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    Genome-scale Evaluation of the Biotechnological Potential of Red Sea Bacilli Strains

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    Dissertation_Ghofran_Spring_18_after_report.pdf
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    Description:
    Ghofran Othoum - Final Dissertation
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    Type
    Dissertation
    Authors
    Othoum, Ghofran K. cc
    Advisors
    Bajic, Vladimir B. cc
    Committee members
    Christoffels, Alan G.
    Sarathy, Mani cc
    Gojobori, Takashi cc
    Program
    Chemical and Biological Engineering
    KAUST Department
    Physical Science and Engineering (PSE) Division
    Date
    2018-02
    Embargo End Date
    2019-05-24
    Permanent link to this record
    http://hdl.handle.net/10754/627988
    
    Metadata
    Show full item record
    Access Restrictions
    At the time of archiving, the student author of this dissertation opted to temporarily restrict access to it. The full text of this dissertation became available to the public after the expiration of the embargo on 2019-05-24.
    Abstract
    The increasing spectrum of multidrug-resistant bacteria has caused a major global public health concern, necessitating the discovery of novel antimicrobial agents. Additionally, recent advancements in the use of microbial cells for the scalable production of industrial enzymes has encouraged the screening of new environments for efficient microbial cell factories. The unique ecological niche of the Red Sea points to the promising metabolic and biosynthetic potential of its microbial system. Here, ten sequenced Bacilli strains, that are isolated from microbial mat and mangrove mud samples from the Red Sea, were evaluated for their use as platforms for protein production and biosynthesis of bioactive compounds. Two of the species (B.paralicheniformis Bac48 and B. litoralis Bac94) were found to secrete twice as much protein as Bacillus subtilis 168, and B. litoralis Bac94 had complete Tat and Sec protein secretion systems. Additionally, four Red Sea Species (B. paralicheniformis Bac48, Virgibacillus sp. Bac330, B. vallismortis Bac111, B. amyloliquefaciens Bac57) showed capabilities for genetic transformation and possessed competence genes. More specifically, the distinctive biosynthetic potential evident in the genomes of B. paralicheniformis Bac48 and B. paralicheniformis Bac84 was assessed and compared to nine available complete genomes of B. licheniformis and three genomes of B. paralicheniformis. A uniquely-structured trans-acyltransferase (trans-AT) polyketide synthase/nonribosomal peptide synthetase (PKS/NRPS) cluster in strains of this species was identified in the genome of B. paralicheniformis 48. In total, the two B. paralicheniformis Red Sea strains were found to be more enriched in modular clusters compared to B. licheniformis strains and B. paralicheniformis strains from other environments. These findings provided more insights into the potential of B. paralicheniformis 48 as a microbial cell factory and encouraged further focus on the strain’s metabolism at the system level. Accordingly, a draft metabolic model for B. paralicheniformis Bac48 (iPARA1056) was reconstructed, refined, and validated using growth rate and growth phenotypes under different substrates, generated using high-throughput Phenotype Microarray technology. The presented studies indicate that several of the isolated strains represent promising chassis for the development of cell factories for enzyme production and also point to the richness of their genomes with specific modules of secondary metabolism that have likely evolved in Red Sea Bacilli due to environmental adaptation.
    Citation
    Othoum, G. K. (2018). Genome-scale Evaluation of the Biotechnological Potential of Red Sea Bacilli Strains. KAUST Research Repository. https://doi.org/10.25781/KAUST-XQ17E
    DOI
    10.25781/KAUST-XQ17E
    ae974a485f413a2113503eed53cd6c53
    10.25781/KAUST-XQ17E
    Scopus Count
    Collections
    Dissertations; Dissertations; Physical Science and Engineering (PSE) Division; Chemical Engineering Program

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