MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities.
computational mass spectrometry
metagenomics
microbial metabolites
natural products discovery
ribosomally synthesized and post-translationally modified peptides
Journal
Cell systems
ISSN: 2405-4720
Titre abrégé: Cell Syst
Pays: United States
ID NLM: 101656080
Informations de publication
Date de publication:
18 12 2019
18 12 2019
Historique:
received:
11
01
2019
revised:
23
04
2019
accepted:
12
09
2019
pubmed:
21
10
2019
medline:
26
8
2020
entrez:
21
10
2019
Statut:
ppublish
Résumé
Ribosomally synthesized and post-translationally modified peptides (RiPPs) are an important class of natural products that contain antibiotics and a variety of other bioactive compounds. The existing methods for discovery of RiPPs by combining genome mining and computational mass spectrometry are limited to discovering specific classes of RiPPs from small datasets, and these methods fail to handle unknown post-translational modifications. Here, we present MetaMiner, a software tool for addressing these challenges that is compatible with large-scale screening platforms for natural product discovery. After searching millions of spectra in the Global Natural Products Social (GNPS) molecular networking infrastructure against just eight genomic and metagenomic datasets, MetaMiner discovered 31 known and seven unknown RiPPs from diverse microbial communities, including human microbiome and lichen microbiome, and microorganisms isolated from the International Space Station.
Identifiants
pubmed: 31629686
pii: S2405-4712(19)30312-6
doi: 10.1016/j.cels.2019.09.004
pmc: PMC6952069
mid: NIHMS1545138
pii:
doi:
Substances chimiques
Peptides
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
600-608.e4Subventions
Organisme : NIGMS NIH HHS
ID : R01 GM118815
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM107550
Pays : United States
Organisme : NIGMS NIH HHS
ID : P41 GM103484
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM097509
Pays : United States
Organisme : NCI NIH HHS
ID : T32 CA009523
Pays : United States
Organisme : NIGMS NIH HHS
ID : DP2 GM137413
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM065490
Pays : United States
Informations de copyright
Copyright © 2019 Elsevier Inc. All rights reserved.
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