Posters

Rencontres france futur élevage, France Futur Élevage, May 2023, Paris, France
Innovations dans le domaine de la génomique. Exemple du projet SeqOccIn.
Carole Iampietro

Discoveries Roadshow 2023 – PacBio, PacBio, May 2023, Paris, France
Improvement of the Bos taurus Genome Assembly using New Sequencing Technologies
Camille Eché , Carole Iampietro , Clement Birbes , Andreea Dreau , Claire Kuchly , et al.

France génomique – VIIème Animation Wetlab et Bioinfo, Nov 2022, Strasbourg, France
The benefits of long read HiFi sequencing for metagenomic analysis
Adrien Castinel , Jean Mainguy , Sylvie Combes , Carole Iampietro , Christine Gaspin , et al.

PACBIO DISCOVERIES ROADSHOW PARIS, PACBIO, May 2022, Paris, France
The benefits of long read HiFi sequencing for metabarcoding analysis
Adrien Castinel , Jean Mainguy , Sylvie Combes , Carole Iampietro , Christine Gaspin , et al.

Plant and animal genome conference 32, Jan 2025, San Diego (California), United States. 2025
TAPS for Multimodal Epigenomic Profiling in Livestock A Comparison with ONT, WGBS, and EM-Seq
Céline Vandecasteele , Julie Demars , Sophie Leroux , Nathalie Iannuccelli , Carole Iampietro , et al.

Intelligent Systems for Molecular Biology/European Conference on Computational Biology, Jul 2025, Liverpool, United Kingdom
Evaluating low-pass genotyping strategies using PARSEC, a scalable and modular Nextflow pipeline
Cervin Guyomar , Denis Milan , Christophe Klopp , Cécile Donnadieu , Bertrand Servin , et al.

European Conference on Computational Biology 2025 (ECCB 2025), Jul 2025, Liverpool United Kingdom, United Kingdom
Cross-Species Predictions of Chromatin Annotations using Neural Networks
Noémien Maillard , Christophe Klopp , Donnadieu Cécile , Julie Demars , Raphaël Mourad

Epigenetic inheritance symposium, Aug 2025, Zurich, Switzerland
Modelling genetic and epigenetic selection signatures from pool sequencing
Sonia E Eynard , Kossi-Julien Kowou , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , et al.

Biology of genomes, May 2025, Cold Spring Harbor (NY), United States
Genetic and epigenetic selection signatures from pool sequencing experiment
Sonia E Eynard , Kossi-Julien Kowou , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , et al.

Plant and Genome San Diego 2024, Jan 2024, San Diego (California), United States. 10, 2024
A Bos taurus sequencing methods benchmark for assembly, haplotyping, and variant calling
Camille Eché , Carole Iampietro , Clément Birbes , Andreea Dréau , Claire Kuchly , et al.

2024 Environnemental and Agronomical Genomics Symposium, Feb 2024, Toulouse, France
Targeting the pig imprintome with EM-seq
Jean-Noël Hubert , Nathalie Iannuccelli , Mathilde Perret , Cédric Cabau , Eva Jacomet , et al.

JOBIM 2024 – Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2024, TOULOUSE (FRANCE), France
Whole genome reverse genetic screen for natural deleterious variants in 4000 domestic ruminants to gain insight into mammalian gene function
Maxime Ben Braiek , Mekki Boussaha , Philippe Bardou , Pierre Faux , Bertrand Servin , et al.

Environmental and Agronomical Genomics Symposium, Feb 2024, Toulouse, France
Climate, heat-stress, and genetics impact whole-blood gene expression levels in crossbred pigs
Arthur Durante , Guillaume Devailly , Katia Feve , Yann Labrune , Laure Gress , et al.

Plant and Genome San Diego 2024, Jan 2024, San Diego, United States
Major contribution to the bovine pangenome: whole genome sequences, SNPs, and structural variants of 154 bulls from 14 breeds
Amandine Suin , Camille Marcuzzo , Camille Eché , Andreea Dréau , Clément Birbes , et al.

Environmental and Agronomical Genomics Symposium, Feb 2024, Toulouse, France
Whole genome sequencing and epigenotyping for multiple generations of selection using Oxford Nanopore Technology
Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue , et al.

Ecology and Evolution, Oct 2024, Lyon, France
Transgenerational epigenetics in quail: targeting DNA methylation patterns to address the interplay between genetic and epigenetic mechanisms
Stacy Rousse , Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo , et al.

Advances in Genome Biology and Technology (AGBT), Apr 2024, Phoenix (AZ), United States. 2024
Genomic imprinting in livestock species -Challenges of long reads sequencing from ONT
Julie Demars , Jean-Noël Hubert , Nathalie Iannuccelli , Sophie Leroux , Céline Vandecasteele , et al.

International congress in Ecology and Evolution, Oct 2024, Lyon, France
Whole genome sequencing and epigenotyping for multiple generations of selection using Oxford Nanopore Technology
Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue , et al.

International Congress of Mucosal Immunology (ICMI), Jul 2024, Copenhague, Denmark
Single cell transcriptomics reveal that initiation of solid food intake triggers the maturation of caecal lamina propria immune cells in suckling rabbits
Christelle Knudsen , Tania Malonga , Mathilde Rumeau , Emeline Lhuillier , Cédric Cabau , et al.

London Calling 2024, May 2024, London, France
Benchmarking of sequencing technologies for CpG methylation detection: applications to quail and pig
Céline Vandecasteele , Paul Terzian , Joanna Lledo , Rémy-Félix Serre , Jules Sabban , et al.

Assemblée Générale France Génomique, Jun 2023, Paris, France
Comparison of the PacBio 2.0 and 3.0 kits for full length mRNA sequencing in multiplex
Marine Sallaberry , Eden Darnige , Lucien Hoffbeck , Sandra Fourre , Mathis Pochon , et al.

International Congress of Plant Pathology (ICPP 2023), Aug 2023, Lyon, France. 2023
Novel pipelines for assembling and annotation of genomes for plant pathogenic fungi. Application on two major banana pathogens [P4.3-024].
Sébastien Ravel , S. Bache , T. Durand , D. Mostert , A. Viljoen , et al.

Genomic Imprinting – from Biology to Disease, Mar 2023, Hinxton, Cambridge, United Kingdom
A methyl-seq tool to capture genomic imprinted loci
Jean-Noël Hubert , Nathalie Iannuccelli , Cédric Cabau , Eva Jacomet , Yvon Billon , et al.

SMBE23, Jul 2023, Ferrara, Italy
High-quality genome assembly to identify structural variations in a new quarantine plant parasitic nematode Meloidogyne enterolobii
Marine Poullet , Hemanth Gopal , Corinne Rancurel , Marine Sallaberry , Celine Lopez-Roques , et al.

2ème colloque de l’infrastructure INRAE GENOMICS, Nov 2023, Bordeaux, France.
SEARCH FOR NEW MUTATIONS IN CATTLE BY SYSTEMATIC WHOLE GENOME RESEQUENCING
Mekki Boussaha , Camille Eché , Clémentine Escouflaire , Cécile Grohs , Carole Iampietro , et al.

Joint International Congress on Animal Science (EEAP 2023), Aug 2023, Lyon, France. pp.37.21
Transcriptome of the feto-maternal interface in pigs in late gestation: part2 – sow endometrium
Agnès Bonnet , Sarah Maman , Laure Gress , Amandine Suin , Sabrina Legoueix , et al.

Epigenetic inheritance symposium, Aug 2023, Zurich, Switzerland. 2023
The evolution of epigenetics across multiple generations
Sonia E Eynard , Cécile Donnadieu , Loïc Flatres-Grall , Carole Iampietro , Sandrine Lagarrigue , et al.

Symposium du club d’immunologie et de vaccinologie vétérinaires, May 2023, Toulouse, France
Le séquençage de l’ARNm en cellules uniques (scRNA-seq): un outil pour étudier la diversité des cellules CD45+ de la lamina propria du cæcum du lapin
Christelle Knudsen , Frédéric Martins , Cédric Cabau , Alexia Zakaroff-Girard , Elodie Riant , et al.

Assemblée générale France Génomique, Jun 2023, Paris, France
Volume reduction and automation of DNAprep libraries for low pass sequencing
Marcuzzo Camille , Cervin Guyomar , Amandine Suin , Adrien Castinel , Carole Iampietro , et al.

Epigenetic inheritance symposium, Aug 2023, Zurich, Switzerland. 2023
Investigating the molecular responses of chicken embryos to their mothers heat stress using DNA methylation
Keyvan Karami , Jules Sabban , Chloé Cerutti , Guillaume Devailly , Sylvain Foissac , et al.

XVII SOLANACEAE2022 International Conference on the Plant Family of Solanaceae, Nov 2022, THESSALONIKI, Greece
A reference genome of Solanum habrochaites
Bernard Caromel , Jacques Lagnel , Carole Iampietro , Marie-Claire Le Coant , Marine Sallaberry , et al.

JOBIM 2022 : Journées Ouvertes Biologie Informatique Mathématiques, Jul 2022, RENNES, France. 2022
Preliminary results from Nanopore Q20+ sequencing
Claire Kuchly , Jules Sabban , Eden Darnige , Camille Eché , Amandine Suin , et al.

Assemblée générale France Génomique, Jun 2022, Paris, France
De novo assembly of 90 bovines genomes using PacBio CLR application comparison and optimization
Camille Marcuzzo , Amandine Suin , Camille Eché , Andreea Dreau , Clément Birbes , et al.

15th International Symposium on Digestive Physiology of Pigs DPP, May 2022, Rotterdam, Netherlands. , 2022, Science for Sustainable Nutrition
Transcriptomic and DNA methylation response to feed intake in the duodenum in high- and low- feed efficiency pig lines
Guillaume Devailly , Katia Fêve , Safia Saci , Julien Sarry , Sophie Valière , et al.

ECCB2022 – 21st European Conference on Computational Biology, Sep 2022, Sitges, Spain
Transgenerational epigenetics in quail
Chloé Cerutti , Sophie Leroux , Paul Terzian , Joanna Lledo , David Gourichon , et al.

ECCB2022, Sep 2022, Sitges, Spain
metagWGS: a workflow to analyse short and long HiFi metagenomic reads
Joanna Fourquet , Maïna Vienne , Jean Mainguy , Vincent Darbot , Pierre Martin , et al.

ECCB 2022, Sep 2022, Meliá Sitges, Spain
Strengths and limits of long read metabarcoding
Jean Mainguy , Adrien Castinel , Olivier Bouchez , Sylvie Combes , Carole Iampietro , et al.

Colloque INRAE Genomics 2022, May 2022, Orléans, France. , 2022
Avancées réalisées en métabarcoding et en métagénomique dans le cadre du projet SeqOccIn grâce au séquençage longs fragments
Denis Milan , Jean Mainguy , Adrien Castinel , Olivier Bouchez , Sylvie Combes , et al.

Journées d’Animation Scientifique du Département Santé Animale (JAS SA), Oct 2022, Anglet, France
Effect of sainfoin (Onobrychis viciifolia) on cyathostomin eggs excretion, larval development, larval community structure and efficacy of ivermectin treatment in horses
Joshua Malsa , Elise Courtot , Michel Boisseau , Bertrand Dumont , Pascale Gombault , et al.

Plant Genomics and Gene Editing Congress: Europe, Apr 2022, La Hague, Netherlands. 2022
Partial endoreplication challenges whole genome assembly: the case of #Vanilla planifolia# (Orchidaceae)
Sonja Siljak-Yakovlev , Olivier Bouchez , Céline Lopez-Roques , Sandra Lepers-Andrzejewski , Laurent Bourgois , et al.

Journées Scientifiques Département Génétique animale, Sep 2022, Bordeaux, France
Maturité fœtale à l’interface fœto-maternelle : contribution des génomes fœtal et maternel et perturbations des métabolismes tissulaires
Agnès Bonnet , Alyssa Imbert , Julien Guibert , Gwendaelle Cardenas , Laure Gress , et al.

SMRT Leiden 2021 – Young Investigator Virtual Conference, May 2021, virtuel, Netherlands
De novo assembly of bovine genome using PacBio applications
Camille Eché , Clément Birbes , Carole Iampietro , Andreea Dréau , Claire Kuchly , et al.

Environmental And Agronomical Genomics Symposium, Oct 2021, Tours, France
Benefits of PacBio HiFi long reads for metagenomic whole genome analysis
Adrien Castinel , Jean Mainguy , Olivier Bouchez , Sylvie Combes , Carole Iampietro , et al.

16e congrès national de la SFM « MICROBES », Sep 2021, Nantes (Cité des Congrès), France
Analysis of French Isolates of Enterococcus cecorum: antimicrobial resistance and potential of pathogenicity
Jeanne Laurentie , Valentin Loux , Christelle Hennequet-Antier , Emilie Chambellon , Claire Darrigo , et al.

PAG XXVIII, Plant and Animal Genome, Jan 2020, San Diego, United States. 2020
A Long Read project to find optimal technologic combinations for genome assembly and variability, epigenetic marks detection and metagenomic analysis
Carole Iampietro , Camille Eché , Adrien Castinel , Rémy-Félix Serre , Christophe Klopp , et al.

JOBIM, 2020, En ligne, France
Hybrid de novo genome assembly using Oxford Nanopore Technology, 10X Genomics Linked-Reads sequencing, and Bionano optical map of a non-model species: the case of the melon-cotton aphid Aphis gossypii
Jacques Lagnel , Rafael Feriche-Linares , Pierre Bertrand , William Marande , Anne Loiseau , et al

Journées scientifiques et doctorales de l’ANSES, Mar 2020, Maison-Alfort, France
Analysis of French isolates of Enterococcus cecorum: Antimicrobial resis-tance and pathogenicity potential.
Jeanne Laurentie , Valentin Loux , Christelle Hennequet-Antier , Emilie Chambellon , Claire Darrigo , et al