A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504

The continuous development of multidrug resistance pathogens with limited therapeutic options has become a great problem globally that impose sever health hazards. Accordingly, searching for of new antimicrobials became an urgent demand and great challenge. Soil significantly have been associated wi...

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Autores principales:	Mohamed A. Eltokhy, Bishoy T. Saad, Wafaa N. Eltayeb, Mona R. El-Ansary, Khaled M. Aboshanab, Mohamed S. E. Ashour
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	<i>Alcaligenes faecalis</i> LC/MS metagenomics ectoine bacillibactin quinolobactin Therapeutics. Pharmacology RM1-950
Acceso en línea:	https://doaj.org/article/5358392bc66947c2a44dd30a4335f674
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spelling	oai:doaj.org-article:5358392bc66947c2a44dd30a4335f6742021-11-25T16:24:24ZA Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ92150410.3390/antibiotics101113822079-6382https://doaj.org/article/5358392bc66947c2a44dd30a4335f6742021-11-01T00:00:00Zhttps://www.mdpi.com/2079-6382/10/11/1382https://doaj.org/toc/2079-6382The continuous development of multidrug resistance pathogens with limited therapeutic options has become a great problem globally that impose sever health hazards. Accordingly, searching for of new antimicrobials became an urgent demand and great challenge. Soil significantly have been associated with several species that are antibiotic producers. In this study, combination of conventional screening methods with Liquid chromatography- Mass spectroscopy (LC/MS) and metagenomic nanopore sequence analysis have been conducted for the deciphering the active metabolites produced by soil isolate(s). Preliminary soil screening resulted in a Gram-negative isolate identified via 16S ribosomal RNA as <i>Alcaligenes faecalis</i> isolate MZ921504 with promising antimicrobial activities against wide range of MDR gram-positive and gram-negative pathogens. The LC/MS analysis of the metabolites of <i>A. faecalis</i> isolate MZ921504 confirmed the presence of ectoine, bacillibactin, quinolobactin and burkholderic acid. Metagenomics sequence analysis of the soil sample (NCBI GenBank accession PRJNA771993) revealed the presence of conserved biosynthetic gene clusters of ectoine, bacteriocin, bacillibactin, quinolobactin, terpene and burkholderic acid of <i>A. faecalis</i>. In conclusion, <i>A. faecalis</i> isolate MZ921504 is a promising source for antimicrobial metabolites. LC/MS spectral analysis and third generation sequencing tools followed by secondary metabolite gene clusters analysis are useful methods to predict the nature of the antimicrobial metabolites.Mohamed A. EltokhyBishoy T. SaadWafaa N. EltayebMona R. El-AnsaryKhaled M. AboshanabMohamed S. E. AshourMDPI AGarticle<i>Alcaligenes faecalis</i>LC/MSmetagenomicsectoinebacillibactinquinolobactinTherapeutics. PharmacologyRM1-950ENAntibiotics, Vol 10, Iss 1382, p 1382 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	<i>Alcaligenes faecalis</i> LC/MS metagenomics ectoine bacillibactin quinolobactin Therapeutics. Pharmacology RM1-950
spellingShingle	<i>Alcaligenes faecalis</i> LC/MS metagenomics ectoine bacillibactin quinolobactin Therapeutics. Pharmacology RM1-950 Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Mona R. El-Ansary Khaled M. Aboshanab Mohamed S. E. Ashour A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
description	The continuous development of multidrug resistance pathogens with limited therapeutic options has become a great problem globally that impose sever health hazards. Accordingly, searching for of new antimicrobials became an urgent demand and great challenge. Soil significantly have been associated with several species that are antibiotic producers. In this study, combination of conventional screening methods with Liquid chromatography- Mass spectroscopy (LC/MS) and metagenomic nanopore sequence analysis have been conducted for the deciphering the active metabolites produced by soil isolate(s). Preliminary soil screening resulted in a Gram-negative isolate identified via 16S ribosomal RNA as <i>Alcaligenes faecalis</i> isolate MZ921504 with promising antimicrobial activities against wide range of MDR gram-positive and gram-negative pathogens. The LC/MS analysis of the metabolites of <i>A. faecalis</i> isolate MZ921504 confirmed the presence of ectoine, bacillibactin, quinolobactin and burkholderic acid. Metagenomics sequence analysis of the soil sample (NCBI GenBank accession PRJNA771993) revealed the presence of conserved biosynthetic gene clusters of ectoine, bacteriocin, bacillibactin, quinolobactin, terpene and burkholderic acid of <i>A. faecalis</i>. In conclusion, <i>A. faecalis</i> isolate MZ921504 is a promising source for antimicrobial metabolites. LC/MS spectral analysis and third generation sequencing tools followed by secondary metabolite gene clusters analysis are useful methods to predict the nature of the antimicrobial metabolites.
format	article
author	Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Mona R. El-Ansary Khaled M. Aboshanab Mohamed S. E. Ashour
author_facet	Mohamed A. Eltokhy Bishoy T. Saad Wafaa N. Eltayeb Mona R. El-Ansary Khaled M. Aboshanab Mohamed S. E. Ashour
author_sort	Mohamed A. Eltokhy
title	A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
title_short	A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
title_full	A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
title_fullStr	A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
title_full_unstemmed	A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504
title_sort	metagenomic nanopore sequence analysis combined with conventional screening and spectroscopic methods for deciphering the antimicrobial metabolites produced by <i>alcaligenes faecalis</i> soil isolate mz921504
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/5358392bc66947c2a44dd30a4335f674
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A Metagenomic Nanopore Sequence Analysis Combined with Conventional Screening and Spectroscopic Methods for Deciphering the Antimicrobial Metabolites Produced by <i>Alcaligenes faecalis</i> Soil Isolate MZ921504

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