Draft genome sequence of Vitellibacter vladivostokensis KMM 3516T: A protease-producing bacterium

Thevarajoo, Suganthi; Selvaratnam, Chitra; Chan, Kok‐Gan; Goh, Kian Mau; Chong, Chun Shiong

doi:10.1016/j.margen.2015.04.009

Cited by 6 publications

(5 citation statements)

References 15 publications

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“…Halophiles are highly specialized organisms that thrive in hypersaline environments [1,2]. They possess the ability to produce enzymes with high biotechnological potential including proteases, amylases, cellulases, lipases, and phosphatases for industrial applications [3][4][5][6][7][8][9][10][11]. For instance, halophilic bacteria could enhance phosphate uptake by plants through solubilizing the insoluble phosphate into soluble forms by producing alkaline phosphatase [12].…”

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Genome sequence of an uncharted halophilic bacterium Robertkochia marina with deciphering its phosphate-solubilizing ability

et al. 2020

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The wide use of whole-genome sequencing approach in the modern genomic era has opened a great opportunity to reveal the prospective applications of halophilic bacteria. Robertkochia marina CC-AMO-30D T is one of the halophilic bacteria that was previously taxonomically identified without any inspection on its biotechnological potential from a genomic aspect. In this study, we present the whole-genome sequence of R. marina and demonstrated the ability of this bacterium in solubilizing phosphate by producing phosphatase. The genome of R. marina has 3.57 Mbp and contains 3107 predicted genes, from which 3044 are protein coding, 52 are non-coding RNAs, and 11 are pseudogenes. Several phosphatases such as alkaline phosphatases and pyrophosphatases were mined from the genome. Further genomic study (phylogenetics, sequence analysis, and functional mechanism) and experimental data suggested that the alkaline phosphatase produced by R. marina could potentially be utilized in promoting plant growth, particularly for plants on saline-based agricultural land.

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Genome sequence of an uncharted halophilic bacterium Robertkochia marina with deciphering its phosphate-solubilizing ability

et al. 2020

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“…hennebergii , with a maximum enzyme activity of 71.13 U/mL after optimization of pH, carbon source, nitrogen source and metal ions; and a high enzyme activity level of 99.54 U/mL. Protease-producing bacteria are widely found in marine [ 34 ], animal intestine [ 35 ], soil [ 36 ], and other environments, and screening for these high protease-producing strains can be useful for industrial production and food processing.…”

Section: Discussionmentioning

confidence: 99%

Isolation, identification, and whole-genome sequencing of high-yield protease bacteria from Daqu of ZhangGong Laojiu

Liu

Wang

et al. 2022

PLoS ONE

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A total of 296 strains of protease-producing bacteria were isolated and purified from medium-temperature Daqu produced by ZhangGong LaoJiu Wine Co. Ltd. After calculating the ratio of transparent ring diameter to colony diameter and measuring the protease activities, a strain of high-yield protease bacteria, called DW-7, was screened out with a protease activity of 99.54 U/mL. Through morphological observation, 16S rDNA sequence analysis, and physiological and biochemical tests, the isolated bacteria DW-7 was determined to be Bacillus velezensis. In addition, whole-genome sequencing (WGS), using PacBio and the Illumina platform, was performed. Gene annotation was then conducted using the Clusters of Orthologous Groups (COG), Kyoto Encyclopedia of Genes and Genomes (KEGG), Non-Redundant Protein Sequence Database (NR), and Gene Ontology (GO) databases. The results showed that the genome of DW-7 was 3,942,829 bp long with a GC content of 46.45%. A total of 3,662 protein-encoding genes were predicted, with a total length of 3,402,822 bp. Additionally, 2,283; 2,796; and 2,127 genes were annotated in the COG, KEGG, and GO databases, respectively. A total of 196 high-yield protease genes were mainly enriched in the metabolism of alanine, aspartic acid, glutamate, glycine, serine, and threonine, as well as ABC transporter and transporter pathways.

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“…Recently, application of this approach was successful in discovery of several new enzymes including new (R)-selective amine transaminases (Schaetzle et al, 2011), catalyzing conversion of prochiral ketones into chiral (R)-amines ( Fig. 4), nitrile hydratase (Pei et al, 2014); vitamin D3specific hydroxylase (Ban et al, 2014), amidases (Ruan et al, 2016 andWu et al, 2016), solvent tolerant esterase (Fang et al, 2015); polyketide synthase (Deepa et al, 2017), chitinases (Lin et al, 2017); glutathione S-transferase (Jing et al, 2017); isoprene synthases (Ilmén et al, 2015), glycoside hydrolase family 3 (GH3) aryl β-glucosidases (Kudo et al, 2015) and others (Thevarajoo et al, 2015;Zhang et al, 2015 andFang et al, 2015).…”

Section: Database Mining Approach For Novel Enzymes Discoverymentioning

confidence: 99%

Recent Trends for Discovery and Enhancement of Enzyme Function: A Review

Ibrahim

El‐Dewany

2018

Egypt. J. Microbiol.

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R ECENTLY, there is a growing recognition of enzymes utilization as ecofriendly alternative for chemical catalysts in various industrial sectors. Two main approaches are used to expand the enzymes utilization in various industrial applications including (i) Searching nature for discovery of better performing novel biocatalysts and (ii) Improvement of the enzyme function and properties. The recent advances in biocatalyst discovery and engineering have led to an increase of the efficiency and functional diversityof enzymes. Therefore, enzyme application is expanding to broader industrial processes, including those which were previously restricted to the classical chemical catalysts. Furthermore, there is a significant success in developing made-to-order enzymes that meet the industrial process conditions requirements, leading to more efficient and cost-effective processes. Here I highlight state-of-the-art strategies and tools for novel enzyme discovery and function enhancement, including enzyme engineering at the molecular level through different approaches such as directed evolution, rational design, semi rational design and computational de novo enzyme design; in addition to the recently developed field, nanobiocatalysis.

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Draft genome sequence of Vitellibacter vladivostokensis KMM 3516T: A protease-producing bacterium

Cited by 6 publications

References 15 publications

Genome sequence of an uncharted halophilic bacterium Robertkochia marina with deciphering its phosphate-solubilizing ability

Genome sequence of an uncharted halophilic bacterium Robertkochia marina with deciphering its phosphate-solubilizing ability

Isolation, identification, and whole-genome sequencing of high-yield protease bacteria from Daqu of ZhangGong Laojiu

Recent Trends for Discovery and Enhancement of Enzyme Function: A Review

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