In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters
AuthorsOthoum, Ghofran K
Arold, Stefan T.
Bajic, Vladimir B.
Lafi, Feras Fawzi
KAUST DepartmentPhysical Sciences and Engineering (PSE) Division
Chemical and Biological Engineering Program
Biological and Environmental Sciences and Engineering (BESE) Division
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Computer Science Program
Computational Bioscience Research Center (CBRC)
Desert Agriculture Initiative
Applied Mathematics and Computational Science Program
KAUST Grant NumberFCC/1/1976–02-01
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AbstractBackgroundThe increasing spectrum of multidrug-resistant bacteria is a major global public health concern, necessitating discovery of novel antimicrobial agents. Here, members of the genus Bacillus are investigated as a potentially attractive source of novel antibiotics due to their broad spectrum of antimicrobial activities. We specifically focus on a computational analysis of the distinctive biosynthetic potential of Bacillus paralicheniformis strains isolated from the Red Sea, an ecosystem exposed to adverse, highly saline and hot conditions.ResultsWe report the complete circular and annotated genomes of two Red Sea strains, B. paralicheniformis Bac48 isolated from mangrove mud and B. paralicheniformis Bac84 isolated from microbial mat collected from Rabigh Harbor Lagoon in Saudi Arabia. Comparing the genomes of B. paralicheniformis Bac48 and B. paralicheniformis Bac84 with nine publicly available complete genomes of B. licheniformis and three genomes of B. paralicheniformis, revealed that all of the B. paralicheniformis strains in this study are more enriched in nonribosomal peptides (NRPs). We further report the first computationally identified trans-acyltransferase (trans-AT) nonribosomal peptide synthetase/polyketide synthase (PKS/ NRPS) cluster in strains of this species.ConclusionsB. paralicheniformis species have more genes associated with biosynthesis of antimicrobial bioactive compounds than other previously characterized species of B. licheniformis, which suggests that these species are better potential sources for novel antibiotics. Moreover, the genome of the Red Sea strain B. paralicheniformis Bac48 is more enriched in modular PKS genes compared to B. licheniformis strains and other B. paralicheniformis strains. This may be linked to adaptations that strains surviving in the Red Sea underwent to survive in the relatively hot and saline ecosystems.
CitationOthoum G, Bougouffa S, Razali R, Bokhari A, Alamoudi S, et al. (2018) In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters. BMC Genomics 19. Available: http://dx.doi.org/10.1186/s12864-018-4796-5.
SponsorsThe authors wish to acknowledge the experimental support from the King Abdullah University of Science and Technology (KAUST) Bioscience Core Laboratory. The research reported in this publication was supported by King Abdullah University of Science and Technology (KAUST) through the Awards Nos. FCC/1/1976–02-01, FCS/1/2911–01-01, BAS/1/1606–01-01, URF/1/1976–06-01, BAS/1/1624–01-01, BAS/1/1659–01-01, BAS/1/1059–01-01 from the Office of Sponsored Research (OSR).