ArticleProceedings of the National Academy of Sciences of the United States of America2013
MS/MS networking guided analysis of molecule and gene cluster families.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 133 papers.
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Who cites it
133 citing papers in PubMed, 250 citations in OpenAlex.
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- Natural Algaecide Sphingosines Identified in Hybrid Straw Decomposition Driven by White-Rot Fungi.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
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- Computation-aided studies related to the induction of specialized metabolite biosynthesis in microbial co-cultures: An introductory overview.Computational and structural biotechnology journal · 2023Review
- Exploring the relationship between metabolite composition and the cold/hot properties ascribed in traditional Chinese medicine by mass spectral molecular networking - A pilot study.Journal of food and drug analysis · 2022Article
- Chemometrics and genome mining reveal an unprecedented family of sugar acid-containing fungal nonribosomal cyclodepsipeptides.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Untargeted LC-MS/MS-Based Multi-Informative Molecular Networking for Targeting the Antiproliferative Ingredients inMolecules (Basel, Switzerland) · 2022Article
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- Discovery of actinomycin L, a new member of the actinomycin family of antibiotics.Scientific reports · 2022Article
- Comparative metabolomics with Metaboseek reveals functions of a conserved fat metabolism pathway in C. elegans.Nature communications · 2022Article
- Induction of Isochromanones by Co-Cultivation of the Marine FungusInternational journal of molecular sciences · 2022Article
73 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
28 authors at 10 institutions in 5 countries.
Funding
Abstract
The ability to correlate the production of specialized metabolites to the genetic capacity of the organism that produces such molecules has become an invaluable tool in aiding the discovery of biotechnologically applicable molecules. Here, we accomplish this task by matching molecular families with gene cluster families, making these correlations to 60 microbes at one time instead of connecting one molecule to one organism at a time, such as how it is traditionally done. We can correlate these families through the use of nanospray desorption electrospray ionization MS/MS, an ambient pressure MS technique, in conjunction with MS/MS networking and peptidogenomics. We matched the molecular families of peptide natural products produced by 42 bacilli and 18 pseudomonads through the generation of amino acid sequence tags from MS/MS data of specific clusters found in the MS/MS network. These sequence tags were then linked to biosynthetic gene clusters in publicly accessible genomes, providing us with the ability to link particular molecules with the genes that produced them. As an example of its use, this approach was applied to two unsequenced Pseudoalteromonas species, leading to the discovery of the gene cluster for a molecular family, the bromoalterochromides, in the previously sequenced strain P. piscicida JCM 20779(T). The approach itself is not limited to 60 related strains, because spectral networking can be readily adopted to look at molecular family-gene cluster families of hundreds or more diverse organisms in one single MS/MS network.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.