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Genomic and Metabolomic Analysis of the Potato Common Scab Pathogen Streptomyces scabiei
[Image: see text] Streptomyces scabiei is a key causative agent of common scab disease, which causes significant economic losses to potato growers worldwide. This organism produces several phytotoxins that are known or suspected to contribute to host–pathogen interactions and disease development; ho...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical Society
2021
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8153979/ https://www.ncbi.nlm.nih.gov/pubmed/34056303 http://dx.doi.org/10.1021/acsomega.1c00526 |
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author | Liu, Jingyu Nothias, Louis-Félix Dorrestein, Pieter C. Tahlan, Kapil Bignell, Dawn R. D. |
author_facet | Liu, Jingyu Nothias, Louis-Félix Dorrestein, Pieter C. Tahlan, Kapil Bignell, Dawn R. D. |
author_sort | Liu, Jingyu |
collection | PubMed |
description | [Image: see text] Streptomyces scabiei is a key causative agent of common scab disease, which causes significant economic losses to potato growers worldwide. This organism produces several phytotoxins that are known or suspected to contribute to host–pathogen interactions and disease development; however, the full metabolic potential of S. scabiei has not been previously investigated. In this study, we used a combined metabolomic and genomic approach to investigate the metabolites that are produced by S. scabiei. The genome sequence was analyzed using antiSMASH and DeepBGC to identify specialized metabolite biosynthetic gene clusters. Using untargeted liquid chromatography-coupled tandem mass spectrometry (LC-MS(2)), the metabolic profile of S. scabiei was compared after cultivation on three different growth media. MS(2) data were analyzed using Feature-Based Molecular Networking and hierarchical clustering in BioDendro. Metabolites were annotated by performing a Global Natural Products Social Molecular Networking (GNPS) spectral library search or using Network Annotation Propagation, SIRIUS, MetWork, or Competitive Fragmentation Modeling for Metabolite Identification. Using this approach, we were able to putatively identify new analogues of known metabolites as well as molecules that were not previously known to be produced by S. scabiei. To our knowledge, this study represents the first global analysis of specialized metabolites that are produced by this important plant pathogen. |
format | Online Article Text |
id | pubmed-8153979 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-81539792021-05-27 Genomic and Metabolomic Analysis of the Potato Common Scab Pathogen Streptomyces scabiei Liu, Jingyu Nothias, Louis-Félix Dorrestein, Pieter C. Tahlan, Kapil Bignell, Dawn R. D. ACS Omega [Image: see text] Streptomyces scabiei is a key causative agent of common scab disease, which causes significant economic losses to potato growers worldwide. This organism produces several phytotoxins that are known or suspected to contribute to host–pathogen interactions and disease development; however, the full metabolic potential of S. scabiei has not been previously investigated. In this study, we used a combined metabolomic and genomic approach to investigate the metabolites that are produced by S. scabiei. The genome sequence was analyzed using antiSMASH and DeepBGC to identify specialized metabolite biosynthetic gene clusters. Using untargeted liquid chromatography-coupled tandem mass spectrometry (LC-MS(2)), the metabolic profile of S. scabiei was compared after cultivation on three different growth media. MS(2) data were analyzed using Feature-Based Molecular Networking and hierarchical clustering in BioDendro. Metabolites were annotated by performing a Global Natural Products Social Molecular Networking (GNPS) spectral library search or using Network Annotation Propagation, SIRIUS, MetWork, or Competitive Fragmentation Modeling for Metabolite Identification. Using this approach, we were able to putatively identify new analogues of known metabolites as well as molecules that were not previously known to be produced by S. scabiei. To our knowledge, this study represents the first global analysis of specialized metabolites that are produced by this important plant pathogen. American Chemical Society 2021-04-20 /pmc/articles/PMC8153979/ /pubmed/34056303 http://dx.doi.org/10.1021/acsomega.1c00526 Text en © 2021 The Authors. Published by American Chemical Society Permits non-commercial access and re-use, provided that author attribution and integrity are maintained; but does not permit creation of adaptations or other derivative works (https://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Liu, Jingyu Nothias, Louis-Félix Dorrestein, Pieter C. Tahlan, Kapil Bignell, Dawn R. D. Genomic and Metabolomic Analysis of the Potato Common Scab Pathogen Streptomyces scabiei |
title | Genomic and Metabolomic Analysis of the Potato Common
Scab Pathogen Streptomyces scabiei |
title_full | Genomic and Metabolomic Analysis of the Potato Common
Scab Pathogen Streptomyces scabiei |
title_fullStr | Genomic and Metabolomic Analysis of the Potato Common
Scab Pathogen Streptomyces scabiei |
title_full_unstemmed | Genomic and Metabolomic Analysis of the Potato Common
Scab Pathogen Streptomyces scabiei |
title_short | Genomic and Metabolomic Analysis of the Potato Common
Scab Pathogen Streptomyces scabiei |
title_sort | genomic and metabolomic analysis of the potato common
scab pathogen streptomyces scabiei |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8153979/ https://www.ncbi.nlm.nih.gov/pubmed/34056303 http://dx.doi.org/10.1021/acsomega.1c00526 |
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