Convergent evolution in bacteria from multiple origins under antibiotic and heavy metal stress, and endophytic conditions of host plant

Unveiling the ecological landscape of bacterial β-lactam resistance in Delhi-national capital region, India: An emerging health concern

Inappropriate antibiotic use not only amplifies the threat of antimicrobial resistance (AMR), moreover exacerbates the spread of resistant bacterial strains and genes in the environment, underscoring the critical need for effective research and interventions. Our aim is to assess the prevalence and resistance characteristics of β-lactam resistant bacteria (BLRB) and β-lactamase resistant bacterial genes (BLRBGs) under various environmental conditions within Delhi NCR, India. Using a culture-dependent method, we isolated 130 BLRB from 75 different environmental samples, including lakes, ponds, the Yamuna River, agricultural soil, aquatic weeds, drains, dumping yards, STPs, and gaushalas. Tests for antibiotic susceptibility were conducted in addition to phenotypic and genotypic identification of BLs and integron genes. The water and sediment samples recorded an average bacterial abundance of 3.6 × 106 CFU/mL and an average ampicillin-resistant bacterial count of 2.2 × 106 CFU/mL, which can be considered a potent reservoir of BLRB and BLRBGs. The majority of the BLRB discovered are opportunistic pathogens from the Bacillus, Aeromonas, Pseudomonas, Enterobacter, Escherichia, and Klebsiella genera, with Multiple Antibiotic Resistance (MAR) index ≥0.2 against a wide variety of β-lactams and β-lactamase (BLs) inhibitor combinations. The antibiotic resistance pattern was similar in the case of bacteria isolated from STPs. Meanwhile, bacteria isolated from other sources were diverse in their antibiotic resistance profile. Interestingly, we discovered that 10 isolates of various origins produce both Extended Spectrum BLs and Metallo BLs, as well as found harboring blaTEM, blaCTX, blaOXA, blaSHV, int-1, and int-3 genes. Enterobacter cloacae (S50/A), a common nosocomial pathogen isolated from Yamuna River sediment samples at Nizamuddin point, possesses three BLRBGs (blaTEM, blaCTX, and blaOXA) and a MAR index of 1.0, which is a major cause for concern. Therefore, identifying the source, origin and dissemination of BLRB and BLRGs in the environment is of the utmost importance for designing effective mitigation approaches to reduce a load of antimicrobial resistance factors in the environmental settings.

The role of microbial partners in heavy metal metabolism in plants: a review

Heavy metal pollution threatens plant growth and development as well as ecological stability. Here, we synthesize current research on the interplay between plants and their microbial symbionts under heavy metal stress, highlighting the mechanisms employed by microbes to enhance plant tolerance and resilience. Several key strategies such as bioavailability alteration, chelation, detoxification, induced systemic tolerance, horizontal gene transfer, and methylation and demethylation, are examined, alongside the genetic and molecular basis governing these plant-microbe interactions. However, the complexity of plant-microbe interactions, coupled with our limited understanding of the associated mechanisms, presents challenges in their practical application. Thus, this review underscores the necessity of a more detailed understanding of how plants and microbes interact and the importance of using a combined approach from different scientific fields to maximize the benefits of these microbial processes. By advancing our knowledge of plant-microbe synergies in the metabolism of heavy metals, we can develop more effective bioremediation strategies to combat the contamination of soil by heavy metals.

A systematic review of antibiotic resistance driven by metal-based nanoparticles: Mechanisms and a call for risk mitigation

Elevations in antibiotic resistance genes (ARGs) are due not only to the antibiotic burden, but also to numerous environmental pressures (e.g., pesticides, metal ions, or psychotropic pharmaceuticals), which have led to an international public health emergency. Metal-based nanoparticles (MNPs) poison bacteria while propelling nanoresistance at ambient or sub-lethal concentrations, acting as a wide spectrum germicidal agent. Awareness of MNPs driven antibiotic resistance has created a surge of investigation into the molecule mechanisms of evolving and spreading environmental antibiotic resistome. Co-occurrence of MNPs resistance and antibiotic resistance emerge in environmental pathogens and benign microbes may entail a crucial outcome for human health. In this review we expound on the systematic mechanism of ARGs proliferation under the stress of MNPs, including reactive oxygen species (ROS) induced mutation, horizontal gene transfer (HGT) relevant genes regulation, nano-property, quorum sensing, and biofilm formation and highlighting on the momentous contribution of nanoparticle released ion. As antibiotic resistance pattern alteration is closely knit with the mediate activation of nanoparticle in water, soil, manure, or sludge habitats, we have proposed a virulence and evolution based antibiotic resistance risk assessment strategy for MNP contaminated areas and discussed practicable approaches that call for risk management in critical environmental compartments.

Cadmium levels and soil pH drive structure and function differentiation of endophytic bacterial communities in Sedum plumbizincicola: A field study

Sedum plumbizincicola is a promising hyperaccumulator for heavy metal phytoremediation. It grows in heavy metal polluted soil and stores specific endophyte resources with heavy metal tolerance or growth promotion characteristics. In this study, the endophyte communities of S. plumbizincicola, growing naturally in the field (two former mining locations and one natural location) were investigated, and their structure and function were comparatively studied. The bioaccumulation and translocation characteristics of cadmium (Cd) and selenium (Se) in S. plumbizincicola were also evaluated. The results showed that the heavy metal pollution reduced the richness and diversity of endophyte communities. Soil pH and Cd concentration could be the key factors affecting the composition of the endophyte community. Co-occurrence network analysis identified that 22 keystone taxa belonging to Actinobacteriota, Firmicutes, Myxococcota and Proteobacteria were positively correlated with Cd bioaccumulation and translocation. The predicted endophyte metabolic pathways were enriched in physiological metabolism, immune system, and genetic Information processing. These findings may help to understand how endophytes assist host plants to enhance their adaptability to harsh environments, and provide a basis for further exploration of plant-endophyte interactions and improvement in phytoremediation efficiency.

Bacterial heavy metal resistance related to environmental conditions

Contaminated water bodies such as rivers provide reservoirs for bacterial resistance. This field study tested the water quality and the bacterial resistance to heavy metals of Qishan River water pollution. Wastewater discharged to environmental surface waters is a major pathway of heavy metals and heavy metal-resistant bacteria. Contaminated water bodies such as rivers provide reservoirs for bacterial resistance. This field study tested the water quality and bacterial resistance to heavy metals of Qishan River water pollution. Guided by our research hypothesis that an overall increase in downstream heavy metal resistance levels was following an increase in human settlements were eight sites sampled along the Qishan River. These were situated upstream and downstream to the confluence of the Qishan River with the Kaoping River. In the laboratory bacterial heavy metal resistance was bio-assayed by disk diffusion and micro-dilution with six widely used heavy metals. The comparison of bacterial resistance was among Qishan River upstream sites (sites 1-6) and downstream sites (sites 7-9). Multi-drug-resistant bacteria and co-resistance against heavy metals and antibacterials appeared at site 8. This research discusses the correlation between environmental factors, and antibacterial and heavy metal resistance. The results provide stakeholders and authorities responsible for environmental pollution with a reference for risk assessment and management of bacterial resistance.

Environmental behaviors of emerging contaminants in freshwater ecosystem dominated by submerged plants: A review

Persistent exposure of emerging contaminants (ECs) in freshwater ecosystem has initiated intense global concerns. Freshwater ecosystem dominated by submerged plants (SP-FES) has been widely constructed to control eutrophic water. However, the environmental behaviors (e.g. migration, transformation, and degradation) of ECs in SP-FES have rarely been concerned and summarized. This review briefly introduced the sources of ECs, the pathways of ECs entering into SP-FES, and the constituent elements of SP-FES. And then the environmental behaviors of dissolved ECs and refractory solid ECs in SP-FES were comprehensively summarized, and the feasibility of removing ECs from SP-FES was critically evaluated. Finally, the challenges and perspectives on the future development for ECs removal from SP-FES were prospected, giving possible research gaps and key directions. This review will provide theoretical and technical support for the effective removal of ECs in freshwater ecosystem, especially in SP-FES.

New insights into the effects of antibiotics and copper on microbial community diversity and carbon source utilization

Residual antibiotics (ABs) and heavy metals (HMs) are continuously released from soil, reflecting their intensive use and contamination of water and soil, posing an environmental problem of great concern. Relatively few studies exist of the functional diversity of soil microorganisms under the combined action of ABs and HMs. To address this deficiency, BIOLOG ECO microplates and the Integrated Biological Responses version 2 (IBRv2) method were used to comprehensively explore the effects of single and combined actions of copper (Cu) and enrofloxacin (ENR), oxytetracycline (OTC), and sulfadimidine (SM2) on the soil microbial community. The results showed that the high concentration (0.80 mmol/kg) compound group had a significant effect on average well color development (AWCD) and OTC showed a dose-response relationship. The results of IBRv2 analysis showed that the single treatment group of ENR or SM2 had a significant effect on soil microbial communities, and the IBRv2 of E1 was 5.432. Microbes under ENR, SM2, and Cu stress had more types of available carbon sources, and all treatment groups were significantly more enriched with microorganisms having D-mannitol and L-asparagine as carbon sources. This study confirms that the combined effects of ABs and HMs can inhibit or promote the function of soil microbial communities. In addition, this paper will provide new insights into IBRv2 as an effective method to evaluate the impacts of contaminants on soil health.

Selective pressure governs the composition, antibiotic, and heavy metal resistance profiles of Aeromonas spp. isolated from Ba River in Northwest China

The selective pressure of the living surroundings is a key factor in the development of resistance profiles in pathogenic bacteria such as Aeromonas spp. In this study, Aeromonas species were isolated from the Ba River, and their composition, resistance profiles to antibiotics, and heavy metals (HMs) were investigated. The discovery revealed that selective pressure altered the diversity of Aeromonas spp., with Aeromonas veronii being more adaptable to contaminated waters. Long-term exposure to antibiotics or HMs exerts persistent selective pressure on Aeromonas species, leading to the increase in multiple antibiotic resistance (MAR) index and multidrug-resistant (MDR) strains. Furthermore, HMs could drive the co-selection of antibiotic resistance via co-resistance or cross-resistance. bla_TEM, bla_SHV, bla_CTX-M, sul1, czcA, mexA, and mexF were detected at high frequencies in Aeromonas species. Among these resistance phenotypes conferred genes, bla_TEM may be intrinsic in the genome of Aeromonas spp., while mexA and mexF may have been acquired from surrounding environments owing to selective pressure. Resistance genes evolved as a consequence of selective pressure and have been shown to be positively correlated with their prevalence. Our study suggests that the selective pressure of living surroundings significantly contributes to the composition and resistance profiles of Aeromonas spp. in the riverine ecosystem.

Multiple Antimicrobial Resistance and Heavy Metal Tolerance of Biofilm-Producing Bacteria Isolated from Dairy and Non-Dairy Food Products

Foodborne pathogens have acquired the ability to produce biofilms to survive in hostile environments. This study evaluated biofilm formation, antimicrobial resistance (AMR), and heavy metal tolerance of bacteria isolated from dairy and non-dairy food products. We aseptically collected and processed 200 dairy and non-dairy food specimens in peptone broth, incubated them overnight at 37 °C, and sub-cultured them on various culture media. Bacterial growth was identified with biochemical tests and API 20E and 20NE strips. The AMR of the isolates was observed against different antibacterial drug classes. Biofilm formation was detected with the crystal violet tube method. Heavy metal salts were used at concentrations of 250−1500 µg/100 mL to observe heavy metal tolerance. We isolated 180 (50.4%) bacteria from dairy and 177 (49.6%) from non-dairy food samples. The average colony-forming unit (CFU) count for dairy and non-dairy samples was 2.9 ± 0.9 log CFU/mL and 5.1 ± 0.3 log CFU/mL, respectively. Corynebacterium kutscheri (n = 74), lactobacilli (n = 73), and Staphylococcus aureus (n = 56) were the predominant Gram-positive and Shigella (n = 10) the predominant Gram-negative bacteria isolated. The correlation between biofilm formation and AMR was significant (p < 0.05) for most cephalosporins, aminoglycosides, and fluoroquinolones. Heavy metal tolerance tended to be higher in biofilm producers at different metal concentrations. The pathogens isolated from dairy and non-dairy food showed a high burden of AMR, high propensity for biofilm formation, and heavy metal tolerance, and pose an imminent threat to public health.

The positive effects of arbuscular mycorrhizal fungi inoculation and/or additional aeration on the purification efficiency of combined heavy metals in vertical flow constructed wetlands

Inoculation with arbuscular mycorrhizal fungi (AMF) and additional aeration (AA), as two approaches to improve the functioning of treatment wetlands, can further promote the capacity of wetlands to purify pollutants. The extent to which, and mechanisms by which, AMF and AA purify wetlands polluted by combined heavy metals (HMs) are not well understood. In this study, the effects and mechanisms of AMF and/or AA on combined HMs removal in vertical flow constructed wetlands (VFCWs) with the Phragmites australis (reeds) were investigated at different HMs concentrations. The results showed that (1) AA improved the AMF colonization in VFCWs and AMF accumulated the combined HMs in their structures; (2) AMF inoculation and/or AA significantly promoted the reeds growth and antioxidant enzymes activities, thereby alleviating oxidative stress; (3) AMF inoculation and AA significantly enhanced the removal rates of Pb, Zn, Cu, and Cd under the stress of high combined HMs concentrations comparing to the control check (CK) treatment (autoclaved AMF inoculation and no aeration), which increased by 22.72%, 30.31%, 12.64%, and 50.22%, respectively; (4) AMF inoculation and/or AA significantly promoted the combined HMs accumulation in plant roots and substrates and altered the distribution of HMs at the subcellular level. We therefore conclude that AMF inoculation and/or AA in VFCWs improves the purification of combined HM-polluted water, and the VFCWs-reeds-AMF/AA associations exhibit great potential for application in remediation of combined HM-polluted wastewater.

Development of Wash-Durable Antimicrobial Cotton Fabrics by In Situ Green Synthesis of Silver Nanoparticles and Investigation of Their Antimicrobial Efficacy against Drug-Resistant Bacteria

An environment friendly and wash-durable silver nanoparticle treatment of cotton fabrics was carried out by in situ reduction of silver nitrate using Azadirachta indica leaf extract. The wash durability of the silver nanoparticles treatment on the cotton fabric was improved by pretreating the fabrics by mercerization and by adopting hydrothermal conditions of 120 °C temperature and 15 psi pressure for the in situ synthesis. The silver nanoparticle treated fabrics were characterized using scanning electron microscopy, colorimetric analysis and inductively coupled plasma mass spectroscopy. The coating of silver nanoparticles was seen to be dense and uniform in the scanning electron micrographs of the treated fabrics. An evaluation of the antibacterial efficacy of the silver nanoparticle treated fabric against antibiotic-resistant Gram-positive and Gram-negative strains was carried out. The antibacterial efficacy was found to be the highest against Bacillus licheniformis, showing 93.3% inhibition, whereas it was moderate against Klebsiella pneumoniae (20%) and Escherichia coli (10%). The transmittance data of a UV spectrophotometer (290–400nm) was used for measuring the UV protection factor of the silver nanoparticle treated fabrics. All the silver nanoparticle treated fabrics showed good antimicrobial and UV protection activity. The treatment was also seen to be durable against repeated laundering. This paper contributes the first report on a novel green synthesis approach integrating mercerization of cotton fabrics and in situ synthesis of nanoparticles under hydrothermal conditions using Azadirachta indica leaf extract for improved wash durability of the multifunctional fabric.

Nitrogen Regulates the Distribution of Antibiotic Resistance Genes in the Soil-Vegetable System

The increasing antibiotic resistance genes (ARGs) in fertilizer-amended soils can potentially enter food chains through their transfer in a soil-vegetable system, thus, posing threats to human health. As nitrogen is an essential nutrient in agricultural production, the effect of nitrogen (in the forms NH₄ ⁺-N and NO₃ ^--N) on the distribution of ARGs (blaTEM-1, sul1, cmlA, str, and tetO) and a mobile genetic element (MGE; tnpA-4) in a soil-Chinese cabbage system was investigated. Not all the tested genes could transfer from soil to vegetable. For transferable ones (blaTEM-1, sul1, and tnpA-4), nitrogen application influenced their abundances in soil and vegetable but did not impact their distribution patterns (i.e., preference to either leaf or root tissues). For ARGs in soil, effects of nitrogen on their abundances varied over time, and the positive effect of NH₄ ⁺-N was more significant than that of NO₃ ^--N. The ARG accumulation to vegetables was affected by nitrogen application, and the nitrogen form was no longer a key influencing factor. In most cases, ARGs were found to prefer being enriched in roots, and nitrogen application may slightly affect their migration from root to leaf. The calculated estimated human intake values indicated that both children and adults could intake 10⁶-10⁷ copies of ARGs per day from Chinese cabbage consumption, and nitrogen application affected ARG intake to varying degrees. These results provided a new understanding of ARG distribution in vegetables under the agronomic measures such as nitrogen application, which may offer knowledge for healthy vegetable cultivation in future.

Insights into the relevance between bacterial endophytic communities and resistance of rice cultivars infected by Xanthomonas oryzae pv. oryzicola

Bacterial leaf streak (BLS) caused by Xanthomonas oryzae pv. oryzicola (Xoc), impacts the production of rice. However, several rice cultivars displayed resistance to Xoc in the field, but scarce information is available about the role of endophytic microbiota in disease resistance. In the present study, the endophytic bacterial communities of resistant and susceptible rice cultivars "CG2" and "IR24", respectively, were analyzed using high throughput 16S rRNA gene amplified sequencing and culture dependent method was further used for bacterial isolation. A total of 452,716 high-quality sequences representing 132 distinct OTUs (Proteobacteria, Actinobacteria, Bacteroidetes, and Firmicutes) and 46 isolates of 16 genera were explored from rice leaves infected with Xoc. Community diversity of endophytic bacteria were higher in the leaves of the resistant cultivars compared to susceptible cultivars upon Xoc infection. Strikingly, this diversity might contribute to natural defense of the resistant cultivar against pathogen. Pantoea, which is pathogen antagonist, was frequently detected in two cultivars and higher abundance were recorded in resistant cultivars. Different abundance genus includes endophytic isolates with marked antagonistic activity to Xoc. The increased proportions of antagonistic bacteria, may contribute to resistance of rice cultivar against Xoc and the Pantoea genus was recruited by Xoc infection play a key role in suppressing the development of BLS disease in rice. Taken together, this work reveals the association between endophytic bacteria and BLS resistance in rice and identification of antagonism-Xoc bacterial communities in rice.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s13205-021-02979-2.

High capacity Pb(II) adsorption characteristics onto raw- and chemically activated waste activated sludge

The Pb(II) adsorption characteristics of chemically activated waste activated sewage sludge (WAS) were compared to raw WAS. Adsorption kinetics and equilibrium isotherm parameters were fit using classic adsorption models. HCl and H₂SO₄ activation terminated any significant sludge-based adsorption. Raw and ZnCl₂ activated WAS displayed Langmuir adsorption capacities of 307 mg/g and 274 mg/g, respectively. Surface characterization revealed that chemical activation with ZnCl₂ increased the BET surface area for raw WAS from 0.97 m²/g to 1.78 m²/g, but did not significantly change the surface structure. FTIR analyzes and XPS were used to further investigate the nature of lead binding. The relationships between equilibrium ion concentration and Pb(II) adsorption suggest cationic exchange with hydrogen, calcium, and zinc as a significant mechanism of Pb(II) removal alongside electrostatic attraction. The pH_PZC was determined as 2.58 and 2.30 for ZnCl₂ activated WAS and raw WAS respectively. HNO₃ and Ca(NO₃)₂ demonstrated sufficient elution properties for WAS recovery. For authentic industrial effluent both raw and ZnCl₂ activated WAS displayed Pb(II) removal behavior comparable to simulated Pb(II) solutions. In comparison with modified and unmodified sludges from literature, this study demonstrates the auspicious potential of raw WAS as an effective Pb(II) adsorbent independent of pyrolytic or chemical activation.

The positive effects of inoculation using arbuscular mycorrhizal fungi and/or dark septate endophytes on the purification efficiency of CuO-nanoparticles-polluted wastewater in constructed wetland

The extent to which, and mechanisms by which, arbuscular mycorrhizal fungi (AMF) and dark septate endophytes (DSE) purify wetlands polluted by metallic nanoparticles (metallic NPs) are not well understood. In this study, micro-vertical flow constructed wetlands (MVFCWs) with the Phragmites australis (reeds)-AMF/DSE symbiont were used to treat CuO nanoparticles (CuO-NPs)-polluted wastewater. The results showed that (1) the removal efficiencies of chemical oxygen demand (COD), total nitrogen (TN), and CuO-NPs in three inoculated groups significantly exceeded those in the control check (CK) groups by 28.94-98.72%, 16.63-47.66%, and 0.53-19.12%, respectively; (2) inoculation with AMF and/or DSE significantly promoted the growth, nutrient content, and photosynthesis of reeds, increased the osmoregulation substance content and antioxidant enzyme activities, and decreased the malondialdehyde and reactive oxygen species contents of reeds under CuO-NPs stress; (3) higher Cu accumulation and smaller transport coefficients were found in the inoculated groups than in the CK group; (4) inoculation with AMF and/or DSE changed the subcellular structure distribution and chemical form of Cu in reeds. We therefore conclude that inoculation with AMF and/or DSE in MVFCWs improves the purification of CuO-NPs-polluted wastewater, and the MVFCW-reeds-AMF/DSE associations exhibit great potential for application in remediation of metallic-NPs-polluted wastewater.

Phenotype profiles and adaptive preference of Acinetobacter johnsonii isolated from Ba River with different environmental backgrounds

Acinetobacter johnsonii is a potentially opportunistic pathogen widely distributed in nosocomial and natural environments, but little attention has been paid to this bacillus. Here A. johnsonii strains from Ba River with different pollution levels were isolated. In this study, we found that the increasing anthropogenic contaminants accounted for the emergence of multidrug-resistant (MDR) A. johnsonii strains. Correlation analysis results showed that the resistance phenotype of strains could be generated by co-selection of heavy metals or non-corresponding antibiotics. The whole genome sequence analysis showed that the relative heavy pollution of water selects strains containing more survival-relevant genes. We found that only some genes like bla_OXA-24 were responsible for its corresponding resistance profile. Additionally, the tolerance profiles toward heavy metals also attribute to the expression of efflux pumps rather than corresponding resistance genes. In summary, our finding revealed that the resistance profiles of A. johnsonii could be generated by cross or co-selection of anthropogenic contaminants and mediated by efflux pumps instead of corresponding resistance determinants. Our study also has deep-sight into the adaptive preference of bacteria in natural environments, and contributes to surveillance studies and MDR- A. johnsonii monitoring worldwide.

Endophytic bacteria stimulate mercury phytoremediation by modulating its bioaccumulation and volatilization

The quantification, efficiency, and possible mechanisms of mercury phytoremediation by endophytic bacteria are poorly understood. Here we selected 8 out of 34 previously isolated endophytic bacterial strains with a broad resistance profile to metals and 11 antibiotics: Acinetobacter baumannii BacI43, Bacillus sp. BacI34, Enterobacter sp. BacI14, Klebsiella pneumoniae BacI20, Pantoea sp. BacI23, Pseudomonas sp. BacI7, Pseudomonas sp. BacI38, and Serratia marcescens BacI56. Except for Klebsiella pneumoniae BacI20, the other seven bacterial strains promoted maize growth on a mercury-contaminated substrate. Acinetobacter baumannii BacI43 and Bacillus sp. BacI34 increased total dry biomass by approximately 47%. The bacteria assisted mercury remediation by decreasing the metal amount in the substrate, possibly by promoting its volatilization. The plants inoculated with Serratia marcescens BacI56 and Pseudomonas sp. BacI38 increased mercury volatilization to 47.16% and 62.42%, respectively. Except for Bacillus sp. BacI34 and Pantoea sp. BacI23, the other six bacterial strains favored mercury bioaccumulation in plant tissues. Endophytic bacteria-assisted phytoremediation contributed to reduce the substrate toxicity assessed in different model organisms. The endophytic bacterial strains selected herein are potential candidates for assisted phytoremediation that shall help reduce environmental toxicity of mercury-contaminated soils.

Co-occurrence of functionally diverse bacterial community as biofilm on the root surface of Eichhornia crassipes (Mart.) Solms-Laub

The current study investigates the functional diversity of bacterial community existing as a biofilm on the root surface of water hyacinth (Eichhornia crassipes (Mart.) Solms-Laub.) grown in Yamuna river, Delhi, India. Forty-nine bacterial isolates recorded a diverse pattern of susceptibility/resistance to 23 antibiotics tested. Most of the bacterial isolates were susceptible to Ofloxacin, Ciprofloxacin, Ceftriaxone, Gentamicin, and Cefepime and resistant to Ceftazidime, Nitrofurantoin, Ampicillin, and Nalidixic acid. Isolate RB33-V recorded resistant against 11 antibiotics tested, and RB42-V was found susceptible to most of the antibiotics tested. Among the seven heavy metals tested, the highest of 39 bacteria showed resistance to zinc, and least of 9 bacteria recorded resistance against cadmium. Isolate RB20-III was susceptible to all heavy metals tested, and RB23-III was found resistance for six heavy metals tested. A higher correlation was observed with zinc and multiple antibiotic resistance, and Ceftazidime resistance was most frequently associated with all the heavy metals tested. These bacteria grow optimally under neutral-alkali conditions and susceptible to acidic conditions, and they can withstand a broad range of temperatures and salt concentrations. They are very poor in phosphate solubilization. Further, the bacteria recorded varied results for beneficial traits, hemolytic, and DNase activity. The results of bacterial characterization indicated that this bacterial community is of multi-origin in nature and are assisting the host-plant in withstanding the adverse and fluctuating conditions of the Yamuna river by reducing the toxic effect of heavy metals, antibiotics and other xenobiotics.

Culture-independent analysis of an endophytic core microbiome in two species of wheat: Triticum aestivum L. (cv. 'Hondia') and the first report of microbiota in Triticum spelta L. (cv. 'Rokosz')

The main goal of the study was to determine the structure of endophytic bacteria inhabiting different parts (endosperm, germ, roots, coleoptiles, and leaves) of two wheat species, Triticum aestivum L. (cv. 'Hondia') and Triticum spelta L. (cv. 'Rokosz'), in order to provide new knowledge about the stability and/or changeability of the core microbiome in different plant organs. The endophytic core microbiome is associated with plants throughout their whole life cycle; however, plant organs can determine the actual endophytic community. Therefore, next generation sequencing with MiSeq Illumina technology was applied to identify the endophytic microbiome of T. aestivum and T. spelta. Bioinformatic analyses were performed with the use of the DADA2(1.8) package and R software (3.5.1). It was demonstrated that wheat, which is an important crop plant, was associated with beneficial endophytic bacteria inside the endosperms, germs, roots, leaves, and coleoptiles. Importantly, for the first time, biodiversity was recognized in the coleoptiles of the investigated wheat species. Flavobacterium, Pseudomonas and Janthinobacterium were shown to be common genera for both tested wheat cultivars. Among them, Pseudomonas was found to be the only endophytic genus accompanying both wheat species from the endosperm stage to the development of the leaf. Paenibacillus was recognized as a core genus for the 'Hondia' cv., whereas Pedobacter and Duganella constituted the core microbiome in the 'Rokosz' cv. In addition, the first insight into the unique and yet unrecognized endophytic microbiome of T. spelta is presented.