Several studies have explored the utilization of soil microorganisms, to address the environmental issues associated with glyphosate use and enhance crop yields. In our investigation, screening on Agar plate and broth medium  Luria Bertani was carried out after isolating bacterial strains from rhizospheric agricultural soil in Mascara,  Algeria, to biodegrade glyphosate, following that by testing the Plant Growth-Promoting Rhizobacteria and evaluate the effects of glyphosate on these proprieties. Our findings indicate that five bacterial strains exhibited growth in the presence of glyphosate concentrations up to 25 mg/ml, beyond this concentration the strains have developed tolerance. Following a partial examination of the 16S rRNA sequences, the bacterial strains were identified as belonging to the genus of Enterobacter. After 10 days of incubation with the glyphosate, Phosphate solubilization decreased in broth and agar Pikovskaya medium and the bacterial strains synthetized less of indole-3-acetic acid compared to the control, indicating the impact of glyphosate on these outcomes, high concentration of glyphosate inhibited nitrogen fixation, and various doses of glyphosate were found to restrict the growth of biofilms in these strains. The results of HPLC examination of secondary metabolites revealed that the primary degradation products of glyphosate in all strains were Sarcosine and Glycine. So, it seemed that the strain could both biodegrade glyphosate and use it for growth ,while also possessing rhizobacteria properties that promote plant development, enabling the use of the strains in the bioremediation of glyphosate-contaminated soils.

Persistent pollution of surface waters by hydrocarbon compounds is one of the foremost threats to limited global freshwater resources. This study analyzed the abundance, diversity and degradative capacities of hydrocarbon-utilizing bacteria in chronically polluted Kono River in the Nigerian Niger Delta in order to establish the bacterial drivers of ecological regeneration of the river after an oil spill. The study further aimed to develop a specialized bacterial consortium for application in bioremediation interventions. Bacillus, Pseudomonas and Enterobacter spp. were predominant out of the 82 isolates obtained. Klebsiella pneumoniae and two species of Enterobacter cloacae were identified as the most efficient hydrocarbon utilizers. The isolates were also confirmed as biosurfactant producers and possessed the alkB1 and nahAc genes for degradation of aliphatics and aromatics. E. cloacae-K11, K. pneumoniae-K05, E. cloacae-K12 and their consortium were able to degrade the total petroleum hydrocarbons and polycyclic aromatic hydrocarbons in batch systems by 59.37% – 96.06% and 68.40% – 92.46% respectively. K. pneumoniae-K05 showed the greatest petroleum degradation capacity of the three isolates but hydrocarbon degradation was most efficient with the bacterial consortium. The results obtained showed no significant differences at p≤0.05 between the degradation capacities of K. pneumoniae-K05 and the consortium for PAHs but a significant difference (p≤0.05) was seen with TPH degradation. A viable hydrocarbon degrading bacterial consortium was developed at the end of the study and it was concluded that the polluted river water displayed inherent potential for effective natural attenuation.

Petroleum-polluted soil samples from Ahvaz oilfield were enriched, using three methods to detect microorganisms with different dibenzothiophene degradation capabilities. Strain NISOC-03, a nitrate-reducing, oxidase negative, catalase, citrate, and urease positive, gram negative rod, showed interesting dibenzothiophene desulfurization behavior, designated as Entreobacter sp. strain NISOC-03 based on phenotype and genotype analyses. Gas chromatography, biomass measurement, and Gibb’s assay showed that in the presence of benzoate as the carbon source, strain NISOC-03 utilized 64% of 0.8 mM dibenzothiophene, producing 0.27 mM phenyl phenol during the exponential growth phase, though the produced phenyl phenol was degraded in the stationary growth phase. In the presence of glucose as the carbon source, however, strain NISOC-03 metabolized only 19.6% of 0.8 mM dibenzothiophene. Furthermore, replacing glucose with ethanol or glycerol led to the same reduction of the dibenzothiophene utilization. It is thus concluded that the chemistry of the potential carbon source(s) in the culture medium has a significant influence on the quality and the rate of dibenzothiophene metablization, and the enrichment designation has a very vital effect on the biodegradation efficiency of the isolated microorganisms.

We determined the distribution and temporal variation of Carbapenem Resistant Enterobacterales (CRE), carbapenemase-encoding genes and other antibiotic resistance genes (ARGs) in a highly polluted river (Lis River; Portugal), also assessing the potential influence of water quality to this distribution. Water samples were collected in two sampling campaigns performed one year apart (2018/2019) from fifteen sites and water quality was analyzed. CRE were isolated and characterized. The abundance of four ARGs (blaNDM, blaKPC, tetA, blaCTX₋M), two Microbial Source Tracking (MST) indicators (HF183 and Pig-2-Bac) and the class 1 integrase gene (IntI1) was measured by qPCR. confirmed the poor quality of the Lis River water, particularly in sites near pig farms. A collection of 23 CRE was obtained: Klebsiella (n = 19), Enterobacter (n = 2) and Raoultella (n = 2). PFGE analysis revealed a clonal relationship between isolates obtained in different sampling years and sites. All CRE isolates exhibited multidrug resistance profiles. Klebsiella and Raoultella isolates carried blaKPC while Enterobacter harbored blaNDM. Conjugation experiments were successful for only four Klebsiella isolates. All ARGs were detected by qPCR on both sampling campaigns. An increase in ARGs and IntI1 abundances was detected in sites located downstream of wastewater treatment plants. Strong correlations were observed between blaCTX₋M, IntI1 and the human-pollution marker HF183, and also between tetA and the pig-pollution marker Pig-2-bac, suggesting that both human- and animal-derived pollution in the Lis River are a potential source of ARGs. Plus, water quality parameters related to eutrophication and land use were significantly correlated with ARGs abundances. Our findings demonstrated that the Lis River encloses high levels of antibiotic resistant bacteria and ARGs, including CRE and carbapenemase-encoding genes. Overall, this study provides a better understanding on the impacts of water pollution resulting from human and animal activities on the resistome of natural aquatic systems.

Organic contaminations and heavy metals in soils cause large harm to human and environment, which could be remedied by planting specific plants. The biochars produced by crop straws could provide substantial benefits as a soil amendment. In the present study, biochars based on wheat, corn, soybean, cotton and eggplant straws were produced. The eggplant straws based biochar (ESBC) represented higher Cd and pyrene adsorption capacity than others, which was probably owing to the higher specific surface area and total pore volume, more functional groups and excellent crystallization. And then, ESBC amendment hybrid Ryegrass (Lolium perenne L.) cultivation were investigated to remediate the Cd and pyrene co−contaminated soil. With the leaching amount of 100% (v/w, mL water/g soil) and Cd content of 16.8 mg/kg soil, dosing 3% ESBC (wt%, biochar/soil) could keep 96.2% of the Cd in the 10 cm depth soil layer where the ryegrass root could reach, and it positively help root adsorb contaminations. Compared with the single planting ryegrass, the Cd and pyrene removal efficiencies significantly increased to 22.8% and 76.9% by dosing 3% ESBC, which was mainly related with the increased plant germination of 80% and biomass of 1.29 g after 70 days culture. When the ESBC dosage increased to 5%, more free radicals were injected and the ryegrass germination and biomass decreased to 65% and 0.986 g. Furthermore, when the ESBC was added into the ryegrass culture soil, the proportion of Cd and pyrene degrading bacteria Pseudomonas and Enterobacter significantly increased to 4.46% and 3.85%, which promoted the co−contaminations removal. It is suggested that biochar amendment hybrid ryegrass cultivation would be an effective method to remediate the Cd and pyrene co−contaminated soil.

Cadmium cations (Cd²⁺) are extremely toxic to organisms, which limits the remediation of Cd by microorganisms. This study investigated the feasibility of applying biochar to protect bacteria from extreme Cd²⁺ stress (1000 mg/L). An alkaline biochar (RB) and a slightly acidic biochar (SB) were selected. SB revealed a higher Cd²⁺ removal than RB (15.5% vs. 4.8%) due to its high surface area. Addition of Enterobacter sp. induced formation of Cd phosphate and carbonate on both SB and RB surface. However, Cd²⁺ removal by RB enhanced more evidently than SB (78.9% vs. 30.2%) due to the substantial microbial regulation and surficial alkalinity. Thermogravimetric analysis (TGA), X-ray photoelectron spectroscopy (XPS) and geochemical modeling (GWB) all confirmed that the formation of stable Cd phosphate on RB was superior to that in SB. These biomineralization, together with biochar pore structure, protect bacterial cells from Cd stress. Moreover, the alkalinity of biochar promoted the formation of carbonate, which strengthened the decline of Cd²⁺ toxicity. The protection by RB was also confirmed by the intense microbial respiration and biomass (PLFA). Furthermore, this protection induced a positive feedback between P-abundant biochar and Enterobacter sp.: biochar provides P source (the most common limiting nutrient) to support microbial growth; bacteria secrete more organic acids to drive P release. This study therefore elucidated the protection of bacteria by P-enriched biochar based on both physic-chemical and microbial insights.

Roxarsone (3-nitro-4-hydroxyphenylarsonic acid, ROX) is an arsenic-containing compound widely used as a feed additive in poultry industries. ROX excreted in chicken manure can be transformed by microbes to different arsenic species in the environment. To date, most of the studies on microbial transformation of ROX have focused on anaerobic microorganisms. Here, we isolated a pure cultured aerobic ROX-transforming bacterial strain, CZ-1, from an arsenic-contaminated paddy soil. On the basis of 16S rRNA gene sequence, strain CZ-1 was classified as a member of the genus Enterobacter. During ROX biotransformation by strain CZ-1, five metabolites including arsenate (As[V]), arsenite (As[III]), N-acetyl-4-hydroxy-m-arsanilic acid (N-AHPAA), 3-amino-4-hydroxyphenylarsonic acid (3-AHPAA) and a novel sulfur-containing arsenic species (AsC₉H₁₃N₂O₆S) were detected and identified based on high-performance liquid chromatography-inductively coupled plasma mass spectrometry (HPLC-ICP-MS), HPLC-ICP-MS/electrospray ionization mass spectrometry (ESI-MS) and HPLC-electrospray ionization hybrid quadrupole time-of-flight mass spectrometry (ESI-qTOF-MS) analyses. N-AHPAA and 3-AHPAA were the main products, and 3-AHPAA could also be transformed to N-AHPAA. Based on the results, we propose a novel ROX biotransformation pathway by Enterobacter. sp CZ-1, in which the nitro group of ROX is first reduced to amino group (3-AHPAA) and then acetylated to N-AHPAA.

Biofilm-mediated bioremediation of xenobiotic pollutants is an environmental friendly biological technique. In this study, 36 out of 55 bacterial isolates developed biofilms in glass test tubes containing salt-optimized broth plus 2% glycerol (SOBG). Scanning electron microscopy, Fourier transform infrared (FTIR) spectroscopy, and Congo red- and Calcofluor binding results showed biofilm matrices contain proteins, curli, nanocellulose-rich polysaccharides, nucleic acids, lipids, and peptidoglycans. Several functional groups including –OH, N–H, C–H, CO, COO⁻, –NH₂, PO, C–O, and C–C were also predicted. By sequencing, ten novel biofilm-producing bacteria (BPB) were identified, including Exiguobacterium indicum ES31G, Kurthia gibsonii ES43G, Kluyvera cryocrescens ES45G, Cedecea lapagei ES48G, Enterobacter wuhouensis ES49G, Aeromonas caviae ES50G, Lysinibacillus sphaericus ES51G, Acinetobacter haemolyticus ES52G, Enterobacter soli ES53G, and Comamonas aquatica ES54G. The Direct Red (DR) 28 (a carcinogenic and mutagenic dye used in dyeing and biomedical processes) decolorization process was optimized in selected bacterial isolates. Under optimum conditions (SOBG medium, 75 mg L⁻¹ dye, pH 7, 28 °C, microaerophilic condition and within 72 h of incubation), five of the bacteria tested could decolorize 97.8% ± 0.56–99.7% ± 0.45 of DR 28 dye. Azoreductase and laccase enzymes responsible for biodegradation were produced under the optimum condition. UV–Vis spectral analysis revealed that the azo (−NN−) bond peak at 476 nm had almost disappeared in all of the decolorized samples. FTIR data revealed that the foremost characteristic peaks had either partly or entirely vanished or were malformed or stretched. The chemical oxygen demand decreased by 83.3–91.3% in the decolorized samples, while plant probiotic bacterial growth was indistinguishable in the biodegraded metabolites and the original dye. Furthermore, seed germination (%) was higher in the biodegraded metabolites than the parent dye. Thus, examined BPB could provide potential solutions for the bioremediation of industrial dyes in wastewater.

Arsenic (As) accumulation catastrophically disturbs the stability of agricultural systems and human health. Rice easily accumulates a high amount of As from agriculture fields as compare with other cereal crops. Hence, innovative soil remediation methods are needed to deal with the detrimental effects of As on human health causing food security challenges. Here, we report the green synthesis and characterization of magnesium oxide nanoparticles (MgO-NPs) from a native Enterobacter sp. strain RTN2, which was genetically identified through 16S rRNA gene sequence analysis. The biosynthesis of MgO-NPs in reaction mixture was confirmed by UV–vis spectral analysis. X-ray diffraction (XRD) and fourier transform-infrared spectroscopy (FTIR) analysis showed the crystalline nature and surface properties of MgO-NPs, respectively. Moreover, electron microscopy (SEM-EDS, and TEM) imaging confirmed the synthesis of spherical shape of MgO-NPs with variable NPs sizes ranging from 38 to 57 nm. The results revealed that application of MgO-NPs (200 mg kg⁻¹) in As contaminated soil significantly increased the plant biomass, antioxidant enzymatic contents, and decreased reactive oxygen species and acropetal As translocation as compared with control treatment. The study concluded that biogenic MgO-NPs could be used to formulate a potent nanofertilizer for sustainable rice production in metal contaminated soils.

Cadmium (Cd) contamination in paddy soil becomes increasingly prominent in recent years, which endangers the safe production of food crops. Cd-tolerant endophytes are ideal mediators for decreasing Cd content in rice plants, but their effects on the rice endophytic microbial community and gene expression profile have not yet been well elucidated. In this study, 58 endophytic bacteria from rice seeds were isolated and characterized. Five strains of them were selected based on their potential growth-promoting traits and strong Cd tolerance that could grow well under 4 mM Cd²⁺. By 16S ribosomal RNA (rRNA) identification, these five strains were designated as Enterobacter tabaci R2-7, Pantoea agglomerans R3-3, Stenotrophomonas maltophilia R5-5, Sphingomonas sanguinis R7-3 and Enterobacter tabaci R3-2. Pot experiments in relieving Cd stress in rice plants showed that the S. maltophilia R5-5 performed the strongest potential for reducing the Cd content in root and blade by 81.33% and 77.78%, respectively. The endophytic microbial community diversity, richness and composition were significantly altered in S. maltophilia R5-5 inoculated rice plants. Reverse-transcription qPCR (RT-qPCR) showed that the expression of Cd transporters, OsNramp5 and OsHMA2, were down-regulated in S. maltophilia R5-5-innoculated rice roots. The results indicate that the inoculation of endophytic bacteria S. maltophilia R5-5 provides a reference for alleviating the heavy metal contamination in paddy fields and can be a better alternative for guaranteeing the safe production of crops. Changes in the relative abundance of Cd-resistant microorganisms and the expression of Cd transporters might be the intrinsic factors affecting cadmium content in rice.