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International Journal of Systematic and... Nov 2018A novel Gram-stain-positive, coccoid or short rod-shaped, moderate-orange-pigmented, halotolerant and psychrotolerant bacterium, designated strain SCU63, was isolated...
A novel Gram-stain-positive, coccoid or short rod-shaped, moderate-orange-pigmented, halotolerant and psychrotolerant bacterium, designated strain SCU63, was isolated from a saline soil sample in China, and characterized by a polyphasic taxonomic approach. 16S rRNA gene sequence similarity of strain SCU63 to species in the genera Planococcus and Planomicrobium ranged from 96.5 to 98.6 %. Phylogenetic trees as well as diagnostic signature nucleotides in the 16S rRNA gene sequence supported the view that this strain should be assigned to the genus Planococcus. Further, average nucleotide identity and digital DNA-DNA hybridization analyses confirmed the separate species status of strain SCU63 relative to the closely related taxa. The isolate grew at 0-40 °C (optimum, 30-35 °C), at pH 6.5-9.0 (pH 7.0-7.5) and in the presence of 0-15 % (w/v) NaCl (3 %). The principal fatty acids were anteiso-C15 : 0, C16 : 1ω7c alcohol, iso-C16 : 0 and iso-C14 : 0, and the dominant isoprenoid quinones were MK-8 and MK-7. The peptidoglycan type was determined to be A4α (l-Lys-d-Glu), and the polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminophospholipid and one unidentified lipid. The DNA G+C content was 44.6 mol%. Based on the genotypic, phenotypic and chemotaxonomic data, strain SCU63 can be classified as a novel species in the genus Planococcus, for which the name Planococcushalotolerans sp. nov. is proposed. The type strain is SCU63 (=CGMCC 1.13628=KCTC 43001).
Topics: Bacterial Typing Techniques; Base Composition; China; DNA, Bacterial; Fatty Acids; Nucleic Acid Hybridization; Peptidoglycan; Phospholipids; Phylogeny; Pigmentation; Planococcus Bacteria; RNA, Ribosomal, 16S; Salinity; Sequence Analysis, DNA; Soil; Soil Microbiology; Vitamin K 2
PubMed: 30265231
DOI: 10.1099/ijsem.0.003019 -
IET Nanobiotechnology Aug 2018Here, extracellular synthesis of silver nanoparticles (AgNPs) was carried out by strain BGCC-51 isolated from dye industry effluent soil. The microbes were isolated,...
Here, extracellular synthesis of silver nanoparticles (AgNPs) was carried out by strain BGCC-51 isolated from dye industry effluent soil. The microbes were isolated, screened, and characterised by molecular analysis (accession number KX776160). The optimisation of synthesis of AgNPs to determine the optimum substrate level (1-5 mM), pH (5-9), and temperature (25-55°C) were further carried out. strain BGCC-51 gave best yield of AgNPs at substrate concentration 5 mM, pH 8, and at 35°C. Synthesised AgNPs were characterised by scanning electron microscope and high-resolution transmission electron microscope. The size of synthesised AgNPs was in the range of 20-40 nm having spherical morphology. The AgNPs were found to show antimicrobial activity against bacteria such as (ATCC 25922), (ATCC 27853), and (ATCC 29213).
Topics: Biotechnology; Coloring Agents; Extracellular Space; Metal Nanoparticles; Oxidation-Reduction; Planococcaceae; Silver; Soil Microbiology; Textile Industry
PubMed: 30095422
DOI: 10.1049/iet-nbt.2017.0251 -
Proteins Sep 2018Intracellular subtilisin proteases (ISPs) have important roles in protein processing during the stationary phase in bacteria. Their unregulated protein degrading...
Intracellular subtilisin proteases (ISPs) have important roles in protein processing during the stationary phase in bacteria. Their unregulated protein degrading activity may have adverse effects inside a cell, but little is known about their regulatory mechanism. Until now, ISPs have mostly been described from Bacillus species, with structural data from a single homolog. Here, we study a marine ISP originating from a phylogenetically distinct genus, Planococcus sp. The enzyme was successfully overexpressed in E. coli, and is active in presence of calcium, which is thought to have a role in minor, but essential, structural rearrangements needed for catalytic activity. The ISP operates at alkaline pH and at moderate temperatures, and has a corresponding melting temperature around 60 °C. The high-resolution 3-dimensional structure reported here, represents an ISP with an intact catalytic triad albeit in a configuration with an inhibitory pro-peptide bound. The pro-peptide is removed in other homologs, but the removal of the pro-peptide from the Planococcus sp. AW02J18 ISP appears to be different, and possibly involves several steps. A first processing step is described here as the removal of 2 immediate N-terminal residues. Furthermore, the pro-peptide contains a conserved LIPY/F-motif, which was found to be involved in inhibition of the catalytic activity.
Topics: Aquatic Organisms; Calcium; Catalysis; Endopeptidases; Escherichia coli; Hydrogen-Ion Concentration; Mutation; Peptides; Planococcus Bacteria; Protein Processing, Post-Translational; Recombinant Proteins; Subtilisins; Temperature
PubMed: 29907987
DOI: 10.1002/prot.25528 -
Scientifica 2018The identification of potential hydrocarbon utilizing bacteria is an essential requirement in microbial enhanced oil recovery (MEOR). Molecular approaches like proteomic...
The identification of potential hydrocarbon utilizing bacteria is an essential requirement in microbial enhanced oil recovery (MEOR). Molecular approaches like proteomic and genomic characterization of the isolates are replacing the traditional method of identification with systemic classification. Genotypic profiling of the isolates includes fingerprint or pattern-based technique and sequence-based technique. Understanding community structure and dynamics is essential for studying diversity profiles and is challenging in the case of microbial analysis. The present study aims to understand the bacterial community composition from different heavy oil contaminated soil samples collected from geographically related oil well areas in Oman and to identify spore-forming hydrocarbon utilizing cultivable bacteria. V4 region of 16S rDNA gene was the target for Ion PGM™. A total of 825081 raw sequences were obtained from Ion torrent from all the 10 soil samples. The species richness and evenness were found to be moderate in all the samples with four main phyla, Firmicutes, Bacteroidetes, Proteobacteria, and Actinobacteria, the most abundant being Firmicutes. sp. ubiquitously dominated in all samples followed by , which was followed by , , and . Principal Coordinate Analysis (PCoA) and UPGMA dendrogram clustered the 10 soil samples into four main groups. Weighted UniFrac significance test determined that there was significant difference in the communities present in soil samples examined. It can be concluded that the microbial community was different in all the 10 soil samples with and sp. as predominating genus. The 16S rDNA sequencing of cultivable spore-forming bacteria identified the hydrocarbon utilizing bacteria as and sp. and the nucleotide sequences were submitted to NCBI GenBank under accession numbers KP119097-KP119115. and sp., which were relatively abundant in the oil fields, can be recommended to be chosen as candidates for hydrocarbon utilization study.
PubMed: 29755805
DOI: 10.1155/2018/9230143 -
Astrobiology Sep 2018It is well known that dissolved salts can significantly lower the freezing point of water and thus extend habitability to subzero conditions. However, most...
It is well known that dissolved salts can significantly lower the freezing point of water and thus extend habitability to subzero conditions. However, most investigations thus far have focused on sodium chloride as a solute. In this study, we report on the survivability of the bacterial strain Planococcus halocryophilus in sodium, magnesium, and calcium chloride or perchlorate solutions at temperatures ranging from +25°C to -30°C. In addition, we determined the survival rates of P. halocryophilus when subjected to multiple freeze/thaw cycles. We found that cells suspended in chloride-containing samples have markedly increased survival rates compared with those in perchlorate-containing samples. In both cases, the survival rates increase with lower temperatures; however, this effect is more pronounced in chloride-containing samples. Furthermore, we found that higher salt concentrations increase survival rates when cells are subjected to freeze/thaw cycles. Our findings have important implications not only for the habitability of cold environments on Earth but also for extraterrestrial environments such as that of Mars, where cold brines might exist in the subsurface and perhaps even appear temporarily at the surface such as at recurring slope lineae.
Topics: Chlorides; Cold Temperature; Freezing; Microbial Viability; Osmolar Concentration; Perchlorates; Planococcus Bacteria; Salts; Water
PubMed: 29664686
DOI: 10.1089/ast.2017.1805 -
Applied Biochemistry and Biotechnology Nov 2018Novel synthetic isoprenoids have been synthesized in engineered microbial hosts by evolving terpene synthase or expressing heterologous terpene synthases. Recently, the...
Novel synthetic isoprenoids have been synthesized in engineered microbial hosts by evolving terpene synthase or expressing heterologous terpene synthases. Recently, the native operon, crtNNM derived from Planococcus sp. PAMC 21323, has isolated for potential industrial applications of C carotenoids. For the first time, novel C carotenoids (sesquarterpene) were synthesized in Corynebacterium glutamicum expressing the crtNNM genes. The recombinant strains accumulate various sesquarterpene including 4-apolycopene (red color), 4-aponeurosporene (yellow color), and no pigmentation, depending on the expression of the genetic elements of the crtNNM genes. Subsequently, the carotenoid extract from the cells harboring pCES-H36-CrtNNM was analyzed, resulting in significantly higher antioxidant activity than those of other strains harboring pCES-H36-CrtNM and pCES-H36-CrtNN, respectively. This study will promote further engineering of C. glutamicum to increase sesquarterpene productions.
Topics: Antioxidants; Carotenoids; Corynebacterium glutamicum; Genes, Bacterial; Genetic Engineering; Planococcus Bacteria; Recombination, Genetic; Sesquiterpenes
PubMed: 29663127
DOI: 10.1007/s12010-018-2756-9 -
Extremophiles : Life Under Extreme... May 2018A psychrophilic extracellular protease was isolated from the marine bacterium Planococcus sp. M7 found in the deep-sea mud of the Southern Indian Ocean. The mature...
A psychrophilic extracellular protease was isolated from the marine bacterium Planococcus sp. M7 found in the deep-sea mud of the Southern Indian Ocean. The mature protease is about 43 kDa and contains 389 amino acids. Sequence alignment revealed that the protease whose catalytic triad was comprised of Ser224, Lys249, and Gln253 contains a catalytic module belonging to the serralysin-type protease family 41, and displays 46.55% identity with the experimentally verified serine protease from Bacillus subtilis str. 168. The enzyme displayed an alkaline mesophilic preference with an optimum pH of 10.0 and an optimum temperature of 35 °C. The enzyme retained its activity from 5 to 35 °C and was resistant to repeated freezing and thawing, but was completely inactivated at 55 °C. Calcium ions had a protective effect against thermal denaturation. More than 60% of the maximum activity was retained at pH values in the range of 5.0-11.0. Almost no activity loss was detected after 1 h of incubation at pH 8.0-10.0 and 20 °C, or with 1.0% SDS. Most important, this protease also showed good stability and compatibility with the standard enzyme-free detergent, which indicates its special interest for applications in detergent industry.
Topics: Bacterial Proteins; Enzyme Stability; Freezing; Peptide Hydrolases; Planococcus Bacteria; Protein Denaturation
PubMed: 29497843
DOI: 10.1007/s00792-018-1010-2 -
3 Biotech Jan 2018The aim of this study was to isolate bacteria from sea grass, collected from the coastal area of Jeddah, Saudi Arabia and to screen them for antifungal and enzymatic...
The aim of this study was to isolate bacteria from sea grass, collected from the coastal area of Jeddah, Saudi Arabia and to screen them for antifungal and enzymatic activities. We have isolated 162 rhizo and endophytic bacteria from soil, roots, and leaves of the sea grass. Antifungal screening of isolated bacteria revealed 19 strains (11.7%) capable to inhibit growth of four pathogenic fungi, , , and in an in vitro assay. Taxonomic and phylogenetic analyses on the basis of 16S rRNA gene sequence revealed 97-99.9% sequence identity to recognized species. , , and , within the Phylum Firmicutes, , , and (Actinobacteria), , , (α-Proteobacteria), and (γ-Proteobacteria), were isolated. Strains belong to Phylum Firmicutes remain dominant antagonistic bacteria in this study. Further hydrolytic enzyme production was determined for these antagonistic bacteria. Our results demonstrated that the sea grass represents an important source of diverse antagonistic bacteria capable of producing antifungal metabolite.
PubMed: 29354359
DOI: 10.1007/s13205-017-1066-1 -
International Journal of Systematic and... Feb 2018A novel aerobic, Gram-stain-positive, motile, moderately halophilic and coccoid bacterial strain, designated LCB217, was isolated from a saline-alkali soil in...
A novel aerobic, Gram-stain-positive, motile, moderately halophilic and coccoid bacterial strain, designated LCB217, was isolated from a saline-alkali soil in north-western China and identified using a polyphasic taxonomic approach. Growth occurred with 3-15 % (w/v) NaCl (optimum 3-5 %), at 10-45 °C (optimum 30 °C) and at pH 7.0-9.0 (optimum pH 9.0). Strain LCB217 contained MK-7 and MK-8 as the predominant menaquinones and anteiso-C15 : 0, iso-C14 : 0 and iso-C16 : 0 as the major fatty acids. The polar lipids from strain LCB217 consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, one unidentified phospholipid, one unidentified aminophospholipid and one unidentified lipid. The peptidoglycan type was A4α (l-Lys-d-Glu). Phylogenetic analysis of the 16S rRNA gene sequence showed that strain LCB217 belonged to the genus Planococcus and was closely related to the type strains Planococcus plakortidis AS/ASP6 (II) (98.2 % similarity), Planococcus maitriensis S1 (97.7 %) and Planococcus salinarum ISL-16 (97.2 %). The G+C content of the genomic DNA was 49.4 mol%. DNA-DNA relatedness values between strain LCB217 andPlanococcusplakortidis AS/ASP6 (II), Planococcusmaitriensis S1 andPlanococcussalinarum ISL-16 were 29.5, 38.1 and 39.5 %, respectively. On the basis of the phenotypic, phylogenetic and genomic data, strain LCB217 represents a novel species of the genus Planococcus, for which the name Planococcus salinus sp. nov. is proposed. The type strain is LCB217 (=CGMCC 1.15685=KCTC 33861).
Topics: Alkalies; Bacterial Typing Techniques; Base Composition; China; DNA, Bacterial; Fatty Acids; Nucleic Acid Hybridization; Phospholipids; Phylogeny; Planococcus Bacteria; RNA, Ribosomal, 16S; Salinity; Sequence Analysis, DNA; Soil; Soil Microbiology; Vitamin K 2
PubMed: 29300160
DOI: 10.1099/ijsem.0.002548 -
Journal of Biotechnology Jan 2018A novel type strain, Planococcus faecalis AJ003, isolated from the feces of Antarctic penguins, synthesizes a rare C30 carotenoid,...
A novel type strain, Planococcus faecalis AJ003, isolated from the feces of Antarctic penguins, synthesizes a rare C30 carotenoid, glycosyl-4,4'-diaponeurosporen-4'-ol-4-oic acid. The complete genome of P. faecalis AJ003 comprises a single circular chromosome (3,495,892 bp; 40.9% G + C content). Annotation analysis has revealed 3511 coding DNA sequences and 99 RNAs; seven genes associated with the MEP pathway and five genes involved in the carotenoid pathway have been identified. The functionality and complementation of 4,4'-diapophytoene synthase (CrtM) and two copies of heterologous 4,4'-diapophytoene desaturase (CrtN) involved in carotenoid biosynthesis were analyzed in Escherichia coli.
Topics: Bacterial Proteins; Carotenoids; Genome, Bacterial; Planococcus Bacteria
PubMed: 29237561
DOI: 10.1016/j.jbiotec.2017.12.005