ONCOBIOMICS
Principal investigator: MATHIAS CHAMAILLARD
Integrating the intra-tumoral microbiome to promote understanding on tumor plasticity
The partners of Oncobiomics proposed to study the tumoral microbiome have a source of cancer heterogeneity in colon cancer. Their aim is to integrate the intra-tumoral microbiome heterogeneity in order to promote understanding on tumor plasticity and offers new therapeutic options.
Works that led up to the project
Some past studies from the network led up to this project. First, they found a high load of bacteria in colon cancer tumors when compared to non tumoral mucosa and healthy patient mucosa. Moreover, this load is linked to tumor stage. With vivo mice xenograft models, they identified that pks + bacteria induce have a tumor-promoting activity, inducing bigger tumors than other bacterial stems.
Applying digital microbiology to tumor plasticity
First, the network performs a strong characterization of a cohort of 100 colorectal resections and their 100 no tumor adjacent tissue. Samples include tumors from Grade I to grade IV. Characterization is performed at different levels:
- Bacterial level by sequencing of 16s and by topographic analysis of bacterial infiltrate
- Genomical level by exome sequencing
- Transcriptomical
- Inflammation level by Immunoscore-like analysis
Mathematic modeling
With the data gathered, the network will mathematically model the functional dependencies of microbiome and tumoral cell in order to propose new drug development ideas. New therapeutics targets will be validated with in vivo, in vitro and ex vivo models.
Oncobiomics highlights a new alternative to the usual thinking about cancer heterogeneity. Such characterization of colon cancer microbiome heterogeneity and its integration with clinical and genomic aspect of the tumor will promote a new understanding we tumor plasticity and new ways of therapeutic solutions.
- Lab name: Center of Bioinformatics, Biostatistics and Integrative Biology
- Website: https://research.pasteur.fr/en/team/evolutionary-bioinformatics/
- Affiliations: Institut Pasteur
- Address: 25-28 Rue du Dr Roux, 75015 Paris
- Contact: olivier.gascuel@pasteur.fr
LAST PUBLICATIONS:
- Origin, evolution and global spread of SARS-CoV-2
Anna Zhukova - Differing impacts of global and regional responses on SARS-CoV-2 transmission cluster dynamics
Brittany Rife Magalis - The seventh pandemic of cholera in Europe revisited by microbial genomics
Mihaela Oprea - COVID-Align: Accurate online alignment of hCoV-19 genomes using a profile HMM
Frédéric Lemoine
- Lab name: Intestinal epithelial cell proliferation in physiology and cancer
- Website: https://www.institutcochin.fr/departments/drc/team-perret/group-b.-romagnolo
- Affiliations: Institut Cochin, Inserm U1016
- Address: 22 Rue Mechain, 75014 Paris
- Contact: beatrice.romagnolo@inserm.fr
LAST PUBLICATIONS:
- Lkb1 suppresses amino acid-driven gluconeogenesis in the liver
Pierre-Alexandre Just - Essential role for autophagy protein ATG7 in the maintenance of intestinal stem cell integrity
Coralie Trentesaux - Compensation between Wnt-driven tumorigenesis and cellular responses to ribosome biogenesis inhibition in the murine intestinal epithelium
Aurélien Raveux - Paneth cells promote angiogenesis and regulate portal hypertension in response to microbial signals
Mohsin Hassan
- Lab name: Biomics
- Website: https://research.pasteur.fr/en/member/sean-kennedy/
- Affiliations: Institut Pasteur
- Address: 25-28 Rue du Dr Roux, 75015 Paris
- Contact: sean.kennedy@pasteur.fr
LAST PUBLICATIONS:
- Hospital discharges in urban sanitation systems: Long-term monitoring of wastewater resistome and microbiota in relationship to their eco-exposome
Elena Buelow - Preclinical evaluation of a novel triple-acting PIM/PI3K/mTOR inhibitor, IBL-302, in breast cancer
Sean P Kennedy - Dynamic insights on transcription initiation and RNA processing during bacterial adaptation
Caroline Lacoux - Implementation and evaluation of depression screening in patients with recently diagnosed coronary artery disease
Lindsay M Mailloux
- Lab name: Center of Bioinformatics, Biostatistics and Integrative Biology
- Website: https://research.pasteur.fr/en/team/evolutionary-bioinformatics/
- Affiliations: Institut Pasteur
- Address: 25-28 Rue du Dr Roux, 75015 Paris
- Contact: christophe.malabat@pasteur.fr
LAST PUBLICATIONS:
- SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis
Stevenn Volant - Antisense transcriptional interference mediates condition-specific gene repression in budding yeast
Alicia Nevers - Genome-Wide Transcriptional Start Site Mapping and sRNA Identification in the Pathogen <em>Leptospira interrogans</em>
Anna Zhukova - Identification of Links Between Cellular Pathways by Genetic Interaction Mapping (GIM)
Christophe Malabat
- Lab name: Nods-like receptors in infection and immunity
- Website: http://www.ciil.fr/research-teams/nods-like-receptors-in-infection-and-immunity/
- Affiliations: Institut Pasteur, Inserm U1019, CNRS UMR8204, Université́ de Lille
- Address: 1 Rue du Professeur Calmette, 59000 Lille
- Contact: mathias.chamaillard@inserm.fr
LAST PUBLICATIONS:
- Role of NLRs in the Regulation of Type I Interferon Signaling, Host Defense and Tolerance to Inflammation
Ioannis Kienes - NOD1 sensing of house dust mite-derived microbiota promotes allergic experimental asthma
Saliha Ait Yahia - The role of the gut microbiome on radiation therapy efficacy and gastrointestinal complications: A systematic review
Marion Tonneau - Paradoxical Roles of the MAL/Tirap Adaptor in Pathologies
Imène Belhaouane
- Lab name: Microbes Intestin Inflammation et susceptibilité́ de l’hôte
- Website: http://www.u-clermont1.fr/m2ish-old.html
- Affiliations: Inserm UMR 1071, Université d’Auvergne
- Address: 28, place Henri-Dunant 63001 Clermont-Ferrand
- Contact: rbonnet@chu-clermontferrand.fr
LAST PUBLICATIONS:
- Multinational evaluation of the BioFire® FilmArray® Pneumonia plus Panel as compared to standard of care testing
Christine C Ginocchio - A prospective multicenter surveillance study to investigate the risk associated with contaminated sinks in the intensive care unit
Anne-Sophie Valentin - New Drug Repositioning Candidates for T-ALL Identified <em>Via</em> Human/Murine Gene Signature Comparison
Raphaël Bonnet - Pathogenicity Factors of Genomic Islands in Intestinal and Extraintestinal <em>Escherichia coli</em>
Mickaël Desvaux
- Lab name: Stroma, Inflammation and Tissue Repair
- Website: https://research.pasteur.fr/en/team/group-lucie-peduto/
- Affiliations: Institut Pasteur, Inserm U1124
- Address: 25-28 Rue du Dr Roux, 75015 Paris
- Contact: pedutol@pasteur.fr
LAST PUBLICATIONS:
- T cells regulate lymph node-resident ILC populations in a tissue and subset-specific way
Priscillia Bresler - Mesenchymal perivascular cells in immunity and disease
Adam Benabid - Genetic screens reveal mechanisms for the transcriptional regulation of tissue-specific genes in normal cells and tumors
Ikrame Naciri - Peyer's patch myeloid cells infection by <em>Listeria</em> signals through gp38<sup>+</sup> stromal cells and locks intestinal villus invasion
Olivier Disson
- Lab name: Pathogénie Microbienne Moléculaire
- Website: https://research.pasteur.fr/en/team/molecular-microbial-pathogenesis/
- Affiliations: Institut Pasteur, Inserm U1202
- Address: 25-28 Rue du Dr Roux, 75015 Paris
- Contact: philippe.sansonetti@pasteur.fr
LAST PUBLICATIONS:
- Survival of the Wealthiest?
Michele Garfinkel - Immunoglobulin recognition of fecal bacteria in stunted and non-stunted children: findings from the Afribiota study
Kelsey E Huus - COVID-19, chronicle of an expected pandemic
Philippe J Sansonetti - Study of the <em>cwaRS-ldcA</em> Operon Coding a Two-Component System and a Putative L,D-Carboxypeptidase in <em>Lactobacillus paracasei</em>
Hélène Scornec
- Lab name: Mucins, epithelial differentiation and carcinogenesis
- Website: http://crjpa.frneurosciences/mucines-differenciation-et-cancerogenese-epitheliales?lang=en
- Affiliations: Inserm UMR-S1172, JPARC
- Address: Bâtiment Biserte 1, place de Verdun 59045 Lille Cédex
- Contact: isabelle.vanseuningen@inserm.fr
LAST PUBLICATIONS:
- MUC1 Mitigates Renal Injury and Inflammation in Endotoxin Induced Acute Kidney Injury by Inhibiting the TLR4-MD2 Axis and Reducing Pro-Inflammatory Macrophages Infiltration
Jean-Baptiste Gibier - Cross-talk between YAP and RAR-RXR Drives Expression of Stemness Genes to Promote 5-FU Resistance and Self-Renewal in Colorectal Cancer Cells
Marjolaine Bauzone - Mg<sup>2+</sup> Transporters in Digestive Cancers
Julie Auwercx - Unsupervised Hierarchical Clustering of Pancreatic Adenocarcinoma Dataset from TCGA Defines a Mucin Expression Profile that Impacts Overall Survival
Nicolas Jonckheere
This French program is organized by ITMO Cancer, in collaboration with ITMO BCDE (Cell Biology, Development and Evolution) and ITMO Technologies for Health of the National Alliance for Life Sciences and Health (AVIESAN) with the National Cancer Institute (INCA) and Inserm within the framework of the Cancer Plan. Operational management is entrusted to Inserm.
It was launch in order to develop a critical mass of resources and skills in order to conduct interdisciplinary research projects in the field of functional heterogeneity of cellular tumor relations in their ecosystem: the "HTE Program".
Initiation of HTE Program
