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Project #16585
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#16585 : Phages - bacteria interactions network of the healthy human gut
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Name of Applicant : Martial Marbouty
Date of application : 26-11-2020
Unit : Spatial Regulation of Genomes
Location : 26-04-3A
Phone : 0144389365
@ Mail : martial.marbouty@pasteur.fr
@ PI-Mail : romain.koszul@pasteur.fr

Project context and summary :

With an estimated 1031 particles on earth, bacteriophages are the most abundant genomic entities across all habitats and important drivers of microbial communities. Growing evidence suggest that they play roles in intestinal human microbiota homeostasis, and recent metagenomics studies on the viral fraction of this ecosystem have provided crucial information about their diversity and specificity. However, the bacterial hosts of this viral fraction, a necessary information to characterize further the balance of these ecosystems, remain poorly characterized. Here we unveil, using an enhanced metagenomic Hi-C approach, a large network of 6,651 host-phage relationships in the healthy human gut allowing to study in situ phage-host ratio. We notably found that half of these contigs appear to be sleeping prophages whereas ΒΌ exhibit a higher coverage than their associated MAG representing potentially active phages impacting the ecosystem. We also detect different candidate members of the crAss-like phage family as well as their bacterial hosts showing that these elusive phages infect different genus of Bacteroidetes. This work opens the door to single sample analysis and concomitant study of phages and bacteria in complex communities.


Related team publications :
MetaTOR: A Computational Pipeline to Recover High-Quality Metagenomic Bins From Mammalian Gut Proximity-Ligation (meta3C) Libraries. Baudry L, Foutel-Rodier T, Thierry A, Koszul R, Marbouty M. Front Genet. 2019 Aug 20;10:753. doi: 10.3389/fgene.2019.00753. eCollection 2019. PMID: 31481973 Free PMC article.
Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay. Marbouty M, Baudry L, Cournac A, Koszul R. Sci Adv. 2017 Feb 17;3(2):e1602105. doi: 10.1126/sciadv.1602105. eCollection 2017 Feb. PMID: 28232956 Free PMC article.
Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms. Marbouty M, Cournac A, Flot JF, Marie-Nelly H, Mozziconacci J, Koszul R. Elife. 2014 Dec 17;3:e03318. doi: 10.7554/eLife.03318. PMID: 25517076 Free PMC article.
Service Delivery
Project Manager : gael.millot@pasteur.fr
Project Type : Short
Status : Awaiting Publication


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