In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters
Type
ArticleAuthors
Othoum, Ghofran K.
Bougouffa, Salim

Mohamad Razali, Rozaimi

Bokhari, Ameerah

Alamoudi, Soha
Antunes, André
Gao, Xin

Hoehndorf, Robert

Arold, Stefan T.

Gojobori, Takashi

Hirt, Heribert

Mijakovic, Ivan
Bajic, Vladimir B.

Lafi, Feras Fawzi
Essack, Magbubah

KAUST Department
Applied Mathematics and Computational Science ProgramBio-Ontology Research Group (BORG)
Bioinformatics
Biological and Environmental Science and Engineering (BESE) Division
Bioscience Program
Center for Desert Agriculture
Chemical Engineering Program
Competitive Research Funds
Computational Bioscience Research Center (CBRC)
Computer Science Program
Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division
GCR - New Progs, Collab & PreAward Admin
Hirt Lab
OCRF- Special Academic Partnership
Physical Science and Engineering (PSE) Division
Plant Science
Structural Biology and Engineering
Structural and Functional Bioinformatics Group
KAUST Grant Number
FCC/1/1976–02-01FCS/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
Date
2018-05-22Online Publication Date
2018-05-22Print Publication Date
2018-12Permanent link to this record
http://hdl.handle.net/10754/627974
Metadata
Show full item recordAbstract
BackgroundThe 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.Citation
Othoum 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.Sponsors
The 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).Publisher
Springer NatureJournal
BMC GenomicsRelations
Is Supplemented By:- [Dataset]
. DOI: 10.6084/m9.figshare.6319310 HANDLE: 10754/664123
- [Dataset]
. DOI: 10.6084/m9.figshare.c.4108970 HANDLE: 10754/664135
ae974a485f413a2113503eed53cd6c53
10.1186/s12864-018-4796-5