Complete genome sequence and epigenetic profile of Bacillus velezensis UCMB5140 used for plant and crop protection in comparison with other plant-associated Bacillus strains

dc.contributor.authorReva, Oleg N.
dc.contributor.authorLarisa, Safronova A.
dc.contributor.authorMwakilili, Aneth D.
dc.contributor.authorTibuhwa, Donatha
dc.contributor.authorLyantagaye, Sylvester
dc.contributor.authorChan, Wai Yin
dc.contributor.authorLutz, Stefanie
dc.contributor.authorAhrens, Christian H.
dc.contributor.authorVater, Joachim
dc.contributor.authorBorriss, Rainer
dc.contributor.emailoleg.reva@up.ac.zaen_ZA
dc.date.accessioned2020-12-01T09:00:00Z
dc.date.issued2020-09
dc.description.abstractThe application of biocontrol biopesticides based on plant growth–promoting rhizobacteria (PGPR), particularly members of the genus Bacillus, is considered a promising perspective to make agricultural practices sustainable and ecologically safe. Recent advances in genome sequencing by third-generation sequencing technologies, e.g., Pacific Biosciences’ Single Molecule Real-Time (PacBio SMRT) platform, have allowed researchers to gain deeper insights into the molecular and genetic mechanisms of PGPR activities, and to compare whole genome sequences and global patterns of epigenetic modifications. In the current work, this approach was used to sequence and compare four Bacillus strains that exhibited various PGPR activities including the strain UCMB5140, which is used in the commercial biopesticide Phytosubtil. Whole genome comparison and phylogenomic inference assigned the strain UCMB5140 to the species Bacillus velezensis. Strong biocontrol activities of this strain were confirmed in several bioassays. Several factors that affect the evolution of active PGPR B. velezensis strains were identified: (1) horizontal acquisition of novel non-ribosomal peptide synthetases (NRPS) and adhesion genes; (2) rearrangements of functional modules of NRPS genes leading to strain specific combinations of their encoded products; (3) gain and loss of methyltransferases that can cause global alterations in DNA methylation patterns, which eventually may affect gene expression and regulate transcription. Notably, we identified a horizontally transferred NRPS operon encoding an uncharacterized polypeptide antibiotic in B. velezensis UCMB5140. Other horizontally acquired genes comprised a possible adhesin and a methyltransferase, which may explain the strain-specific methylation pattern of the chromosomal DNA of UCMB5140.en_ZA
dc.description.departmentBiochemistryen_ZA
dc.description.departmentForestry and Agricultural Biotechnology Institute (FABI)en_ZA
dc.description.departmentGeneticsen_ZA
dc.description.departmentMicrobiology and Plant Pathologyen_ZA
dc.description.embargo2021-07-10
dc.description.librarianhj2020en_ZA
dc.description.sponsorshipThe South African National Research Foundation (NRF), the joint NRF/COSTECH (Tanzanian Commission for Science and Technology), joint TIA (Technology Innovation Agency of South Africa)/COSTECHPhD and MSc student fellowship grants from Southern African Biochemistry and Informatics for Natural Products (SABINA, http://www.sabina-africa.org/) and Agroscope through its research program Microbial Biodiversity.en_ZA
dc.description.urihttp://link.springer.com/journal/253en_ZA
dc.identifier.citationReva, O.N., Larisa, S.A., Mwakilili, A.D. et al. Complete genome sequence and epigenetic profile of Bacillus velezensis UCMB5140 used for plant and crop protection in comparison with other plant-associated Bacillus strains. Applied Microbiology and Biotechnology 104, 7643–7656 (2020). https://doi.org/10.1007/s00253-020-10767-w.en_ZA
dc.identifier.issn0175-7598 (print)
dc.identifier.issn1432-0614 (online)
dc.identifier.other10.1007/s00253-020-10767-w
dc.identifier.urihttp://hdl.handle.net/2263/77227
dc.language.isoenen_ZA
dc.publisherSpringeren_ZA
dc.rights© Springer-Verlag GmbH Germany, part of Springer Nature 2020. The original publication is available at : http://link.springer.comjournal/253.en_ZA
dc.subjectPlant growth–promoting rhizobacteria (PGPR)en_ZA
dc.subjectBacillus velezensisen_ZA
dc.subjectBiocontrolen_ZA
dc.subjectBiopesticidesen_ZA
dc.subjectGenomicsen_ZA
dc.subjectEpigeneticsen_ZA
dc.subjectWhole genome sequencing (WGS)en_ZA
dc.titleComplete genome sequence and epigenetic profile of Bacillus velezensis UCMB5140 used for plant and crop protection in comparison with other plant-associated Bacillus strainsen_ZA
dc.typePostprint Articleen_ZA

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