The important role of tricarboxylic acid cycle metabolism pathways and core bacterial communities in carbon sequestration during chicken manure composting

Enhanced organic degradation and microbial community cooperation by inoculating Bacillus licheniformis in low temperature composting

Microbial activity and interaction are the important driving factors in the start-up phase of food waste composting at low temperature. The aim of this study was to explore the effect of inoculating Bacillus licheniformis on the degradation of organic components and the potential microbe-driven mechanism from the aspects of organic matter degradation, enzyme activity, microbial community interaction, and microbial metabolic function. The results showed that after inoculating B. licheniformis, temperature increased to 47.8°C on day 2, and the degradation of readily degraded carbohydrates (RDC) increased by 31.2%, and the bioheat production increased by 16.5%. There was an obvious enhancement of extracellular enzymes activities after inoculation, especially amylase activity, which increased by 7.68 times on day 4. The inoculated B. licheniformis colonized in composting as key genus in the start-up phase. Modular network analysis and Mantel test indicated that inoculation drove the cooperation between microbial network modules who were responsible for various organic components (RDC, lipid, protein, and lignocellulose) degradation in the start-up phase. Metabolic function prediction suggested that carbohydrate metabolisms including starch and sucrose metabolism, glycolysis / gluconeogenesis, pyruvate metabolism, etc., were improved by increasing the abundance of related functional genes after inoculation. In conclusion, inoculating B. licheniformis accelerated organic degradation by driving the cooperation between microbial network modules and enhancing microbial metabolism in the start-up phase of composting.

Reducing carbon and nitrogen loss by shortening the composting duration based on seed germination index (SCD@GI): Feasibilities and challenges

Addressing carbon (C) and nitrogen (N) losses through composting has emerged as a critical environmental challenge recently, and how to mitigate these losses has been a hot topic across the world. As the emissions of carbonaceous and nitrogenous gases were closely correlated with the composting process, the feasibility of composting duration shortening on C and N loss needs to be explored. Therefore, the goal of this paper is to find evidence-based approaches to reduce composting duration, utilizing the seed germination index as a metric (SCD@GI), for assessing its efficiency on C and N loss reductions as well as compost quality. Our findings reveal that the terminal seed germination index (GI) frequently surpassed the necessary benchmarks, with a significant portion of trials achieving the necessary GI within 60 % of the standard duration. Notably, an SCD@GI of 80 % resulted in a reduction of CO2 and NH3 by 21.4 % and 21.9 %, respectively, surpassing the effectiveness of the majority of current mitigation strategies. Furthermore, compost quality, maturity specifically, remained substantially unaffected at a GI of 80 %, with the composting process maintaining adequate thermophilic conditions to ensure hygienic quality and maturity. This study also highlighted the need for further studies, including the establishment of uniform GI testing standards and comprehensive life cycle analyses for integrated composting and land application practices. The insights gained from this study would offer new avenues for enhancing C and N retention during composting, contributing to the advancement of high-quality compost production within the framework of sustainable agriculture.

From waste to protein: a new strategy of converting composted distilled grain wastes into animal feed

Distilled grain waste (DGW) is rich in nutrients and can be a potential resource as animal feed. However, DGW contains as much as 14% lignin, dramatically reducing the feeding value. White-rot fungi such as Pleurotus ostreatus could preferentially degrade lignin with high efficiency. However, lignin derivatives generated during alcohol distillation inhibit P. ostreatus growth. Thus, finding a new strategy to adjust the DGW properties to facilitate P. ostreatus growth is critical for animal feed preparation and DGW recycling. In this study, three dominant indigenous bacteria, including Sphingobacterium thermophilum X1, Pseudoxanthomonas byssovorax X3, and Bacillus velezensis 15F were chosen to generate single and compound microbial inoculums for DGW composting to prepare substrates for P. ostreatus growth. Compared with non-inoculated control or single microbial inoculation, all composite inoculations, especially the three-microbial compound, led to faster organic metabolism, shorter composting process, and improved physicochemical properties of DGW. P. ostreatus growth assays showed the fastest mycelial colonization (20.43 μg·g-1 ergosterol) and extension (9 mm/d), the highest ligninolytic enzyme activities (Lac, 152.68 U·g-1; Lip, 15.56 U·g-1; MnP, 0.34 U·g-1; Xylanase, 10.98 U·g-1; FPase, 0.71 U·g-1), and the highest lignin degradation ratio (30.77%) in the DGW sample after 12 h of composting with the three-microbial compound inoculation when compared to other groups. This sample was relatively abundant in bacteria playing critical roles in amino acid, carbohydrate, energy metabolism, and xenobiotic biodegradation, as suggested by metagenomic analysis. The feed value analysis revealed that P. ostreatus mycelia full colonization in composted DGW led to high fiber content retention and decreased lignin content (final ratio of 5% lignin) but elevated protein concentrations (about 130 g·kg-1 DM). An additional daily weight gain of 0.4 kg/d was shown in cattle feeding experiments by replacing 60% of regular feed with it. These findings demonstrate that compound inoculant consisting of three indigenous microorganisms is efficient to compost DGW and facilitate P. ostreatus growth. P. ostreatus decreased the lignin content of composted DGW during its mycelial growth, improving the quality of DGW for feeding cattle.

Effect of simplified inoculum agent on performance and microbiome during cow manure-composting at industrial-scale

A simplified inoculum agent, only comprising Bacillus subtilis and Aspergillus niger, was utilized for industrial-scale cow-manure composting to investigate its impact on composting performance and microbiome. Inoculants elevated the average and peak temperatures by up to 7 and 10 °C, respectively, during the thermophilic stage, reduced organic matter content, and raised germination index. Inoculation also extended the period of composting above 50 °C from 12 to 26 days. Sequencing unveiled significant shifts in microbial diversity, composition, and function. Aspergillus thrived during the mesophilic phase, potentially initiating composting, whereas Bacillus, Lysinibacillus, and Clostridium were enriched during the thermophilic stage. Metagenomic sequencing revealed an increased abundance of carbohydrate-active enzymes and glycometabolism-related genes responsible for lignocellulose degradation and heat generation after inoculation. These enriched microbes and functional genes contributed to organic matter degradation and temperature maintenance during thermophilic stage, expediting composting. This suggests the effectiveness of this simplified inoculum in industrial-level cow-manure composting.

Identify the potential driving mechanism of reconstructed bacterial community in reduce CO2 emissions and promote humus formation during cow manure composting

The mineralization of organic components releases CO2 during composting, which not only leads to the loss of organic carbon, but has a direct negative impact on the environment. Malonic acid as a competitive inhibitor of succinate dehydrogenase could affect the tricarboxylic acid (TCA) cycle and reduce CO2 emissions. However, the bacterial interaction and organic component transformation has less known how to malonic acid reduce CO2 and improve of humus synthesis in complex composting. The aim of this study was to investigated the malonic acid on organic carbon sequestration and transforming cow manure waste into products with high humus content. Humus content was elevated by 16.8% and cumulative CO2 emissions (30 d)d reduced by 13.6% after malonic acid addition compared to the CK. SparCC analysis of bacterial interaction presented that the network complexity and stability was more higher with malonic acid addition, while a greater concentration of keystones and their ecological metabolic functions was observed, suggesting they weaken the influence of TCA cycle inhibition by enhancing interactions. PICRUSt predictions indicate that malonic acid might enhance humus content by promoting the synthesis of polyphenols and polymerization with amino acids. This study investigated the potential mechanism of regulators to enhance quality and reduce emissions during humification process, providing a new strategy for the resource utilization of organic solid waste.

Antibacterial Activity of Thesium chinense Turcz Extract Against Bacteria Associated with Upper Respiratory Tract Infections

Purpose

The drug resistance of Staphylococcus aureus, Streptococcus pneumoniae, Streptococcus pyogenes and Haemophilus influenzae has become more and more serious, and it is urgent to seek new antibacterial drugs. In this study, Thesium chinense Turcz. extracts were tested for its potential antibacterial activities.

Methods

T. chinense powder was extracted with 5 solvents of different polarity (ethyl alcohol, petroleum ether, ethyl acetate, n-butyl alcohol and double distilled water), and their antibacterial activities were tested. The Broth dilution method was used to evaluate the minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) of highly active plant extracts with a concentration of 1g/mL. The inhibitory activity of this extract on biofilm formation was investigated. Afterwards, we investigated its effect on the transcriptome of S. aureus.

Results

The ethanol extract coded as BRY, only inhibited S. aureus, whereas the ethyl acetate extract coded as BY2 showed inhibitory effect on all the tested bacteria. The MIC of BRY on S. aureus was 128 mg/mL, and the MBC was 512 mg/mL. The MIC of BY2 against S. aureus, S. pneumoniae, S. pyogenes and H. influenzae were 8 mg/mL, 4 mg/mL, 4 mg/mL, and 4 mg/mL, respectively. The MBC of BY2 for these four bacteria ranged from 4 to 256 mg/mL. Mechanism studies have shown that BRY and BY2 have an impact on anti-formation of biofilms at MIC concentrations. Transcriptome sequencing results showed that 531 genes were up-regulated and 340 genes showed down-regulated expression in S. aureus after BY2 treatment.

Conclusion

BY2 has a broader antibacterial spectrum than BRY. Meanwhile, the inhibitory effect of BY2 on S. aureus is better than BRY. The mechanism of BY2 against S. aureus may relate to its inhibition of ribosome synthesis, restriction of key enzymes of citric acid cycle, decrease of pathogenicity and influence on biofilm formation. The results confirmed that BY2 was the main antibacterial part of T. chinense, which can be used as a source of antibacterial agents.

Metabolomics and transcriptomics analyses provide new insights into the nutritional quality during the endosperm development of different ploidy rice

Autotetraploid rice is developed from diploid rice by doubling the chromosomes, leading to higher nutritional quality. Nevertheless, there is little information about the abundances of different metabolites and their changes during endosperm development in autotetraploid rice. In this research, two different kinds of rice, autotetraploid rice (AJNT-4x) and diploid rice (AJNT-2x), were subjected to experiments at various time points during endosperm development. A total of 422 differential metabolites, were identified by applying a widely used metabolomics technique based on LC-MS/MS. KEGG classification and enrichment analysis showed the differences in metabolites were primarily related to biosynthesis of secondary metabolites, microbial metabolism in diverse environments, biosynthesis of cofactors, and so on. Twenty common differential metabolites were found at three developmental stages of 10, 15 and 20 DAFs, which were considered the key metabolites. To identify the regulatory genes of metabolites, the experimental material was subjected to transcriptome sequencing. The DEGs were mainly enriched in starch and sucrose metabolism at 10 DAF, and in ribosome and biosynthesis of amino acids at 15 DAF, and in biosynthesis of secondary metabolites at 20 DAF. The numbers of enriched pathways and the DEGs gradually increased with endosperm development of rice. The related metabolic pathways of rice nutritional quality are cysteine and methionine metabolism, tryptophan metabolism, lysine biosynthesis and histidine metabolism, and so on. The expression level of the genes regulating lysine content was higher in AJNT-4x than in AJNT-2x. By applying CRISPR/Cas9 gene-editing technology, we identified two novel genes, OsLC4 and OsLC3, negatively regulated lysine content. These findings offer novel insight into dynamic metabolites and genes expression variations during endosperm development of different ploidy rice, which will aid in the creation of rice varieties with better grain nutritional quality.

Suppressive performance of food waste composting with polylactic acid: Emphasis on microbial core metabolism pathways and mechanism

The aim of this study was to assess the effect of polylactic acid (PLA) on microbial community composition and core metabolism pathways in food waste (FW) composting. The presence of PLA negatively influenced microbial community richness and decreased respectively the abundance of Bacillus, Halocella and Cellvibrio at mesophilic, thermophilic and mature phases. Analysis of microbial metabolism at the gene level help to understand the mechanism in co-composting with FW and PLA. The expression of core functional genes related to lactide metabolism was stimulated by PLA degradation at thermophilic and mature phases. The sum of absolute abundance of functional genes that involved in first and second carbon oxidation of tricarboxylic acid cycle was decreased due to the existence of PLA. The transformation between 2-Oxoglutarate and Succinyl-CoA were interfered in thermophilic phase, which might result in the lower germination index in PLA group (115%) than that in control (186%).

The dominant role of cooperation in fungal community drives the humification process of chicken manure composting under addition of regulatory factors

This study aimed to explore the action mechanism of fungal community on the enhancement of humification during chicken manure composting by regulating the core pathway of carbon metabolism - the tricarboxylic acid cycle. Regulators adenosine triphosphate (ATP) and malonic acid were added at the beginning of composting. The analysis of changes in humification parameters showed that the humification degree and stability of compost products were improved by adding regulators. Compared with CK, the humification parameters of adding regulators group increased by 10.98% on average. Meanwhile, adding regulators not only increased key nodes, but also strengthened the positive correlation between fungi, and network relationship was closer. Moreover, core fungi associated with humification parameters were identified by constructing OTU networks, and the division and cooperation mechanism of fungi were confirmed. Ultimately, the functional role of the fungal community acting on humification was confirmed by statistical means, that was, the fungal community promoting humification was the main group of composting process. And the contribution was more obvious in ATP treatment. This study was helpful to gain insight into the mechanism of regulators addition to advance the humification process, and provided new ideas for the safe, efficient and harmless disposal of organic solid waste.

Insights into carbon loss reduction during aerobic composting of organic solid waste: A meta-analysis and comprehensive literature review

Carbon neutrality is now receiving global concerns for the sustainable development of human societies, of which how to reduce greenhouse gases (GHGs) emissions and enhance carbon conservation and sequestration becomes increasingly critical. Therefore, this study conducted a meta-analysis and literature review to assess carbon loss and to explore the main factors that impact carbon loss during organic solid waste (OSW) composting. The results indicated that over 40 % of carbon was lost through composting, mainly as CO₂-C and merely as CH₄-C. Experimental scale, feedstock varieties, composting systems, etc., all impacted the carbon loss, and there was generally higher carbon loss under optimal conditions (i.e., C/N ratio (15-25), pH (6.5-7.5), moisture content (65-75 %)). Most mitigation strategies in conventional composting (CC) systems (e.g., additive supplementary, feedstock adjustment, and optimized aeration, etc.) barely mediated the TC and CO₂-C loss but dramatically reduced the emission of CH₄-C through composting. Among them, feedstock adjustment by elevating the feedstock C/N ratio effectively reduced the TC loss, and chemical additives facilitated the conservation of both carbon and nitrogen. By comparison, there was generally higher carbon loss in the novel composting systems (e.g. hyperthermophilic and electric field enhanced composting, etc.). However, the impacts of different mitigation strategies and novel composting systems on carbon loss reduction through composting were probably underestimated for the inappropriate evaluation methods (composting period-dependent instead of maturity originated). Therefore, further studies are needed to explore carbon transformation through composting, to establish methods and standards for carbon loss evaluation, and to develop novel techniques and systems for enhanced carbon conservation through composting. Overall, the results of this study could provide a reference for carbon-friendly composting for future OSW management under the background of global carbon neutrality.

Exploring the internal driving mechanism underlying bacterial community-induced organic component conversion and humus formation during rice straw composting with tricarboxylic acid cycle regulator addition

The aim of this study was to investigate the effect of tricarboxylic acid (TCA) cycle regulators on CO₂ emissions, the conversion of organic components and humus formation during composting. The addition of adenosine triphosphate (ATP) and nicotinamide adenine dinucleotide (NADH) reduced CO₂ emissions during rice straw composting. According to co-occurrence networks results, ATP enhanced the connectivity and complexity of the network; NADH enhanced microbial interactions. The different kind of TCA cycle regulators had different effect on humus formation pathway. The structural equation model showed that ATP might promote lignin transformation into humus via the sugar-amine condensation pathway and lignin-protein pathway while NADH may promote cellulose degradation into soluble sugar and organic matter, which are transformed into humus. This work will provide valuable guidance for exploring the mechanism of TCA cycle regulators in promoting organic carbon fixation and reducing inorganic carbon mineralization.