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Paenibacillus polymyxa ND25: candidate genome for lignocellulosicbiomass utilization(Archives of microbiology)
(Varsha Bohra
Nishant A. Dafale
Hemant J. Purohit
, 85,,,248,Year : 2018)
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Genome sequence of Paenibacillus polymyxa ND25 isolated from cow rumen is reported for being a potential candidate in hydrolysis of lignocellulosic plant biomass. Draft genome sequence generated 5.73 Mb data containing 4922 putative protein coding genes, of which 140 are annotated for glycoside hydrolases. P. polymyxa ND25 strain comprises diverse lignocellulolytic components, especially 12 cellulase along with 23 hemicellulases and 11 esterases, signifying its potential for lignocellulose hydrolysis. Subsequent enzyme assay exhibited the potential of strain to produce 0.49, 0.24 and 0.44 U/ml U/ml of endoglucanase, exoglucanase and β-glucosidase, respectively, utilizing sugarcane bagasse as the sole carbon source. This study signifies the efficient application of P. polymyxa ND25 for facilitating plant-biomass utilization.
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An insight into phage diversity at environmental habitats using comparative metagenomics approach(Current Microbiology)
(Krupa M. Parmar, Rajesh R. Pal, Nishant A. Dafale, Hemant J. Purohit,75,,32-141 ,Year : 2018)
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Bacteriophages play significant role in driving microbial diversity; however, little is known about the diversity of phages in different ecosystems. A dynamic predator–prey mechanism called ‘‘kill the winner’’ suggests the elimination of most active bacterial populations through phages. Thus, interaction between phage and host has an effect on the composition of microbial communities in ecosystems. In this study, secondary phage metagenome data from aquatic habitats: wastewater treatment plant (WWTP), fresh, marine, and hot water spring habitat were analyzed using MG-RAST and STAMP tools to explore the diversity of the viruses. Differential relative abundance of phage families—Siphoviridae (34%) and Myoviridae (26%) in WWTP, Myoviridae (30%) and Podoviridae (23%) in fresh water, and Myoviridae (41%) and Podoviridae (8%) in marine—was found to be a discriminating factor among four habitats while Rudiviridae (9%), Globuloviridae (8%), and Lipothrixviridae (1%) were exclusively observed in hot water spring. Subsequently, at genera level, Bpp-1-like virus, Chlorovirus, and T4-like virus were found abundant in WWTP, fresh, and marine habitat, respectively. PCA analysis revealed completely disparate composition of phage in hot water spring from other three ecosystems. Similar analysis of relative abundance of functional features corroborated observations from taxa analysis. Functional features corresponding to phage packaging machinery, replication, integration and excision, and gene transfer discriminated among four habitats. The comparative metagenomics approach exhibited genetically distinct phage communities among four habitats. Results revealed that selective distribution of phage communities would help in understanding the role of phages in food chains, nutrient cycling, and microbial ecology. Study of specific phages would also help in controlling environmental pathogens including MDR bacterial populations using phage therapy approach by selective mining and isolation of phages against specific pathogens persisting in a given environment.
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Gut-Bioreactor and Human Health in Future(Indian Journal of Microbiology)
(Purohit, H. J.
,58(1) ,,3-7,Year : 2018)
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No information is available
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Annotation and De Novo Sequence Characterization of Extracellular B- Fructofranosidase from Penicillium chrysogenum Strain HKF42(Indian Journal of Microbiology)
("Gujar, N.;
Fuke, P.;
Khardenavis, A. A.;
Purohit , H. J.
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,58(2),,227- 233,Year : 2018)
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No information is available
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Root transcripts associated with arsenic accumulation in hyperaccumulator Pteris vittata(Journal of Biosciences)
(Paotdukhe, R. M.;
Bedi, P.;
Sarangi, B. K. ;
Pandey, R. A.;
Purohit, H. J.
,431,,105- 115,Year : 2018)
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No information is available
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Cross-Reactivity of Prokaryotic 16S rDNA-Specific Primers to Eukaryotic DNA: Mistaken Microbial Community Profiling in Environmental Samples(Current Microbiology)
(Yadav, S.;
Kumar, A.;
Gupta, M.;
Maitra, S. S.,,,1-8,Year : 2018)
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No information is available
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An Approach to In Silico Dissection of Bacterial Intelligence Through Selective Genomic Tools(Indian Journal of Microbiology)
(Talkal, R.;
Tikariha, H.;
Purohit, H.
,,,1-9,Year : 2018)
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No information is available
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Moringa Oliefera: The Miracle Tree(International Journal of Advance Research Ideas and Innovation in Technology)
(Ruchita Haldar and Sharda Kosankar ,3(6),,966-970,Year : 2018)
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No information is available
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Infestation of Pauropsila tuberculata (Gall Insect) on Alstonia scholaris (Saptaparni) tree
(Ruchita Haldar, Sharda Kosankar
,6(1),,1695-1699,Year : 2018)
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No information is available
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Faunal diversity of CSIR-NEERI campus, Nagpur, Maharashtra, India(Int J. of Life Sciences )
(Kiran Bawaskar, Ruchita Haldar, Sharda Kosankar
,62,,311-325,Year : 2018)
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No information is available
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Microbially assisted arsenic removal using Acidothiobacillus ferrooxidans mediated by iron oxidation(Environmental Technology & Innovation)
(K. Kamde, R.A.Pandey, S.T. Thul, R. Dahake, V. M. Shinde, A. Bansiwal
,10,,78–90,Year : 2018)
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The aim of this investigation was to determine the efficiency of arsenic removal present in acidic water using the biochemical method in presence of Acidothiobacillus ferrooxidans bacteria and ferrous ions. The process includes the bio-oxidation of ferrous to ferric by bacteria with simultaneous conversion of arsenite to arsenate and its removal by chemical method. The experiments were carried out in shake flasks with or without A.ferrooxidans culture. The variables of the pH, temperature, cell density and initial concentration of ferrous ions in the growth medium of A.ferrooxidans bacteria were examined in the laboratory to determine how they affect the removal of arsenic. It was found that the maximum arsenic removal (80%–85%) occurred at ferrous ions concentration of 2 gL−1 at the temperature of 35 ?C with the initial cell density of 3.66 × 107 cells/mL and initial pH value of 2.5 with 70%–75% bio-oxidation of ferrous ions. The results of scanning electron microscopy (SEM) and X-ray diffraction (XRD) analyses have confirmed the growth of bacteria and identify the nature of precipitate generated by the bacteria. The finding showed that arsenic can be removed considerably in this process in an efficient and greener way, but also removing efficiency was much more (<80%) in acidic wastewater. The ANOVA and LSD statistical analysis were performed to assess any significant differences occurred among the four different levels of each variable. This study verified that combination of bio-oxidation with filtration improves the removal efficiency of arsenic.
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An Integrated Process of Value Addition to Citrus Waste and Performance of Fenton Process for Its Conversion to Biogas(Waste and Biomass Valorization)
(M. E. Magare, N. Sahu, G. S. Kanade, C. S. Chanotiya, S. T. Thul
,,,,Year : 2018)
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Citrus fruits are commercially important fruit crop all over the world. About 50–60% of citrus fruit is considered waste including peels and its handling is costly at municipal and industry levels. Citrus wastes in general show a low pH (3–4), relatively high water content and organic matter. Its composting is not recommended, as it has inherent low pH and presence of high concentration of limonene in essential oils that slow down its biological decomposition due to inhibitory activity. Anaerobic digestion for biogas production seems to be a technically sustainable way to valorise by suitable pre-treatment methods. Present study shows extraction of essential oil in minimum requirement of water (1:1 w/v) for hydro-distillation that yields about 2% essential oil from fresh peels. Further, pre-treatment of left over de-oiled biomass with of 30% Fenton’s reagent treatment show biogas and methane production up to 322.63 ml biogas/g VS feed and 122.48 ml methane/g VS feed, respectively under mesophilic condition which is superior to conventional treatment.
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Removal of arsenic by Acidothiobacillus ferrooxidans bacteria in bench scale fixed-bed bioreactor system(Chemistry and Ecology)
(K. Kamde, R.A. Pandey, S. Thul, A. Bansiwal,,,,Year : 2018)
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In the present study arsenic contaminated simulated water and groundwater was treated by the combination of biological oxidation of tri-valent arsenite [As (III)] to penta-valent arsenate [As (V)] in presence of Acidothiobacillus ferrooxidans bacteria and its removal by adsorptive filtration in a bioreactor system. This method includes the immobilisation of A.ferrooxidans on Granulated Activated Carbon (GAC) capable of oxidising ferrous [Fe (II)] to ferric [Fe (III)]. The Fe (III) significantly converts the As (III) to As (V) and ultimately removed greater than 95% by the bed of GAC, limestone, and sand. The significant influence of Fe (II) concentration (0.1–1.5 gL−1), flowrate (0.06–0.18 Lh−1), and initial As (III) concentration (100–1000 μgL−1) on the arsenic removal efficiency was investigated. The simulated water sample containing the different concentration of As (III) and other ions was used in the study. The removal of other co-existing ions present in contaminated water was also investigated in column study. The concentration of arsenic was found to be <10 μgL−1 which is below Maximum Contaminant Level (MCL) as per WHO in treated water. The results confirmed that the present system including adsorptive-filtration was successfully used for the treatment of contaminated water containing As (III) ions.
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Intercepting signalling mechanism to control environmental biofouling(3Biotech)
(S Pal, A Qureshi, HJ Purohit,8 (8),,364,Year : 2018)
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Biofouling in environmental systems employs bacterial quorum sensing signals (autoinducers) and extracellular polymeric substances to onset the event. The present review has highlighted on the fundamental mechanisms behind biofilm formation over broad spectrum environmental niches especially membrane biofouling in water systems and consequent chances of pathogenic contamination leading to global economic loss. It has broadly discussed on bioelectrical signal (via, potassium gradient) and molecular signal (via, AHLs) mediated quorum sensing which help to propagate biofilm formation. The review has illustrated the potential of genomic intervention towards biofouled membrane microbial community and has uncovered possible features of biofilm microenvironment like quorum quenching bacteria, bioelectrical waves capture, siderophores arrest and surface modifications. Based on information, the concept of interception of quorum signals (AHLs) and bioelectrical signals (K+) by employing electro-modified (negative charges) membrane surface have been hypothesized in the present review to favour anti-biofouling.
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Dissolved oxygen-mediated enrichment of quorum-sensing phenomenon in the bacterial community to combat oxidative stress(Archives of microbiology)
(H Tikariha, AA Khardenavis, HJ Purohit
,,,01 to 09,Year : 2018)
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Microbial community with their plasticity follows a course of changes that allow adaptation and survival in a particular habitat. In this study perturbations in microbial flora dwelling in two reactors with phenol as a carbon source under the limiting nitrogen and phosphorus conditions were monitored for 3 months with alterations of dissolved oxygen (DO). With the time, the shift in diversity and abundance of bacteria were observed with simultaneous increase in biofilm-forming bacteria like Pseudomonas, Escherichia, etc. Functional level screening revealed that the abundance of core metabolic genes were not much altered, however, the regulated level of increase in quorum sensing genes (acyl-homoserine lactone), biofilm-forming genes, catalase and ferroxidase enzymes at high DO suggest the survival mechanism of the community. This study sheds light on survival route followed by the bacterial community with abiotic stress, such as an increase in DO.
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Gut: a key mediating centre for the ageing process(Current Science)
(Hemant J Purohit, Jayant Deopujari
,114 (11),,2231-2233,Year : 2018)
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No information is available
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In silico characterization of broad range proteases produced by Serratia marcescens EGD‐HP20(Journal of basic microbiology)
(Priya Fuke, Rajesh R Pal, Anshuman A Khardenavis, Hemant J Purohit
,58 6,,, 492-500,Year : 2018)
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In the present study, Serratia marcescens EGD?HP20 strain was demonstrated to utilize poultry waste comprising of both white non?melanized and dark/brown melanized poultry feathers. The potential of the isolate to hydrolyze diverse keratinous wastes was further corroborated by comparative genomics which indicated the presence of genes for broad substrate specific proteases including metallo?proteases, serine endoprotease, dipeptidase, oligopeptidase, etc. Multiple gene sequence alignments of above genes showed 99–100% sequence identities with that of closely related strains of S. marcescens. The secondary structure, 3D structures and energy models suggested the stable nature of all the observed enzymes. Comparative genomics and hydrolysis of mixed feather waste indicated that the above potential of the isolate was associated with synergistic action of various types of proteases.
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Fold change based approach for identification of significant network markers in breast, lung and prostate cancer
(RK Makhijani, SA Raut, HJ Purohit
,,,,Year : 2018)
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Cancer belongs to a class of highly aggressive diseases and a leading cause of death in the world. With more than 100 types of cancers, breast, lung and prostate cancer remain to be the most common types. To identify essential network markers (NMs) and therapeutic targets in these cancers, the authors present a novel approach which uses gene expression data from microarray and RNA-seq platforms and utilises the results from this data to evaluate protein–protein interaction (PPI) network. Differentially expressed genes (DEGs) are extracted from microarray data using three different statistical methods in R, to produce a consistent set of genes. Also, DEGs are extracted from RNA-seq data for the same three cancer types. DEG sets found to be common in both platforms are obtained at three fold change (FC) cut-off levels to accurately identify the level of change in expression of these genes in all three cancers.
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Identification of common key genes in breast, lung and prostate cancer and exploration of their heterogeneous expression(Oncology letters)
(RK Makhijani, SA Raut, HJ Purohit
,15 (2),,1680-1690,Year : 2018)
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Cancer is one of the leading causes of mortality worldwide, and in particular, breast cancer in women, prostate cancer in men, and lung cancer in both women and men. The present study aimed to identify a common set of genes which may serve as indicators of important molecular and cellular processes in breast, prostate and lung cancer. Six microarray gene expression profile datasets [GSE45827, GSE48984, GSE19804, GSE10072, GSE55945 and GSE26910 (two datasets for each cancer)] and one RNA?Seq expression dataset (GSE62944 including all three cancer types), were downloaded from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were identified in each individual cancer type using the LIMMA statistical package in R, and then a comparison of the resulting gene lists was performed to identify common DEGs across cancer types. This analysis was performed for microarray and RNA?Seq datasets individually, revealing a set of 62 and 1,290 differentially expressed genes respectively, which may be associated with the three cancers. Out of these genes, 44 were common to both analyses, and hence termed key genes. Gene Ontology functional annotation, Kyoto Encyclopedia of Genes and Genomes pathway mapping and literature citations were used to confirm the role of the key genes in cancer. Finally, the heterogeneity of expression of the key genes was explored using the I2 statistic (meta package in R). The results demonstrated non?heterogeneous expression of 6 out of the 44 key genes, whereas the remaining genes exhibited significant heterogeneity in expression across microarray samples. In conclusion, the identified DEGs may play important roles in the pathogenesis of breast, prostate and lung cancer and may be used as biomarkers for the development of novel diagnostic and therapeutic strategies.
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Draft genome sequence of Penicillium chrysogenum strain HKF2, a fungus with potential for production of prebiotic synthesizing enzymes(3Biotech)
(VV Gujar, P Fuke, AA Khardenavis, HJ Purohit
,8 2, ,,106,Year : 2018)
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In this study, we have characterized a novel set of extracellular enzymes produced by Penicillium chrysogenum strain HKF2. A draft genome data of 31.5 Mbp was generated and annotation suggested a total of 11,243 protein-coding genes out of which 609 were CAZymes, majority of which were found to have homology with Penicillium rubens, Penicillium chrysogenum followed by Penicillium expansum and Penicillium roqueforti. The prominent CAZyme genes identified in the draft genome encoded for enzymes involved in the production of prebiotics such as inulo-oligosaccharides and fructo-oligosaccharides. Corresponding enzyme assay indicated that the isolate possessed the potential to produce 11.8 and 3.8 U/mL of β-fructofuranosidase and inulinase, respectively. This study highlights the significance of Effluent Treatment Plants as novel and under-explored niche for isolation of fungi having the potential for production of prebiotics synthesizing enzymes.
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