Pascal GP Martin

Pascal GP Martin

Senior Research Specialist (IR1) at INRAE

INRAE BFP

Biography

I obtained my diploma of engineering in agronomy at Agrocampus Ouest together with an MSc in Biochemistry and Genetics applied to Animal Science from Univ. Rennes II in 2000. Then, I worked on transcriptional regulations by the nuclear receptors PPARalpha and RXR at INRA Pharmacology and Toxicology research unit (supervisor T. Pineau) and obtained my PhD in biology in 2007 at Toulouse III University.

I was appointed as a research engineer at INRA during my PhD (2004) and co-directed the group of Integrative Toxicology & Metabolism for 4 years (2008-2011). Next, I created the GeT-TriX transcriptomic facility at INRA ToxAlim (2011-2013). During these years, I led significant research projects that contributed to the development of ToxAlim.

In 2013-2015, I joined the group of Olivier Cuvier at the Center for Integrative Biology, where I studied chromatin organization and transcription in Drosophila cells using various genome-wide approaches based on NGS.

In 2015-2017 I was awarded an Agreenskills+ fellowship, and joined the group of Scott Michaels at Indiana University Department of Biology to decipher the role of a new family of negative transcription elongation factors on RNA polymerase II processivity, chromatin organization and gene expression.

In 2017-2019, back at INRA Toxalim, I joined the BioToMyc group of Isabelle Oswald where I initiated a project aimed at elucidating the role played by transcription elongation factors on the regulation of gene clusters involved in the synthesis of mycotoxins.

In 2019-2020, I joined the lab of Pr Craig Pikaard at Indiana University where I worked on long read sequencing to assemble the ribosomal DNA regions of the genome of Arabidopsis thaliana.

In dec 2020, I moved back to France and joined the Fruit Biology and Pathology department at INRAE. My first aim is to set up tools to analyze how changes in the epigenome of endoreduplicated cells contribute to the growth of tomato fruit.

Throughout my career, I have balanced biology with bioinformatics and biostatistics and gained experience in the production and analysis of different types of high throughput data.

Interests

  • Gene expression
  • Transcription
  • Chromatin
  • Genomics
  • Bioinformatics

Education

  • PhD in Pharmacology, 2007

    Université de Toulouse

  • MSc in Animal Biology & Production (Applied Genetics and Biochemistry), 2000

    Université de Rennes

  • MSc in Agricultural Engineering (Ingénieur Agronome), 2000

    Agrocampus Ouest / Ecole Nationale Supérieure d'Agronomie de Rennes

Skills

Genomics

Molecular Biology

Biochemistry

Bioinformatics

Biostatistics

Data Science

Experience

 
 
 
 
 

Senior Research Engineer (IR1)

INRAE Fruit Biology & Pathology

Dec 2020 – Present Bordeaux, FRANCE

Group Flowering, Fruit Development & Environment
Topics:

  • Endoreduplication, cell growth and fruit development
  • Chromatin and gene expression
  • Genomics, epigenomics & bioinformatics
 
 
 
 
 

Research Specialist

Pikaard lab - HHMI / Indiana University

Jul 2019 – Nov 2020 Indiana, USA

Projects:

  • Long read sequencing for ribosomal DNA assembly
  • Bioinformatics tools and pipeline development
  • Development of new protocols for sequencing library construction
 
 
 
 
 

Senior Research Engineer (IR1)

INRAE ToxAlim - BioToMyc

Jul 2017 – Jul 2019 Toulouse, France
Role of transcription elongation factors in the regulation of gene clusters responsible for the production of mycotoxins
 
 
 
 
 

Agreenskills+ fellow

Michaels’lab - Indiana University

Jul 2015 – Jun 2017 Indiana, USA
Genome-wide functions of a new family of negative transcription elongation factors in Arabidopsis thaliana
 
 
 
 
 

Visiting Scientist

LBME - CBI - CNRS - Cell cycle chromatin genomics group (O. Cuvier)

Jan 2013 – Jun 2015 Toulouse, France
  • Chromatin organization and PolII transcription in Drosophila cells
  • NGS approaches
  • Bioinformatics training
 
 
 
 
 

Founder and Head of the GeT-TRiX transcriptomics facility

INRAE ToxAlim

Jan 2011 – Jun 2015 Toulouse, France
  • Management (HR / budget / strategy)
  • Large scale microarray experiments
  • High throughput RT-qPCR analysis
  • Automation
  • Biostatistics and data analysis
 
 
 
 
 

Joint-head of the Integrative Toxicology & Metabolism group

INRAE ToxAlim - TIM

Dec 2007 – Dec 2011 Toulouse, France

Role of nuclear receptors in the regulation of hepatic metabolism

  • Management & PhD supervision
  • Study design & Data analysis
  • Articles, presentations & grant writing
 
 
 
 
 

Research Engineer (IR2)

INRAE ToxAlim

Jan 2004 – Jun 2011 Toulouse, France

PPARalpha-mediated transcriptional regulations

  • in vivo studies in transgenic mouse models
  • Pharmacology, toxicology & nutrition
  • Transcriptomics
  • Data analysis and integration
  • Article writing

Projects

Bioinformatics and Biostatistics

Tools for the analysis and integration of high throughput data

Chromatin and Transcription

Transcription by RNA polymerase II in the context of chromatin

Food toxicology

Understanding the mechanisms and impacts of food contaminants on biological systems

Nuclear receptors

Regulation of gene expression in the liver by nuclear receptors

Recent Publications

Quickly discover relevant content by filtering publications.
(2021). Widespread premature transcription termination of Arabidopsis thaliana NLR genes by the spen protein FPA. Elife. 2021 Apr 27;10:e65537..

PDF Project DOI Pubmed

(2021). The 7SK/P-TEFb snRNP controls ultraviolet radiation-induced transcriptional reprogramming. Cell Reports. 2021 Apr 13;35(2):108965..

PDF Project DOI Pubmed

(2020). Transcriptomic modifications of the thyroid gland upon exposure to phytosanitary-grade fipronil: Evidence for the activation of compensatory pathways. Toxicol Appl Pharmacol. 2020 Jan 15;389:114873..

Project Pubmed

Teaching

Some Teaching material:

Contact

  • +33 769-250-268
  • UMR1332 BFP Biologie du Fruit et Pathologie, 71 av Edouard-Bourlaux, CS 20032
    33882 Villenave d'Ornon Cedex
  • Bureau 3003
  • DM Me
  • Skype Me