produce organic matter through photosynthesis to replenish the water column. EEM-PARAFAC analysis indicated more tryptophan component C1 in summer, but the contents of humic substance component C2 and terrestrial substance C3 were higher in autumn and winter. In summer, more tryptophan-like components were consumed by bacteria, and Cyanobacteria produced more organic matter through photosynthesis to replenish the water column. Moreover, a similar bacterial community structure and a more active tryptophan biosynthesis pathway were found in autumn and winter. Random forest models identified representative bacteria involved in the DOM transformation process in different seasons. The above findings may be helpful to explore the degradation characteristics of DOM in different seasons and predict the fate of DOM in the water column in the future.

Identifying the role of fired clay minerals on reducing of nitrogen loss and immobilization of organic nitrogen during chicken manure composting.

This study compared effects of clay minerals before and after firing in immobilization of organic nitrogen and reducing of nitrogen loss during chicken manure composting. The clay minerals and fired clay minerals treatments increased organic nitrogen contents and significantly reduced nitrogen loss, the loss was in order CK (52.61%) > M (47.15%) > I (45.90%) > M- (42.58%) > I- (40.59%). Meanwhile, network analysis indicated that core bacterial community associated with nitrogen transformation were more abundant, and conversion effect of single core bacteria on nitrogen components was enhanced in fired clay minerals treatments. In addition, fired clay minerals strengthened correlation between environmental factors, bacterial community and organic nitrogen, and enhanced interaction of abiotic and biotic pathways, which verified by variance partitioning analysis and structural equation model. Therefore, fired clay minerals play a remarkable driving role in formation and immobilization of organic nitrogen.

Microhabitat drive microbial anabolism to promote carbon sequestration during composting.

Transforming organic waste into stable carbon by composting is an eco-friendly way. However, the complex environment, huge microbial community and complicated metabolic of composting have limited the directional transformation of organic carbon, which is also not conducive to the fixation of organic carbon. Therefore, this review is based on the formation of humus, a stable by-product of composting, to expound how to promote carbon fixation by increasing the yield of humus. Firstly, we have clarified the transformation regularity of organic matter during composting. Meanwhile, the microhabitat factors affecting microbial catabolism and anabolism were deeply analyzed, in order to provide a theoretical basis for the micro habitat regulation of directional transformation of organic matter during composting. Given that, a method to adjust the directional humification and stabilization of organic carbon has been proposed. Hoping the rapid reduction and efficient stabilization of organic waste can be realized according to this method.

Effects of heavy metals stress on chicken manures composting via the perspective of microbial community feedback.

Heavy metal pollution was the main risk during livestock manures composting, in which microorganisms played a vital role. However, response strategies of microbial community to heavy metals stress (HMS) remained largely unclear. Therefore, the objective of this study was to reveal the ecological adaptation and counter-effect of bacterial community under HMS during chicken manures composting, and evaluating environmental implications of HMS on composting. The degradation of organic matters (more than 6.4%) and carbohydrate (more than 19.8%) were enhanced under intense HMS, suggesting that microorganisms could quickly adapt to the HMS to ensure smooth composting. Meanwhile, HMS increased keystone nodes and strengthened significant positive correlation relationships between genera (p < 0.05), indicating that bacteria resisted HMS through cooperating during composting. In addition, different bacterial groups performed various functions to cope with HMS. Specific bacterial groups responded to HMS, and certain groups regulated bacterial networks. Therefore, bacterial community had the extraordinary potential to deal with HMS and guarantee chicken manures composting even in the presence of high concentrations of heavy metals.

Accurate Prediction of Hydration Sites of Proteins Using Energy Model With Atom Embedding.

We propose a method based on neural networks to accurately predict hydration sites in proteins. In our approach, high-quality data of protein structures are used to parametrize our neural network model, which is a differentiable score function that can evaluate an arbitrary position in 3D structures on proteins and predict the nearest water molecule that is not present. The score function is further integrated into our water placement algorithm to generate explicit hydration sites. In experiments on the OppA protein dataset used in previous studies and our selection of protein structures, our method achieves the highest model quality in terms of F1 score, compared to several previous studies.

Core bacterial community driven the conversion of fulvic acid components during composting with adding manganese dioxide.

Here, we revealed the effects of microbes on fulvic acid (FA) formation in composting by adding MnO2. The results showed that the MnO2 promoted the formation of highly humified components (79.2% increased for component 2, and 45.8% increased for component 3) in FA. Additionally, core bacteria involved in FA transformation were identified, the MnO2 increased the relative abundance of core bacteria. Notably, two different core bacteria types were identified: "transforming bacteria" and "processing bacteria". The "transforming bacteria" dominated (about 40% contribution) in the formation of FA components with a high humification degree. The structural equation model confirmed that "transforming bacteria" could convert partly FA components with low humification into highly humified components, and the "transforming bacteria" could be regulated by environmental factors. These findings provided a new insight to manage FA humification degree during composting and helped to improve the application value of FA.

δ-MnO2 changed the structure of humic-like acid during co-composting of chicken manure and rice straw.

Improving the structure and quantity of humus is important to reduce agriculture organic waste by composting. The present study was aimed to assess the role of δ-MnO2 on humus fractions formation during co-composting of chicken manure and rice straw. Two tests (control group (CK), the addition of δ-MnO2 (M)) were carried out. The results showed that organic matter content decreased by 34% and 29% at M and CK, suggesting the process of organic waste disposal was accelerated by adding δ-MnO2. The structures and quantity of fulvic acid (FA) and humic acid (HA) (as the main fractions of humus) were investigated. The δ-MnO2 had no significant effect on improving the concentration of FA and HA (p > 0.05). However, the addition of δ-MnO2 caused different effects on the FA and HA structure. The humification degree of FA improved, while bioavailability of HA increased through adding δ-MnO2. The addition of δ-MnO2 rephased the bacterial community structure, slowing down the succession rate of the bacterial community in M composting. After adding δ-MnO2, the structural equation modeling results showed that environmental factors could directly drive changes in FA and HA by modulating the bacterial community. Furthermore, the role of FA and HA in the soil amendment was also demonstrated. Therefore, the addition of MnO2 might be promising for agriculture organic waste treatment and environmental repair during composting.

Manganese dioxide driven the carbon and nitrogen transformation by activating the complementary effects of core bacteria in composting.

This study revealed core bacterial metabolic mechanisms involved in carbon (C) and nitrogen (N) in composting with adding MnO2. Two tests (control group (CK), adding MnO2 (M)) were performed. The results indicated that the MnO2 accelerated the transformation of carbon and nitrogen in composting. Core bacteria involved in the C and N conversion were identified, the complementarity effects of core bacteria were stimulated in M composting. Additionally, the influence of core bacteria on the C and N conversion could be divided into two pathways in M composting. One was that core bacteria promoted C and N conversion by accelerating the flow of amino acids into the tricarboxylic acid cycle. Another was that the complementarity effects of core bacteria increased the overall bacterial diversity, which contributed to C and N conversion. These findings showed that the addition of MnO2 to composting was a promising application to treat agricultural organic waste.

Oxytetracycline stress reconstruct the core microbial community related to nitrogen transformation during composting.

This study investigated oxytetracycline (OTC) effects on nitrogen (N) transformation and bacterial community diversity during chicken manure composting. The addition of OTC inhibited nitrifying bacteria, resulted in a decrease in the transformation of NH4+-N to NO3--N during composting, and affected in the order T3 (32.76%) > T2 (28.76%) > T1 (17.02%) > CK. The OTC could act as an inhibitor against core microbial growth, leading to a delay effect during composting. 16S rRNA sequencing was employed for the functional prediction, and results indicated the bacterial community related to N transformation reconstructed under OTC stress. The core microorganisms were changed after OTC addition, with the emergence of Bacillus and Thermobifida, which could inhibit the N transformation by network analysis. Therefore, core microorganisms could be regulated to reduce the negative of OTC impacts on N transformation and thus reduce N loss during composting.

Modified montmorillonite and illite adjusted the preference of biotic and abiotic pathways of humus formation during chicken manure composting.

The study aimed to identify the preference of pathways of humus formation. Five lab-scale composting experiments were established: the control (CK), montmorillonite addition (M), illite addition (I), thermal treatment montmorillonite addition (M-) and thermal treatment illite addition (I-). Results showed humus content was increased by 11.5%, 39.3%, 37.2%, 30.9% and 27.6% during CK, M-, M, I- and I composting. Meanwhile, Redundancy analysis indicated the bands of bacteria community related to humic acid (HA) were more abundant in the M- and I- treatments. Furthermore, structural equation model and variance partitioning analysis demonstrated that M- and I- treatments promoted precursors to synthesize HA by coordinated regulation of biotic pathway and abiotic pathway, the increase of HA in the M and I treatments mainly through the abiotic pathway. In summary, an effective method was proposed to improve humus production by adjusting the preference of biotic and abiotic pathways of humus formation.

Influence of malonic acid and manganese dioxide on humic substance formation and inhibition of CO2 release during composting.

The aim of thisstudy was to explore the effects of malonic acid (MA), manganese dioxide (MnO2), malonic acid combined with manganese dioxide (MA + MnO2) additionon reducing CO2 emission and promoting humic substance (HS) formation during composting. The result showed that the addition of MA and MnO2 were an efficient way to reduce CO2 emission. Meanwhile, the CO2 emissions in the MA + MnO2 treatment was 36.8% less than that of the CK, and the amount of humic acid (HA) produced in the MnO2 treatment was 38.7% higher than that of the CK. Structural equation models demonstrated that the addition of exogenoussubstance promoted the conversion of amino acids and reducing sugars to HA. The addition of exogenous substances was the main reason for influencing the concentration of HA. In general, this research provided theoretical supports for the addition of exogenous substances to promote HA formation during composting.

Reconstruction of core microbes based on producing lignocellulolytic enzymes causing by bacterial inoculation during rice straw composting.

The aim of this paper was to identify the core microbes of producing lignocellulolytic enzymes during rice straw composting with functional bacterial agents inoculation. The results indicated that inoculation functional bacterial agents accelerated the degradation of organic matter and coarse fiber content by 7.58%, 8.82%, which were due to the fact that key enzymes and core microbes were stimulated. In addition, inoculation have reconstructed core microbes of producing lignocellulase. Meanwhile, inoculation functional bacterial agents not only as core bacteria to produce cellulase, xylanase and manganese peroxidase (MnP), but also increased most core microbial abundance. Redundancy analysis indicated that CMCase, xylanase, total nitrogen and MnP as key factors to affect the degradation of organic fractions in the core bacterial communities, while in the core fungal communities, were mainly affected by environmental factors (except for MnP). This study provided a theoretical basis for the efficiently degradation during agricultural wastes composting.

Selective pressures of heavy metals on microbial community determine microbial functional roles during composting: Sensitive, resistant and actor.

Heavy metals (HM) pollution exerts an effect on microbial community composition and structure during composting, the way how microbial community responses to HM pressure is remain poorly understood though. The aim of this study was to explore functional roles of microorganisms based on selective pressures of HM (Cu, Zn and Cd). The results of microbial resistance showed that the toxicity of metals to microorganisms were Cu > Zn > Cd during composting. Cu and Zn were more toxic for microorganisms during composting when compared with Cd. However, microorganisms had a longer lag period to grow under Zn stress through microbial tolerance determination. In addition, the microbial catalase activity generally decreased and protease activity generally increased, thus microorganisms became more adaptable to HM stress during composting. The experimental results confirmed the existence of sensitive, resistant and actor microorganisms during beef cattle and chicken manures composting. Ultimately, the resistant, sensitive and actor microorganisms at genus level were distinguished under HM pressure based on the network analysis and structural equation models, including 85 resistant microorganisms, 5 sensitive microorganisms and 6 actor microorganisms. This would be helpful to understand the microbial succession process under HM stress and identify functional strains of HM remediation.