Poster De Conférence Année : 2022

De novo assembly of 90 bovines genomes using PacBio CLR application comparison and optimization

Résumé

GeT-PlaGe is a genomic core facility which provides access to technologies and expertise in genome sequencing to academic and private research teams. The SeqOccIn (Sequencing Occitanie Innovation) project, managed by Get-PlaGe and Genotoul Bioinfo platforms, was selected by the Occitanie Region as part of the call for projects "Regional Research and Innovation Platforms". The main objective is to acquire expertise on the optimal combination of long fragment sequencing technologies and associated applications to better characterize complex genomes in the agronomical field: from SNP and structural variation detection, to high quality assembly production. These approaches have allowed to assemble a novel high quality bovine reference genome. We chose to identify single nucleotide polymorphisms and structural variants (insertions and deletions) by comparing multiple assemblies. A preliminary study done on a heifer (37160) showed that long-reads sequencing is the most suitable solution for structural variations detection. We sequenced 154 bulls from 14 breeds with PacBio Sequel II Continuous Long-Read (CLR). Here we present assembly as well as variation detection results for 90 bulls from 11 breeds (9 Abondances, 7 Aubracs, 4 Blondes d’Aquitaine, 3 Charolaises, 14 Holsteins, 11 Limousines, 19 Montbeliardes, 14 Normandes, 3 Rouges Flamandes, 2 Tarentaises and 4 Vosgiennes)

Fichier principal
Vignette du fichier
220620-taureaux_Vfinale.pdf (1.26 Mo) Télécharger le fichier
Origine Fichiers produits par l'(les) auteur(s)
Licence

Dates et versions

hal-04590746 , version 1 (28-05-2024)

Licence

Identifiants

  • HAL Id : hal-04590746 , version 1

Citer

Camille Marcuzzo, Amandine Suin, Camille Eché, Andreea Dreau, Clément Birbes, et al.. De novo assembly of 90 bovines genomes using PacBio CLR application comparison and optimization. Assemblée générale France Génomique, Jun 2022, Paris, France. ⟨hal-04590746⟩
438 Consultations
175 Téléchargements

Partager

  • More