Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis
The continuous emergence of multidrug-resistant (MDR) pathogens poses a global threat to public health. Accordingly, global efforts are continuously conducted to find new approaches to infection control by rapidly discovering antibiotics, particularly those that retain activities against MDR pathoge...
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MDPI AG
2021-12-01
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| Series: | Antibiotics |
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| Online Access: | https://www.mdpi.com/2079-6382/11/1/12 |
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| author | Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Ibrahim S. Yahia Khaled M. Aboshanab Mohamed S. E. Ashour |
| author_facet | Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Ibrahim S. Yahia Khaled M. Aboshanab Mohamed S. E. Ashour |
| author_sort | Mohamed A. Eltokhy |
| collection | DOAJ |
| description | The continuous emergence of multidrug-resistant (MDR) pathogens poses a global threat to public health. Accordingly, global efforts are continuously conducted to find new approaches to infection control by rapidly discovering antibiotics, particularly those that retain activities against MDR pathogens. In this study, metagenomic nanopore sequence analysis coupled with spectroscopic methods has been conducted for rapid exploring of the various active metabolites produced by <i>Paenibacillus ehimensis</i> soil isolate. Preliminary soil screening resulted in selection of a Gram-positive isolate identified via 16S ribosomal RNA gene sequencing as <i>Paenibacillus ehimensis</i> MZ921932. The isolate showed a broad range of activity against MDR Gram-positive, Gram-negative, and <i>Candida</i> spp. A metagenomics sequence analysis of the soil sample harboring <i>Paenibacillus ehimensis</i> isolate MZ921932 (NCBI GenBank accession PRJNA785410) revealed the presence of conserved biosynthetic gene clusters of petrobactin, tridecaptin, locillomycin (β-lactone), polymyxin, and macrobrevin (polyketides). The liquid chromatography/mass (LC/MS) analysis of the <i>Paenibacillus ehimensis</i> metabolites confirmed the presence of petrobactin, locillomycin, and macrobrevin. In conclusion, <i>Paenibacillus ehimensis</i> isolate MZ921932 is a promising rich source for broad spectrum antimicrobial metabolites. The metagenomic nanopore sequence analysis was a rapid, easy, and efficient method for the preliminary detection of the nature of the expected active metabolites. LC/MS spectral analysis was employed for further confirmation of the nature of the respective active metabolites. |
| first_indexed | 2024-03-10T03:02:50Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2079-6382 |
| language | English |
| last_indexed | 2024-03-10T03:02:50Z |
| publishDate | 2021-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Antibiotics |
| spelling | doaj.art-881f88d262e648fa940376592c2f1bdc2023-11-23T12:42:37ZengMDPI AGAntibiotics2079-63822021-12-011111210.3390/antibiotics11010012Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass AnalysisMohamed A. Eltokhy0Bishoy T. Saad1Wafaa N. Eltayeb2Ibrahim S. Yahia3Khaled M. Aboshanab4Mohamed S. E. Ashour5Department of Microbiology, Faculty of Pharmacy, Misr International University (MIU), Cairo 19648, EgyptDepartment of Bioinformatics, HITS Solutions Co., Cairo 11765, EgyptDepartment of Microbiology, Faculty of Pharmacy, Misr International University (MIU), Cairo 19648, EgyptLaboratory of Nano-Smart Materials for Science and Technology (LNSMST), Department of Physics, Faculty of Science, King Khalid University, P.O. Box 9004, Abha 61413, Saudi ArabiaDepartment of Microbiology and Immunology, Faculty of Pharmacy, Ain Shams University, Organization of African Unity Str., Cairo 11566, EgyptDepartment of Microbiology and Immunology, Faculty of Pharmacy, Al-Azhar University, Cairo 11651, EgyptThe continuous emergence of multidrug-resistant (MDR) pathogens poses a global threat to public health. Accordingly, global efforts are continuously conducted to find new approaches to infection control by rapidly discovering antibiotics, particularly those that retain activities against MDR pathogens. In this study, metagenomic nanopore sequence analysis coupled with spectroscopic methods has been conducted for rapid exploring of the various active metabolites produced by <i>Paenibacillus ehimensis</i> soil isolate. Preliminary soil screening resulted in selection of a Gram-positive isolate identified via 16S ribosomal RNA gene sequencing as <i>Paenibacillus ehimensis</i> MZ921932. The isolate showed a broad range of activity against MDR Gram-positive, Gram-negative, and <i>Candida</i> spp. A metagenomics sequence analysis of the soil sample harboring <i>Paenibacillus ehimensis</i> isolate MZ921932 (NCBI GenBank accession PRJNA785410) revealed the presence of conserved biosynthetic gene clusters of petrobactin, tridecaptin, locillomycin (β-lactone), polymyxin, and macrobrevin (polyketides). The liquid chromatography/mass (LC/MS) analysis of the <i>Paenibacillus ehimensis</i> metabolites confirmed the presence of petrobactin, locillomycin, and macrobrevin. In conclusion, <i>Paenibacillus ehimensis</i> isolate MZ921932 is a promising rich source for broad spectrum antimicrobial metabolites. The metagenomic nanopore sequence analysis was a rapid, easy, and efficient method for the preliminary detection of the nature of the expected active metabolites. LC/MS spectral analysis was employed for further confirmation of the nature of the respective active metabolites.https://www.mdpi.com/2079-6382/11/1/12<i>Paenibacillus ehimensis</i>LC/MSmetagenomicsβ-lactonepetrobactintridecaptin |
| spellingShingle | Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Ibrahim S. Yahia Khaled M. Aboshanab Mohamed S. E. Ashour Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis Antibiotics <i>Paenibacillus ehimensis</i> LC/MS metagenomics β-lactone petrobactin tridecaptin |
| title | Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis |
| title_full | Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis |
| title_fullStr | Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis |
| title_full_unstemmed | Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis |
| title_short | Exploring the Nature of the Antimicrobial Metabolites Produced by <i>Paenibacillus ehimensis</i> Soil Isolate MZ921932 Using a Metagenomic Nanopore Sequencing Coupled with LC-Mass Analysis |
| title_sort | exploring the nature of the antimicrobial metabolites produced by i paenibacillus ehimensis i soil isolate mz921932 using a metagenomic nanopore sequencing coupled with lc mass analysis |
| topic | <i>Paenibacillus ehimensis</i> LC/MS metagenomics β-lactone petrobactin tridecaptin |
| url | https://www.mdpi.com/2079-6382/11/1/12 |
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