Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40
<i>Streptomyces</i> are factories of antimicrobial secondary metabolites. We isolated a <i>Streptomyces</i> species associated with the <i>Pelargonium graveolens</i> rhizosphere. Its total metabolic extract exhibited potent antibacterial and antifungal properties...
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MDPI AG
2023-02-01
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| author | Abdelrahman M. Sedeek Israa Salah Hasnaa L. Kamel Mohamed A. Soltan Eman Nour Abdulrahman Alshammari Muhammad Shahid Riaz Rajoka Tarek R. Elsayed |
| author_facet | Abdelrahman M. Sedeek Israa Salah Hasnaa L. Kamel Mohamed A. Soltan Eman Nour Abdulrahman Alshammari Muhammad Shahid Riaz Rajoka Tarek R. Elsayed |
| author_sort | Abdelrahman M. Sedeek |
| collection | DOAJ |
| description | <i>Streptomyces</i> are factories of antimicrobial secondary metabolites. We isolated a <i>Streptomyces</i> species associated with the <i>Pelargonium graveolens</i> rhizosphere. Its total metabolic extract exhibited potent antibacterial and antifungal properties against all the tested pathogenic microbes. Whole genome sequencing and genome analyses were performed to take a look at its main characteristics and to reconstruct the metabolic pathways that can be associated with biotechnologically useful traits. AntiSMASH was used to identify the secondary metabolite gene clusters. In addition, we searched for known genes associated with plant growth-promoting characteristics. Finally, a comparative and pan-genome analysis with three closely related genomes was conducted. It was identified as <i>Streptomyces vinaceusdrappus</i> strain AC-40. Genome mining indicated the presence of several secondary metabolite gene clusters. Some of them are identical or homologs to gene clusters of known metabolites with antimicrobial, antioxidant, and other bioactivities. It also showed the presence of several genes related to plant growth promotion traits. The comparative genome analysis indicated that at least five of these gene clusters are highly conserved through rochei group genomes. The genotypic and phenotypic characteristics of <i>S. vinaceusdrappus</i> strain AC-40 indicate that it is a promising source of beneficial secondary metabolites with pharmaceutical and biotechnological applications. |
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| issn | 2079-7737 |
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| last_indexed | 2024-03-11T06:55:02Z |
| publishDate | 2023-02-01 |
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| spelling | doaj.art-f46f1c09385748bfa174d79d14056b1f2023-11-17T09:40:51ZengMDPI AGBiology2079-77372023-02-0112334510.3390/biology12030345Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40Abdelrahman M. Sedeek0Israa Salah1Hasnaa L. Kamel2Mohamed A. Soltan3Eman Nour4Abdulrahman Alshammari5Muhammad Shahid Riaz Rajoka6Tarek R. Elsayed7Department of Microbiology and Immunology, Faculty of Pharmacy, Sinai University—Kantara Branch, Ismailia 41522, EgyptFaculty of Pharmacy, Modern University for Technology and Information (MTI), Cairo 11585, EgyptDepartment of Microbiology and Immunology, Faculty of Pharmacy, Sinai University—Kantara Branch, Ismailia 41522, EgyptDepartment of Microbiology and Immunology, Faculty of Pharmacy, Sinai University—Kantara Branch, Ismailia 41522, EgyptFaculty of Organic Agriculture, Heliopolis University for Sustainable Development, Cairo 11785, EgyptDepartment of Pharmacology and Toxicology, College of Pharmacy, King Saud University, Post Box 2455, Riyadh 11451, Saudi ArabiaSchool of Dentistry, University of Maryland, Baltimore, MD 21201, USADepartment of Agricultural Microbiology, Faculty of Agriculture, Cairo University, Giza 12613, Egypt<i>Streptomyces</i> are factories of antimicrobial secondary metabolites. We isolated a <i>Streptomyces</i> species associated with the <i>Pelargonium graveolens</i> rhizosphere. Its total metabolic extract exhibited potent antibacterial and antifungal properties against all the tested pathogenic microbes. Whole genome sequencing and genome analyses were performed to take a look at its main characteristics and to reconstruct the metabolic pathways that can be associated with biotechnologically useful traits. AntiSMASH was used to identify the secondary metabolite gene clusters. In addition, we searched for known genes associated with plant growth-promoting characteristics. Finally, a comparative and pan-genome analysis with three closely related genomes was conducted. It was identified as <i>Streptomyces vinaceusdrappus</i> strain AC-40. Genome mining indicated the presence of several secondary metabolite gene clusters. Some of them are identical or homologs to gene clusters of known metabolites with antimicrobial, antioxidant, and other bioactivities. It also showed the presence of several genes related to plant growth promotion traits. The comparative genome analysis indicated that at least five of these gene clusters are highly conserved through rochei group genomes. The genotypic and phenotypic characteristics of <i>S. vinaceusdrappus</i> strain AC-40 indicate that it is a promising source of beneficial secondary metabolites with pharmaceutical and biotechnological applications.https://www.mdpi.com/2079-7737/12/3/345actinobacteriaantimicrobial activityplant growth promotionwhole genome sequencing<i>Streptomyces rochei</i> groupgenomics |
| spellingShingle | Abdelrahman M. Sedeek Israa Salah Hasnaa L. Kamel Mohamed A. Soltan Eman Nour Abdulrahman Alshammari Muhammad Shahid Riaz Rajoka Tarek R. Elsayed Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 Biology actinobacteria antimicrobial activity plant growth promotion whole genome sequencing <i>Streptomyces rochei</i> group genomics |
| title | Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 |
| title_full | Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 |
| title_fullStr | Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 |
| title_full_unstemmed | Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 |
| title_short | Genome-Based Analysis of the Potential Bioactivity of the Terrestrial <i>Streptomyces vinaceusdrappus</i> Strain AC-40 |
| title_sort | genome based analysis of the potential bioactivity of the terrestrial i streptomyces vinaceusdrappus i strain ac 40 |
| topic | actinobacteria antimicrobial activity plant growth promotion whole genome sequencing <i>Streptomyces rochei</i> group genomics |
| url | https://www.mdpi.com/2079-7737/12/3/345 |
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