scholarly journals Identification and Characterization of the First Virulent Phages, Including a Novel Jumbo Virus, Infecting Ochrobactrum spp.

2020 ◽  
Vol 21 (6) ◽  
pp. 2096
Author(s):  
Przemyslaw Decewicz ◽  
Piotr Golec ◽  
Mateusz Szymczak ◽  
Monika Radlinska ◽  
Lukasz Dziewit
Keyword(s):  
Dna Methyltransferase ◽  
Wastewater Treatment Plants ◽  
Biogas Production ◽  
Genome Mining ◽  
Sewage Sample ◽  
Bacterial Strains ◽  
Regulatory Circuits ◽  
A Genome ◽  
Insightful Analysis

The Ochrobactrum genus consists of an extensive repertoire of biotechnologically valuable bacterial strains but also opportunistic pathogens. In our previous study, a novel strain, Ochrobactrum sp. POC9, which enhances biogas production in wastewater treatment plants (WWTPs) was identified and thoroughly characterized. Despite an insightful analysis of that bacterium, its susceptibility to bacteriophages present in WWTPs has not been evaluated. Using raw sewage sample from WWTP and applying the enrichment method, two virulent phages, vB_OspM_OC and vB_OspP_OH, which infect the POC9 strain, were isolated. These are the first virulent phages infecting Ochrobactrum spp. identified so far. Both phages were subjected to thorough functional and genomic analyses, which allowed classification of the vB_OspM_OC virus as a novel jumbo phage, with a genome size of over 227 kb. This phage encodes DNA methyltransferase, which mimics the specificity of cell cycle regulated CcrM methylase, a component of the epigenetic regulatory circuits in Alphaproteobacteria. In this study, an analysis of the overall diversity of Ochrobactrum-specific (pro)phages retrieved from databases and extracted in silico from bacterial genomes was also performed. Complex genome mining allowed us to build similarity networks to compare 281 Ochrobactrum-specific viruses. Analyses of the obtained networks revealed a high diversity of Ochrobactrum phages and their dissimilarity to the viruses infecting other bacteria.

scholarly journals Genome mining of novel rubiginones from Streptomyces sp. CB02414 and characterization of the post-PKS modification steps in rubiginone biosynthesis

2021 ◽  
Vol 20 (1) ◽  
Author(s):  
Jingyan Zhang ◽  
Ying Sun ◽  
Yeji Wang ◽  
Xin Chen ◽  
Lu Xue ◽  
...  
Keyword(s):  
Gene Cluster ◽  
Biosynthetic Pathway ◽  
Scale Up ◽  
Genome Mining ◽  
Gene Clusters ◽  
Combinatorial Biosynthesis ◽  
Wild Type ◽  
Aromatic Polyketides ◽  
A Genome

Abstract Background Rubiginones belong to the angucycline family of aromatic polyketides, and they have been shown to potentiate the vincristine (VCR)-induced cytotoxicity against VCR-resistant cancer cell lines. However, the biosynthetic gene clusters (BGCs) and biosynthetic pathways for rubiginones have not been reported yet. Results In this study, based on bioinformatics analysis of the genome of Streptomyces sp. CB02414, we predicted the functions of the two type II polyketide synthases (PKSs) BGCs. The rub gene cluster was predicted to encode metabolites of the angucycline family. Scale-up fermentation of the CB02414 wild-type strain led to the discovery of eight rubiginones, including five new ones (rubiginones J, K, L, M, and N). Rubiginone J was proposed to be the final product of the rub gene cluster, which features extensive oxidation on the A-ring of the angucycline skeleton. Based on the production profiles of the CB02414 wild-type and the mutant strains, we proposed a biosynthetic pathway for the rubiginones in CB02414. Conclusions A genome mining strategy enabled the efficient discovery of new rubiginones from Streptomyces sp. CB02414. Based on the isolated biosynthetic intermediates, a plausible biosynthetic pathway for the rubiginones was proposed. Our research lays the foundation for further studies on the mechanism of the cytochrome P450-catalyzed oxidation of angucyclines and for the generation of novel angucyclines using combinatorial biosynthesis strategies.

N2O production using native nos-deficient denitrifying bacterial strains screened by a genome mining approach

2020 ◽  
Vol 11 ◽  
pp. 100529
Author(s):  
Mamoru Oshiki ◽  
Miho Ishimaru ◽  
Masashi Hatamoto ◽  
Takashi Yamaguchi ◽  
Nobuo Araki ◽  
...  
Keyword(s):  
Genome Mining ◽  
Bacterial Strains ◽  
N2o Production ◽  
A Genome

scholarly journals Genome-Wide and Functional View of Proteolytic and Lipolytic Bacteria for Efficient Biogas Production through Enhanced Sewage Sludge Hydrolysis

Molecules ◽  
2019 ◽  
Vol 24 (14) ◽  
pp. 2624 ◽  
Author(s):  
Poszytek ◽  
Karczewska-Golec ◽  
Dziurzynski ◽  
Stepkowska-Kowalska ◽  
Gorecki ◽  
...  
Keyword(s):  
Sewage Sludge ◽  
Biogas Production ◽  
Growth Conditions ◽  
Biogas Plant ◽  
Bacterial Strains ◽  
Metabolic Potential ◽  
Pathway Reconstruction ◽  
Metabolic Versatility ◽  
A Genome ◽  
Metabolic Pathway Reconstruction

In this study, we used a multifaceted approach to select robust bioaugmentation candidates for enhancing biogas production and to demonstrate the usefulness of a genome-centric approach for strain selection for specific bioaugmentation purposes. We also investigated the influence of the isolation source of bacterial strains on their metabolic potential and their efficiency in enhancing anaerobic digestion. Whole genome sequencing, metabolic pathway reconstruction, and physiological analyses, including phenomics, of phylogenetically diverse strains, Rummeliibacillus sp. POC4, Ochrobactrum sp. POC9 (both isolated from sewage sludge) and Brevundimonas sp. LPMIX5 (isolated from an agricultural biogas plant) showed their diverse enzymatic activities, metabolic versatility and ability to survive under varied growth conditions. All tested strains display proteolytic, lipolytic, cellulolytic, amylolytic, and xylanolytic activities and are able to utilize a wide array of single carbon and energy sources, as well as more complex industrial by-products, such as dairy waste and molasses. The specific enzymatic activity expressed by the three strains studied was related to the type of substrate present in the original isolation source. Bioaugmentation with sewage sludge isolates–POC4 and POC9–was more effective for enhancing biogas production from sewage sludge (22% and 28%, respectively) than an approach based on LPMIX5 strain (biogas production boosted by 7%) that had been isolated from an agricultural biogas plant, where other type of substrate is used.

Extraction and characterization of sea anemones compound and its Anti bacterial and hemolytic studies

2020 ◽  
Vol 10 (4) ◽  
pp. 93-97
Author(s):  
Anil Kumar A ◽  
Raja Sheker K ◽  
Naveen B ◽  
Abhilash G ◽  
Akila CR
Keyword(s):  
Antibacterial Activity ◽  
Focal Point ◽  
Haemolytic Activity ◽  
Klebsiella Pneumonia ◽  
Bacterial Strains ◽  
Sea Anemones ◽  
Marine Plants ◽  
Heteractis Magnifica ◽  
Trididemnum Solidum

Seas assets that give us a variety of characteristic items to control bacterial, contagious and viral ailment and mostly utilized for malignancy chemotherapy practically from spineless creatures, for example, bryozoans, wipes, delicate corals, coelenterates, ocean fans, ocean bunnies, molluscs and echinoderms. In the previous 30 - 40 years, marine plants and creatures have been the focal point of overall endeavours to characterize the regular results of the marine condition. Numerous marine characteristic items have been effectively exceptional to the last phases of clinical preliminaries, including dolastatin-10, a group of peptides disengaged from Indian ocean rabbit, Dollabella auricularia. Ecteinascidin-743 from mangrove tunicate Ecteinascidia turbinata, Didemnins was isolated from Caribbean tunicate Trididemnum solidum and Conopeptides from cone snails (Conus sp.), and a developing number of up-and-comers have been chosen as promising leads for expanded pre-clinical appraisals. Sea anemones possess numerous tentacles containing stinging cells or cnidocytes. The stinging cells are equipped with small organelles known as nematocysts. The two species of sea anemones namely, Heteractis magnificaandStichodactyla haddoni, were collected from Mandapam coastal waters of Ramanathapuram district, Tamilnadu, India. The Nematocyst was collected and centrifuged, and the supernatant was lyophilized and stored for further analysis. The amount of protein from Heteractis Magnifica and Stichodactyla haddoni was estimated. The crude extract has shown haemolytic activity on chicken blood and goat blood. In the antibacterial activity of the sea anemone against six bacterial strains Staphylococcus aureus, Salmonella typhii, Salmonella paratyphii, Klebsiella pneumonia, Vibrio cholerae, Pseudomonas aeruginosa. Antibacterial activity of H. Magnifica and S.haddoni was measured as the radius of the zone of inhibition.

Prediction of the O2 Conditions in the Selector

1994 ◽  
Vol 29 (7) ◽  
pp. 229-237 ◽  
Author(s):  
J. Kruit ◽  
F. Boley ◽  
L. J. A. M. Jacobs ◽  
T. W. M. Wouda
Keyword(s):  
Wastewater Treatment ◽  
Pilot Plant ◽  
Wastewater Treatment Plants ◽  
Coarse Filter ◽  
Plant Research ◽  
Influent Characterization

Influent characterization and biosorption experiments were carried out with settled influent of seven wastewater treatment plants to study the influence of O2 in the selector in relation to the success of developing good settling properties of the sludge. In previous years working selectors were installed and/or pilot plant research was carried out at these wastewater treatment plants. Characterization of the influent was done with help of standard COD and BOD measurements with help of a coarse filter. The research has elucidated that the presence of O2 in the selector, at initial sludge loadings of 3.5-6.5 kg BOD/kg MLSS.d, is important for producing good settling properties of the sludge when the sum of readily biodegradable COD and rapidly hydrolysable COD is greater than 40%. When the sum of sludge COD and slow hydrolysable COD is greater than 50% an unaerated selector can be used.

scholarly journals Fabrication and Characterization of Antimicrobial Magnetron Cosputtered TiO2/Ag/Cu Composite Coatings

Coatings ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 473
Author(s):  
Dilyana Gospodonova ◽  
Iliana Ivanova ◽  
Todorka Vladkova
Keyword(s):  
Antimicrobial Activity ◽  
Composite Coatings ◽  
Surface Characteristics ◽  
Standard Test ◽  
Most Probable Number ◽  
Bacterial Strains ◽  
Probable Number ◽  
Fabrication And Characterization

The aim of this study was to prepare TiO2/Ag/Cu magnetron co-sputtered coatings with controlled characteristics and to correlate them with the antimicrobial activity of the coated glass samples. The elemental composition and distribution, surface morphology, wettability, surface energy and its component were estimated as the surface characteristics influencing the bioadhesion. Well expressed, specific, Ag/Cu concentration-dependent antimicrobial activity in vitro was demonstrated toward Gram-negative and Gram-positive standard test bacterial strains both by diffusion 21 assay and by Most Probable Number of surviving cells. Direct contact and eluted silver/coper nanoparticles killing were experimentally demonstrated as a mode of the antimicrobial action of the studied TiO2/Ag/Cu thin composite coatings. It is expected that they would ensure a broad spectrum bactericidal activity during the indwelling of the coated medical devices and for at least 12 h after that, with the supposition that the benefits will be over a longer time.

scholarly journals Chemical and Structural Characterization of Maize Stover Fractions in Aspect of Its Possible Applications

Materials ◽  
2021 ◽  
Vol 14 (6) ◽  
pp. 1527
Author(s):  
Magdalena Woźniak ◽  
Izabela Ratajczak ◽  
Dawid Wojcieszak ◽  
Agnieszka Waśkiewicz ◽  
Kinga Szentner ◽  
...  
Keyword(s):  
Structural Characterization ◽  
Biogas Production ◽  
Structural Parameters ◽  
C:N Ratio ◽  
Crystallinity Index ◽  
Degree Of Crystallinity ◽  
Cellulose Content ◽  
X Ray Diffraction ◽  
Maize Stover

In the last decade, an increasingly common method of maize stover management is to use it for energy generation, including anaerobic digestion for biogas production. Therefore, the aim of this study was to provide a chemical and structural characterization of maize stover fractions and, based on these parameters, to evaluate the potential application of these fractions, including forbiogas production. In the study, maize stover fractions, including cobs, husks, leaves and stalks, were used. The biomass samples were characterized by infrared spectroscopy (FTIR), X-ray diffraction and analysis of elemental composition. Among all maize stover fractions, stalks showed the highest C:N ratio, degree of crystallinity and cellulose and lignin contents. The high crystallinity index of stalks (38%) is associated with their high cellulose content (44.87%). FTIR analysis showed that the spectrum of maize stalks is characterized by the highest intensity of bands at 1512 cm−1 and 1384 cm−1, which are the characteristic bands of lignin and cellulose. Obtained results indicate that the maize stover fraction has an influence on the chemical and structural parameters. Moreover, presented results indicate that stalks are characterized by the most favorable chemical parameters for biogas production.

The first sequenced Sphaerotilus natans bacteriophage– characterization and potential to control its filamentous bacterium host

2021 ◽  
Vol 97 (4) ◽  
Author(s):  
Rute Ferreira ◽  
Rui Amado ◽  
Jorge Padrão ◽  
Vânia Ferreira ◽  
Nicolina M Dias ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
Bacterial Communities ◽  
Potential Application ◽  
Deleterious Effect ◽  
Wastewater Treatment Plants ◽  
Lytic Phage ◽  
Filamentous Bacterium ◽  
Sphaerotilus Natans ◽  
Isolation And Characterization

ABSTRACT Bacteriophages (phages) are ubiquitous entities present in every conceivable habitat as a result of their bacterial parasitism. Their prevalence and impact in the ecology of bacterial communities and their ability to control pathogens make their characterization essential, particularly of new phages, improving knowledge and potential application. The isolation and characterization of a new lytic phage against Sphaerotilus natans strain DSM 6575, named vB_SnaP-R1 (SnaR1), is here described. Besides being the first sequenced genome of a Sphaerotilus natans infecting phage, 99% of its 41507 bp genome lacks homology with any other sequenced phage, revealing its uniqueness and previous lack of knowledge. Moreover, SnaR1 is the first Podoviridae phage described infecting this bacterium. Sphaerotilus natans is an important filamentous bacterium due to its deleterious effect on wastewater treatment plants (WWTP) and thus, phages may play a role as novel biotechnological tools against filamentous overgrowth in WWTP. The lytic spectrum of SnaR1 was restricted to its host strain, infecting only one out of three S. natans strains and infection assays revealed its ability to reduce bacterial loads. Results suggest SnaR1 as the prototype of a new phage genus and demonstrates its potential as a non-chemical alternative to reduce S. natans DSM 6575 cells.

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