Transcriptome

IMM's Transcriptome platform offers a full range of genomic and transcriptomic services for microbiology. Since its creation, this platform has constantly expanded its expertise in genomics, developing and adapting protocols in order to offer a range of services for a wide panel of microorganisms. The platform is open to all public and private sector laboratories.

Scientific Director: Dr Christophe Bordi.

Transcriptome Team

Yann DENIS
Technical manager

Contact the platform

Transcriptome platform areas of expertise

Nucleic acid preparation (DNA, RNA)

Quantitative PCR

Digital PCR

NGS

The platform's areas of expertise
Nuclear Magnetic Resonance

Nucleic acid preparation (DNA, RNA)

Quantitative PCR

Digital PCR

NGS

Services offered by the
Transcriptome platform

R&D

Development and optimization of nucleic acid (DNA/RNA) preparation
Development and optimization of NGS library manufacturing (RNAseq, DNAseq, ChIPseq...)
Study of relative gene expression
Quantitative study of microbial consortium
Quantitative monitoring of host/pathogen interaction
Studying the number of copies of a gene

Services

Nucleic acid preparation (DNA/RNA)
Quantitative PCR
Digital PCR
Quality and quantity control of nucleic acid (DNA and RNA)
Production of libraries for NGS sequencing
NGS sequencing

Consulting and training

Hosting and training BTS to PhD
Hosting and training engineers
Design assistance, support and advice throughout projects
Design and development of training and practical courses
Equipment training up to full autonomy

TapeStation4200 (Agilent Technologies)
Maxwell (Promega)
Typhoon-FLA9500 (Cytiva)
MiSeq (Illumina)
CFX96 (Bio-rad)
NaicaSysteme (Stilla)
Nanodrop (Thermo)

The Transcriptome platform in video

state-of-the-art life sciences equipment :

Featured publications

2024

Cyclophostin and Cyclipostins analogues counteract macrolide-induced resistance mediated by erm(41) in Mycobacterium abscessus.

Sarrazin M, Poncin I, Fourquet P, Audebert S, Camoin L, Denis Y, Santucci P, Spilling CD, Kremer L, Moigne VL, Herrmann JL, Cavalier JF, Canaan S. J Biomed Sci. 2024 Dec 3;31(1):103. doi: 10.1186/s12929-024-01091-w. PMID: 39623375

2024

Diversity and dynamics of bacteria from iron-rich microbial mats and colonizers in the Mediterranean Sea (EMSO-Western Ligurian Sea Observatory): Focus on Zetaproteobacteria.

Astorch-Cardona A, Bertaux L, Denis Y, Dolla A, Rommevaux C.

2024

Intracellular removal of acetyl, feruloyl and p-coumaroyl decorations on arabinoxylooligosaccharides imported from lignocellulosic biomass degradation by Ruminiclostridium cellulolyticum.

Liu N, Odinot E, David H, Vita N, Otalvaro FM, Parsiegla G, Denis Y, Faulds C, Fierobe HP, Perret S.

2023

Role of the Solute-Binding Protein CuaD in the Signaling and Regulating Pathway of Cellobiose and Cellulose Utilization in Ruminiclostridium cellulolyticum.

Fosses A, Franche N, Parsiegla G, Denis Y, Maté M, de Philip P, Fierobe HP, Perret S.

2023

Adaptation Strategies to High Hydrostatic Pressures in Pseudothermotoga species Revealed by Transcriptional Analyses.

Fenouil R, Pradel N, Belahbib H, Roumagnac M, Bartoli M, Ben Hania W, Denis Y, Garel M, Tamburini C, Ollivier B, Summers Z, Armougom F, Dolla A.

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