Comparative Genomic Analysis of Bacillus amyloliquefaciens and Bacillus subtilis Reveals Evolutional Traits for Adaptation to Plant-Associated Habitats

Zhang, Nan; Yang, Dongqing; Kendall, Joshua; Borriss, Rainer; Druzhinina, Irina S.; Kubicek, Christian P.; Shen, Qirong; Zhang, Ruifu

doi:10.3389/fmicb.2016.02039

Cited by 60 publications

(41 citation statements)

References 82 publications

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“…The result of biochemical tests indicated that, the selected strain can utilize majority of carbon and nitrogen sources. The previous studies specify that Saccharomyces yeast exhibit negative result in both indole and H 2 S production [19,24]. The present study also comply the same phenomenon as previous studies.…”

Section: Physiological Parameters On Growth Of B Amyloliquefacienssupporting

confidence: 93%

“…Das et.al., isolates one novel Bacillus subtilis AN11 strain from Bhitarkanika mangrove forest, Odisha, India that have strong antagonistic activity against major fish bacterial pathogens[8]. These observations suggest the involvement of Bacillus genus in responses to pathogen resistance processes.Bacillus amyloliquefaciens is a non-pathogenic soil bacteria closely related to the species B. subtilis[19]. This bacterium is gram positive rods along with peritrichous flagella consent to motility.…”

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confidence: 99%

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Antagonistic activity ofBacillus amyloliquefacienssubsp.amyloliquefaciensagainst multidrug resistantSerratia rubidaea

Afrin

Bhuiyan

2019

Preprint

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Serratia rubidaea a member of the Enterobacteriaceae family, is a Gram-negative opportunistic pathogen, known to survive harsh environmental conditions and responsible for hospital associated infections. Specifically, S. rubidaea can withstand desiccation and survive on hospital surfaces and equipments as well as have acquired antimicrobial resistance determinants for different commercial antibiotics. The expansion of this multidrug resistant pattern suggests that the treatment of S. rubidaea infections will become increasingly difficult in near future. Although some measures were taken to control this species, an inhibition mechanism is remaining unknown. To design effective means to control the dissemination of S. rubidaea, an in-depth analysis is required. In the present study, one possible candidate was isolated from the soil of Sundarban Mangroove Forest (Bangladesh) that has important physiological effects to inhibit this pathogenic bacterium. The bacterial isolate was initially identified as Bacillus amyloliquefaciens subsp. amyloliquefaciens using BIOLOG TM identification system and confirmed to be B. amyloliquefaciens strain through 16 S rDNA sequence analysis. The growth and antagonistic activity of this potential strain was shown to be stable under wide range of pH, temperature and salinity (NaCl). Moreover, the novel B. amyloliquefaciens isolate can also inhibit Staphylococcus aureus, Escherichia coli, Pseudomonas aeruginosa and other pathogenic bacteria. These results suggest that B. amyloliquefaciens might have potential antimicrobial properties and further research is required for future use of this bacterium as biological controls of S. rubidaea or development as new drugs for pathogenic bacteria.

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Section: Physiological Parameters On Growth Of B Amyloliquefacienssupporting

confidence: 93%

mentioning

confidence: 99%

Antagonistic activity ofBacillus amyloliquefacienssubsp.amyloliquefaciensagainst multidrug resistantSerratia rubidaea

Afrin

Bhuiyan

2019

Preprint

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“…GI3 was 82 482 bp in size and located at 656 129-738 610 bp in the genome, and the %G+C content of GI3 was observed to be significantly lower than the whole genome (40.1% vs. 46.1%). A genomic comparison of SQR9 with 21 other available B. velezensis strain genomes (Zhang et al, 2016) using M-GCAT showed that all of these strains have a GI inserted at the same site in their genomes, indicating a hot spot site for acquiring horizontally transferred genes. The inserted GI among these strains varied in size and gene content, with B. velezensis GYL4, B. velezensis YJ11-1-4 and B. velezensis AP183 having a shorter but comparable GI at this site, which was 78.4 Kb in GYL4 (94.7% homology) and YJ11-1-4 (94.7% homology) and 69.8 Kb in AP183 (82.5% homology) ( Fig.…”

Section: Resultsmentioning

confidence: 99%

“…As a root colonizer, SQR9 has robust regulation systems to form a highly structured biofilm on a root surface that was found to enhance its rhizoplane colonization, during this process, the FtsEX‐CwlO pathway, two‐component regulatory system ResDE and DegUS as well as the signal bacillomycin D and oxygen deficiency were involved (Xu et al ., ; Li et al ., ; Zhou et al ., ). Strain SQR9 efficiently promotes plant growth and suppresses soil‐borne diseases (Xu et al ., , ; Qiu et al ., ), besides the antimicrobial compounds, SQR9 also benefits from its versatile metabolism that can exploit diverse root‐secreted growth substrates (Zhang et al ., , ). As with other PGPR strains such as B. velezensis FZB42, it is possible that strain SQR9 has other unidentified natural product “weapons” that contribute to its competitiveness with other rhizobacteria.…”

Section: Introductionmentioning

confidence: 99%

A genomic island in a plant beneficial rhizobacterium encodes novel antimicrobial fatty acids and a self‐protection shield to enhance its competition

Wang

Zhang

et al. 2019

Environmental Microbiology

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Summary Rhizobacteria devote a relatively large percentage of their genomes to encode bioactive natural products that are important for competition in the rhizosphere. In this study, a plant beneficial rhizobacterium Bacillus velezensis SQR9 was discovered to produce novel antibacterial fatty acids, Bacillunoic acids, which are encoded on a genomic island (GI). This GI contains a hybrid type I fatty acid synthase (FAS)‐polyketide synthase (PKS) system and an ABC transporter. The FAS was predicted to synthesize a primer that was transferred to the PKS to synthesize Bacillunoic acids. The synthesized Bacillunoic acids inhibit the growth of diverse bacteria, with the strongest activity against closely related Bacillus strains, the ABC transporter exported the toxic Bacillunoic acids upon their induction for protecting the producing strain. The inhibition of other Bacillus strains by Bacillunoic acids extended the antimicrobial spectrum of SQR9 and enhanced its competition with closely related root‐associated bacteria. So, through the obtaining of this GI by horizontal gene transfer, strain SQR9 not only acquired a competitive weapon but also acquired a self‐protecting shield, which increased its competition with other rhizobacteria.

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“…Bacillus amyloliquefaciens: B. amyloliquefaciens is gram-positive, aerobic, and endospore-forming bacteria, which have been both widely used as producers of commercial chemicals in industry [37][38][39], and beneficial agents for plant growth promotion and suppression of soil-borne diseases in agriculture. B. amyloliquefaciens produces many metabolites such as e.g.…”

Section: Rhizobox Experimentsmentioning

confidence: 99%

Use of Active Microrganisms in Crop Production - A Review

Holečková¹,

Kulhánek²,

Balík³

2017

J Food Process Technol

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Phosphorus, other elements and natural resources are scarce, and so it is necessary to find alternative strategy to increase availability of nutrients for plants. One possible way could be application of so-called bioeffectors (BE) which should improve the mobilisation of nutrients (especially phosphorus) from less available forms in soil, improve plant growth and contribute to mycorrhiza development. BEs are commercially supplied products which contain active substances (live microorganisms and active natural compounds). BEs can be used in organic agriculture, because their application represents no risk for the environment. Several studies and experiments are focused on impact of bioeffectors' application and their active compounds on plants. Experiments were performed under different conditions (field, pot, greenhouse), on various testing plants and on various bioeffectors. These BEs have been used as a fertilizer, fungicide or molluscicide and they were applied either to soil, seed or leaf. Application should increase growth of root system and above-ground part of plants and also nutrient uptake. These products are developed for a wide variety of crops (e.g. maize, wheat, tomatoes, rape, spinach, grass, ornamentals). This review summarizes the most recent knowledge in this scientific field. Use of Active Microrganisms in Crop Production-A ReviewZlata Holečková*, Martin Kulhánek and Jiří Balík Department of Agro-Environmental Chemistry and Plant Nutrition, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences, Prague, Czech RepublicMycorrhiza is highly effective in absorbing nutrients from the soil, especially for nitrogen and phosphorus. Nitrogen and phosphorus are often limited in supply and fungal hyphae are able to absorb these nutrients more efficiently and from greater area of soil than the roots, which leads to increased plant growth. This causes mutually beneficial linkage between plants and fungi, the sugars (organic carbon) formed during photosynthesis are transported to the roots and the fungi are taken and the nutrients are absorbed by fungal hyphae from the soil and are transported into plants [10,11]. Arbuscular mycorrhizal fungi colonise most agricultural species (exceptions include Brassica spp., and Lupinus spp.) and play an important role in the phosphorus nutrition of many farming systems worldwide, especially on soils with low available phosphorus [3]. Literature ReviewExamples of plant strategies for phosphorus obtaining: One alternative strategy in plant production can be use of unmycorrhizal organism's P mobilizing nutrients, which should help to increased nutrient availability for plants. These substances are so-called bioeffectors.

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Comparative Genomic Analysis of Bacillus amyloliquefaciens and Bacillus subtilis Reveals Evolutional Traits for Adaptation to Plant-Associated Habitats

Cited by 60 publications

References 82 publications

Antagonistic activity ofBacillus amyloliquefacienssubsp.amyloliquefaciensagainst multidrug resistantSerratia rubidaea

Antagonistic activity ofBacillus amyloliquefacienssubsp.amyloliquefaciensagainst multidrug resistantSerratia rubidaea

A genomic island in a plant beneficial rhizobacterium encodes novel antimicrobial fatty acids and a self‐protection shield to enhance its competition

Use of Active Microrganisms in Crop Production - A Review

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