Genotyping-driven diversity assessment of biocontrol potent Bacillus spp. strain collection as a potential method for the development of strain-specific biomarkers

• Published in: Archives of microbiology Vol. 205; no. 4; p. 114
• Main Authors: Rosić, Iva, Nikolić, Ivan, Ranković, Tamara, Anteljević, Marina, Medić, Olja, Berić, Tanja, Stanković, Slaviša
• Format: Journal Article
• Language: English
• Published: Berlin/Heidelberg Springer Berlin Heidelberg 01.04.2023; Springer Nature B.V
• Subjects: Amplification; Archives & records; Bacillus; Bacillus - genetics; Binding sites; Biochemistry; Biological control; Biomarkers; Biomedical and Life Sciences; Biotechnology; Cell Biology; Colonization; DNA - genetics; Ecology; Environmental studies; Genotype; Genotyping; Gram-positive bacteria; Life Sciences; Methods; Microbial Ecology; Microbiology; Microorganisms; Monitoring; Monitoring methods; Original Paper; Pathogens; Polymerase chain reaction; Polymerase Chain Reaction - methods; Random amplified polymorphic DNA; Random Amplified Polymorphic DNA Technique - methods; Microbial diversity; spp; Genotyping; Rep; RAPD; Biocontrol; Bacillus spp
• ISSN: 0302-8933; 1432-072X
• DOI: 10.1007/s00203-023-03460-9

Bacillus species are among the most researched and frequently applied biocontrol agents. To estimate their potential as environmentally friendly microbial-based products, reliable and rapid plant colonization monitoring methods are essential. We evaluated repetitive element-based (rep) and Random Amplified Polymorphic DNA (RAPD) PCR (Polymerase Chain Reaction) genotyping in a diversity assessment of 251 strains from bulk soil, straw, and manure samples across Serbia, highlighting their discriminative force and the presence of unique bands. RAPD 272, OPG 5, and (GTG) 5 primers were most potent in revealing the high diversity of a sizable environmental Bacillus spp. collection. RAPD 272 also amplified a unique band for a proven biocontrol strain, opening the possibility of Sequence Characterized Amplified Region (SCAR) marker design. That will enable colonization studies using the SCAR marker for its specific detection. This study provides a guide for primer selection for diversity and monitoring studies of environmental Bacillus spp. isolates.