Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities
Streptomyces species produce a wide variety of specialized metabolites, some of which are used for communication or competition for resources in their natural environments. In addition, many natural products used in medicine and industry are derived from Streptomyces, and there has been interest in...
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ftpubmed:oai:pubmedcentral.nih.gov:9431705 2023-05-15T17:22:49+02:00 Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities Liu, Jingyu Clarke, Jody-Ann McCann, Sean Hillier, N. Kirk Tahlan, Kapil 2022-07-28 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9431705/ http://www.ncbi.nlm.nih.gov/pubmed/35900081 https://doi.org/10.1128/spectrum.00552-22 en eng American Society for Microbiology http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9431705/ http://www.ncbi.nlm.nih.gov/pubmed/35900081 http://dx.doi.org/10.1128/spectrum.00552-22 Copyright © 2022 Liu et al. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/) . CC-BY Microbiol Spectr Research Article Text 2022 ftpubmed https://doi.org/10.1128/spectrum.00552-22 2022-09-04T01:16:39Z Streptomyces species produce a wide variety of specialized metabolites, some of which are used for communication or competition for resources in their natural environments. In addition, many natural products used in medicine and industry are derived from Streptomyces, and there has been interest in their capacity to produce volatile organic compounds (VOCs) for different industrial and agricultural applications. Recently, a machine-learning workflow called MSHub/GNPS was developed, which enables auto-deconvolution of gas chromatography-mass spectrometry (GC-MS) data, molecular networking, and library search capabilities, but it has not been applied to Streptomyces volatilomes. In this study, 131 Streptomyces isolates from the island of Newfoundland were phylogenetically typed, and 37 were selected based on their phylogeny and growth characteristics for VOC analysis using both a user-guided (conventional) and an MSHub/GNPS-based approach. More VOCs were annotated by MSHub/GNPS than by the conventional method. The number of unknown VOCs detected by the two methods was higher than those annotated, suggesting that many novel compounds remain to be identified. The molecular network generated by GNPS can be used to guide the annotation of such unknown VOCs in future studies. However, the number of overlapping VOCs annotated by the two methods is relatively small, suggesting that a combination of analysis methods might be required for robust volatilome analysis. More than half of the VOCs annotated with high confidence by the two approaches are plant-associated, many with reported bioactivities such as insect behavior modulation. Details regarding the properties and reported functions of such VOCs are described. IMPORTANCE This study represents the first detailed analysis of Streptomyces volatilomes using MSHub/GNPS, which in combination with a routinely used conventional method led to many annotations. More VOCs could be annotated using MSHub/GNPS as compared to the conventional method, many of which have known ... Text Newfoundland PubMed Central (PMC) Microbiology Spectrum 10 4 |
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Research Article Liu, Jingyu Clarke, Jody-Ann McCann, Sean Hillier, N. Kirk Tahlan, Kapil Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
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Research Article |
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Streptomyces species produce a wide variety of specialized metabolites, some of which are used for communication or competition for resources in their natural environments. In addition, many natural products used in medicine and industry are derived from Streptomyces, and there has been interest in their capacity to produce volatile organic compounds (VOCs) for different industrial and agricultural applications. Recently, a machine-learning workflow called MSHub/GNPS was developed, which enables auto-deconvolution of gas chromatography-mass spectrometry (GC-MS) data, molecular networking, and library search capabilities, but it has not been applied to Streptomyces volatilomes. In this study, 131 Streptomyces isolates from the island of Newfoundland were phylogenetically typed, and 37 were selected based on their phylogeny and growth characteristics for VOC analysis using both a user-guided (conventional) and an MSHub/GNPS-based approach. More VOCs were annotated by MSHub/GNPS than by the conventional method. The number of unknown VOCs detected by the two methods was higher than those annotated, suggesting that many novel compounds remain to be identified. The molecular network generated by GNPS can be used to guide the annotation of such unknown VOCs in future studies. However, the number of overlapping VOCs annotated by the two methods is relatively small, suggesting that a combination of analysis methods might be required for robust volatilome analysis. More than half of the VOCs annotated with high confidence by the two approaches are plant-associated, many with reported bioactivities such as insect behavior modulation. Details regarding the properties and reported functions of such VOCs are described. IMPORTANCE This study represents the first detailed analysis of Streptomyces volatilomes using MSHub/GNPS, which in combination with a routinely used conventional method led to many annotations. More VOCs could be annotated using MSHub/GNPS as compared to the conventional method, many of which have known ... |
format |
Text |
author |
Liu, Jingyu Clarke, Jody-Ann McCann, Sean Hillier, N. Kirk Tahlan, Kapil |
author_facet |
Liu, Jingyu Clarke, Jody-Ann McCann, Sean Hillier, N. Kirk Tahlan, Kapil |
author_sort |
Liu, Jingyu |
title |
Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
title_short |
Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
title_full |
Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
title_fullStr |
Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
title_full_unstemmed |
Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities |
title_sort |
analysis of streptomyces volatilomes using global molecular networking reveals the presence of metabolites with diverse biological activities |
publisher |
American Society for Microbiology |
publishDate |
2022 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9431705/ http://www.ncbi.nlm.nih.gov/pubmed/35900081 https://doi.org/10.1128/spectrum.00552-22 |
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Newfoundland |
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Newfoundland |
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Microbiol Spectr |
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9431705/ http://www.ncbi.nlm.nih.gov/pubmed/35900081 http://dx.doi.org/10.1128/spectrum.00552-22 |
op_rights |
Copyright © 2022 Liu et al. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/) . |
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CC-BY |
op_doi |
https://doi.org/10.1128/spectrum.00552-22 |
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Microbiology Spectrum |
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10 |
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4 |
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