Imperial College London
Portrait Picture

Professor Marc-Emmanuel Dumas

Faculty of Medicine, Department of Metabolism, Digestion and Reproduction

Chair in Systems Medicine
 
 
 
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Contact

 

+44 (0)20 7594 1820m.dumas Website

 
 
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Assistant

 

Mrs Patricia Murphy +44 (0)20 7594 1603

 
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Location

 

E315BBurlington DanesHammersmith Campus

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Summary

 

Publications

Citation

BibTex format

@unpublished{Neves:2019:10.1101/602458,
author = {Neves, AL and Rodriguez-Martinez, A and Ayala, R and Posma, JM and Abellona, U MR and Chilloux, J and Nicholson, JK and Dumas, M-E and Hoyles, L},
doi = {10.1101/602458},
title = {A network-based data-mining approach to investigate indole-related microbiota-host co-metabolism},
url = {http://dx.doi.org/10.1101/602458},
year = {2019}
}
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RIS format (EndNote, RefMan)

TY  - UNPB
AB  - <jats:title>Abstract</jats:title><jats:sec><jats:title>Motivation</jats:title><jats:p>Indoles have been shown to play a significant role in cardiometabolic disorders. While some individual bacterial species are known to produce indole-adducts, to our best knowledge no studies have made use of publicly available genome data to identify prokaryotes, specifically those associated with the human gut microbiota, contributing to the indole metabolic network.</jats:p></jats:sec><jats:sec><jats:title>Results</jats:title><jats:p>Here, we propose a computational strategy, comprising the integration of KEGG and BLAST, to identify prokaryote-specific metabolic reactions relevant for the production of indoles, as well as to predict new members of the human gut microbiota potentially involved in these reactions. By identifying relevant prokaryotic species for further validation studies<jats:italic>in vitro</jats:italic>, this strategy represents a useful approach for those interrogating the metabolism of other gut-derived microbial metabolites relevant to human health.</jats:p></jats:sec><jats:sec><jats:title>Availability</jats:title><jats:p>All R scripts and files (gut microbial dataset, FASTA protein sequences, BLASTP output files) are available from<jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://github.com/AndreaRMICL/Microbial_networks">https://github.com/AndreaRMICL/Microbial_networks</jats:ext-link>.</jats:p></jats:sec><jats:sec><jats:title>Contact</jats:title><jats:p>ARM:<jats:email>andrea.rodriguez-martinez13@imperial.ac.uk</jats:email>; LH:<jats:email>lesley.hoyles@ntu.ac.uk</jats:email>.</jats:p></jats:sec>
AU  - Neves,AL
AU  - Rodriguez-Martinez,A
AU  - Ayala,R
AU  - Posma,JM
AU  - Abellona,U MR
AU  - Chilloux,J
AU  - Nicholson,JK
AU  - Dumas,M-E
AU  - Hoyles,L
DO  - 10.1101/602458
PY  - 2019///
TI  - A network-based data-mining approach to investigate indole-related microbiota-host co-metabolism
UR  - http://dx.doi.org/10.1101/602458
ER  -
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