Complete Genome Sequence of Bacillus licheniformis TAB7, a Compost-Deodorizing Strain with Potential for Plant Growth Promotion

Mpofu, Enock; Vejarano, Felipe; Suzuki-Minakuchi, Chiho; Ohtsubo, Yoshiyuki; Tsuda, Masashi; Chakraborty, Joydeep; Nakajima, Miki; Okada, Kazunori; Tada, Nobuki; Kimura, Toshiaki; Nojiri, Hideaki

doi:10.1128/mra.01659-18

Cited by 5 publications

(2 citation statements)

References 14 publications

(17 reference statements)

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“…He et al [52] analyzed the complete genome sequence of B. licheniformis BL‐010 capable of degrading aflatoxin B 1 , and studied the genes related to aflatoxin B 1 degradation in depth at the gene level, which is important and valuable for improving the yield of aflatoxin B 1 detoxifying enzymes. Mpofu et al [53] determined the complete genome sequence of B. licheniformis TAB7, which can be used as a compost deodorizing strain with plant growth‐promoting potential. Dindhoria et al [54] determined the complete genome sequence of B. licheniformis MCC 2514, which has been shown to demonstrate its biopreservative ability by preventing whey isolation, CO 2 , and odor production while reducing coliform contamination, as confirmed by the NRPS and bacteriocin gene clusters in its genome.…”

Section: Discussionmentioning

confidence: 99%

Complete genome sequence of Bacillus Licheniformis NWMCC0046, a candidate for the laundry industry

Zhou

Zeng

et al. 2022

J Basic Microbiol

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In this study, selected properties of protease and the complete genome sequence of Bacillus licheniformis NWMCC0046 were investigated, to discover laundry applications and other potential probiotic properties of this strain. Partial characterization of B. licheniformis NWMCC0046 showed that its protease has good activity both in alkaline environments and at low temperatures. Also, the protease is compatible with commercial detergents and can be used as a detergent additive for effective stain removal at low temperatures. The complete genome sequence of B. licheniformis NWMCC0046 is comprised of a 4,321,565 bp linear chromosome with a G + C content of 46.78% and no plasmids. It had 4504 protein‐encoding genes, 81 transfer RNA (tRNA) genes, and 24 ribosomal RNA (rRNA) genes. Genomic analysis revealed genes involved in exocellular enzyme production and probiotic properties. In addition, genomic sequence analysis revealed specific genes encoding carbohydrate metabolism pathways, resistance, and cold adaptation capacity. Overall, protease properties show its potential as a detergent additive enzyme. The complete genome sequence information of B. licheniformis NWMCC0046 was obtained, and functional prediction revealed its numerous probiotic properties.

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Section: Discussionmentioning

confidence: 99%

Complete genome sequence of Bacillus Licheniformis NWMCC0046, a candidate for the laundry industry

Zhou

Zeng

et al. 2022

J Basic Microbiol

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“…The production of these compounds was measured indirectly by assessing NHase activity, an enzyme known to degrade these nitrile compounds into indole-3-acetic acid in bacteria and plants [21]. The study focused on Rhodococcus and Bacillus species, both contain inducible NHase enzymes [22,23,24,25,26,27]. Bacteria were induced with a short-chained hydrocarbon, cobalt, and urea for 3 d. under high pressure low aeration conditions [28].…”

Section: Introductionmentioning

confidence: 99%

Preliminary Evaluation: Hydrocarbons, Cobalt, & Urea Enhance Bacteria Benefits to Plants

Perry

Spence

2019

JEAI

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Aim: Develop a method to induce PGPB to biosynthesize nitrile compounds that may act as a reliable and repeatable means to increase seed germination in plant species. Study Design: The germination experiment was conducted in a completely randomized design with two replications and 40 pots (80 seedlings) per experimental unit, following a 1x1 factorial design for each culture, treated or untreated soil and 1 germination period for both conditions. The nitrile hydratase experiment was conducted in a completely randomized design with 3 replications and 3 soil samples per experimental unit, following a 1x1 factorial design for each cultivar, induced or non-induced soil and 1 cultivation period. Place and Duration of Study: Germination work was executed at G & A Innovative Solutions, LLC, GA., April - May 2017. Nitrile Hydratase Assay work was executed at Georgia State University, Applied Environmental Microbiology Dept., Atlanta, GA. November 2010-August 2011. Methodology: Rhodococcus and Bacillus species were induced with short chained-hydrocarbons, cobalt, and urea in a triphasic system for 3 d to potentially make nitrile compounds to benefit seed germination. Increased NHase activity has been previously correlated to production of these nitrile compounds and an increased ability to affect plant development. NHase activity was measured after bacteria were suspended in soil for 6-7 d. Results: The induction method sustained and increased NHase activity by 200%, during suspension in soil. Induced Bacillus increased germination by 34%, shoot & root length by 67% & 10%. Conclusion: Enhancing biosynthesis of nitriles in PGPB may enhance bacteria ability increase seed germination rates. Measuring NHase activity may indirectly measure efficacy of PGPB in soil. The results are preliminary and require additional studies to confirm results.

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Algorisms used for in silico finishing of bacterial genomes based on short-read assemblage implemented in GenoFinisher, AceFileViewer, and ShortReadManager

Ohtsubo

Hirose

Nagata

2022

Bioscience, Biotechnology, and Biochemistry

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In these days, for bacterial genome sequence determination, ultralong reads with homopolymeric troubles are used in combinations with short reads, resulting in genomic sequences with possible incorrect uniformity of repeat sequences. We have been determining complete bacterial genomic sequences based on NGS short reads and Newbler assemblage by utilizing functions implemented in 3 software GenoFinisher, AceFileViewer, and ShortReadManager without conducting additional experiments for gap closing, proving the concept that NGS short reads enclose enough information to determine complete genome sequences. Although some manual in silico tasks are to be conducted, they will ultimately be solved in a single pipeline. In this review, we describe the tools and implemented ideas that have enabled complete sequence determination solely based on short reads, which would be useful for establishing the basis for the future development of a short-read-based assembler that enables complete and accurate genome sequence determination at a lower cost.

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Complete Genome Sequence of Bacillus licheniformis TAB7, a Compost-Deodorizing Strain with Potential for Plant Growth Promotion

Cited by 5 publications

References 14 publications

Complete genome sequence of Bacillus Licheniformis NWMCC0046, a candidate for the laundry industry

Complete genome sequence of Bacillus Licheniformis NWMCC0046, a candidate for the laundry industry

Preliminary Evaluation: Hydrocarbons, Cobalt, & Urea Enhance Bacteria Benefits to Plants

Algorisms used for in silico finishing of bacterial genomes based on short-read assemblage implemented in GenoFinisher, AceFileViewer, and ShortReadManager

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