Bacillus subtilis EA-CB0575 genome reveals clues for plant growth promotion and potential for sustainable agriculture

Franco‐Sierra, Nicolás D.; Posada, Luisa F.; Santa-María, Germán; Romero-Tabarez, Magally; Villegas-Escobar, Valeska; Álvarez, Javier Correa

doi:10.1007/s10142-020-00736-x

Cited by 52 publications

(46 citation statements)

References 73 publications

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“…ED5 strain demonstrated strong siderophore activity and siderophore enterobactin (fes, entFS, and fepA) biosynthesis pathway was also observed in its genome study. Consistent with this study, the siderophore enterobactin pathway (fepEGDC) was detected in E. cloacae SBP-8 (Singh et al, 2017) and Bacillus subtilis EA-CB0575 genomes (Franco-Sierra et al, 2020).…”

Section: Discussionsupporting

confidence: 88%

Complete Genome Sequence of Enterobacter roggenkampii ED5, a Nitrogen Fixing Plant Growth Promoting Endophytic Bacterium With Biocontrol and Stress Tolerance Properties, Isolated From Sugarcane Root

Guo

Singh

et al. 2020

Front. Microbiol.

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Sugarcane is the leading economic crop in China, requires huge quantities of nitrogen in the preliminary plant growth stages. However, the use of an enormous amount of nitrogen fertilizer increases the production price, and have detrimental results on the environment, causes severe soil and water pollution. In this study, a total of 175 endophytic strains were obtained from the sugarcane roots, belonging to five different species, i.e., Saccharum officinarum, Saccharum barberi, Saccharum robustum, Saccharum spontaneum, and Saccharum sinense. Among these, only 23 Enterobacter strains were chosen based on nitrogen fixation, PGP traits, hydrolytic enzymes production, and antifungal activities. Also, all selected strains were showed diverse growth range under different stress conditions, i.e., pH (5-10), temperature (20-45 • C), and NaCl (7-12%) and 14 strains confirmed positive nifH, and 12 strains for acdS gene amplification, suggested that these strains could fix nitrogen along with stress tolerance properties. Out of 23 selected strains, Enterobacter roggenkampii ED5 was the most potent strain. Hence, this strain was further selected for comprehensive genome analysis, which includes a genome size of 4,702,851 bp and 56.05% of the average G + C content. Genome annotations estimated 4349 protein-coding with 83 tRNA and 25 rRNA genes. The CDSs number allocated to the KEGG, COG, and GO database were 2839, 4028, and 2949. We recognized a total set of genes that are possibly concerned with ACC deaminase activity, siderophores and plant hormones production, nitrogen and phosphate metabolism, symbiosis, root colonization, biofilm formation, sulfur assimilation and metabolism, along with resistance response toward a range of biotic and abiotic stresses. E. roggenkampii ED5 strain was also a proficient

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Section: Discussionsupporting

confidence: 88%

Complete Genome Sequence of Enterobacter roggenkampii ED5, a Nitrogen Fixing Plant Growth Promoting Endophytic Bacterium With Biocontrol and Stress Tolerance Properties, Isolated From Sugarcane Root

Guo

Singh

et al. 2020

Front. Microbiol.

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“…Systems biology can annotate the gene function of B. subtilis through omics analysis. Metabolomics analysis of B. subtilis EA-CB0575 revealed that some genes can promote plant growth [ 63 ]. Through genetic manipulation of these genes, agriculture will be greatly developed.…”

Section: Systematic Biology Advances In B Subtilismentioning

confidence: 99%

Advances on systems metabolic engineering of Bacillus subtilis as a chassis cell

Xiang

Kang

Zhang

2020

Synthetic and Systems Biotechnology

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The Gram-positive model bacterium Bacillus subtilis , has been broadly applied in various fields because of its low pathogenicity and strong protein secretion ability, as well as its well-developed fermentation technology. B. subtilis is considered as an attractive host in the field of metabolic engineering, in particular for protein expression and secretion, so it has been well studied and applied in genetic engineering. In this review, we discussed why B. subtilis is a good chassis cell for metabolic engineering. We also summarized the latest research progress in systematic biology, synthetic biology and evolution-based engineering of B. subtilis , and showed systemic metabolic engineering expedite the harnessing B. subtilis for bioproduction.

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“…Siderophores are low molecular weight compounds (500-1,500 Da) possessing a high affinity for Fe 3+ (K f > 10 30 ) (Haas & Defago, 2005) and they are synthesized by bacteria through non-ribosomal pathways (Hutchins et al, 1999;Khan et al, 2020). Many PGPB have been reported to produce siderophores, such as Bacillus subtilis, Paenibacillus polymyxa SK1, Mesorhizobium sp., Brevibacillus brevis GZDF3 (Franco-Sierra et al, 2020;Khan et al, 2020;Menéndez et al, 2020;Sheng et al, 2020). The chelate of siderophores and ferric iron can be directly absorbed by plants and are called mechanism III, which is thought to be used by plants to resist iron stress (Shenker et al, 1992;Yehuda et al, 1996;Chen, Dick & Streeter, 2000).…”

Section: Introductionmentioning

confidence: 99%

Siderophore and indolic acid production by Paenibacillus triticisoli BJ-18 and their plant growth-promoting and antimicrobe abilities

Zhang

Ren

Wang

et al. 2020

PeerJ

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Paenibacillus triticisoli BJ-18, a N2-fixing bacterium, is able to promote plant growth, but the secondary metabolites that may play a role in promoting plant growth have never been characterized. In this study, untargeted metabolomics profiling of P. triticisoli BJ-18 indicated the existence of 101 known compounds, including N2-acetyl ornithine, which is the precursor of siderophores, plant growth regulators such as trehalose 6-phosphate, betaine and trigonelline, and other bioactive molecules such as oxymatrine, diosmetin, luotonin A, (-)-caryophyllene oxide and tetrahydrocurcumin. In addition, six compounds were also isolated from P. triticisoli BJ-18 using a combination of silica gel chromatography, sephadex LH-20, octadecyl silane (ODS), and high-performance liquid chromatography (HPLC). The compound structures were further analyzed by Nuclear Magnetic Resonance (NMR), Mass Spectrometry (MS), and Electronic Circular Dichroism (ECD). The six compounds included three classical siderophore fusarinines identified as deshydroxylferritriacetylfusigen, desferritriacetylfusigen, and triacetylfusigen, and three indolic acids identified as paenibacillic acid A, 3-indoleacetic acid (IAA), and 3-indolepropionic acid (IPA). Both deshydroxylferritriacetylfusigen and paenibacillic acid A have new structures. Fusarinines, which normally occur in fungi, were isolated from bacterium for the first time in this study. Both siderophores (compounds 1 and 2) showed antimicrobial activity against Escherichia coli, Staphylococcus aureus and Bacillus subtilis, but did not show obvious inhibitory activity against yeast Candida albicans, whereas triacetylfusigen (compound 3) showed no antibiosis activity against these test microorganisms. Paenibacillic acid A, IAA, and IPA were shown to promote the growth of plant shoots and roots, and paenibacillic acid A also showed antimicrobial activity against S. aureus. Our study demonstrates that siderophores and indolic acids may play an important role in plant growth promotion by P. triticisoli BJ-18.

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Bacillus subtilis EA-CB0575 genome reveals clues for plant growth promotion and potential for sustainable agriculture

Cited by 52 publications

References 73 publications

Complete Genome Sequence of Enterobacter roggenkampii ED5, a Nitrogen Fixing Plant Growth Promoting Endophytic Bacterium With Biocontrol and Stress Tolerance Properties, Isolated From Sugarcane Root

Complete Genome Sequence of Enterobacter roggenkampii ED5, a Nitrogen Fixing Plant Growth Promoting Endophytic Bacterium With Biocontrol and Stress Tolerance Properties, Isolated From Sugarcane Root

Advances on systems metabolic engineering of Bacillus subtilis as a chassis cell

Siderophore and indolic acid production by Paenibacillus triticisoli BJ-18 and their plant growth-promoting and antimicrobe abilities

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