Abundance Of Antibiotic Resistance Genes Research Articles

Biodegradable film drip fertigation is more conducive to reducing the diversity and abundance of antibiotic resistance genes than plastic film drip fertigation

Biodegradable film drip fertigation is more conducive to reducing the diversity and abundance of antibiotic resistance genes than plastic film drip fertigation

Dissemination of genes associated with antibiotic resistance and bacterial virulence during ecosystem succession in two Tibetan glacier forefields.

The release of pathogens and DNA from the cryosphere (glacier, permafrost, and, sea ice) has become a new threat to society and environment. Due to enhanced glacier retreat, the size of glacier forefields has greatly expanded. Herein, we used a combination of metagenomic and metatranscriptomic methods and adopted a sequence-based approach to investigate the distribution and changing patterns of virulence factor genes (VFGs) and antibiotic resistance genes (ARGs) in two glacier forefields. The forefields are separated by approximately 400km located in the center and north of the Tibetan Plateau, which are used to demonstrate the gene dissemination capacity across short (10m) and long (730m) spatial transects. The results revealed a diverse range of actively transcribed VFGs and ARGs. The relative abundance of ARG reduced with ecosystem succession, while that of VFG was similar, suggesting that the ARG is under a stronger environmental selection pressure. VFGs and ARGs were dominated by those associated with adherence and vancomycin resistance, respectively. Notably, toxin production related genes were identified but a low abundance, indicating a low risk to health in glacier forefields. The dissemination risks were low for both VFGs and ARGs, which was strongly constrained by dispersal limitation. Additionally, the limited dissemination was mainly through vertical transmission, instead of horizontal transfer. In conclusion, the sequence-based approach revealed a low risk to health in recently deglaciated areas, with the risk of VFGs and ARGs being disseminated into downstream ecosystems remaining low.

Growth of microbes in competitive lifestyles promotes increased ARGs in soil microbiota: insights based on genetic traits

BackgroundThe widespread selective pressure of antibiotics in the environment has led to the propagation of antibiotic resistance genes (ARGs). However, the mechanisms by which microbes balance population growth with the enrichment of ARGs remain poorly understood. To address this, we employed microcosm cultivation at different antibiotic (i.e., Oxytetracycline, OTC) stresses across the concentrations from the environmental to the clinical. Paired with shot-gun metagenomics analysis and quantification of bacterial growth, trait-based assessment of soil microbiota was applied to reveal the association between key ARG subtypes, representative bacterial taxa, and functional-gene features that drive the growth of ARGs.ResultsOur results illuminate that resistome variation is closely associated with bacterial growth. A non-monotonic change in ARG abundance and richness was observed over a concentration gradient from none to 10 mg/l. Soil microbiota exposed to intermediate OTC concentrations (i.e., 0.1 and 0.5 mg/l) showed greater increases in the total abundance of ARGs. Community compositionally, the growth of representative taxa, i.e., Pseudomonadaceae was considered to boost the increase of ARGs. It has chromosomally carried kinds of multidrug resistance genes such as mexAB-oprM and mexCD-oprJ could mediate the intrinsic resistance to OTC. Streptomycetaceae has shown a better adaptive ability than other microbes at the clinical OTC concentrations. However, it contributed less to the ARGs growth as it represents a stress-tolerant lifestyle that grows slowly and carries fewer ARGs. In terms of community genetic features, the community aggregated traits analysis further indicates the enhancement in traits of resource acquisition and growth yield is driving the increase of ARGs abundance. Moreover, optimizations in energy production and conversion, alongside a streamlining of bypass metabolic pathways, further boost the growth of ARGs in sub-inhibitory antibiotic conditions.ConclusionThe results of this study suggest that microbes with competitive lifestyles are selected under the stress of environmental sub-inhibitory concentrations of antibiotics and nutrient scarcity. They possess greater substrate utilization capacity and carry more ARGs, due to this they were faster growing and leading to a greater increase in the abundance of ARGs. This study has expanded the application of trait-based assessments in understanding the ecology of ARGs propagation. And the finding illustrated changes in soil resistome are accompanied by the lifestyle switching of the microbiome, which theoretically supports the ARGs control approach based on the principle of species competitive exclusion.4ZqjNsN9dRS1iWJDwru5hLVideo

Effect of Fecal Microbiota Transplant on Antibiotic Resistance Genes Among Patients with Chronic Pouchitis.

Pouchitis is common among patients with ulcerative colitis (UC) who have had colectomy with ileal pouch-anal anastomosis. Antibiotics are first-line therapy for pouch inflammation, increasing the potential for gut colonization with multi-drug resistant organisms (MDRO). Fecal microbial transplant (FMT) is being studied in the treatment of pouchitis and in the eradication of MDRO. Prior work using aerobic antibiotic culture disks suggests that some patients with chronic pouchitis may regain fluoroquinolone sensitivity after FMT. However, gut MDRO include anaerobic, fastidious organisms that are difficult to culture using traditional methods. We aimed to assess whether FMT reduced the abundance of antibiotic resistance genes (ARG) or affected resistome diversity, evenness, or richness in patients with chronic pouchitis. We collected clinical characteristics regarding infections and antibiotic exposures for 18 patients who had previously been enrolled in an observational study investigating FMT as a treatment for pouchitis. Twenty-six pre- and post-FMT stool samples were analyzed using FLASH (Finding Low Abundance Sequences by Hybridization), a CRISPR/Cas9-based shotgun metagenomic sequence enrichment technique that detects acquired and chromosomal bacterial ARGs. Wilcoxon rank sum tests were used to assess differences in clinical characteristics, ARG counts, resistome diversity and ARG richness, pre- and post-FMT. All 13 of the patients with sufficient stool samples for analysis had recently received antibiotics for pouchitis prior to a single endoscopic FMT. Fecal microbiomes of all patients had evidence of multi-drug resistance genes and ESBL resistance genes at baseline; 62% encoded fluoroquinolone resistance genes. A numerical decrease in overall ARG counts was noted post-FMT, but no statistically significant differences were noted (P = 0.19). Richness and diversity were not significantly altered. Three patients developed infections during the 5-year follow-up period, none of which were associated with MDRO. Antibiotic resistance genes are prevalent among antibiotic-exposed patients with chronic pouchitis. FMT led to a numerical decrease, but no statistically significant change in ARG, nor were there significant changes in the diversity, richness, or evenness of ARGs. Further investigations to improve FMT engraftment and to optimize FMT delivery in patients with inflammatory pouch disorders are warranted.

Residual heavy metals and antibiotic pollution in abandoned breeding areas along the northeast coast of Hainan Island, China.

To assess the environmental status of an abandoned aquaculture and breeding area in the northeast coast of the Hainan Island, surface and well water, sediment and surface soils were sampled and analyzed for conventional physicochemical properties, heavy metals and antibiotics. Metagenome tests were also conducted to determine the composition and diversity of the microbial community in typical habitats. Affected by the discharge of wastewater from higher-place pond aquaculture, coastal freshwater rivers have undergone significant salinization, Cl- and Na+ were as high as 4.51×103 and 1.42×103mg/L. The 3 hand-pumped wells surveyed were also suffered from varying degrees of salinization and heavy metal pollution, especially the threat of arsenic pollution. Compared with the local background values, significantly higher valves of Cu, Zn, As and Cd were observed in the surface soil and sediment, and the average concentrations for Cu, Zn, As and Cd are 5.71, 17.6, 15.4 and 0.09mg/kg respectively. For As，the Nemerow index ranges from 7 to 16 and the geoaccumulation index is between 2 and 4, indicating moderate to severe pollution levels in surface soil. 14 antibiotics were detected in the soil and sediment samples, and the highest total amount was 73μg/kg, with tetracycline being the dominant antibiotic. Sediment and forest soil showed different microbial community and the genetic diversity index of sediment was lower than that of the forest soils. For typical vegetation soil, the genetic diversity followed the order as P. elliottii × P. caribaea>Eucalyptus > C. equisetifolia. Among the soil and sediment samples, the highest abundances of antibiotic resistance genes (ARGs) were associated with elfamycin, peptide, rifamycin, and the most common antibiotic resistance mechanisms were antibiotic target alteration (54.5%), antibiotic efflux (27.6%) and antibiotic target replacement (12.1%). The metal resistance genes (MRGs) for Cu, Fe, and Zn resistance were the main MRGs in the samples. This study identified the potential ecological environment risk factors in the abandoned coastal breeding areas, and suggested continuous monitoring and assessment of the residual pollutant abatement processes in the future.

Glyphosate and spinetoram alter viral communities with different effects on antibiotic resistance genes in the bumblebee gut.

Limited research investigating the impact of pesticides on antibiotic resistance genes (ARGs) and viral community in the gut of wild animals. In this study, we employed metagenomic to investigate the effects of glyphosate and spinetoram on the gut viral communities, ARGs, and their interactions in a key wild pollinator, bumblebees. The results showed that both 2.5mg/L glyphosate and 2.5mg/L spinetoram did not significantly alter the α-diversity of the ARGs (p>0.05). However, spinetoram significantly enriched core ARG subtypes, such as Bado_rpoB_RIF, Bbif_ileS_MUP, and CRP, and total abundance of ARGs (p<0.05). In contrast, glyphosate had no significant impact on ARG subtypes or total abundance (p>0.05). The mantel test (R=0.455, p=0.020) and Procrustes analysis (M2=0.095, p=0.069) revealed a significant correlation between the bacterial community and ARGs. Although glyphosate and spinetoram had no significant effect on the relative abundance of mobile ARGs (p>0.05), both significantly altered the alpha diversity (p<0.05) and compositional structure (one-way PERMANOVA, p=0.003) of the gut viral communities, with glyphosate increasing the abundance of lytic phages (p<0.05). Notably, a phage and host relationship network constructed revealed no evidence of phage-mediated ARGs transduction, but five associations between lytic phages and antibiotic-resistant bacteria (ARB) were identified. Furthermore, glyphosate and spinetoram exposure significantly reduced the total relative abundance of these five lytic phages in the viral community (p<0.001), indicating that phages primarily function in lysing ARBs. These findings suggest that glyphosate may inhibit the enrichment of ARGs by increasing the abundance of lytic phages, while spinetoram may promote the enrichment of total ARGs by affecting the bacterial community.

Metagenomics unveils the role of hospitals and wastewater treatment plants on the environmental burden of antibiotic resistance genes and opportunistic pathogens.

Antimicrobial resistance (AMR) is a global health challenge, with hospitals and wastewater treatment plants (WWTPs) serving as significant pathways for the dissemination of antibiotic resistance genes (ARGs). This study investigates the potential of wastewater-based epidemiology (WBE) as an early warning system for assessing the burden of AMR at the population level. In this comprehensive year-long study, effluent was collected weekly from three large hospitals, and treated and untreated wastewater were collected monthly from three associated community WWTPs. Metagenomic analysis revealed a significantly higher relative abundance and diversity of ARGs in hospital wastewater than in WWTPs. Notably, ARGs conferring resistance to clinically significant antibiotics such as β-lactams, aminoglycosides, sulfonamides, and tetracyclines were more prevalent in hospital effluents. Conversely, resistance genes associated with rifampicin and MLS (macrolides-lincosamide-streptogramin) were more commonly detected in the WWTPs, particularly in the treated effluent. Network analysis identified the potential bacterial hosts, which are the key carriers of these ARGs. The study further highlighted the variability in ARG removal efficiencies across the WWTPs, with none achieving complete elimination of ARGs or a significant reduction in bacterial diversity. Additionally, ARG profiles remained relatively consistent in hospital and community wastewater throughout the study, indicating a persistent release of a baseload of ARGs and pathogenic bacteria into surface waters, potentially polluting aquatic environments and entering the food chain. The study underscores the need for routine WBE surveillance, enhanced wastewater treatment strategies, and hospital-level source control measures to mitigate AMR dissemination into the environment.

Dynamic impact of polyethylene terephthalate nanoplastics on antibiotic resistance and microplastics degradation genes in the rhizosphere of Oryza sativa L.

This study examined the effects of polyethylene terephthalate (PET) nanoplastics on the rhizosphere of Oryza sativa L., focusing on dynamic changes and interactions among microbial communities, antibiotic resistance genes (ARGs) and microplastic degradation genes (MDGs). PET exposure altered the structure and function of soil microbial, enabling specific microbial groups to thrive in polluted environments. High-dose PET treatments markedly increased the abundance and dissemination of ARGs, primarily via resistance mechanisms such as antibiotic efflux and target alteration. By providing additional carbon sources and surfaces for microbial attachment, PET stimulated the growth of microorganisms harboring MDGs, resulting in an increase in MDGs abundance. The elevated expression of MDGs facilitated the propagation of ARGs, with overlapping host microorganisms suggesting that certain microbial groups exhibit dual metabolic capabilities, enabling them to endure both antibiotic and microplastic pressures. Toxic byproducts of microplastic degradation, such as mono-ethylhexyl phthalate, further promoted ARGs dissemination by increasing horizontal gene transfer frequency. Structural equation modeling revealed that PET indirectly influenced ARGs and MDGs expression by altering soil C/N ratio, available phosphorus, and enzyme activities. Thus, nanoscale PET exacerbates ecological risks to soil microbial communities by driving co-propagation of ARGs and MDGs, highlighting the persistent threat of composite pollution to agroecosystems.

Refluxing Mature Compost to Replace Bulking Agents: A Low-Cost Solution for Suppressing Antibiotic Resistance Genes Rebound in Sewage Sludge Composting.

Antibiotic resistance genes (ARGs) rebounding during composting cooling phase is a critical bottleneck in composting technology that increased ARGs dissemination and application risk of compost products. In this study, mature compost (MR) was used as a substitute for rice husk (RH) to mitigate the rebound of ARGs and mobile genetic elements (MGEs) during the cooling phase of sewage sludge composting, and the relationship among ARGs, MGEs, bacterial community and environmental factors was investigated to explore the key factor influencing ARGs rebound. The results showed that aadD, blaCTX-M02, ermF, ermB, tetX and vanHB significantly increased 4.76-32.41 times, and the MGEs rebounded by 38.60% in the cooling phase of RH composting. Conversely, MR reduced aadD, tetM, ermF and ermB concentrations by 59.49-98.58%, and reduced the total abundance of ARGs in the compost product by 49.32% compared to RH, which significantly restrained ARGs rebound. MR promoted secondary high temperature inactivation of potential host bacteria, including Ornithinibacter, Rhizobiales and Caldicoprobacter, which could harbor aadE, blaCTX-M02, and blaVEB. It also reduced the abundance of lignocellulose degrading bacteria of Firmicutes, which were potential hosts of aadD, tetX, ermF and vanHB. Moreover, MR reduced moisture and increased oxidation reduction potential (ORP) that promoted aadE, tetQ, tetW abatement. Furthermore, MR reduced 97.36% of total MGEs including Tn916/1545, IS613, Tp614 and intI3, which alleviated ARGs horizontal transfer. Overall finding proposed mature compost reflux as bulking agent was a simple method to suppress ARGs rebound and horizontal transfer, improve ARGs removal and reduce composting plant cost.

The "best practices for farming" successfully contributed to decrease the antibiotic resistance gene abundances within dairy farms.

Farms are significant hotspots for the dissemination of antibiotic-resistant bacteria and genes (ARGs) into the environment and directly to humans. The prevalence of ARGs on farms underscores the need for effective strategies to reduce their spread. This study aimed to evaluate the impact of a guideline on "best practices for farming" aimed at reducing the dissemination of antibiotic resistance. A guideline focused on prudent antibiotic use, selective therapy, and hygienic and immune-prophylactic practices was developed and provided to the owners of 10 selected dairy farms and their veterinarians. Fecal samples were collected from lactating cows, dry cows, and calves both before and after the implementation of the guideline. ARGs (bla TEM, ermB, sul2, and tetA) were initially screened by end-point PCR, followed by quantification using digital droplet PCR. ARG abundance was expressed in relative terms by dividing the copy number of ARGs by the copy number of the 16S rRNA gene. The ARG abundances were higher in lactating cows compared to other categories. Despite similar levels of antibiotic administration (based on veterinary prescription data from the sampled farms) in both sampling campaigns, the total abundance of selected ARGs, particularly bla TEM and tetA, significantly decreased after the adoption of the farming guidelines. This study highlights the positive impact of prudent antibiotic use and the implementation of farming best practices in reducing the abundance of ARGs. The lactating cow category emerged as a crucial point of intervention for reducing the spread of antibiotic resistance. These findings contribute to ongoing efforts to address antibiotic resistance in farm environments and strengthen the evidence supporting the adoption of good farming practices.

Geographical distribution and risk of antibiotic resistance genes in sludge anaerobic digestion process across China.

Anaerobic digestion (AD) is gaining increasing attention as the central reservoir of antibiotic resistance genes (ARGs), while the geographical distribution of ARGs in AD is neglected. Accordingly, a sampling scheme on full-scale AD plants across China was implemented, and the resistome therein was excavated. The abundance of ARGs in AD sludge ranged from 0.198 to 0.574 copies/cell. Some of the frequently reported and emergent ARGs were detected in our AD system. Both the abundance and composition of ARGs presented significant differences between the south and north regions of China, hinting the physical/economic factors may function in the formation of ARG profiles. The risk scores of AD samples were in middle of domestic and hospital wastewater. Risk scores were significantly higher in the north. Besides, the proportion of Rank I and Rank II ARGs was also higher in north, which explained the regional difference of ARG composition in a micro-perspective. This study provides a fundamental survey on the of ARG level and profile in AD process across China, reveals the biogeography of ARGs and inspires the control strategies of antibiotic resistance.

Distribution and environmental dissemination of antibiotic resistance genes in poultry farms and surrounding ecosystems.

Antibiotic resistance poses a significant threat to human and animal health worldwide, with farms serving as crucial reservoirs of Antibiotic Resistance Genes (ARGs) and Antibiotic-resistant bacteria. However, the distribution of ARGs in poultry farms and their transmission patterns in the environment remain poorly understood. This study collected samples of aerosol microorganisms, cloacal matter, soil, and vegetables from poultry farms and surrounding environments at three different distances. We used 16S rRNA gene sequencing and HT-qPCR to analyze the characteristics of aerosol microbial communities and the abundance of ARGs. At the phylum level, Proteobacteria, Firmicutes, and Bacteroidetes were dominant in cloacal samples, aerosol samples, and vegetable samples, while Proteobacteria Actinobacteriota and Acidobacteria dominated soil. Pseudomonas was dominant in cloacal samples at the genus level, whereas Fusobacterium was prevalent in soil. The diversity and richness of bacterial communities were more similar between cloacal samples than those observed between either sample type compared with soil. Our results showed that tetracycline and aminoglycoside ARG relative abundance was high across all sample types but significantly increased within feces/air compared to soils/vegetables. Association analysis revealed five potential host genera for ARG/MGE presence among various microbiota populations studied here. Our findings confirm that farms are important sources for the environmental dissemination of pathogens and ARGs.

Effect of microplastics concentration and size on pollutants removal and antibiotic resistance genes (ARGs) generation in constructed wetlands: a metagenomics insight

The accrual of microplastics (MPs) and antibiotics poses synergistic threats to the environment. This study systemically examined the effect of environmental-level (μg/L) MPs (90–110 μm) and nanoplastics (NPs, 700nm) on constructed wetlands (CWs) treating oxytetracycline-contaminated wastewater via metagenomics analysis. Polystyrene (PS) MPs notably hindered the removal of nitrogen, phosphorus, and oxytetracycline, particularly at high level (1000μg/L), with removal rates of 73.34%, 59.59%, and 99.34%, respectively. Among them, the removal of NH4+-N decreased the most in comparison to CK, at 15.26%. Antibiotic resistance genes (ARGs) copies/16S rRNA ranged from 0.26 to 0.42 in CWs, exceeding that found in rivers by a factor of 1.5 to 2.5 times. The relative abundance of multidrug resistance genes (mdtB, acrB, mexF, mdtC, and mexT) and tetracycline resistance genes (txtA, tetG, and tetP) exhibited a pronounced increase under MPs exposure, ranging from 0.06 to 0.14 and 0.01 to 0.08 copies/16S rRNA, respectively. Redundancy and network analyses emphasized robust associations among contaminant reduction, ARG abundance, and microbial community. Partial least squares path modeling indicated MPs exerted a more profound influence on pollutant removal (coefficient = 0.8194), microbial community (coefficient = 0.3358) and ARGs dissemination (coefficient = 0.6566) compared to NPs. MPs concentrations significantly affects pollutants removal and ARGs proliferation, and MPs with larger sizes amplified ARG dissemination. This research highlights the influence of MPs on CW-mediated wastewater treatment and ARGs accumulation, offering valuable insights for developing ecological wastewater treatment strategies tailored to multi-pollutant scenarios. These insights are fundamental in developing sustainable solutions to the adverse impacts of MPs on ecosystems.

Field-based evidence for the prevalence of soil antibiotic resistomes under long-term antibiotic-free fertilization.

Growing evidence suggests that the use of manure containing residual antibiotics universally leads to an increase in soil antibiotic resistance genes (ARGs). However, there is limited understanding of the influence of long-term antibiotic-free fertilization and the differences between antibiotic-free manure and chemical fertilizer on soil ARGs. This study aimed to quantify the assembly patterns of the antibiotic resistome by in situ probing bacterial community and environmental variations in field soils that have been subjected to long-term exposure to chemical fertilizer and/or manure from animals without antibiotic amendments. Long-term fertilization slightly impacts the diversity of antibiotic resistomes, with 85.5% of total ARGs and mobile genetic elements (MGEs) being common across all treatment types, while significantly increasing their abundances from 0.68 to a maximum of 0.90 copies/16S rRNA. The rise in ARG abundances was less pronounced when using antibiotic-free manure compared to chemical fertilizer, particularly for Rank Ⅱ ARGs. However, when antibiotic-free manure and chemical fertilizer were combined, a significant increase in nutrients (such as available nitrogen and organic matter) and MGEs occurred, leading to the enrichment of soil microbial populations, especially in certain resistant species, and Rank Ⅰ and Ⅱ ARGs. Despite the influence of various factors like bacterial communities, soil properties, heavy metals, and MGEs, the MGEs had the most significant standardized effects on shaping ARGs through both direct and indirect pathways. Our findings indicates that while of antibiotic-free manure can lower the risk of antibiotic residues and promote sustainable farming practices, it may not fully eliminate the prevalence of ARGs, highlighting the need for more comprehensive strategies to address antibiotic resistance in agriculture rather than simply prohibiting the use of antibiotics.

Prevalence of antibiotic resistance genes in mining-impacted farmland environments.

Mining activities produce large quantities of tailings and acid mine drainage, which contain varieties of heavy metals, thereby affecting the downstream farmland soils and crops. Heavy metals could induce antibiotic resistance through co-selection pressure. However, the profiles of antibiotic resistance genes (ARGs) in the mining-affected farmland soils and crops are still unclear. Here we investigated contents of heavy metals, ARG abundances, mobile genetic elements (MGEs), and microbial community in mining-affected farmland soils and vegetables from Shangba village (SB), in comparison to a nearby reference village Taiping (TP). Results showed that in SB group, except for Cr, other metals were all above the Chinese Standards. When compared with the reference group, higher ARG abundances were detected in mining-affected farmland soils and vegetables, with great proportions of genes resistant to sulfonamides, chloramphenicols and tetracyclines. In addition, positive correlations were found between the above three ARG classes and heavy metals concentrations (especially Cu, Pb and Zn). Spearman's correlations revealed that there were positive correlations between sul1 and total nitrogen, as well as tetB/P and pH. Additionally, the Shannon index values were different for the samples from two villages (p < 0.05). Proteobacteria and Actinobacteria were dominant phyla in soil samples. Network analysis suggested that multiple genera (belonging to Proteobacteria and Actinobacteria) were positively associated with many ARGs (p < 0.05), implying they might be potential hosts for ARGs. To sum up, this study provided clear evidence that mining activities caused severe heavy metals pollution to the farmland, thus posing co-selection pressure on the persistence of ARGs in the affected farmland environments.

Biochar reduces plasmid-mediated antibiotic resistance gene transfer in earthworm ecological filters for rural sewage treatment.

The spread of antibiotic resistance genes (ARGs) in rural wastewater threatens both ecological environment and human health. Earthworm ecological filters (EEFs) represent a green technology for rural sewage treatment. However, their effectiveness in removing ARGs remains a significant challenge. This study aims to investigate the role and underlying mechanisms of biochar addition in enhancing ARGs removal in rural sewage using EEFs. To achieve this, the fate of chromosome- and plasmid-carried ARGs was quantified in constructed EEFs, both with and without biochar addition. The results showed that the biochar could effectively remove ARGs from rural sewage, with a better removal efficiency for plasmid-carried ARGs. The absolute abundance of plasmid-carried ARGs in the effluent was reduced by 0.4-11 times compared to chromosomal ones, showing removal stability improved by 13.11-74.51 %. Additionally, the functional microbial community attached on the high porosity of biochar surface promoted ARGs retention, increasing diffusion limitation in microbial assembly mechanisms by 4.61-29.44 %, which played a key role in plasmid-mediated horizontal gene transfer (HGT). Partial least squares structural equation modeling (PLS-SEM) revealed that biochar-mediated environmental changes and the HGT of mobile genetic elements (MGEs) were critical factors in reducing plasmid-carried ARGs in EEFs.

Antibiotic resistance genes in the coastal atmosphere under varied weather conditions: Distribution, influencing factors, and transmission mechanisms.

Antibiotic resistance genes (ARGs) have escalated to levels of concern worldwide as emerging environmental pollutants. Increasing evidence suggests that non-antibiotic antimicrobial substances expedite the spread of ARGs. However, the drivers and mechanisms involved in the generation and spread of ARGs in the atmosphere remain inadequately elucidated. Co-occurrence networks, mantel test analysis, and partial least squares path modeling were used to analyze the symbiotic relationships of ARGs with meteorological conditions, atmospheric pollutants, water-soluble inorganic ions, bacteria, mobile genetic elements (MGEs), antibacterial biocide and metal resistance genes, and to identify the direct drivers of ARGs. The types and abundance of ARGs exhibited different seasonal distribution. Specifically, the types exhibited a strong alignment with the diversity of air masses terrestrial sources, while the abundance displayed a significant positive correlation with both biocide resistance genes (BRGs) and metal resistance genes (MRGs). The contribution of bacterial communities and MGEs to the generation and spread of ARGs was constrained by the low levels of antibiotics in the atmosphere and the existence of "viral intermediates". Conversely, antibacterial biocides and metals influenced mutation rates, cellular SOS responses, and oxidative stress of bacteria, consequently facilitating the generation and spread of ARGs. Moreover, the co-selection among their derivatives, resistance genes, ensured a stable presence of ARGs. The research highlighted the significant impact of residual antimicrobial substances on both the generation and spread of ARGs. Elucidating the sources of aerosols and the co-selection mechanism linking with ARGs, BRGs, and MRGs were crucial for preserving the stability of ARGs in the atmosphere.

The addition of vermiculite reduced antibiotic resistance genes during composting: Novel insights based on reducing host bacteria abundance and inhibiting plasmid-mediated conjugative transfer.

Antibiotic resistance genes (ARGs) are prevalent in raw materials used for composting. The utilization of eco-friendly materials for the removal of ARGs is regarded as an economically effective method. Therefore, this study focused on the impact of incorporating different proportions of vermiculite (0% (CK), 5% (T1), and 10% (T2)) on the dynamics of ARGs during composting. In comparison to CK, the total absolute abundances of ARGs decreased by 14.17% and 31.52% in T1 and T2, respectively. Potential human pathogenic bacteria, including Acinetobacter, Corynebacterium, and Lactobacillus, were identified as core hosts of ARGs. The addition of vermiculite effectively inhibited proliferation of ARG hosts by extending the thermophilic phase of composting and reducing bioavailable copper concentrations. Incorporation of vermiculite decreased the absolute abundances of transposons and integrons, such as intI1 and Tn916/1545, which were significantly positively correlated with most ARGs. Adding vermiculite simultaneously enhanced the removal of common environmental plasmids (e.g., Inc.P, Inc.W), and downregulated expression of genes associated with bacterial conjugation and plasmid replication (e.g., trBbp, trfAp), thereby inhibiting the dissemination of ARGs. Taken together, this study provides novel insights that the incorporation of vermiculite can effectively enhance the reduction rate of ARGs during composting by reducing the host of ARGs and inhibiting their dissemination.

Simultaneous effects of nanoscale zero-valent iron on wastewater decontamination and energy generation: mechanisms of sulfamethoxazole degradation and methanogenesis

The presence of sulfamethoxazole (SMX) can adversely affect the anaerobic digestion process, reducing the efficiency of wastewater treatment and methane production. In this study, the addition of exogenous nanoscale zero-valent iron (nZVI) enhanced the efficient treatment of SMX and promoted the energy recovery from antibiotic wastewater. The results showed that the removal of SMX in the reactor pairs with 0.5g/L nZVI increased by 20%, 35%, and 27%, and the methane production increased by 21.6%, 40.9%, and 26.6%, respectively, compared with the control reactor at different SMX influent concentrations (50, 100, and 200mg/L). The microbial community distribution indicated that the nZVI facilitated efficient cooperation between acid-producing and methanogens by regulating the relative abundance of functional bacteria, such as Anaerolinea and Methanothrix. Meanwhile, nZVI can effectively facilitate the direct interspecies electron transfer (DIET) and enhance electron transport system (ETS) activity by functioning as a conductive particle and increasing the abundance of genes related to cytochrome C (Cyt C) and type IV pili. In addition, nZVI can reduce the risk of antibiotic resistance genes (ARGs) transmission by decreasing the relative abundance of ARGs. In summary, this study could provide new insights and theoretical support for efficient anaerobic bioremediation and energy recovery of antibiotic wastewater containing SMX.

Exogenous additives reshape the microbiome and promote the reduction of resistome in co-composting of pig manure and mushroom residue

Comprehensive understanding of the microbiome and resistome evolution in compost is crucial for guaranteeing the safety of organic fertilizers. Current studies using different composting systems and sequencing technologies have yielded varying conclusions on the efficacy of exogenous additives (EAs) in reducing antibiotic resistance genes (ARGs) in compost. This study employed metagenomics to investigate the impact of various EAs on microbial communities, ARGs, their coexistence with mobile genetic elements (MGEs), and ARG hosts in co-composting. Our results demonstrated that EAs significantly reshaped the microbial communities and facilitated a notable reduction in total ARG abundance and diversity, primarily by decreasing core ARGs. Cooperative rather than antagonistic relationships among bacteria. The RA changes in total ARGs are mainly caused by a decrease in the prevalence of core ARGs. Furthermore, EAs showed significant efficacy in reducing clinical ARGs, including cfxA, tetX1, cfxA6, vanA, and aac (6')-Ib', with diatomite (5%) and zeolite (5%) being the most effective. The effect of EAs on ARGs and microbial community assembly were stochastic processes. Composting stage and EAs jointly reduced the association between ARGs and MGEs in the composting system. The reduction of ARGs attributed to a decreased abundance of potential pathogenic ARG-associated hosts and diminished associations with MGEs. In conclusion, EAs present a straightforward and effective approach for promoting ARGs reduction in compost, offering crucial insights for assessing the environmental risks associated with the release of agricultural ARGs.