Exogenous Bacteria Research Articles

Evaluation of exogenous lactic acid bacteria, yeasts and staphylococci for flavor improvement of channel catfish frame hydrolysate

This study aimed to evaluate and select high aroma-producing strains for aroma improvement of a novel new fish sauce from channel catfish. Preliminary screening in the synthetic broth and secondary screening in fish frame hydrolysate were conducted for nine exogenous strains, including Lactiplantibacillus plantarum (LP), Pediococcus pentosaceus (PP), Latilactobacillus sakei (LS), Pichia fermentans (PF), Zygosaccharomyces rouxii (ZR), Wickerhamomyces anomalus (WA), Staphylococcus xylosus (SX), Staph. saprophyticus (SS) and Staph. carnosus (SC). In the broth, LP, PF, and SS exhibited superior growth, higher acid and alcohol tolerance than others in the same group (lactic acid bacteria, yeasts and staphylococci). Secondary screening in the fish frame hydrolysate demonstrated LP, PF, and SS displayed better performance in acid generation and reducing sugar consumption. HS-SPME-GC-MS analysis showed that the mixed culture of the three strains produced more alcohols and esters than other combinations. Sensory analysis revealed that the three-strains combination obviously improved the flavor profile of the fish frame hydrolysate relative to combinations with two strains and commercial fish sauce, especially the fruity and cheesy flavor. In summary, LP, PF, and SS can better adapt to the new fish sauce environment and have aroma enhancement potential.

Effects of Wilting and Exogenous Lactic Acid Bacteria on the Fermentation Quality and Microbial Community of Plantago lanceolata Silage

This study aimed to evaluate the effects of wilting and exogenous lactic acid bacteria treatments on the chemical composition, fermentation quality, and microbial community composition of Plantago lanceolata silage (PS). This experiment was carried out in the Guizhou Extension Station of Grassland Technology (25°38′48″ N, 106°13′6″ E). The PS samples were divided into four treatment groups, namely control PS (C-PS), wilting-treated PS (W-PS), Lactobacillus brucei-treated PS (LB-PS), and wilting + L. brucei-treated PS (WLB-PS) groups, and analyzed after 60 d of treatment. The W-PS and WLB-PS groups showed significantly lower ether extract, ash, and Neutral detergent fiber contents but significantly higher water-soluble carbohydrate content compared to the C-PS and LB-PS groups (p < 0.05). Additionally, the W-PS group had significantly lower propionic acid content but significantly higher butyric acid content compared to the other groups (p < 0.05). Meanwhile, the WLB-PS group had the highest lactic acid content, the lowest pH, and no butyric acid content (p < 0.05). Additionally, the WLB-PS group showed a high proliferation of beneficial bacterial species (Lactobacillus buchneri and Lactobacillus plantarum) and decreased proliferation of undesirable bacterial species (Clostridium lutlcellarli and Clostridium tyrobutyricum). In conclusion, the combination treatment with wilting and L. brucei increased beneficial microorganisms and inhibited undesirable microorganisms during ensiling, thereby improving the fermentation quality of PS. Therefore, the combination treatment with wilting and L. brucei may be an effective Plantago lanceolata silage modulation technique.

Enhanced tetracycline removal in sequencing batch reactors by bioaugmentation using tetX-carrying strains: Efficiency and mechanisms

Tetracyclines antibiotics (TCs) pose notable environmental challenges due to their persistence in the effluent of wastewater treatment systems. Bioaugmentation offers a promising strategy for their removal, yet information is still very limited. This study aimed to assess the efficacy of bioaugmentation using wild-type (Sphingobacterium sp. WM1) and engineered tetX-carrying (PUC-tetX) strains for enhancing tetracycline (TC) removal in sequencing batch reactors (SBRs). Bioaugmentation mitigated TC's inhibitory effects on denitrification and phosphorus removal processes within SBR systems. Specifically, strain WM1 outperformed strain PUC-tetX in removing TC from sludge and maintained a longer viability. TC addition (500 μg/L, at an environmentally relevant concentration) and bioaugmentation did not significantly impact overall microbial community diversity. Notably, the introduction of these exogenous bacteria markedly increased the abundance of the tetX gene, correlating with the increase in TC degradation. Interestingly, MAGs associated with the Chloroflexi phylum in bioaugmented reactors showed the transfer of the tetX gene to autochthonous bacterial species, promoting TC removal capability. These findings underscored the potential of bioaugmentation to enhance antibiotic removal and provided insights into the dynamics of ARGs and tetX gene within activated sludge systems.

Effect of mineral additives and ammonia-oxidizing bacteria additions on physicochemical properties, nitrogen retention and microbial dynamics during vermicomposting of chicken manure and green waste

Vermicomposting is an effective technology to transform organic wastes into organic fertilizers. However, a large amount of nitrogen will be lost through ammonia (NH3) volatilization during verimicomposting. Herein, we investigated the effects of mineral additives (diatomite, zeolite) and exogenous ammonia-oxidizing bacteria (AOB) (Nitrosomonas europaea, Nitrosospira multiformis) added individually or combinedly on the physicochemical changes, the conversion of nitrogen, and the resident microbial community succession during chicken manure and green waste co-vermicomposting. The results showed that the combined addition of AOB and mineral additives significantly improved vermicompost quality and maturity in terms of humus, carbon/nitrogen ratio, humic acid/fulvic acid ratio and germination index. Compared with the control, jointly adding AOB and mineral additives reduced NH3 emissions by 65.72∼71.05 %, accelerated the conversion of NH4+-N to NO3−-N, increased total nitrogen content by 23.22∼25.21 %. The combination of AOB and mineral additives significantly increased the activities of ammonia monooxygenase, hydroxylamine oxidase, and nitrate oxidoreductase, and enhanced the amount of AOB community. Additionally, the combined addition of AOB and mineral additives increased bacterial richness and diversity, accompanied by increased relative abundances of Luteimonas, Cellvibrio, Saccharimonadales, and Pseudomonas. These microbial shifts were correlated with enhanced lignocellulose degradation, organic phosphate mineralization, and promotion of plant growth. Moreover, vermiompost-based growing media with mineral additives and AOB can significantly promote the growth of purple cabbage as compared to the vermicompost without additives. Overall, the synergistic use of AOB and mineral additives (diatomite, zeolite) was recommended as a favorable approach for reducing nitrogen losses and improving the efficiency of chicken manure and green waste vermicomposting. This study offers a novel approach to mediate nitrogen transformation processes and reduce nitrogen loss.

Metabolic route and bacterial community changes induced by inactivation of indigenous bacteria in dark fermentation

Biohydrogen production by dark fermentation (DF) can be achieved using only indigenous bacteria from substrates or by adding an external inoculum. This study aims to provide new insights on the role of indigenous bacteria in DF process operation by investigating DF performances and microbiological aspects. DF tests are performed with only indigenous bacteria, with indigenous and exogenous bacteria and with only exogenous bacteria by inactivating indigenous bacteria by gamma irradiation. Sorghum irradiation reduces DF performances for both hydrogen (17.8 ± 12.8 versus 45.2 ± 1.7 mLH2/gVSadded) and total metabolite (0.22 ± 0.01 versus 0.30 ± 0.01 gCOD/gVSadded) yields. In contrast, no difference is observed with the organic fraction of municipal solid waste, suggesting a distinct role of indigenous bacteria for both substrates. Indigenous bacteria inactivation strongly modifies the metabolic routes and final bacterial community composition. This study proves the key role of indigenous bacteria in influencing metabolite production and bacterial composition.

Molecular characterization, spatio-temporal expression patterns of crtc2 gene and its immune roles in yellow catfish (Pelteobagrus fulvidraco)

cAMP response element binding (CREB) protein 2 (CRTC2) is a transcriptional coactivator of CREB and plays an important role in the immune system. Thus far, the physiological roles of Crtc2 in teleost are still poorly understood. In this study, the crtc2 gene was identified and characterized from yellow catfish (Pelteobagrus fulvidraco; therefore, the gene is termed as pfcrtc2), and its evolutionary and molecular characteristics as well as potential immunity-related roles were investigated. Our results showed that the open reading frame of pfcrtc2 was 2346 bp in length, encoding a protein with 781 amino acids. Gene structure analysis revealed its existence of 14 exons and 13 introns. A phylogenetic analysis proved that the tree of crtc2 was clustered into five groups, exhibiting a similar evolutionary topology with species evolution. Multiple protein sequences alignment demonstrated high conservation of the crtc2 in various vertebrates with similar structure. Syntenic and gene structural comparisons further established that crtc2 was highly conserved, implying its similar roles in diverse vertebrates. Tissue distribution pattern detected by quantitative real-time PCR showed that the pfcrtc2 gene was almost expressed in all detected tissues except for eyes, with the highest expression levels in the gonad, indicating that Crtc2 may play important roles in various tissues. In addition, pfcrtc2 was transcribed at all developmental stages in yellow catfish, showing the highest expression levels at 12 h after fertilization. Finally, the transcriptional profiles of crtc2 were significantly increased in yellow catfishes injected with Aeromonas hydrophila or Poly I:C, which shared a consistent change pattern with four immune-related genes including IL-17A, IL-10, MAPKp38, and NF-κBp65, suggesting pfCrtc2 may play critical roles in preventing both exogenous bacteria and virus invasion. In summary, our findings lay a solid foundation for further studies on the functions of pfcrtc2, and provide novel genetic loci for developing new strategies to control disease outbreak in teleost.

Straw Incorporation with Exogenous Degrading Bacteria (ZJW-6): An Integrated Greener Approach to Enhance Straw Degradation and Improve Rice Growth.

Rice straw is an agricultural waste, the disposal of which through open burning is an emerging challenge for ecology. Green manufacturing using straw returning provides a more avant-garde technique that is not only an effective management measure to improve soil fertility in agricultural ecosystems but also nurtures environmental stewardship by reducing waste and the carbon footprint. However, fresh straw that is returned to the field cannot be quickly decomposed, and screening microorganisms with the capacity to degrade straw and understanding their mechanism of action is an efficient approach to solve such problems. This study aimed to reveal the potential mechanism of influence exerted by exogenous degradative bacteria (ZJW-6) on the degradation of straw, growth of plants, and soil bacterial community during the process of returning rice straw to the soil. The inoculation with ZJW-6 enhanced the driving force of cellulose degradation. The acceleration of the rate of decomposition of straw releases nutrients that are easily absorbed by rice (Oryza sativa L.), providing favorable conditions for its growth and promoting its growth and development; prolongs the photosynthetic functioning period of leaves; and lays the material foundation for high yields of rice. ZJW-6 not only directly participates in cellulose degradation as degrading bacteria but also induces positive interactions between bacteria and fungi and enriches the microbial taxa that were related to straw degradation, enhancing the rate of rice straw degradation. Taken together, ZJW-6 has important biological potential and should be further studied, which will provide new insights and strategies for the appropriate treatment of rice straw. In the future, this degrading bacteria may provide a better opportunity to manage straw in an ecofriendly manner.

Effects of exogenous thermophilic bacteria and ripening agent on greenhouse gas emissions, enzyme activity and microbial community during straw composting

This research examined the impact of exogenous thermophilic bacteria and ripening agents on greenhouse gas (GHG) emission, enzyme activity, and microbial community during composting. The use of ripening agents alone resulted in a 30.9 % reduction in CO2 emissions, while the use of ripening agents and thermophilic bacteria resulted in a 50.8 % reduction in N2O emissions. Pearson’s analysis showed that organic matter and nitrate nitrogen were the key parameters affecting GHG emissions. There was an inverse correlation between CO2 and CH4 releases and methane monooxygenase α subunit and N2O reductase activity (P<0.05). Additionally, N2O emissions were positively related to β-1, 4-N-acetylglucosaminidase, and ammonia monooxygenase activity (P<0.05). Deinococcota, Chloroflexi, and Bacteroidota are closely related to CO2 and N2O emissions. Overall, adding thermophilic bacteria represents an effective strategy to mitigate GHG emissions during composting.

Impact of three exogenous phosphorus-solubilizing bacteria on zinc and selenium contents and rhizosphere soil nutrients of Longjing and Huangjinya tea plants.

Phosphate-solubilizing bacteria (PSB) enhance plant phosphorus utilization through their ability to dissolve phosphorus. To address the low utilization of nitrogen, phosphorus, potassium, zinc, and selenium by tea plants in acidic, selenium-rich soils, the study aimed to investigate the impact of exogenous PSB on soil nutrients and the absorption of zinc and selenium by tea plants. Following the inoculation of potted Longjing and Huangjinya varieties with exogenous phosphorus-solubilizing bacteria, we determined the concentrations of AN, AP, AK, Zn, and Se in their rhizosphere soil, in addition to the Zn and Se contents in their aboveground and belowground parts. The results show that after respective treatment with the three PSB, the concentration of available P in the tea plant rhizosphere soil significantly increased, with PMS08 having the most pronounced effect.After the same treatment, In the rhizosphere soil of Longjing tea plants, the AN content increased by 26.47%, 18.41%, and 7.51%, respectively, relative to the control, while the AK content decreased in the rhizosphere soil of Huangjinya tea plants. Inoculation with the three PSB resulted in a greater content of available Se in both the aboveground and belowground parts of the two tea plants. After inoculation with PMS20, the available Zn content of the belowground parts of Longjing and Huangjinya tea plants respectively decreased by 13.42% and 15.69% in comparison with the control. Additionally, after inoculating Longjing tea plants with PSt09 and Huangjinya tea plants with PMS08, the content of available Zn in their belowground parts significantly decreased by 9.22% and 35.74%, respectively. Evidently, the inoculation with the three phosphorus-solubilizing bacteria is beneficial for the uptake of available P by tea plants, promoting the utilization and accumulation of available Se. However, the content of AN or AK in rhizosphere soil varies between different tea plant varieties inoculated with the same kind of phosphorus-solubilizing bacteria. Moreover, the content of available Zn in tea plants also differs, highlighting the need to further investigate the differential effects of phosphorus-solubilizing bacteria on different plant varieties.

Bioremediation experiments and dynamic model of petroleum hydrocarbon contaminated soil

Clarifying the occurrence and morphological characteristics of petroleum hydrocarbons (PHs) in soil can facilitate a comprehensive understanding of their migration and transformation patterns in soil/sediment. Additionally, by establishing the dynamic transformation process of each occurrence state, the ecological impact and environmental risk associated with PHs in soil/sediment can be assessed more precisely. The adsorption experiments and closed static incubation experiments was carried out to explore the PHs degradation and fraction distribution in aged contaminated soil under two remediation scenarios of natural attenuation (NA) and bioaugmentation (BA) by exogenous bacteria through a new sequential extraction method based on Tenax-TA, Hydroxypropyl-β-cyclodextrin and Rhamnolipid (HPCD/RL), accelerated solvent extractor (ASE) unit and alkaline hydrolysis extraction. The adsorption experiment results illustrated that bioaugmentation could promote the desorption of PHs in the adsorption phase, and the soil-water partition coefficient Kd decreased from 0.153 L/g to 0.092 L/g. The incubation experiment results showed that compared with natural attenuation, bioaugmentation could improve the utilization of PHs in aged soil and promote the generation of non-extractable hydrocarbons. On the 90th day of the experiment, the concentrations of weakly adsorbed hydrocarbons in the natural attenuation and bioaugmentation experimental groups decreased by 46.44% and 87.07%, respectively, while the concentrations of strongly adsorbed hydrocarbons and non-extractable hydrocarbons increased by 77.93%, 182.14%, and 80.91%, and 501.19%, respectively, compared their initial values. We developed a novel dynamic model and inverted the kinetic parameters of the model by the parameter scanning function and the Markov Chain Monte Carlo (MCMC) method based on the Bayesian approach in COMSOL Multiphysics® finite element software combined with experimental data. There was a good linear relationship between experimental interpolation data and model prediction data. The R2 for the concentrations of weakly adsorbed hydrocarbons ranged from 0.9953 to 0.9974, for strongly adsorbed hydrocarbons from 0.9063 to 0.9756, and for non-extractable hydrocarbons from 0.9931 to 0.9982. These extremely high correlation coefficients demonstrate the high accuracy of the parameters calculated using the Bayesian inversion method.

Transgenic Arabidopsis thaliana plants expressing bacterial γ-hexachlorocyclohexane dehydrochlorinase LinA

Backgroundγ-Hexachlorocyclohexane (γ-HCH), an organochlorine insecticide of anthropogenic origin, is a persistent organic pollutant (POP) that causes environmental pollution concerns worldwide. Although many γ-HCH-degrading bacterial strains are available, inoculating them directly into γ-HCH-contaminated soil is ineffective because of the low survival rate of the exogenous bacteria. Another strategy for the bioremediation of γ-HCH involves the use of transgenic plants expressing bacterial enzyme for γ-HCH degradation through phytoremediation.ResultsWe generated transgenic Arabidopsis thaliana expressing γ-HCH dehydrochlroninase LinA from bacterium Sphingobium japonicum strain UT26. Among the transgenic Arabidopsis T2 lines, we obtained one line (A5) that expressed and accumulated LinA well. The A5-derived T3 plants showed higher tolerance to γ-HCH than the non-transformant control plants, indicating that γ-HCH is toxic for Arabidopsis thaliana and that this effect is relieved by LinA expression. The crude extract of the A5 plants showed γ-HCH degradation activity, and metabolites of γ-HCH produced by the LinA reaction were detected in the assay solution, indicating that the A5 plants accumulated the active LinA protein. In some A5 lines, the whole plant absorbed and degraded more than 99% of γ-HCH (10 ppm) in the liquid medium within 36 h.ConclusionThe transgenic Arabidopsis expressing active LinA absorbed and degraded γ-HCH in the liquid medium, indicating the high potential of LinA-expressing transgenic plants for the phytoremediation of environmental γ-HCH. This study marks a crucial step toward the practical use of transgenic plants for the phytoremediation of POPs.

Enhanced aquaculture wastewater treatment using water spinach (Ipomoea aquatica Forsskal) and exogenous compound bacteria

Bioremediation technology has been widely recognized as a sustainable treatment method for purifying aquaculture wastewater. We established two types of ecological floating beds, one with water spinach (WS) only and another with water spinach combined with exogenous compound bacteria (WS-ECB) for the treatment of the Pacific white shrimp aquaculture wastewater of low-salinity. The exogenous compound bacteria used in this study was composed of Rhodopseudomonas palustris and Bacillus subtilis in a certain proportion. Microbial community dynamics were analyzed by using high-throughput sequencing of 16S rRNA and water quality was determined. Both two treatments were effective in the remediation of aquaculture wastewater. The removal efficiencies of CODMn, TN and TP in the WS group were 34.33 %, 66.54 % and 73.01 %, respectively, and the removal efficiency of NH4+ in the WS-ECB group was 93.79 %. Furthermore, the addition of water spinach and exogenous compound bacteria increased the abundance of some bacteria that are involved in regulating water quality and altered the succession of microbial communities. The microbial communities were shaped by both stochastic processes (including limited dispersal) and deterministic processes (including environmental conditions and biotic interactions). Importantly, stochastic processes dominated the assembly of both water and rhizosphere microbial communities in different treatments, while deterministic processes contributed more to the rhizosphere microbial community in the WS-ECB than in the WS. Overall, our study emphasizes that plant and microbial remediation was a potential and effective approach to remove the nutrients of water, and clarifies the bacterial community dynamics and assembly mechanisms during aquaculture wastewater treatment processes.

Mechanism of stable autotrophic nitrogen removal and NOB inhibition in low-sludge PN-Anammox system under non-temperature control and low ammonia environment

PN/Anammox, as an economical and effective nitrogen removal process, is of great significance for reducing carbon emission in municipal wastewater treatment. However, municipal wastewater has mainstream characterized of low temperature and low NH4+-N concentration, and NOB activity is difficult to inhibit, so achieving a stable PN process is the biggest challenge in the application of PN/Anammox to mainstream wastewater. This study developed a method for stable and efficient PN/Anammox based on very low sludge volume (MLVSS = 65 mg/L). Even when the temperature dropped to 15℃ or there was exogenous nitrite-oxidizing bacteria (NOB) interference, the system still had good inhibition of NOB activity. The total stable operation time was 386 days, and the NO2–-N accumulation efficiency could reach more than 90 %. Ellin6067, Nitrosomonas and Candidatus_Brocadia were the dominant functional microorganisms in the system. Nitrospira was the dominant genera of NOB with very low relative abundance (<0.04 %). The mechanism of the long-term stable mainstream PN/Anammox system showed that low sludge content was beneficial to light irradiation on microorganisms in the reactor, while nxrA, the functional gene of NOB, had weak light resistance and oxidation resistance, which makes the system had strong inhibition effect on NOB. The construction of this new system which does not depend on activated sludge volume and complex NOB activity inhibition strategy can better promote the practical application of PN/Anammox under mainstream conditions.

Role of endogenous soil microorganisms in controlling antimicrobial resistance after the exposure to treated wastewater

The reuse of treated wastewater (TWW) for irrigation appears to be a relevant solution to the challenges of growing water demand and scarcity. However, TWW contains not only micro-pollutants including pharmaceutical residues but also antibiotic resistant bacteria. The reuse of TWW could contribute to the dissemination of antimicrobial resistance in the environment. The purpose of this study was to assess if exogenous bacteria from irrigation waters (TWW or tap water-TP) affect endogenous soil microbial communities (from 2 soils with distinct irrigation history) and key antibiotic resistance gene sul1 and mobile genetic elements intl1 and IS613. Experiments were conducted in microcosms, irrigated in one-shot, and monitored for three months. Results showed that TP or TWW exposure induced a dynamic response of soil microbial communities but with no significant increase of resistance and mobile gene abundances. However, no significant differences were observed between the two water types in the current experimental design. Despite this, the 16S rDNA analysis of the two soils irrigated for two years either with tap water or TWW resulted in soil microbial community differentiation and the identification of biomarkers from Xanthomonadaceae and Planctomycetes families for soils irrigated with TWW. Low-diversity soils were more sensitive to the addition of TWW. Indeed, TWW exposure stimulated the growth of bacterial genera known to be pathogenic, correlating with a sharp increase in the copy number of selected resistance genes (up to 3 logs). These low-diversity soils could thus enable the establishment of exogenous bacteria from TWW which was not observed with native soils. In particular, the emergence of Planctomyces, previously suggested as a biomarker of soil irrigated by TWW, was here demonstrated. Finally, this study showed that water input frequency, initial soil microbial diversity and soil history drive changes within soil endogenous communities and the antibiotic resistance gene pool.

Spread of plasmids carrying antibiotic resistance genes in soil-lettuce-snail food chain.

Fertilization can change the composition of antibiotic resistance genes(ARGs) and their host bacteria in agricultural fields, while complex microbial activities help ARGs into crops and transmit them to humans through agricultural products.Therefore, this study constructed a farmland food chain with soil-lettuce-snail as a typical structure, added genetically engineered Pseudomonas fluorescens containing multidrug-resistant plasmid RP4 to track its spread in the farmland food chain, and used different fertilization methods to explore its influence on the spread and diffusion of ARGs and intl1 in the farmland food chain. It was found that exogenous Pseudomonas can enter plants from soil and pass into snails' intestines, and there is horizontal gene transfer phenomenon of RP4 plasmid in bacteria. At different interfaces of the constructed food chain, the addition of exogenous drug-resistant bacteria had different effects on the total abundance of ARGs and intl1. Fertilization, especially manure, not only promoted the spread of Pseudomonas aeruginosa and the transfer of RP4 plasmid levels, but also significantly increased the total abundance of ARGs and intl1 at all interfaces of the constructed food chain. The main ARGs host bacteria in the constructed food chain include Proteobacteria, Bacteroides, and Firmicutes, while Flavobacterium of Bacteroides is the unique potential host bacteria of RP4 plasmid. In conclusion, this study provides a reference for the risk assessment of ARGs transmitted to the human body through the food chain, and has important practical significance to reduce the antibiotic resistance contamination of agricultural products and ensure the safety of vegetable basket.

Simulation of microbial transport and petroleum hydrocarbon compound biodegradation in a fracture–matrix coupled system

In-situ bioremediation technology is considered an ideal and environment-friendly approach for the largescale treatment of petroleum-contaminated soil. Most earlier studies on bioremediation have focused on the biostimulation techniques, which can enhance the biodegradation capabilities of indigenous bacteria, rather than on bioaugmentation involving the introduction of exogenous microorganisms. Additionally, contaminated soil sites typically contain both natural and artificial fractures. These fractures serve as preferential transport pathways, complicating the transport of bacteria and related solutes. This study proposes a mathematical model to simulate the transport of exogenous bacteria and electron acceptors during the degradation of petroleum hydrocarbon pollutants in a fractured aquifer system. The model incorporates the processes such as microbial convection, diffusion, adsorption, chemotaxis, growth, death, and microbial metabolic reactions. Simulation results demonstrate that considering microbial transport significantly affects the prediction of contaminant degradation, particularly with regard to the transport of electron acceptors. The growth rate of bacteria has an evident effect on the efficiency of contaminant remediation, and microbial chemotaxis can significantly enhance the degradation efficiency. The proposed mathematical model serves as a valuable tool for assessing the effectiveness of bioaugmentation strategies and can aid in the design and optimization of remediation efforts for contaminated and fractured aquifers.

Immune-phenotyping and transcriptomic profiling of blood monocytes from patients with breast cancer under neoadjuvant chemotherapy

Introduction. Chemotherapy is a common treatment for breast cancer. Chemotherapeutic drugs effect blood monocytes, which are major contributors to cancer pathogenesis. However, to date, pro-tumor or anti-tumor programming by chemotherapy of monocytes is controversial.Aim. To characterize changes in phenotypic and transcriptomic profiles of monocytes of breast cancer patients before and after chemotherapeutic treatment.Materials and methods. In a cohort of 50 breast cancer patients, monocyte populations were identified based on their expression of CD14, CD16, CD163, and HLA-DR evaluated by flow cytometry before and after neoadjuvant chemotherapy. Bulk RNA sequencing was adopted to explore the transcriptomic profile of CD14+ monocytes before and after treatment. After treatment, we observed an increase in the activity of signaling pathways related to lipid metabolism and intracellular transport of vesicles from the endoplasmic reticulum, against the background of a decreased response to exposure to interferon γ and interferon α, and foreign molecules (exogenous nucleic acids, viruses and bacteria).Results. In breast cancer patients, neoadjuvant chemotherapy decreased in CD14+16+HLA-DR+ monocytes. Under cytostatic treatment, increased gene expression of MGLL, NR4A2, UCK1, YOD1, ABCA2, PAPSS2, ATP10 (log2FoldChange ≥0.8; false discovery rate (FDR) ≤0.01) and decreased gene expression of KPNA2, ERCC4, JAGN1, RUBCNL, SMYD4, B3GALT4 (log2FoldChange ≥0.8; FDR ≤0.01) were observed in monocytes of patients. Using discriminant analysis, the relative numbers of CD14+16–, CD14+16+, CD14-16+, CD14+16-HLA-DR+, CD14+16+HLA-DR+ and CD14–16+HLA-DR+ monocytes in the blood were found to be valuable in predicting response to neoadjuvant chemotherapy.Conclusion. Thus, association of blood monocytes with chemotherapeutic treatment in breast cancer was revealed.

Exogenous compound bacteria enhance the nutrient removal efficiency of integrated bioremediation systems: Functional genes and microorganisms play key roles

With the continuous development of intensive mariculture, the application of the integrated bioremediation system of aquaculture wastewater (IBSAW) is increasingly promoted. However, the process and nutrients removal performance of the IBSAW need to be further optimized due to its immature technologies. In this study, exogenous compound bacteria (ECB) were added to IBSAW to investigate its pollutants removal efficiency and the relevant mechanisms. High-throughput sequencing and Geochip gene array were used to analyze the correlation between nutrients and bacteria, and the abundance of N and P cycling genes were quantified. Multivariable statistics, dimensionality reduction analysis, and network analysis were applied to explore the mechanisms of IBSAW operation. The results showed that the nutrients decreased significantly after adding ECB, with the brush treatment group significantly outperforming the ceramsite in removing NO3− and PO43−. Ceramsite has an advantage in removing NO2−-N. The addition of ECB and different substrates significantly affected the composition of bacterial communities. The contents of nosZ and nirKS related to denitrification in the treatment groups were significantly higher than those in the control group, and the contents in the brush treatment group were significantly higher than that of ceramsite. The biomarkers Psychroserpens and Ruegeria on the biofilm of the brush treatment group were positively correlated with nirKS, while Mycobacterium, Erythrobacter and Paracoccus, Pseudohaliea in the ceramsite group were positively correlated with nirS and nirK, respectively. Therefore, it is speculated that the ECB significantly promoted the increase of denitrification bacteria by affecting the composition of bacterial communities, and the ECB combined with functional genera improved the efficiency of nutrients removal in the system. This study provided a reference for understanding the process and mechanism of nutrients removal, optimizing the wastewater purification technology of the IBSAW and improving the performance of the system.

Treatment efficiency and microbial community analysis in the integrated bioremediation system of aquaculture wastewater with the ceramsite and compound bacteria

The integrated bioremediation systems (IBSs) are becoming increasingly widespread to treat aquaculture wastewater. However, there is still significant room for the improvement of technological processes of the IBS. In this study, exogenous compound bacteria (ECB) were added to the system and combined with ceramsite to treat wastewater. The changes in bacterial communities within the system were analyzed through high-throughput sequencing and multivariable statistics, and the dynamic changes in bacterial communities within the system was visualized. The results showed that ECB significantly increased the diversity and affected the assembly of the bacterial communities in the water and biofilm, forming three succession stages. The ECB promoted the increase of denitrifying bacteria which play a key role in the ecological function of the system. Sedimentitalea and Paracoccus were the biomarkers of the water and biofilms in the treatment group, and were significantly positively correlated with the denitrification process. The overall nutrients removal efficiency of the treatment group exceeded 80%. And the removal efficiency of TN, NH4+-N, NO3−-N, NO2−-N, and PO43--P in the treatment group were significantly higher than those in the control group, which indicated the ECB led to a significant improvement in purification effectiveness. The significant influence of the ECB on the IBS provided a preliminary theoretical basis for improving the system process, enhancing nutrient removal performance, and exploring system working mechanisms.

New insights into bioaugmented removal of sulfamethoxazole in sediment microcosms: degradation efficiency, ecological risk and microbial mechanisms

BackgroundBioaugmentation has the potential to enhance the ability of ecological technology to treat sulfonamide-containing wastewater, but the low viability of the exogenous degraders limits their practical application. Understanding the mechanism is important to enhance and optimize performance of the bioaugmentation, which requires a multifaceted analysis of the microbial communities. Here, DNA-stable isotope probing (DNA-SIP) and metagenomic analysis were conducted to decipher the bioaugmentation mechanisms in stabilization pond sediment microcosms inoculated with sulfamethoxazole (SMX)-degrading bacteria (Pseudomonas sp. M2 or Paenarthrobacter sp. R1).ResultsThe bioaugmentation with both strains M2 and R1, especially strain R1, significantly improved the biodegradation rate of SMX, and its biodegradation capacity was sustainable within a certain cycle (subjected to three repeated SMX additions). The removal strategy using exogenous degrading bacteria also significantly abated the accumulation and transmission risk of antibiotic resistance genes (ARGs). Strain M2 inoculation significantly lowered bacterial diversity and altered the sediment bacterial community, while strain R1 inoculation had a slight effect on the bacterial community and was closely associated with indigenous microorganisms. Paenarthrobacter was identified as the primary SMX-assimilating bacteria in both bioaugmentation systems based on DNA-SIP analysis. Combining genomic information with pure culture evidence, strain R1 enhanced SMX removal by directly participating in SMX degradation, while strain M2 did it by both participating in SMX degradation and stimulating SMX-degrading activity of indigenous microorganisms (Paenarthrobacter) in the community.ConclusionsOur findings demonstrate that bioaugmentation using SMX-degrading bacteria was a feasible strategy for SMX clean-up in terms of the degradation efficiency of SMX, the risk of ARG transmission, as well as the impact on the bacterial community, and the advantage of bioaugmentation with Paenarthrobacter sp. R1 was also highlighted.8sNhd6qoUNMdHWMUGzd-tFVideo