Excessive phosphorus emissions can result in the eutrophication of water bodies, causing severe environmental damage as well as influencing the efficiency of water treatment equipment. The impacts of carbon/phosphorus ratios on performance and mechanism of the upflow anaerobic sludge bed reactor remain unclear. Henrie, the effects of different carbon/phosphorus ratios (i.e., 80:1, 40:1, and 20:1) on the transformation of phosphorus in the biological treatment process of an upflow anaerobic sludge blanket (UASB) reactor were studied. The results showed that phosphines are of great importance in the phosphate reduction process. After a stable operation, the phosphine reached the highest 81.91 mg/m3 at a C/P ratio of 40:1. It was proved that the optimum operating condition of the reactor was carbon to phosphorus ratio of 40:1. Phosphate-reducing bacteria were present in the UASB reactor, and the relative abundance of Clostridia in the sludge was 1.90 % and 1.59 % when the C/P was 80:1 and 20:1, respectively. This implied that the low carbon to phosphorus ratio reduces the phosphorusreducing microbial activity in the reactor. Lower C/P values could inhibit the uptake and use of P in the phosphonate transport system and the transport of phosphate in the cell by the microbial Pst system, impeding the mineralization of organophosphates. The study provides new insights into improving the efficiency of treating phosphorus-rich wastewater.

Global warming due to climate change has substantial impact on high-altitude permafrost affected soils. This raises a serious concern that the microbial degradation of sequestered carbon can result in alteration of the biogeochemical cycles. Therefore, the characterization of permafrost affected soil microbiomes, especially of unexplored high-altitude, low oxygen arid region, is important for predicting their response to climate change. This study presents the first report of the bacterial diversity of permafrost-affected soils in the Changthang region of Ladakh. The relationship between soil pH, organic carbon, electrical conductivity, and available micronutrients with the microbial diversity was investigated. Amplicon sequencing of permafrost affected soil samples from Jukti and Tsokar showed that Proteobacteria and Actinobacteria were the dominant phyla in all samples. The genera Brevitalea, Chthoniobacter, Sphingomonas, Hydrogenispora, Clostridium, Gaiella, Gemmatimonas were relatively abundant in the Jukti samples whereas the genera Thiocapsa, Actinotalea, Syntrophotalea, Antracticibcterium, Luteolibacter, Nitrospirillum dominated the Tsokar sample. Correlation analyses highlighted the influence of soil geochemical parameters on the bacterial community structure. PCoA analyses showed that the bacterial beta diversity varied significantly between the sampling locations (PERMANOVA test (F-value: 2.3316; R2 = 0.466, p = 0.001) and similar results were also obtained while comparing genus abundance data using the ANOSIM test (R = 0.345, p = 0.007).

Excessive nitrogen fertilization in sweet potato cultivation poses significant ecological and economic challenges in China, negatively impacting soil health by altering microbial community diversity, enzyme activities, and increasing the risk of stem nematode damage. In this study, we conducted a field trial in Northeast China, applying 0-72 kg of urea-N per hectare to brown soil under a five-year sweet potato cropping system. The results demonstrated that optimal nitrogen fertilization (64.8 kg ha-1) significantly promoted beneficial microbial populations, enhanced soil urease activity, and reduced the incidence of stem nematode disease while maintaining high sweet potato yields.

Monilinia spp., which causes brown rot, is one of the most damaging pathogens in stone fruits. Researchers are exploring epiphytic and endophytic microorganisms with the potential to suppress pathogens, control pathogenic microorganisms, and/or promote plant growth. In this study, microorganisms with antagonistic activity against three Monilinia species were isolated from plum orchard soil and plum fruits. Antagonism tests in vitro showed strong antagonistic properties of six strains of bacteria and two yeast-like fungi against M. fructigena, M. fructicola, and M. laxa, with growth inhibition from 45.5 to 84.6%. The antagonists were identified and characterized at the genetic level using whole genome sequencing (WGS). Genes involved in antibiotic resistance, virulence, secondary metabolite synthesis, and plant growth promotion were identified and characterized through genome mapping, gene prediction, and annotation. None of the microorganisms studied were predicted to be pathogenic to humans. The results of this study indicate that the bacteria Bacillus pumilus, B. velezensis, two strains of Lysinibacillus agricola, Pseudomonas chlororaphis isolated from stone fruit orchard soil, and the yeast-like fungus Aureobasidium pullulans, isolated from plums, are promising candidates for the biological control of Monilinia spp.

Root-lesion nematodes (Pratylenchus spp.) are significant plant parasites, causing substantial crop damage worldwide. This study aimed to characterize Pratylenchus spp. in New Zealand maize fields using molecular techniques and map their prevalence. Soil sampling from 24 maize fields across the North and South Islands provided 381 composite samples. Root-lesion nematodes were extracted using the sieving-centrifugal-sugar flotation method and differentiated into five morphospecies. Molecular characterization involved direct partial sequencing of the D2/D3 28S rDNA, ITS rDNA, and COX1 mtDNA regions using Sanger technology from a single nematode. Five Pratylenchus species were identified: P. neglectus, P. crenatus, P. thornei, P. penetrans, and P. pratensis, confirmed by phylogenetic analysis. Prevalence mapping showed P. neglectus and P. crenatus in all sampled fields, while P. thornei, P. penetrans, and P. pratensis were more localized. This study is the first to report these Pratylenchus species on maize in New Zealand and provides the first partial sequences of the D2/D3, COX1, and ITS regions for these species on maize in New Zealand. The findings highlight the diversity of Pratylenchus populations in New Zealand maize fields and emphasize the need for region-specific management strategies to mitigate crop damage.

For the safe use of microbiome-based solutions in agriculture, the genome sequencing of strains composing the inoculum is mandatory to avoid the spread of virulence and multidrug resistance genes carried by them through horizontal gene transfer to other bacteria in the environment. Moreover, the annotated genomes can enable the design of specific primers to trace the inoculum into the soil and provide insights into the molecular and genetic mechanisms of plant growth promotion and biocontrol activity. In the present work, the genome sequences of some members of beneficial microbial consortia that have previously been tested in greenhouse and field trials as promising biofertilizers for maize, tomato and wheat crops have been determined. Strains belong to well-known plant-growth-promoting bacterial genera such as Bacillus, Burkholderia, Pseudomonas and Rahnella. The genome size of strains ranged from 4.5 to 7.5 Mbp, carrying many genes spanning from 4402 to 6697, and a GC content of 0.04% to 3.3%. The annotation of the genomes revealed the presence of genes that are implicated in functions related to antagonism, pathogenesis and other secondary metabolites possibly involved in plant growth promotion and gene clusters for protection against oxidative damage, confirming the plant-growth-promoting (PGP) activity of selected strains. All the target genomes were found to possess at least 3000 different PGP traits, belonging to the categories of nitrogen acquisition, colonization for plant-derived substrate usage, quorum sensing response for biofilm formation and, to a lesser extent, bacterial fitness and root colonization. No genes putatively involved in pathogenesis were identified. Overall, our study suggests the safe application of selected strains as plant probiotics for sustainable agriculture.

The root-knot nematode (RKN) causes significant yield loss in tomatoes. Understanding the interaction of biocontrol agents (BCAs)-nematicides-soil microbiomes and RKNs is essential for enhancing the efficacy of biocontrol agents and nematicides to curb RKN damage to crops. The present study aimed to evaluate the in vitro effectiveness of BACa and nematicide against RKN and to apply the amplicon sequencing to assess the interaction of Bacillus velezensis (VB7) and Trichoderma koningiopsis (TK) against RKNs. Metagenomic analysis revealed the relative abundance of three phyla such as Proteobacteria (42.16%), Firmicutes (19.57%), and Actinobacteria (17.69%) in tomato rhizospheres. Those tomato rhizospheres treated with the combined application of B. velezensis VB7 + T. koningiopsis TK and RKN had a greater frequency of diversity and richness than the control. RKN-infested tomato rhizosphere drenched with bacterial and fungal antagonists had the maximum diversity index of bacterial communities. A strong correlation with a maximum number of interconnection edges in the phyla Proteobacteria, Firmicutes, and Actinobacteria was evident in soils treated with both B. velezensis VB7 and T. koningiopsis TK challenged against RKN in infected soil. The present study determined a much greater diversity of bacterial taxa observed in tomato rhizosphere soils treated with B. velezensis VB7 and T. koningiopsis TK than in untreated soil. It is suggested that the increased diversity and abundance of bacterial communities might be responsible for increased nematicidal properties in tomato plants. Hence, the combined applications of B. velezensis VB7 and T. koningiopsis TK can enhance the nematicidal action to curb RKN infecting tomatoes.

The present study aimed to i) assess the disintegration of a novel bio-packaging during aerobic composting (2 and 6 % tested concentrations) and evaluate the resulting compost ii) analyse the ecotoxicity of bioplastics residues on earthworms; iii) study the microbial communities during composting and in 'earthworms' gut after their exposure to bioplastic residues; iv) correlate gut microbiota with ecotoxicity analyses; v) evaluate the chemicophysical characterisation of bio-packaging after composting and earthworms' exposure. Both tested concentrations showed disintegration of bio-packaging close to 90 % from the first sampling time, and compost chemical analyses identified its maturity and stability at the end of the process. Ecotoxicological assessments were then conducted on Eisenia fetida regarding fertility, growth, genotoxic damage, and impacts on the gut microbiome. The bioplastic residues did not influence the earthworms' fertility, but DNA damages were measured at the highest bioplastic dose tested. Furthermore bioplastic residues did not significantly affect the bacterial community during composting, but compost treated with 2 % bio-packaging exhibited greater variability in the fungal communities, including Mortierella, , Mucor, , and Alternaria genera, which can use bioplastics as a carbon source. Moreover, bioplastic residues influenced gut bacterial communities, with Paenibacillus, , Bacillus, , Rhizobium, , Legionella, , and Saccharimonadales genera being particularly abundant at 2 % bioplastic concentration. Higher concentrations affected microbial composition by favouring different genera such as Pseudomonas, , Ureibacillus, , and Streptococcus. . For fungal communities, Pestalotiopsis sp. was found predominantly in earthworms exposed to 2 % bioplastic residues and is potentially linked to its role as a microplastics degrader. After composting, Attenuated Total Reflection analysis on bioplastic residues displayed evidence of ageing with the formation of hydroxyl groups and amidic groups after earthworm exposure.

The exopolysaccharide (EPS) produced by Pantoea alhagi NX-11, referred to as alhagan, enhances plant stress resistance, improves soil properties, and exhibits notable rheological properties. Despite these benefits, the exact bio-synthetic process of alhagan by P. alhagi NX-11 remains unclear. This study focused on sequencing the complete genome of P. alhagi NX-11 and identifying an alhagan synthesis gene cluster (LQ939_RS12550 to LQ939_RS12700). Gene annotation revealed that alhagan biosynthesis in P. alhagi NX-11 follows the Wzx/Wzy-dependent pathway. Furthermore, transcriptome analysis of P. alhagi NX-11 highlighted significant upregulation of four glycosyltransferase genes (alhH, wcaJ, alhK, and alhM) within the alhagan synthesis gene cluster. These glycosyltransferases are crucial for alhagan synthesis. To delve deeper into this process, two upregulated and uncharacterized glycosyltransferase genes, alhH and alhK, were knocked out. The resulting mutants, Delta alhH and Delta alhK, showed a notable decrease in EPS yield, reduced molecular weight, and altered monosaccharide compositions. These findings contribute to a better understanding of the alhagan biosynthesis mechanism in P. alhagi NX-11.

Riparian soils, together with vegetation, play a crucial role in supporting biodiversity and driving biogeochemical processes within river ecosystems. Conservation of riparian soils and artificial planting are essential for river ecosystem recovery following land degradation. Researchers focus on examining soil nutrients, microbial biomass, and organic acid metabolism in the interactions between plants and soil along riverbanks. However, the seasonal responses of riparian soils to artificial plantations have been infrequently reported in the existing literature. This study investigates the influence of seasonal variations on soil conditions and the growth of artificially planted species in the riparian zones of the Three Gorges Dam Reservoir (TGDR) in China. The species sampled include Cynodon dactylon, Hemarthria altissima, and Salix matsudana. These species provide valuable insight into soil properties along riparian zones, assessing interactions across different seasons: T1 (spring), T2 (summer), and T3 (autumn). The results demonstrated significant seasonal changes in soil organic matter, ammonium nitrogen, nitrate nitrogen, and other indicators between T1 and T3. Apart from invertase activity in H. altissima soil, enzyme activity peaked during T1. Dominant soil bacteria were examined using high-throughput 16S rDNA sequencing, revealing that the available bacteria belong to 62 phyla and 211 classes. Among the most abundant were Proteobacteria and Actinobacteria, averaging over 60 % across all soil samples. Principal component analyses accounted for 62.81 % (T1), 50.57 % (T2), and 54.08 % (T3) of the variation observed in the study, indicating that soil properties were predominantly influenced by the different seasonal phases, assuming all other factors remained constant. Pearson correlation analysis (p < 0.05) identified strong positive correlations between physical properties and all three plant species during T1 (r <= 0.94), as well as significant negative correlations with bacterial communities in T2 and T3 (r <= -1.00). These findings suggest that the selected plant species are well-suited to cultivation in the riparian zone of the TGDR. This study enhances our understanding of seasonal dynamics in riparian environments, offering practical insights into their management.