Relative Abundance Of Genes Research Articles

Altered microbial diversity, interaction pattern, and nitrogen transformation processes response to different iron addition amounts in constructed wetlands

Microbial interactions affect the biogeochemical cycles, pollutant transformation, and stable operation of constructed wetlands (CWs), and these interaction networks are vulnerable to environmental stress. Iron (Fe)-based CWs have been demonstrated as an intensified nitrogen (N) removal system, however, whether and how the addition of Fe, an exogenous environmental stressor, and its amount affect the microbial interactions and functions are poorly understood, which inevitably determine the stability and sustainability of CW system. Herein, we demonstrated that higher Fe addition could effectively improve the stability and sustainability of the CW system by regulating the diversity and interactions of the microbial communities rather than the relative abundance of functional genes. Specifically, low Fe-addition reduced the complexity and robustness of microbial network and the number of keystone taxa, while the high Fe-addition CWs showed the opposite pattern. In CWs with low Fe-addition, N-Fe cycles were accomplished by increasing competition represented by a high proportion of negative links between the same function, whereas increased cooperation was observed in CWs with high Fe-addition. Moreover, Fe addition shaped divergent N transformation processes, with denitrification-dissimilatory nitrate reduction to ammonium (DNRA) dominating in control group, and nitrification-partial denitrification/anammox (PD/A) dominating in Fe-based CWs, and the intensity of nitrification-PD/A increased with the addition amount of Fe. Our study provided insights into the potential ways to improve the stability and sustainability of Fe-CWs for intensified pollutant elimination, which would be valuable to advance the design, sustainable operation, and application of Fe-CWs.

6-BA Delays the Senescence of Postharvest Cabbage Leaves by Inhibiting Respiratory Metabolism.

6-BA, a small molecule compound of cytokinins, has been proven to delay leaf senescence in different species, including Chinese flowering cabbage; however, its specific mechanism remains relatively unknown. In this study, the application of external 6-BA delayed leaf senescence in Chinese flowering cabbage, showing that 6-BA effectively prevented the decrease in the maximum quantum yield (Fv/Fm) and overall chlorophyll content and suppressed the expression of the senescence-associated gene BrSAG12 over a 7-day period of storage. Moreover, treatment with 6-BA decreased the respiratory rate, NAD(H) content, the activities of hexose phosphate isomerase (PHI), succinate dehydrogenase (SDH), cytochrome c oxidase (CCO), and ascorbic acid oxidase (AAO) using enzyme-linked immunosorbent assay, and the transcriptional abundance of related genes by real-time quantitative polymerase chain reaction. Furthermore, 6-BA also increased the activity and expression levels of glucose-6-phosphate dehydrogenase (G6PDH) and 6-phosphate gluconate dehydrogenase (6-PGDH). The group treated with 6-BA retained elevated levels of NADP (H), ATP, total ATPase, and nicotinamide adenine dinucleotide kinase (NADK) activity, as well as the expression of respiratory enzymes. Molecular docking indicated that 6-BA hinders the glycolysis pathway (EMP), tricarboxylic acid cycle (TCA), and cytochrome pathway (CCP), and sustains elevated levels of the pentose phosphate pathway (PPP) through interactions with the PHI, SDH, 6-PGDH, G6PDH, CCO, and AAO proteins, consequently delaying postharvest leaf senescence in Chinese flowering cabbage.

Enhanced removal of ciprofloxacin and associated antibiotic-resistant genes from wastewater using a biological aeration filters in combination with Fe3O4-modified zeolite.

Antibiotics release into the water environment through sewage discharge is a significant environmental concern. In the present study, we investigated the removal of ciprofloxacin (CIP) in simulated sewage by biological aeration filter (BAF) equipped with Fe3O4-modified zeolite (Fe3O4@ZF). Fe3O4@ZF were prepared with impregnation method, and the Fe3O4 particles were successfully deposited on the surface of ZF in an amorphous form according to the results of XPS and XRD analysis. The modification also increased the specific surface area (from 16.22 m²/g to 22 m²/g) and pore volume (from 0.0047 cm³/g to 0.0063 cm³/g), improving the adsorption efficiency of antibiotics. Fe3O4 modified ZF improved the treatment performance significantly, and the removal efficiency of CIP in BAF-Fe3O4@ZF was 79%±2.4%. At 10ml/L CIP, the BAF-Fe3O4@ZF reduced the relative abundances of antibiotics resistance genes (ARGs) int, mexA, qnrB and qnrS in the effluent by 57.16%, 39.59%, 60.22%, and 20.25%, respectively, which effectively mitigate the dissemination risk of ARGs. The modification of ZF increased CIP-degrading bacteria abundance, such as Rhizobium and Deinococcus-Thermus, and doubled bacterial ATP activity, promoting CIP degradation. This study offers a viable, efficient method to enhance antibiotic treatment and prevent leakage via sewage discharge.

Impact of telomere length and mitochondrial DNA copy number variants on survival of newborn cloned calves

An established technology to create cloned animals is through the use of somatic cell nuclear transfer (SCNT), in which reprogramming the somatic cell nucleus to a totipotent state by enucleated oocyte cytoplasm is a necessary process, including telomere length reprogramming. The limitation of this technology; however, is that the live birth rate of offspring produced through SCNT is significantly lower than that of IVF. Whether and how telomere length play a role in the development of cloned animals is not well understood. Only a few studies have evaluated this association in cloned mice, and fewer still in cloned cows. In this study, we investigated the difference in telomere length as well as the abundance of some selected molecules between newborn deceased cloned calves and normal cows of different ages either produced by SCNT or via natural conception, in order to evaluate the association between telomere length and abnormal development of cloned cows. The absolute telomere length and relative mitochondrial DNA (mtDNA) copy number were determined by real-time quantitative PCR (qPCR), telomere related gene abundance by reverse-transcription quantitative PCR (RT-qPCR), and senescence-associated β-galactosidase (SA-β-gal) expression by SA-β-gal staining. The results demonstrate that the newborn deceased SCNT calves had significantly shortened telomere lengths compared to newborn naturally conceived calves and newborn normal SCNT calves. Significantly lower mtDNA copy number, and significantly lower relative abundance of LMNB1 and TERT, higher relative abundance of CDKN1A, and aberrant SA-β-gal expression were observed in the newborn deceased SCNT calves, consistent with the change in telomere length. These results demonstrate that abnormal telomere shortening, lower mtDNA copy number and abnormal abundance of related genes were specific to newborn deceased SCNT calves, suggesting that abnormally short telomere length may be associated with abnormal development in the cloned calves.

Characterisation of microbial communities and quantification of antibiotic resistance genes in Italian wastewater treatment plants using 16S rRNA sequencing and digital PCR

The spread of antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs) in humans, animals and environment is a growing threat to public health. Wastewater treatment plants (WWTPs) are crucial in mitigating the risk of environmental contamination by effectively removing contaminants before discharge. However, the persistence of ARB and ARGs even after treatment is a challenge for the management of water system.To comprehensively assess antimicrobial resistance dynamics, we conducted a one-year monitoring study in three WWTPs in central Italy, both influents and effluents. We used seasonal sampling to analyze microbial communities by 16S rRNA, as well as to determine the prevalence and behaviour of major ARGs (sul1, tetA, blaTEM, blaOXA-48, blaCTX-M-1 group, blaKPC) and the class 1 Integron (int1). Predominant genera included in order: Arcobacter, Acinetobacter, Flavobacterium, Pseudarcobacter, Bacteroides, Aeromonas, Trichococcus, Cloacibacterium, Pseudomonas and Streptococcus. A higher diversity of bacterial communities was observed in the effluents compared to the influents. Within these communities, we also identified bacteria that may be associated with antibiotic resistance and pose a significant threat to human health. The mean concentrations (in gene copies per liter, gc/L) of ARGs and int1 in untreated wastewater (absolute abundance) were as follows: sul1 (4.1 × 109), tetA (5.2 × 108), blaTEM (1.1 × 108), blaOXA-48 (2.1 × 107), blaCTX-M-1 group (1.1 × 107), blaKPC (9.4 × 105), and int1 (5.5 × 109). The mean values in treated effluents showed reductions ranging from one to three log. However, after normalizing to the 16S rRNA gene (relative abundance), it was observed that in 37.5 % (42/112) of measurements, the relative abundance of ARGs increased in effluents compared to influents. Furthermore, correlations were identified between ARGs and bacterial genera including priority pathogens. This study improves our understanding of the dynamics of ARGs and provides insights to develop more effective strategies to reduce their spread, protecting public health and preserving the future efficacy of antibiotics.

Nitrogen functional profiles of microbiomes in diverse agricultural and forest soils and its driver at continental scale in China

Functional characteristics of microbiomes are good predictors of nitrogen (N) biogeochemistry, but soil microbial N-functional profiles under different land use practices and their dominant drivers at continental scale remain unclear. For this study, we selected soils having a broad range of edaphic factors across different land use practices and soil types in China and used metagenomic sequencing to investigate N-functional profiles of microbiomes. The N-pathway frequencies were highest in paddy soils, and the composition of N-cycling genes in paddy soils significantly diverged from upland and forest soils. Differential abundance analysis showed that genes associated with nitrogen dissimilatory pathways exhibited enrichment in paddy soils, whereas those linked to assimilatory pathways were enriched in forest soils. Aggregated boosted tree analysis revealed that the frequencies of N-pathways and relative abundances of N-cycling genes were mainly explained by soil moisture and pH. Partial Mantel and redundancy analysis consistently showed that N-functional composition correlated strongest with moisture and pH. Overall, our results demonstrated that soil moisture and pH were vital drivers of microbial N-functional profiles, providing novel evidence for soil moisture and pH’s role in driving whole nitrogen cycling. Considering the large fluctuations in moisture over time, soil pH, with minor seasonality, could be used as indicators to reflect microbial N-functional profiles at the continental scale.

Characteristics of Epiphytic Bacterial Community on Submerged Macrophytes in Water Environment Supplemented with Reclaimed Water

Biofilms attached to submerged macrophytes play an important role in improving the water quality of the water environment supplemented with reclaimed water. In order to explore the effects of reclaimed water quality and submerged macrophyte species on the characteristics of an epiphytic bacterial community, different types of submerged macrophytes were selected as research objects in this study. 16S rRNA high-throughput sequencing technology was used on the epiphytic bacteria and the surrounding environmental samples to analyze the bacterial community structure and functional genes. The results showed that approximately 20%-35% of the nitrogen and phosphorus nutrients were absorbed and utilized in the water environment supplemented with reclaimed water. However, the COD, turbidity, and chroma of the downstream water were significantly increased. The bacterial community of the biofilms attached to submerged macrophytes was significantly different from that in the surrounding environment (soil, sediment, and water body) and in the activated sludge that was treated by reclaimed water. In terms of bacterial community diversity, the richness and diversity were significantly lower than those of soil and sediment but higher than those of plankton bacteria in water. In terms of bacterial community composition, dominant genera and corresponding abundances were also different from those of other samples. The main dominant bacterial genera were Sphingomonas, Aeromonas, Pseudomonas, and Acinetobacter, accounting for 7%-40%, respectively. Both macrophyte species and the quality of reclaimed water (BOD5, TN, NH4+-N, and TP) could affect the bacterial community. However, the effect of water quality of the bacterial community was greater than that of macrophytes species. Additionally, the quality of reclaimed water also affected the abundance of functional genes in the bacterial community, and the relative abundance of nitrogen and phosphorus cycling functional genes was higher in areas with higher nitrogen and phosphorus concentrations.

Dissecting the negative influence mechanisms of microplastics on plant and microbial mediated nitrogen removal in constructed wetlands

The escalating prevalence of microplastics (MPs) in constructed wetlands (CWs) raises concerns about their potential effects on nitrogen (N) removal within these ecosystems. Despite this, systematic investigations into the influence of MPs on N-transformation in CWs, encompassing both phytological and microbial dimensions, are notably lacking. Thus, polyethylene (PE) and polyamide (PA), commonly found in wastewater plants, were studied as typical MPs in CWs over 240 days. Extended accumulation time increased nitrogen inhibition in CWs with PE and PA MPs, notably in PA, reducing TN removal by 7.0 % and 10.5 %. For nitrification process, MPs inhibited the relative abundances (RAs) of genes involved in nitrification and carbon fixation metabolisms in nitrifiers through metagenomic analysis, with PA more significantly inhibiting nitrifying enzyme activities. Regarding denitrification, MPs, especially PA, inhibited the RAs of genes involved in electron production, transport, consumption, ATP production and central carbon metabolism in denitrifiers, and activities of denitrifying enzymes. MPs, particularly PA, were found to elevated ROS level and lactate dehydrogenase release, thus hindering nitrogen transformation. Moreover, MPs caused a reduction in c-di-GMP levels and inhibited genes relevant to biofilm regulation (c-di-GMP signaling and quorum sensing), thereby disturbing extracellular polymeric substance metabolism. Regarding plant systems, MPs, particularly PA, were observed to decrease nitrogen uptake, crucial for N-removal. Additionally, inhibited root activity, reduced photosynthesis, and a compromised antioxidant system also contributed to the diminished N-removal in CWs. Overall, our study systematically reveals how MPs, especially PA, impede nitrogen removal in CWs, contributing to further realize the simultaneous removal of MPs and nitrogen in CWs.

Exposure of polyethylene microplastics affects sulfur migration and transformation in anaerobic system

Polyethylene (PE) microplastic, which is detected in various environmental media worldwide, also inevitably enters wastewater treatment plants, which may have an impact on anaerobic processes in wastewater treatment. In this work, the effect of PE microplastics on anaerobic sulfur transformation was explored. Experimental results showed that PE microplastics addition at 0.1%− 0.5% w/w promoted H2S production by 14.8%−27.4%. PE microplastics enhanced the release of soluble organic sulfur and inorganic sulfate, and promoted the bioprocesses of organosulfur compounds hydrolysis and sulfate reduction. Mechanism analysis showed that PE microplastics increased the content of electroactive components (e.g., protein and humic acids) contained in extracellular polymeric substances (EPS). In particular, PE microplastics increased the proportion and the dipole moment of α-helix, an important component involved in electron transfer contained in extracelluar protein, which provided more electron transfer sites and promoted the α-helix mediated electron transfer. These enhanced the direct electron transfer ability of EPSs, which might explain why PE microplastics facilitated the bioprocesses of organosulfur compounds hydrolysis and sulfate reduction. Correspondingly, metagenomic analysis revealed that PE microplastics increased the relative abundance of S2- producers (e.g., Desulfobacula and Desulfonema) and the relative abundance of functional genes involved in anaerobic sulfur transformation (e.g., PepD and cysD), which were beneficial to H2S production in anaerobic system.

Organic management pattern improves microbial community diversity and alters microbial network structure in karst tea plantation

Soil microbiomes play a crucial role in enhancing plant growth, health, and overall agricultural productivity. Nevertheless, the influence of distinct agricultural management practices on the microbial diversity and community structure within tea (Camellia sinensis) plantations has remained enigmatic. This study postulates that organic agricultural management models can enhance microbial diversity and optimise the microbial community structure within tea plantations, indirectly augmenting soil fertility and tea quality. We employed metagenome technology and conducted molecular ecological network analysis to explore the impact of organic management, pollution-free management, and conventional management on the microbial network structure of tea plantation soil in Weng'an County in the southwestern karst region. Soils subjected to organic management exhibited a higher relative abundance of soil microbial and carbohydrate-active enzyme functional genes than those subjected to other management regimes. Additionally, the relative abundance and diversity of dominant bacteria and keystone species were notably higher under organic management than under the other management regimes. Correlation analysis showed that soil microorganisms were closely related to soil fertility and tea quality, respectively. One-way analysis of variance and the structural equation modelling results showed significant variability in soil fertility under the three agricultural management modes and that soil fertility and soil microbial diversity had a direct impact on tea quality (P > 0.05). In conclusion, this study underscores the profound impact of management modes on microbial diversity and community structure within tea plantations. These management practices alter the soil microbial network structure and potential function, ultimately regulating the microecological dynamics of the soil community in tea plantations.

Microbial communities colonising plastics during transition from the wastewater treatment plant to marine waters

BackgroundPlastics pollution and antimicrobial resistance (AMR) are two major environmental threats, but potential connections between plastic associated biofilms, the ‘plastisphere’, and dissemination of AMR genes are not well explored.ResultsWe conducted mesocosm experiments tracking microbial community changes on plastic surfaces transitioning from wastewater effluent to marine environments over 16 weeks. Commonly used plastics, polypropylene (PP), high density polyethylene (HDPE), low density polyethylene (LDPE) and polyethylene terephthalate (PET) incubated in wastewater effluent, river water, estuarine water, and in the seawater for 16 weeks, were analysed via 16S rRNA gene amplicon and shotgun metagenome sequencing. Within one week, plastic-colonizing communities shifted from wastewater effluent-associated microorganisms to marine taxa, some members of which (e.g. Oleibacter-Thalassolituus and Sphingomonas spp., on PET, Alcanivoracaceae on PET and PP, or Oleiphilaceae, on all polymers), were selectively enriched from levels undetectable in the starting communities. Remarkably, microbial biofilms were also susceptible to parasitism, with Saprospiraceae feeding on biofilms at late colonisation stages (from week 6 onwards), while Bdellovibrionaceae were prominently present on HDPE from week 2 and LDPE from day 1. Relative AMR gene abundance declined over time, and plastics did not become enriched for key AMR genes after wastewater exposure.ConclusionAlthough some resistance genes occurred during the mesocosm transition on plastic substrata, those originated from the seawater organisms. Overall, plastic surfaces incubated in wastewater did not act as hotspots for AMR proliferation in simulated marine environments.

Mechanisms of metabolic regulation and enhanced methane production by hydrolytic nanozyme in sludge anaerobic digestion

Artificial nanozymes have demonstrated potential as natural enzyme substitutes due to their efficient biomacromolecule hydrolysis. However, the metabolic and catalytic mechanisms of nanozyme during the biodegradation of complex organics remain inadequately understood. This study evaluated the effect of the hydrolytic mechanism of cerium-based metal–organic frameworks (Ce-MOFs) hydrolytic nanozyme on shaping microbiome and metabolic functions. Biochemical methane potential test revealed that Ce-MOF-based hydrolytic nanozyme increased methane production by 7.8 − 22.2% as the hydrolytic nanozyme dosage increased from 50 to 150 mg/g VS. The highest methane production observed in 150 mg/g VS dosage of Ce-MOF (Ce-MOF-150) could be attributed to the enhanced sludge hydrolysis, acidogenesis, and methanogenesis processes, proven by the increased relative abundance of dominant acidogens and methanogens. Furthermore, 150 mg/g VS hydrolytic nanozyme bolstered the relative abundance of genes encoding acetyl-CoA carboxylase (accABCD) and involving in glycolysis (hxk and pfkA). These quantities were higher (8.31 − 34.14%) than that without nanozyme addition. The enhanced relative abundance of ackA, pta, cdhCDE, mvhAD, fpoABCDHIJKLMNO, vhoC, rnfABCDEG, mtrABCDEFGH, and hdrABC in the Ce-MOF-150 test indicated that the high proton conductivity of nanozyme facilitated acetoclastic methanogenesis and membrane-bound electron transport system, thereby enhancing methane production. These findings contribute to the expanding understanding of the application of artificial nanozymes as biocatalysts for solid waste resource recovery, providing a promising approach for methane production from sewage sludge.

Effects of tea polyphenols pretreatment of kanamycin mycelial residue on subsequent aerobic composting: Improvements in antibiotic resistance control

Our previous research has demonstrated the efficient removal of residual kanamycin in kanamycin mycelial residue (KMR) through abiotic humification with tea polyphenols (TP). This study aims to investigate the impact of TP pretreatment on the subsequent composting of KMR, focusing on composting quality, kanamycin residue, and antibiotic resistance. The physicochemical results indicated that TP pretreatment not only showed no adverse impact on the composting, but exhibited the potential to enhance humification according to the results of the three-dimensional fluorescence results. Moreover, a 22.6 % lower kanamycin content (0.24 mg/kg) was observed in the final fertilizer product from TP pretreatment, with approximately 6.9 times the total relative abundance of target antibiotic resistance genes (ARGs) reduced. The Proteobacteria, Firmicutes and Actinobacteria were the primary potential hosts for ARGs and mobile genetic elements (MGEs). Overall, TP pretreatment appears to be a promising approach for achieving a safer resource utilization of KMR through composting.

Metagenomes from microbial populations beneath a chromium waste tip give insight into the mechanism of Cr (VI) reduction

Dumped Chromium Ore Processing Residue (COPR) at legacy sites poses a threat to health through leaching of toxic Cr(VI) into groundwater. Previous work implicates microbial activity in reducing Cr(VI) to less mobile and toxic Cr(III), but the mechanism has not been explored. To address this question a combined metagenomic and geochemical study was undertaken. Soil samples from below the COPR waste were used to establish anaerobic microcosms which were challenged with Cr(VI), with or without acetate as an electron donor, and incubated for 70 days. Cr was rapidly reduced in both systems, which also reduced nitrate, nitrite then sulfate, but this sequence was accelerated in the acetate amended microcosms. 16S rRNA gene sequencing revealed that the original soil sample was diverse but both microcosm systems became less diverse by the end of the experiment. A high proportion of 16S rRNA gene reads and metagenome-assembled genomes (MAGs) with high completeness could not be taxonomically classified, highlighting the distinctiveness of these alkaline Cr impacted systems. Examination of the coding capacity revealed widespread capability for metal tolerance and Fe uptake and storage, and both populations possessed metabolic capability to degrade a wide range of organic molecules. The relative abundance of genes for fatty acid degradation was 4× higher in the unamended compared to the acetate amended system, whereas the capacity for dissimilatory sulfate metabolism was 3× higher in the acetate amended system. We demonstrate that naturally occurring in situ bacterial populations have the metabolic capability to couple acetate oxidation to sequential reduction of electron acceptors which can reduce Cr(VI) to less mobile and toxic Cr(III), and that microbially produced sulfide may be important in reductive precipitation of chromate. This capability could be harnessed to create a Cr(VI) trap-zone beneath COPR tips without the need to disturb the waste.

Influence of operation sequences on phosphorus recovery by polyphosphate-accumulating organisms biofilm: Performance, kinetics and metabolic response

Two biofilm sequencing batch reactors (BSBRs) were conducted under alternating aerobic/anaerobic (Ae/An) sequence and alternating anaerobic/aerobic (An/Ae) sequence to investigate the effects of operation sequences on phosphorus removal and recovery performance. The Ae/An BSBR had advantages in phosphate enrichment, phosphorus concentration of enrichment solution can reach 99.08 mg/L. While An/Ae BSBR exhibited a higher kinetic rate for phosphate uptake and release up to 0.48 mmol/gVSS. In An/Ae BSBR, the remarkable increase of phosphate concentration in aerobic stage put a great strain on the phosphate uptake of biofilms that led to an increase of phosphorus accumulation in the biofilm (Pbiofilm). However, the poly-P proportion in TPbiofilm decreased which triggered the metabolisim of polyphosphate accumulating organisms (PAOs) shifting from polyphosphate accumulating metabolism (PAM) to glycogen accumulating metabolism (GAM) and suppressed the phosphorus enrichment performance of the An/Ae BSBR. The phosphate uptake rate (PUR) of biofilms was in alignment with the bulk phosphate concentration. PAOs were dominated by Rhodoplanes and Saprospiraceae in the Ae/An BSBR, whereas Thiothrix was predominant in the An/Ae BSBR. Notably, the Candidatus Competibacter, considered as a denitrifying glycogen accumulating organisms (DGAOs), showed a dominant proportion in the microbial community of both BSBRs. The higher expression of actP in the An/Ae system indicated a greater capacity for the uptake of acetate, while the Ae/An system was is more adept for degrading acetate represented by the higher relative abundance of ackA, pta and acsA genes The high phosphorus loading in the An/Ae system suppressed the ppk expression but enhanced the ppx expression.

Metagenomic analysis of the effects of salinity on microbial community and functional gene diversity in glacial meltwater estuary, Ny-Alesund, Arctic

Due to the inflow of meltwater from the Midre Lovénbreen glacier upstream of Kongsfjorden, the nutrient concentration of Kongsfjorden change from the estuary to the interior of the fjord. Our objective was to explore the changes in bacterial community structure and metabolism-related genes from the estuary to fjord by metagenomic analysis. Our data indicate that glacial meltwater input has altered the physicochemical properties of the fjords, with a significant effect, in particular, on fjords salinity, thus altering the relative abundance of some specific bacterial groups. In addition, we suggest that the salinity of a fjord is an important factor affecting the abundance of genes associated with the nitrogen and sulfur cycles in the fjord. Changes in salinity may affect the relative abundance of microbial populations that carry metabolic genes, thus affecting the relative abundance of genes associated with the nitrogen and sulfur cycles.

The Impact of Bisphenol A on the Anaerobic Sulfur Transformation: Promoting Sulfur Flow and Toxic H2S Production.

Bisphenol A (BPA), as a typical leachable additive from microplastics and one of the most productive bulk chemicals, is widely distributed in sediments, sewers, and wastewater treatment plants, where active sulfur cycling takes place. However, the effect of BPA on sulfur transformation, particularly toxic H2S production, has been previously overlooked. This work found that BPA at environmentally relevant levels (i.e., 50-200 mg/kg total suspended solids, TSS) promoted the release of soluble sulfur compounds and increased H2S gas production by 14.3-31.9%. The tryptophan-like proteins of microbe extracellular polymeric substances (EPSs) can spontaneously adsorb BPA, which is an enthalpy-driven reaction (ΔH = -513.5 kJ mol-1, ΔS = -1.60 kJ mol-1K -1, and ΔG = -19.52 kJ mol-1 at 35 °C). This binding changed the composition and structure of EPSs, which improved the direct electron transfer capacity of EPSs, thereby promoting the bioprocesses of organic sulfur hydrolysis and sulfate reduction. In addition, BPA presence enriched the functional microbes (e.g., Desulfovibrio and Desulfuromonas) responsible for organic sulfur mineralization and inorganic sulfate reduction and increased the abundance of related genes involved in ATP-binding cassette transporters and sulfur metabolism (e.g., Sat and AspB), which promoted anaerobic sulfur transformation. This work deepens our understanding of the interaction between BPA and sulfur transformation occurring in anaerobic environments.

Nitrogen fertilization modulates rice phyllosphere functional genes and pathogens through fungal communities

The phyllosphere is a vital yet often neglected habitat hosting diverse microorganisms with various functions. However, studies regarding how the composition and functions of the phyllosphere microbiome respond to agricultural practices, like nitrogen fertilization, are limited. This study investigated the effects of long-term nitrogen fertilization with different levels (CK, N90, N210, N330) on the functional genes and pathogens of the rice phyllosphere microbiome. Results showed that the relative abundance of many microbial functional genes in the rice phyllosphere was significantly affected by nitrogen fertilization, especially those involved in C fixation and denitrification genes. Different nitrogen fertilization levels have greater effects on fungal communities than bacteria communities in the rice phyllosphere, and network analysis and structural equation models further elucidate that fungal communities not only changed bacterial-fungal inter-kingdom interactions in the phyllosphere but also contributed to the variation of biogeochemical cycle potential. Besides, the moderate nitrogen fertilization level (N210) was associated with an enrichment of beneficial microbes in the phyllosphere, while also resulting in the lowest abundance of pathogenic fungi (1.14 %). In contrast, the highest abundance of pathogenic fungi (1.64 %) was observed in the highest nitrogen fertilization level (N330). This enrichment of pathogen due to high nitrogen level was also regulated by the fungal communities, as revealed through SEM analysis. Together, we demonstrated that the phyllosphere fungal communities were more sensitive to the nitrogen fertilization levels and played a crucial role in influencing phyllosphere functional profiles including element cycling potential and pathogen abundance. This study expands our knowledge regarding the role of phyllosphere fungal communities in modulating the element cycling and plant health in sustainable agriculture.

Effect of High Energy Low Protein Diet on Lipid Metabolism and Inflammation in the Liver and Abdominal Adipose Tissue of Laying Hens.

The aim of this study was to evaluate the effects of a high-energy low-protein (HELP) diet on lipid metabolism and inflammation in the liver and abdominal adipose tissue (AAT) of laying hens. A total of 200 Roman laying hens (120 days old) were randomly divided into two experimental groups: negative control group (NC group) and HELP group, with 100 hens per group. The chickens in the NC group were fed with a basic diet, whereas those in the HELP group were given a HELP diet. Blood, liver, and AAT samples were collected from 20 chickens per group at each experimental time point (30, 60, and 90 d). The morphological and histological changes in the liver and AAT were observed, and the level of serum biochemical indicators and the relative expression abundance of key related genes were determined. The results showed that on day 90, the chickens in the HELP group developed hepatic steatosis and inflammation. However, the diameter of the adipocytes of AAT in the HELP group was significantly larger than that of the NC group. Furthermore, the results showed that the extension of the feeding time significantly increased the lipid contents, lipid deposition, inflammatory parameters, and peroxide levels in the HELP group compared with the NC group, whereas the antioxidant parameters decreased significantly. The mRNA expression levels of genes related to lipid synthesis such as fatty acid synthase (FASN), stearoyl-coA desaturase (SCD), fatty acid binding protein 4 (FABP4), and peroxisome proliferator-activated receptor gamma (PPARγ) increased significantly in the liver and AAT of the HELP group, whereas genes related to lipid catabolism decreased significantly in the liver. In addition, the expression of genes related to lipid transport and adipokine synthesis decreased significantly in the AAT, whereas in the HELP group, the expression levels of pro-inflammatory parameters such as tumor necrosis factor-alpha (TNF-α), interleukin-6 (IL-6), and interleukin-1 beta (IL-1β) increased significantly in the liver and AAT. Conversely, the expression level of the anti-inflammatory parameter interleukin-10 (IL-10) decreased significantly in the liver. The results indicated that the HELP diet induced lipid peroxidation and inflammation in the liver and AAT of the laying hens. Hence, these results suggest that chicken AAT may be involved in the development of fatty liver.

Effect of composting and storage on the microbiome and resistome of cattle manure from a commercial dairy farm in Poland.

Manure from food-producing animals, rich in antibiotic-resistant bacteria and antibiotic resistance genes (ARGs), poses significant environmental and healthcare risks. Despite global efforts, most manure is not adequately processed before use on fields, escalating the spread of antimicrobial resistance. This study examined how different cattle manure treatments, including composting and storage, affect its microbiome and resistome. The changes occurring in the microbiome and resistome of the treated manure samples were compared with those of raw samples by high-throughput qPCR for ARGs tracking and sequencing of the V3-V4 variable region of the 16S rRNA gene to indicate bacterial community composition. We identified 203 ARGs and mobile genetic elements (MGEs) in raw manure. Post-treatment reduced these to 76 in composted and 51 in stored samples. Notably, beta-lactam, cross-resistance to macrolides, lincosamides and streptogramin B (MLSB), and vancomycin resistance genes decreased, while genes linked to MGEs, integrons, and sulfonamide resistance increased after composting. Overall, total resistance gene abundance significantly dropped with both treatments. During composting, the relative abundance of genes was lower midway than at the end. Moreover, higher biodiversity was observed in samples after composting than storage. Our current research shows that both composting and storage effectively reduce ARGs in cattle manure. However, it is challenging to determine which method is superior, as different groups of resistance genes react differently to each treatment, even though a notable overall reduction in ARGs is observed.