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dc.contributor.authorOthoum, Ghofran K.
dc.contributor.authorBougouffa, Salim
dc.contributor.authorMohamad Razali, Rozaimi
dc.contributor.authorBokhari, Ameerah
dc.contributor.authorAlamoudi, Soha
dc.contributor.authorAntunes, André
dc.contributor.authorGao, Xin
dc.contributor.authorHoehndorf, Robert
dc.contributor.authorArold, Stefan T.
dc.contributor.authorGojobori, Takashi
dc.contributor.authorHirt, Heribert
dc.contributor.authorMijakovic, Ivan
dc.contributor.authorBajic, Vladimir B.
dc.contributor.authorLafi, Feras Fawzi
dc.contributor.authorEssack, Magbubah
dc.date.accessioned2018-05-29T11:09:56Z
dc.date.available2018-05-29T11:09:56Z
dc.date.issued2018-05-22
dc.identifier.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.
dc.identifier.issn1471-2164
dc.identifier.doi10.1186/s12864-018-4796-5
dc.identifier.urihttp://hdl.handle.net/10754/627974
dc.description.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.
dc.description.sponsorshipThe 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).
dc.publisherSpringer Nature
dc.relation.urlhttps://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-4796-5
dc.rightsThe final publication is available at Springer Nature via 10.1186/s12864-018-4796-5
dc.subjectBacillus licheniformis
dc.subjectBacillus paralicheniformis
dc.subjectAntimicrobials
dc.subjectBiosynthetic gene clusters
dc.subjectGenome-mining
dc.subjectNonribosomal peptides
dc.subjectPolyketides
dc.subjectBacteriocins
dc.subjectLanthipeptides
dc.subjectBioinformatics
dc.titleIn silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters
dc.typeArticle
dc.contributor.departmentApplied Mathematics and Computational Science Program
dc.contributor.departmentBio-Ontology Research Group (BORG)
dc.contributor.departmentBioinformatics
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentChemical Engineering Program
dc.contributor.departmentCompetitive Research Funds
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentComputer Science Program
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.contributor.departmentDesert Agriculture Initiative
dc.contributor.departmentHirt Lab
dc.contributor.departmentOCRF- Special Academic Partnership
dc.contributor.departmentPhysical Science and Engineering (PSE) Division
dc.contributor.departmentPlant Science
dc.contributor.departmentStructural Biology and Engineering
dc.contributor.departmentStructural and Functional Bioinformatics Group
dc.identifier.journalBMC Genomics
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionDepartment of Biology, Science and Arts College, King Abdulaziz University, Rabigh, Kingdom of Saudi Arabia
dc.contributor.institutionBiology Department, Edge Hill University, Ormskirk, UK
dc.contributor.institutionNovo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Lyngby, Denmark
dc.contributor.institutionDepartment of Biology and Biological Engineering, Division of Systems & Synthetic Biology, Chalmers University of Technology, Gothenburg, Sweden
dc.contributor.institutionDepartment of Medical Laboratories, Faculty of Health Sciences, American University of Madaba, Madaba, Jordan
kaust.personOthoum, Ghofran K
kaust.personBougouffa, Salim
kaust.personMohamad Razali, Rozaimi
kaust.personBokhari, Ameerah
kaust.personGao, Xin
kaust.personHoehndorf, Robert
kaust.personArold, Stefan T.
kaust.personGojobori, Takashi
kaust.personHirt, Heribert
kaust.personBajic, Vladimir B.
kaust.personLafi, Feras Fawzi
kaust.personEssack, Magbubah
kaust.grant.numberFCC/1/1976–02-01
kaust.grant.numberFCS/1/2911–01-01
kaust.grant.numberBAS/1/1606–01-01
kaust.grant.numberURF/1/1976–06-01
kaust.grant.numberBAS/1/1624–01-01
kaust.grant.numberBAS/1/1659–01-01
kaust.grant.numberBAS/1/1059–01-01
dc.relation.issupplementedbyDOI:10.6084/m9.figshare.6319310
dc.relation.issupplementedbyDOI:10.6084/m9.figshare.c.4108970
refterms.dateFOA2018-06-14T07:07:44Z
display.relations<b> Is Supplemented By:</b> <br/> <ul> <li><i>[Dataset]</i> <br/> . DOI: <a href="https://doi.org/10.6084/m9.figshare.6319310">10.6084/m9.figshare.6319310</a> HANDLE: <a href="http://hdl.handle.net/10754/664123">10754/664123</a></li></ul><b> Is Supplemented By:</b> <br/> <ul> <li><i>[Dataset]</i> <br/> . DOI: <a href="https://doi.org/10.6084/m9.figshare.c.4108970">10.6084/m9.figshare.c.4108970</a> HANDLE: <a href="http://hdl.handle.net/10754/664135">10754/664135</a></li></ul>
dc.date.published-online2018-05-22
dc.date.published-print2018-12


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