scispace - formally typeset
Search or ask a question

Showing papers in "Archives of Microbiology in 2020"


Journal ArticleDOI
TL;DR: The highlights of this review are inclusion of how to derive microbiome data and the interaction between human and associated microbiome to provide an insight on the role played by the microbiome in biological processes of the human body as well as the development of major human diseases.
Abstract: Human body is inhabited by vast number of microorganisms which form a complex ecological community and influence the human physiology, in the aspect of both health and diseases. These microbes show a relationship with the human immune system based on coevolution and, therefore, have a tremendous potential to contribute to the metabolic function, protection against the pathogen and in providing nutrients and energy. However, of these microbes, many carry out some functions that play a crucial role in the host physiology and may even cause diseases. The introduction of new molecular technologies such as transcriptomics, metagenomics and metabolomics has contributed to the upliftment on the findings of the microbiome linked to the humans in the recent past. These rapidly developing technologies are boosting our capacity to understand about the human body-associated microbiome and its association with the human health. The highlights of this review are inclusion of how to derive microbiome data and the interaction between human and associated microbiome to provide an insight on the role played by the microbiome in biological processes of the human body as well as the development of major human diseases.

109 citations


Journal ArticleDOI
TL;DR: Current knowledge of microbial degradation mechanism of PAHs, its genetic regulation with application of genetic engineering to construct genetically engineered microorganisms, specific catabolic enzyme activity, and application of bioremediation for reclamation ofPAH-contaminated sites are overview.
Abstract: Polyaromatic hydrocarbons (PAHs) are considered as hazardous organic priority pollutants. PAHs have immense public concern and critical environmental challenge around the globe due to their toxic, carcinogenic, and mutagenic properties, and their ubiquitous distribution, recalcitrance as well as persistence in environment. The knowledge about harmful effects of PAHs on ecosystem along with human health has resulted in an interest of researchers on degradation of these compounds. Whereas physico-chemical treatment of PAHs is cost and energy prohibitive, bioremediation i.e. degradation of PAHs using microbes is becoming an efficient and sustainable approach. Broad range of microbes including bacteria, fungi, and algae have been found to have capability to use PAHs as carbon and energy source under both aerobic and anaerobic conditions resulting in their transformation/degradation. Microbial genetic makeup containing genes encoding catabolic enzymes is responsible for PAH-degradation mechanism. The degradation capacity of microbes may be induced by exposing them to higher PAH-concentration, resulting in genetic adaptation or changes responsible for high efficiency towards removal/degradation. In last few decades, mechanism of PAH-biodegradation, catabolic gene system encoding catabolic enzymes, and genetic adaptation and regulation have been investigated in detail. This review is an attempt to overview current knowledge of microbial degradation mechanism of PAHs, its genetic regulation with application of genetic engineering to construct genetically engineered microorganisms, specific catabolic enzyme activity, and application of bioremediation for reclamation of PAH-contaminated sites. In addition, advanced molecular techniques i.e. genomic, proteomic, and metabolomic techniques are also discussed as powerful tools for elucidation of PAH-biodegradation/biotransformation mechanism in an environmental matrix.

102 citations


Journal ArticleDOI
TL;DR: In this paper, B. subtilis is an ideal multifunctional probiotic bacterium, with the capacity to solve these problems and also to increase aquaculture profitability.
Abstract: Beneficial microorganisms maintain the ecosystems, plants, animals and humans working in healthy conditions. In nature, around 95% of all microorganisms produce beneficial effects by increasing nutrients digestion and assimilation, preventing pathogens development and by improving environmental parameters. However, increase in human population and indiscriminate uses of antibiotics have been exerting a great pressure on agriculture, livestock, aquaculture, and also to the environment. This pressure has induced the decomposition of environmental parameters and the development of pathogenic strains resistant to most antibiotics. Therefore, all antibiotics have been restricted by corresponding authorities; hence, new and healthy alternatives to prevent or eliminate these pathogens need to be identified. Thus, probiotic bacteria utilization in aquaculture systems has emerged as a solution to prevent pathogens development, to enhance nutrients assimilation and to improve environmental parameters. In this sense, B. subtilis is an ideal multifunctional probiotic bacterium, with the capacity to solve these problems and also to increase aquaculture profitability.

85 citations


Journal ArticleDOI
TL;DR: Arbuscular mycorrhizal induced increment in the metal tolerance potential of plants through the alteration in various metabolic processes with special emphasis to the phenylpropanoid pathway is discussed.
Abstract: The acerbic elevation of toxic metal ions in arable lands, enhance the risk of their accumulation and biomagnification in crops as well as in humans. Phytoremediation is an eco-friendly approach to clear metal-contaminated lands by making use of metal accumulation potential of plants; which are referred to as hyperaccumulators. This phytoremediation potential can be enhanced with the symbiotic association between the root of hyperaccumulators and arbuscular mycorrhizae. Modification of root morphology, enhancement of antioxidants biosynthesis, and the increase in shoot biomass are the changes observed in plants as a result of indirect influence of arbuscular mycorrhizae. Direct influence of arbuscular mycorrhizae on enhancing metal tolerance of plants includes immobilization strategies, adsorption of metals on to the hyphal wall and glomalin exudation. Furthermore, we have discussed arbuscular mycorrhizal induced increment in the metal tolerance potential of plants through the alteration in various metabolic processes with special emphasis to the phenylpropanoid pathway.

59 citations


Journal ArticleDOI
TL;DR: The potential of AMF in C sequestration is reviewed paving the way towards a better understanding of possible AMF mechanism by which C balance between biosphere and atmosphere can be moved forward in more positive direction.
Abstract: Arbuscular mycorrhizal fungi (AMF) contribute predominantly to soil organic matter by creating a sink demand for plant C and distributing to below-ground hyphal biomass. The extra-radical hyphae along with glomalin-related soil protein significantly influence the soil carbon dynamics through their larger extent and turnover period need to discuss. The role of AMF is largely overlooked in terrestrial C cycling and climate change models despite their greater involvement in net primary productivity augmentation and further accumulation of this additional photosynthetic fixed C in the soil. However, this buffering mechanism against elevated CO2 condition to sequester extra C by AMF can be described only after considering their potential interaction with other microbes and associated mineral nutrients such as nitrogen cycling. In this article, we try to review the potential of AMF in C sequestration paving the way towards a better understanding of possible AMF mechanism by which C balance between biosphere and atmosphere can be moved forward in more positive direction.

58 citations


Journal ArticleDOI
TL;DR: It is never-ending process to identify solutions for constraints and application difficulties and further identify newer microbial inoculants for unexplored areas to ameliorate negative impacts.
Abstract: Microbial inoculants are gaining importance for attaining sustainable agricultural production systems. Nutrient supply capacity of soil is diminishing continuously owing to soil erosions, degradation, deposition of salts, undesirable elements and metals, water scarcity or excess and imbalanced nutrient supply system. Numerous complementary microbial inoculation combinations are contributing immensely in the management of plant nutrients by way of fixation, solubilization or transformation in soil. Thus, biological wastes and microbial inoculants are alternatives for nutrient demands to bridge future gaps in. A consortium of microorganisms provides enabling and congenial option to maintain their usable capacity for sufficient durations that heads to the positive impact on the microbial activity of soil for desired activities at the target sites. Increased application of agro-chemicals results in deleterious effect on biological system and dependence of future agriculture on these will lead to deterioration in soil health, threats of pollution of water bodies and cumulative effect of these is making production system highly vulnerable and unstable consequently leading to heavy load on the fiscal system. To ameliorate negative impacts, microorganisms are strongly emerging as alternatives for conserving productive capacity for sustainable productions and financial balance of economies. Microbial inoculants that have assumed definite and significant roles for their specificity and necessity and their use in various combinations have emerged as viable and sustainable options to maintain and even enrich the soil health. Since these microbial inoculants are used under varied farming situations and diverse climates with heterogeneous management skills, their efficacies under field conditions remain variable. Thus, it is never-ending process to identify solutions for constraints and application difficulties and further identify newer microbial inoculants for unexplored areas. Adequate timely and quality access of these inoculants to end users is equally important along with developing their skills to utilize these for witnessing desirable and visible impacts.

58 citations


Journal ArticleDOI
TL;DR: The association of diabetes mellitus with various types of bacterial infections and the pattern of resistance against antimicrobial agents that are frequently used for the treatment of diabetes-associated infections are focused on.
Abstract: Diabetes mellitus is associated with various types of infections notably skin, mucous membrane, soft tissue, urinary tract, respiratory tract and surgical and/or hospital-associated infections. The reason behind this frequent association with infections is an immunocompromised state of diabetic patient because uncontrolled hyperglycemia impairs overall immunity of diabetic patient via involvement of various mechanistic pathways that lead to the diabetic patient as immunocompromised. There are specific microbes that are associated with each type of infection and their presence indicates specific type of infections. For instance, E. coli and Klebsiella are the most common causative pathogens responsible for the development of urinary tract infections. Diabetic-foot infections commonly occur in diabetic patients. In this article, we have mainly focused on the association of diabetes mellitus with various types of bacterial infections and the pattern of resistance against antimicrobial agents that are frequently used for the treatment of diabetes-associated infections. Moreover, we have also summarized the possible treatment strategies against diabetes-associated infections.

57 citations


Journal ArticleDOI
TL;DR: Evidence is provided that cinnamon/clove oil combination might indeed be used as a potential source of safe and effective novel natural antibacterial, antifungal and antioxidant blend in the food and pharmaceutical industries.
Abstract: The present investigation aimed to evaluate antibacterial, antifungal and antioxidant efficacy of essential oils of three commonly used spices (black pepper, cinnamon and clove) in combination along with chemical characterization and toxicity evaluation. Among the possible combinations tested, cinnamon/clove oil combination showed synergistic antibacterial activity against foodborne bacteria Staphylococcus aureus, Listeria monocytogenes, Salmonella typhimurium and Pseudomonas aeruginosa and synergistic antifungal activity against Aspergillus niger as well as synergistic antioxidant potential in DPPH radical scavenging model system. GC–HRMS analysis revealed that out of thirteen identified components from clove oil, eugenol was found to be the main constituent of the oil; whereas out of twenty one identified constituents from cinnamon oil, the main component was cinnamaldehyde. Cinnamon/clove oil combination did not show any cytotoxic potential at recommended dosage level (IC50 > 2000 µg/ml). The results provide evidence that cinnamon/clove oil combination might indeed be used as a potential source of safe and effective novel natural antibacterial, antifungal and antioxidant blend in the food and pharmaceutical industries. To the best of our knowledge, this is the first time a combination of essential oils has been tested as natural preservatives to prevent both microbial proliferation and oxidative deterioration at sufficiently low concentrations.

56 citations


Journal ArticleDOI
TL;DR: Bacterial dysbacteriosis, characterized by a predominance of Gardnerella vaginalis alone or in complex with other anaerobic bacteria, aerobic vaginitis and other sexually transmitted vaginal pathogens, may be an HPV-dependent cofactor for cervical neoplasia development.
Abstract: Microbial changes in vaginal ecosystem may accelerate the process of cervical carcinogenesis. The developed cervical cancer can lead to changes in the vaginal microbiota. The aim of our study is to determine the vaginal microbiota changes at women with FIGO I stage cervical cancer. We conducted an open, single-site survey in the Department of Gynecology of the Military Medical Academy in Sofia, Bulgaria, from 2014 to 2019 year. The study included a total of 32 women aged 38–55 years with clinical and pathology established cervical cancer (FIGO I stage). The underlying vaginal DNA microbiological test indicated presence or absence of bacterial vaginosis, other vaginal infections or normal vaginal microbiota. Of 32 (100%) women enrolled in our study, 19 (59.4%) was with FIGO IA stage cervical cancer and 13 (40.6%) with IB stage. Disturbances of vaginal microbiota in we found at 23 (71.9%) of women with cervical cancer included in our study. At the rest of 9 (28.1%) women we found out normal vaginal microbiota. Bacterial vaginosis was determined clinically and microbiologically in 15 (46.9%) women enrolled in the study. Aerobic vaginitis caused by Streptococcus species we establish at 4 (12.5%) of women. Trichomonas vaginalis infection have 1 (3.1%) women and Candida Albicans the last one 1 (3.1%) from this group with disturbed vaginal microbial balance. Bacterial dysbacteriosis, characterized by a predominance of Gardnerella vaginalis alone or in complex with other anaerobic bacteria, aerobic vaginitis and other sexually transmitted vaginal pathogens from one side and a concomitant paucity of vaginal Lactobacillus species may be an HPV-dependent cofactor for cervical neoplasia development. Only with this single observation it is difficult to confirm that vaginal microbiota dysbiosis contributes to HPV infection and carcinogenesis.

52 citations


Journal ArticleDOI
TL;DR: UV–Vis spectroscopy results have shown that synthesized Selenium nanoparticles had broad emission peak (λmax) in the wavelength around 350 nm which demonstrated that formation of Se NPs occurred in intracellular manner.
Abstract: Selenium nanoparticles (Se NPs) were synthesized using Saccharomyces cerevisiae yeast. Influences of different amounts of sodium selenite (5.0, 10.0, 15.0, 20.0, and 25 µg) were evaluated on growth of yeast during incubation at 32 °C, during 4 days. UV–Vis spectroscopy results have shown that synthesized Se NPs had broad emission peak (λmax) in the wavelength around 350 nm which demonstrated that formation of Se NPs occurred in intracellular manner. Physico-chemical characteristics of the synthesized Se NPs using dynamic light scattering particle-size analyzer indicated that the fabricated Se NPs had particle size, polydispersity index, and zeta potential ranging from 75 to 709 nm, 0.189 to 0989, and −7.06 to −10.3 mV, respectively. Obtained results revealed that intracellular Se NPs with minimum particle size (75 nm), maximum zeta potential (−10.3 mV), and antioxidant activity (48.5%) were synthesized using minimum amount of selenium salt (5 µg). However, most uniform Se NPs were formed using maximum amount of selenium salt (25 µg). Results also indicated that by increasing amount of sodium selenite in the culture media, from 5.0 to 25 µg, antioxidant activity of the formed Se NPs decreased from 48.5 to 20.8, respectively.

49 citations


Journal ArticleDOI
TL;DR: This report provides comprehensive reviews and discusses beneficial effects of PBR on plant and soil health and proposes to call the plant growth-promoting bacteria (PGPR) as PBR.
Abstract: Plant beneficial rhizobacteria (PBR) is a group of naturally occurring rhizospheric microbes that enhance nutrient availability and induce biotic and abiotic stress tolerance through a wide array of mechanisms to enhance agricultural sustainability. Application of PBR has the potential to reduce worldwide requirement of agricultural chemicals and improve agro-ecological sustainability. The PBR exert their beneficial effects in three major ways; (1) fix atmospheric nitrogen and synthesize specific compounds to promote plant growth, (2) solubilize essential mineral nutrients in soils for plant uptake, and (3) produce antimicrobial substances and induce systemic resistance in host plants to protect them from biotic and abiotic stresses. Application of PBR as suitable inoculants appears to be a viable alternative technology to synthetic fertilizers and pesticides. Furthermore, PBR enhance nutrient and water use efficiency, influence dynamics of mineral recycling, and tolerance of plants to other environmental stresses by improving health of soils. This report provides comprehensive reviews and discusses beneficial effects of PBR on plant and soil health. Considering their multitude of functions to improve plant and soil health, we propose to call the plant growth-promoting bacteria (PGPR) as PBR.

Journal ArticleDOI
TL;DR: Soil microbes play important roles in plant growth and in the biogeochemical cycling of earth’s elements, however, the structure and functions of the microbial community associated with the growth of second-generation energy crops, such as Miscanthus, remain unclear.
Abstract: Soil microbes play important roles in plant growth and in the biogeochemical cycling of earth’s elements. However, the structure and functions of the microbial community associated with the growth of second-generation energy crops, such as Miscanthus, remain unclear. Thus, in this study, the composition and function of the bacterial and fungal communities associated with Miscanthus cultivation were analyzed by MiSeq sequencing combined with PICRUSt and FUNGUIld analyses. The results of community composition and diversity index analyses showed that Miscanthus cultivation significantly altered the bacterial and fungal community composition and reduced bacterial and fungal diversity. In addition, Miscanthus cultivation increased the soil organic matter (SOM) and total nitrogen (TN) contents. The correlation analysis between microbial community composition and environmental factors indicated that SOM and TN were the most important factors affecting bacterial and fungal communities. Miscanthus cultivation could enrich the abundances of Pseudomonas, Rhizobium, Luteibacter, Bradyrhizobium, Phenylobacterium and other common plant-promoting bacteria, while also increasing Cladophialophora, Hymenula, Magnaporthe, Mariannaea, etc., which predicted corresponded to the saprotrophic, plant pathogenic, and pathotrophic trophic modes. The PICRUSt predictive analysis indicated that Miscanthus cultivation altered the metabolic capabilities of bacterial communities, including the metabolism of carbon, nitrogen, and phosphorus cycle. In addition, FUNGUIld analysis indicated that Miscanthus cultivation altered the fungal trophic mode. The effects of Miscanthus on the communities and function of bacteria and fungi varied among Miscanthus species. Miscanthus specie Xiangdi NO 1 had the greatest impact on soil bacterial and fungal communities, whereas Miscanthus specie Wujiemang NO 1 had the greatest impact on soil bacteria and fungi functions. The results of this study provide a reference for the composition and function of microbial communities during the growth of Miscanthus.

Journal ArticleDOI
TL;DR: This article has reviewed the lowest molecular mass for l-asparaginase in Yersinia pseudotuberculosis Q66CJ2 which is 36.27 kDa, while the highest for Pseudomonas otitidis which has a molecular mass of 205 ± 3 kDa.
Abstract: l-asparaginase (E.C.3.5.1.1) is an important enzyme that has been purified and characterized for over decades to study and evaluate its anti-carcinogenic activity against different lymphoproliferative disorders such as acute lymphoblastic leukemia (ALL) and Hodgkin’s lymphoma. The ability of the enzyme to convert l-asparagine into aspartic acid and ammonia is the reason behind its anti-cancerous activity. Apart from its medicinal uses, it is widely used in food industry to tackle acrylamide, a probable human carcinogen and, production in carbohydrate-rich foods cooked at high temperatures. There are variety of organisms including microorganisms such as bacteria, fungi, algae, and plants that produce l-asparaginase. The enzyme obtained from different microbial and plant sources have different physiochemical properties and kinetic parameters. l-asparaginases have an optimum pH range between 6 and 10 and an optimum temperature between 37 and 85 °C. This article has reviewed the lowest molecular mass for l-asparaginase in Yersinia pseudotuberculosis Q66CJ2 which is 36.27 kDa, while the highest for Pseudomonas otitidis which has a molecular mass of 205 ± 3 kDa. This review is an attempt to summarize most of the available sources, their phylogenetic relationships, purification methods, data regarding different physiochemical and kinetic properties of l-asparaginase.

Journal ArticleDOI
TL;DR: It was found that the salinity affected the root and shoot length of the control plants; however, bacterial inoculant were found to effectively promote the growth of paddy under salinity stress.
Abstract: For sustainable agriculture in saline soil, extensive exploitation of salt-tolerant plant growth-promoting (PGP) bacteria and other symbiotic bacteria is required This study was carried out to evaluate the efficiency of native salt-tolerant rice rhizobacteria for plant growth promotion under salt stress A total of 188 bacteria were screened for assessing salt-tolerant capacity and nine isolates tolerating 12% NaCl (w/v) concentration were selected Biochemical and molecular identification revealed that the salt-tolerant bacteria belonged to Bacillus sp, Exiguobacterium sp, Enterobacter sp, Lysinibacillus sp, Stenotrophomonas sp, Microbacterium sp, and Achromobacter sp The increase in NaCl concentration from 2 to 4% decreases the PGP activities such as IAA production, P solubilization, K solubilization, and nitrate reduction The effects of inoculation of salt-tolerant bacteria on the growth and different physiological properties of rice (Oryza sativa) were studied It was found that the salinity affected the root and shoot length of the control plants; however, bacterial inoculant were found to effectively promote the growth of paddy under salinity stress Further, bacterial inoculants substantially enhanced total chlorophyll, proline, total phenol, and oxidative damage such as electrolyte leakage and membrane stability index under salt stress This study suggests that salt-tolerant PGP bacteria may be used for cultivation of O sativa in salinized agricultural lands

Journal ArticleDOI
TL;DR: The combined activity of Cr-tolerant and plant growth–promoting (PGP) properties of the tested strains could be exploited for bioremediation of Cr and to enhance the C. arietinum cultivation in Cr-contaminated soils.
Abstract: In this study, chromium (Cr)-tolerant bacteria were test for their efficiency in alleviating Cr stress in Cicer arietinum plants. On the basis of 16S rRNA gene analysis, the isolates were identified belonging to genus Stenotrophomonas maltophilia, Bacillus thuringiensis B. cereus, and B. subtilis. The strains produced a considerable amount of indole-3-acetic acid in a medium supplemented with tryptophan. The strains also showed siderophore production (S2VWR5 and S3VKR17), phosphorus production (S1VKR11, S3VKR2, S3VKR16, and S2VWR5), and potassium solubilization (S3VKR2, S2VWR5, and S3VKR17). Furthermore, the strains were evaluated in pot experiments to assess the growth promotion of C. arietinum in the presence of chromium salts. Bacterization improved higher root and shoot length considerably to 6.25%–60.41% and 11.3%–59.6% over the control. The plants also showed increase in their fresh weight and dry weight in response to inoculation with Cr-tolerant strains. The accumulation of Cr was higher in roots compared to shoots in both control and inoculated plants, indicating phytostabilization of Cr by C. arietinum. However, phytostabilization was found to be improved manifold in inoculated plants. Apart from the plant attributes, the amendment of soil with Cr and Cr-tolerant bacteria significantly increased the content of total chlorophyll and carotenoids, suggesting the inoculant’s role in protecting plants from deleterious effects. This work suggests that the combined activity of Cr-tolerant and plant growth–promoting (PGP) properties of the tested strains could be exploited for bioremediation of Cr and to enhance the C. arietinum cultivation in Cr-contaminated soils.

Journal ArticleDOI
TL;DR: The results revealed that in addition to biofilm inhibition, caffeine can also decrease the spreading of virulence factors from Pseudomonas aeruginosa.
Abstract: Pseudomonas aeruginosa is a potent biofilm forming organism causing several diseases on host involving biofilm. Several natural and synthetic molecules have been explored towards inhibiting the biofilm formation of Pseudomonas aeruginosa. In the current report, the role of a natural molecule namely caffeine was examined against the biofilm forming ability of P. aeruginosa. We have observed that caffeine shows substantial antimicrobial activity against P. aeruginosa wherein the minimum inhibitory concentration (MIC) of caffeine was found to be 200 μg/mL. The antibiofilm activity of caffeine was determined by performing a series of experiments using its sub-MIC concentrations (40 and 80 μg/mL). The results revealed that caffeine can significantly inhibit the biofilm development of P. aeruginosa. Caffeine has been found to interfere with the quorum sensing of P. aeruginosa by targeting the swarming motility. Molecular docking analysis further indicated that caffeine can interact with the quorum sensing proteins namely LasR and LasI. Thus, the result indicated that caffeine could inhibit the formation of biofilm by interfering with the quorum sensing of the organism. Apart from biofilm inhibition, caffeine has also been found to reduce the secretion of virulence factors from Pseudomonas aeruginosa. Taken together, the results revealed that in addition to biofilm inhibition, caffeine can also decrease the spreading of virulence factors from Pseudomonas aeruginosa.

Journal ArticleDOI
TL;DR: The plant growth and nitrogen nutrition were negatively affected by the drought, but the inoculation of different bacteria reduced some negative effects, suggesting their diazotrophic ability even under drought.
Abstract: Microbial inoculants are suitable cost-effective technology to help plants endure drought. For the development of commercial inoculants, screening of efficient plant growth-promoting bacteria (PGPB) is a crucial step. The aim of this study was to evaluate the performance of PGPB to modulate drought resistance in Sorghum bicolor. A pot experiment with sorghum was conducted to access the role of previously selected PGPB strains. In addition, two non-inoculated control treatments (with and without urea fertilization) were also evaluated. For comparison, a fully irrigated treatment (FIT) was also assessed. All plants were fully irrigated for 47 days when the water supply was completely suspended for the drought-stressed treatments. When the soil moisture was close to zero, the irrigation was resumed. During dehydration and rehydration process, the leaf gas exchange (LGE) was evaluated. The parameters of plant growth and nitrogen nutrition were assessed 8 days after reirrigation. Comparing to the FIT, all treatments reduced the LGE rates, but in the presence of Bacillus sp. ESA 402 photosynthesis rate was less reduced. Some inoculation treatments promoted better recovery of photosynthesis, comparable to the FIT, 6 days after rehydration. The plant growth and nitrogen nutrition were negatively affected by the drought, but the inoculation of different bacteria reduced some negative effects. The nitrogen accumulation in the shoots was increased by all strains, suggesting their diazotrophic ability even under drought. Overall, the inoculation of Bacillus sp. ESA 402 was the best bacterium with potential for future field trials.

Journal ArticleDOI
TL;DR: The results demonstrated that the cell-surface hydrophobicity of AKS7 favors the development of microbial biofilm over LDPE that leads to the enhanced degradation of LDPe by AKS8, a promising bio-remediating agent for the sustainable degradation of polythene-based hazardous waste.
Abstract: Plastics composed of polyethylene are non-biodegradable and are mostly harmful to the environment. Literature studies documented that the extent of microbial degradation of low-density polyethylene (LDPE) seems to be insufficient and the underlying mechanisms of such degradation remain unexplored. In the present study, efforts were given to degrade LDPE by a recently isolated bacteria Enterobacter cloacae AKS7. Scanning electron microscopic (SEM) image, tensile strength, and weight loss analysis confirmed the efficient degradation of LDPE by AKS7. To investigate the mechanism, it was observed that with the progression of time, the extent of microbial colonization got increased considerably over the LDPE surface. It was also observed that the organism (AKS7) gradually increased the secretion of extracellular polymeric substances (EPS) suggesting the formation of efficient biofilm over the LDPE surface. Furthermore, to comprehend the role of cell-surface hydrophobicity towards biofilm formation, two mutants of AKS7 were screened that showed a considerable reduction in cell-surface hydrophobicity in contrast to its wild type. The result showed that the mutants revealed compromised LDPE degradation than wild-type cells of AKS7. Further investigation revealed that the mutant cells of AKS7 were incapable of adhering to LDPE in contrast to wild-type cells. Thus, the results demonstrated that the cell-surface hydrophobicity of AKS7 favors the development of microbial biofilm over LDPE that leads to the enhanced degradation of LDPE by AKS7. Therefore, the organism holds the assurance to be considered as a promising bio-remediating agent for the sustainable degradation of polythene-based hazardous waste.

Journal ArticleDOI
TL;DR: Antibacterial activity study combined with the results of amplified genes coding for polyketide synthase and nonribosomal peptide synthetase showed that these marine symbiotic bacteria had a promising broad-spectrum activity, and therefore, could be used against the emerging dilemma of antibiotic-resistant bacterial infections.
Abstract: The development of drug-resistant bacteria and the necessity for unique antimicrobial agents, directed to the search of new habitats to screen the production of anti-infective substances. Culture-dependent studies of heterotrophic bacteria from the intertidal macroalgae thriving along the Southern coast of India resulted in the isolation of 148 strains, which were assayed for antibacterial activities against wide spectrum of pathogens including drug-resistant pathogens, methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococcus faecalis (VRE). Two of the most active strains with a zone of inhibition ≥ 30 mm on spot over lawn assay, belonging to the phyla Firmicutes and Gamma-proteobacteria, isolated from a Rhodophycean marine macroalga, Hypnea valentiae, were selected for bioprospecting studies. They were further characterized as Shewanella algae MTCC 12715 and Bacillus amyloliquefaciens MTCC 12716, based on integrated phenotypic and genotypic analysis. The bacterial extracts exhibited significant antibacterial activities against MRSA and VRE with minimum inhibitory concentrations of 6.25–12.5 µg/mL. Time kill kinetic profiles of these bacteria revealed rapid bactericidal activity against both MRSA and E. coli, showing a ≥ 3log10 decline in viable cell count compared to the initial. In BacLight™ live/dead staining technique, the propidium iodide uptake results appropriately attributed that the components in the B. amyloliquefaciens extract might compromise the integrity of the cytoplasmic membrane of the pathogenic bacteria. Type-1 pks gene (MH157093) of S. algae and hybrid nrps/pks gene (MH157092) of B. amyloliquefaciens could be amplified. Antibacterial activity study combined with the results of amplified genes coding for polyketide synthase and nonribosomal peptide synthetase showed that these marine symbiotic bacteria had a promising broad-spectrum activity, and therefore, could be used against the emerging dilemma of antibiotic-resistant bacterial infections.

Journal ArticleDOI
TL;DR: A great underexplored potential for industrial application of P. incarnata endophytes is shown, as all analyzed fungi were able to produce a kind of secondary metabolite (phenols, flavonoids, tannins and/or saponins).
Abstract: Endophytes are considered one of the most important microbial resources for obtaining biomolecules of therapeutic use. Passiflora incarnata, widely employed by the pharmaceutical industry, shows therapeutic effects on anxiety, nervousness, constipation, dyspepsia and insomnia based on their antioxidant compounds. In this study, from 315 endophytic fungi isolated from P. incarnata leaves, 60 were selected to determinate presence of chemical constituents related with antioxidant activity, based on their production of soluble pigments. The promising fungi were evaluated specifically on their potential to produce phenolic compounds, flavonoids and for antioxidant activity. Five isolates significantly produced flavonoids and phenolic compounds in the ethyl acetate and n-Butanol extracts, also saponins and high antioxidant activity against the DPPH (2.2-diphenyl-1-picrylhydrazyl) free radical. A strain of Aspergillus nidulans var. dentatus (former Emericella dentata) was able to produce tannins as well; its butanolic extract was very similar than the BHT (butylated hydroxytoluene) (94.3% × 94.32%) and Rutin (95.8%) reference substances in the DPPH radical scavenging. Similarly, a Chaetomium strain exhibited 93.6% and 94.7% of antioxidant activity in their ethyl acetate and butanolic fractions, respectively. The chromatographic analysis of the ethyl acetate fraction from the Aspergillus strain revealed the production of orcinol (3.19%). Four-methoxymethylphenol (4.79%), sorbicillin (33.59%) and ergosterol (23.08%) was produced by Trichoderma longibrachiatum and isopropenyl-1,4-dimethyl-1,2,3,3a,4,5,6,7-octahydroazulene were found in two Fusarium oxysporum strains. The phytochemical screening showed that all analyzed fungi were able to produce a kind of secondary metabolite (phenols, flavonoids, tannins and/or saponins). The study shows a great underexplored potential for industrial application of P. incarnata endophytes.

Journal ArticleDOI
TL;DR: Results shed light on the fact that the excellent aliphatic hydrocarbon degrading Rhodococcus species favour clear aerobic conditions, while oxygen-limited conditions can facilitate the high abundance of Acinetobacter species in aliphatics hydrocarbon-contaminated subsurface environments.
Abstract: The aim of the present study was to reveal how different microbial communities evolve in diesel fuel/crude oil-contaminated environments under aerobic and microaerobic conditions. To investigate this question, aerobic and microaerobic bacterial enrichments amended with a diesel fuel/crude oil mixture were established and analysed. The representative aerobic enrichment community was dominated by Gammaproteobacteria (64.5%) with high an abundance of Betaproteobacteriales (36.5%), followed by Alphaproteobacteria (8.7%), Actinobacteria (5.6%), and Candidatus Saccharibacteria (4.5%). The most abundant alkane monooxygenase (alkB) genotypes in this enrichment could be linked to members of the genus Rhodococcus and to a novel Gammaproteobacterium, for which we generated a high-quality draft genome using genome-resolved metagenomics of the enrichment culture. Contrarily, in the microaerobic enrichment, Gammaproteobacteria (99%) overwhelmingly dominated the microbial community with a high abundance of the genera Acinetobacter (66.3%), Pseudomonas (11%) and Acidovorax (11%). Under microaerobic conditions, the vast majority of alkB gene sequences could be linked to Pseudomonas veronii. Consequently, results shed light on the fact that the excellent aliphatic hydrocarbon degrading Rhodococcus species favour clear aerobic conditions, while oxygen-limited conditions can facilitate the high abundance of Acinetobacter species in aliphatic hydrocarbon-contaminated subsurface environments.

Journal ArticleDOI
TL;DR: This is the first report on the isolation of endophytic fungi from E. geniculata and evaluation of their antifungal activity, which shows antagonistic activities against six strains of plant pathogenic fungi.
Abstract: Many researchers proved that plant endophytes manage successful issues to synthesize active chemicals within plant cells. These bioactive compounds might support a range of plant defense mechanism against many pathogenic microorganisms. In this study, a total of 22 isolates representing 21 fungal species belonging to 15 fungal genera in addition to one variety were isolated and identified for the first time from Euphorbia geniculate plants. The genus Aspergillus was the most common fungus isolated from the studied plant. The fungus Isaria feline was recorded in both leaves and stem, while Aspergillus flavus, A. ochraceus, A. terreus var. terreus, Emercilla nidulans var. acristata, Macrophomina phaseolina colonized both stem and root. The isolated fungi showed antagonistic activities against six strains of plant pathogenic fungi viz., Eupenicillium brefeldianum, Penicillium echinulatum, Alternaria phragmospora, Fusarium oxysporum, Fusarium verticilloid, and Alternaria alternata in dual culture assay. The highest antagonistic activity fungal species (Aspergillus flavus, A. fumigatus, and Fusarium lateritium) and the lowest (Cladosprium herbarum, F. culomrum, and Sporotrichum thermophile) showed twining in their secondary metabolites especially terpens and alkaloids with that of their host E. geniculata. Three concentrations of (0.5, 1.0, and 2.0 mg/ml) of these secondary metabolites extracted by ethyl acetate and n-butanol from the above six endophytic fungal species were tested against three pathogenic fungi isolated from infected tomato plant (E. brefeldianum-EBT-1, P. echinulatum-PET-2, and A. phragmospora-APT-3), whereas these pathogens showed promising sensitivity to these fungal secondary metabolites. In conclusion, this is the first report on the isolation of endophytic fungi from E. geniculata and evaluation of their antifungal activity.

Journal ArticleDOI
TL;DR: The strain’s ability to induce three pathogenesis-related genes (PR-1a, GLUA, and CHI3) in tomato, was studied using quantitative reverse transcription PCR and revealed, for the first time, that P. chororaphis ToZa7 colonizes the exterior as well as the internal tissues.
Abstract: Pseudomonas chlororaphis ToZa7 is a promising biocontrol agent possessing valuable characteristics and reducing disease severity caused by Fusarium oxysporum f. sp. radicis-lycopersici (Forl) in tomato. In this study, the strain’s ability to induce three pathogenesis-related (PR) genes (PR-1a, GLUA, and CHI3) in tomato, was studied using quantitative reverse transcription PCR. The genes PR-1a and GLUA were up-regulated after 120 h exposure to P. chororaphis ToZa7 (15.22- and 13.11-fold, respectively), as compared to the untreated control, without challenge inoculation by the pathogen. To study the effects of individual or combined application of P. chororaphis ToZa7 and the compatible biocontrol fungus Clonostachys rosea IK726, challenged with the pathogen, the expression patterns of the above three PR genes were monitored, in tomato roots. Expression of PR1-a was noteworthy, especially 48 h after challenge inoculation, when C. rosea IK726 alone or in combination with P. chororaphis, ToZa7 was pre-inoculated on tomato roots (38.53-fold and 53.74-fold, respectively). Expression of PR1-a, 72 h after challenge inoculation, was the highest in P. chororaphis ToZa7, among biocontrol treatments. Expression of CHI3 was much lower, while up-regulation of GLUA was overall not observed. Confocal laser scanning microscopy of intact tomato roots and bacterial counts of superficially disinfected roots revealed, for the first time, that P. chororaphis ToZa7 colonizes the exterior as well as the internal tissues.

Journal ArticleDOI
TL;DR: The LAMP method is as specific and precise as common diagnostic methods, but is faster, easier deployable or more sensitive and can be used as a suitable complementary assay for Candida diagnosis in medical diagnostic laboratories and field conditions.
Abstract: Candida species cause a wide range of opportunistic infections in humans and animals. The detection of Candida species by conventional diagnosis methods is costly and time consuming. This study was conducted for the first time to evaluate and compare a relatively new molecular assay and the loop-mediated isothermal amplification (LAMP) technique with conventional methods for detection of Candida albicans. In this study, 70 different species of Candida identified by conventional methods were cultured on Sabouraud chloramphenicol agar medium and then the genomic DNA was extracted. The LAMP technique was performed using specific primers targeting the ITS2 gene of C. albicans. The analytical sensitivity and specificity of LAMP were measured using a tenfold serial dilution prepared from extracted DNA from standard C. albicans strain from 1 ng to 1 fg and the DNA samples of other clinical Candida species and three non-Candida yeast. Out of 70 yeast samples analyzed by LAMP technique, 24 samples (34.3%) were positive for C. albicans. Comparison of the results showed that the CHROMagar Candida and germ tube production methods are quite consistent with the LAMP technique, while the agreement amount between the results of carbohydrate assimilation and chlamydoconidia generation assays and LAMP technique was 98.5% and 72.8%, respectively. The detection limits of the LAMP assay were 10 fg of the DNA from the standard C. albicans strain. No amplification was observed in the DNA samples of other yeast species and only the DNA sample of standard C. albicans strain was amplified. Based on the results, it can be concluded that the LAMP method is as specific and precise as common diagnostic methods, but is faster, easier deployable or more sensitive. Therefore, this method can be used as a suitable complementary assay for Candida diagnosis in medical diagnostic laboratories and field conditions.

Journal ArticleDOI
TL;DR: The circulation of diverse clones of S. aureus among dairy animals in Iran is demonstrated, with a different clonal composition between cows and small ruminants, emphasizing the need for comprehensive surveillance.
Abstract: Staphylococcus aureus is part of the normal flora of animals, and represents one of the leading causes of contagious mastitis in dairy herds worldwide. Sixty-seven epidemiologically unrelated S. aureus isolates from nasal and mastitis milk samples of dairy-producing animals (32 cows, 25 sheep, and 10 goats) were characterized by antimicrobial susceptibility testing and spa typing followed by multilocus sequence typing (MLST) on representative isolates and SCCmec-typing on methicillin-resistant S. aureus (MRSA) isolates. The highest resistance was observed to penicillin (64.2%, 43/67), followed by tetracycline (23.9%, 16/67), erythromycin (22.4%, 15/67), and streptomycin (17.9%, 12/67). In general, 18 spa types (including newly identified t16958) and 13 sequence types (STs) belonging to 8 clonal complexes (CCs) were detected. The cow-associated isolates were mainly assigned to CC5 (n = 18, related to t267-ST97, t521-ST352, t527-ST97, t304-ST6, and t084-ST15), followed by CC398 (n = 6, t937-ST291), CC45 (n = 3, t230-ST45), CC88 (n = 2, t2526-ST88), CC22 (n = 2, t3680-ST22), and CC522 (n = 1, t3576-ST522). Small ruminant isolates were mostly clustered into CC522 (n = 29, related to t3576, t1534, t16958, t7308, t7311, t7305 [ST522], t1534-ST2057, and t5428-ST2079). Two isolates from cows with mastitis were found to be MRSA, exhibited a composite profile of t937-ST291-SCCmecIV. No isolates carried the PVL and mecC genes. A significant difference in clonal types of S. aureus isolates from cows in comparison with those from small ruminants was found. This study demonstrated the circulation of diverse clones of S. aureus among dairy animals in Iran, with a different clonal composition between cows and small ruminants. The current study also reports MRSA-related mastitis in dairy cows, emphasizing the need for comprehensive surveillance.

Journal ArticleDOI
TL;DR: The potential of algae should be investigated for the production of natural fungicide for pharmaceutical and food industries and almost all of the extracts obtained from algae species were revealed to have antifungal activity against selected fungal pathogens.
Abstract: It is known that cell extracts of various algae have antifungal activity against microorganisms in vitro. Antifungal activities of Ulva lactuca, Chlorella vulgaris, Chlorella minutissima, and Chlorella protothecoides were investigated against: Aspergillus niger, Alternaria alternata, and Penicillium expansum fungi to present their fungicide potentials. Aspergillus niger, Alternaria sp., and Penicillium expansum are typical soft-rotting fungi and cause important loss of apple fruit in the storage. In vitro antifungal activity was evaluated by agar disc diffusion assay against pathogenic apple rot fungi. As a result, almost all of the extracts obtained from algae species were revealed to have antifungal activity against selected fungal pathogens. Free radical-scavenging activity of the extracts was determined with 1,1-diphenyl-2 picryl hydrazyl (DPPH) free radical-scavenging method. Extract of C. protothecoides was determined to have a stronger antioxidant activity than other algae extracts. This study reveals that the potential of algae should be investigated for the production of natural fungicide for pharmaceutical and food industries.

Journal ArticleDOI
TL;DR: The replacement of hazardous chemicals with the use of xylanase, cellulase, and pectinase in food industries and the role of extracellular enzymes to replace these practices is discussed.
Abstract: Extracellular enzymes produced from Streptomyces have the potential to replace toxic chemicals that are being used in various industries. The endorsement of this replacement has not received a better platform in developing countries. In this review, we have discussed the impact of chemicals and conventional practices on environmental health, and the role of extracellular enzymes to replace these practices. Burning of fossil fuels and agriculture residue is a global issue, but the production of biofuel using extracellular enzymes may be the single key to solve all these issues. We have discussed the replacement of hazardous chemicals with the use of xylanase, cellulase, and pectinase in food industries. In paper industries, delignification was done by the chemical treatment, but xylanase and laccase have the efficient potential to remove the lignin from pulp. In textile industries, the conventional method includes the chemicals which affect the nervous system and other organs. The use of xylanase, cellulase, and pectinase in different processes can give a safe and environment-friendly option to textile industries. Hazardous chemical pesticides can be replaced by the use of chitinase as an insecticide and fungicide in agricultural practices.

Journal ArticleDOI
TL;DR: Evaluation of salivary microbial biomarkers may be informative to understand the pathobiology and carcinogenesis of OP and HP cancer.
Abstract: The highest number (35.1% of global incident cases) of new oropharyngeal (OP) and hypopharyngeal (HP) cancer cases was reported in South-Central Asia. The highest incidence of HP cancer in India was reported in East Khasi Hills District of Meghalaya, Aizawl District of Mizoram, and Kamrup Urban District of Assam. HP and OP cancer showed the highest mortality rate, worst prognoses and the highest rate of nodal metastases and distant metastases. Thus, research is required to detect specific biomarkers for early prevention and diagnosis for these cancers. Oral microbiome signatures in saliva are considered as a potential diagnostic biomarker for OP and HP cancer. Bacterial profile alterations in OP and HP cancer have not been reported in India population, to establish the association of oral bacteria in the progression of OP and HP cancer; we studied bacterial communities in saliva of eight OP and seven HP cancer patients as compared to healthy controls using 16S rRNA V3–V4 region sequencing. The higher abundance of Haemophilus parainfluenzae, Haemophilus influenzae and Prevotella copri and lower abundance of Rothia mucilaginosa, Aggregatibacter segnis, Veillonella dispar, Prevotella nanceiensis, Rothia aeria, Capnocytophaga ochracea, Neisseria bacilliformis, Prevotella nigrescens and Selenomonas noxia in saliva of OP and HP cancer patients may be considered as a non-invasive diagnostic biomarker for OP and HP cancer patients. Streptococcus anginosus may be considered as a non-invasive diagnostic biomarker for OP cancer patients only. Therefore, evaluation of salivary microbial biomarkers may be informative to understand the pathobiology and carcinogenesis of OP and HP cancer.

Journal ArticleDOI
TL;DR: It was showed that both environments have several soil bacterial phyla in common, however, Proteobacteria and Actinobacteria significantly dominated the termite mound soils and the surrounding soils, respectively, with Tenericutes peculiar to only the termites mound soils.
Abstract: The study focuses on analysis of the compositional and diversity of bacteria in termite mound soils in comparison with the surrounding soils to verify the assertion that the high nutrient concentrations in termite mound soils influence a complex diversity of microorganisms. Here, whole DNA was extracted from soil samples collected from termite mounds and their surrounding soils which were 10 m apart and subsequently, sequenced using shotgun metagenomic approach. Our findings showed that both environments have several soil bacterial phyla in common. However, Proteobacteria and Actinobacteria significantly dominated the termite mound soils and the surrounding soils, respectively, with Tenericutes peculiar to only the termite mound soils. Furthermore, Bergeyella, Gloeothece, Thalassospira, and Glaciecola genera were exclusively identified in the termite mound soil samples. Diversity analysis showed that bacterial composition was different among the four sites (phyla level). This study also revealed a lot of unclassified groups of bacteria and this could point to the presence of potentially novel species. The differences observed in the bacterial structure and diversity from this study may be ascribed to variances in the physicochemical nature existing between the two environments. Mapping out schemes to culture these unclassified groups of bacteria discovered from this study would possibly set the platform for the discovery of novel bacteria for biotechnological applications.

Journal ArticleDOI
TL;DR: The results indicated that the fecal microbial ecosystem of the wild boar is significantly different from that of domestic native pig and commercial pig, suggesting that diet is an important factor leading to differences in bacterial abundance and diversity in feces.
Abstract: The bacterial community in mammalian gastrointestinal tract is abundant and complex. To date, little is known about the gut microbiota of wild boar. This study aimed to investigate the fecal bacterial diversity of wild boar and compare with commercial pig and domestic native pig. The diet composition showed that the diets of wild boar, commercial pig and domestic native pig were different from each other. More than 1,760,000 quality-filtered sequences were obtained, and the results revealed distinct compositions and diversity of fecal microbiota in three groups. PCoA and NMDS analyses showed that fecal bacterial communities of wild boar, commercial pig and domestic native pig formed distinctly different clusters. Although the three groups shared a large size of OTUs comprising a core microbiota community, a strong distinction existed at family and genus levels. Ruminococcaceae, Prevotellaceae and Christensenellaceae were more abundant in the feces of wild boar than in domestic native pig and commercial pig. At the genus level, the proportion of unidentified Christensenellaceae was remarkably higher in wild boar group, while commercial pig and domestic native pig group had a higher abundance of Streptococcus and Lactobacillus. Tax4Fun predictions of metagenome function showed statistically significant differences in the functions of fecal microbiota in three groups. There were more bacteria genes with amino acid metabolism, cell growth and death, cell motility, energy metabolism, immune system and environmental adaptation observed in wild boar feces, while commercial pig feces contained more bacteria genes with carbohydrate metabolism, drug resistance, aging, infectious diseases, lipid metabolism, endocrine and metabolic diseases. These results indicated that the fecal microbial ecosystem of the wild boar is significantly different from that of domestic native pig and commercial pig, suggesting that diet is an important factor leading to differences in bacterial abundance and diversity in feces.