• Aucun résultat trouvé

Genome-wide study of structural variants in French dairy and beef breeds

N/A
N/A
Info
Télécharger
Protected

Academic year: 2021

Partager "Genome-wide study of structural variants in French dairy and beef breeds"

Copied!
3
0
0

Chargement.... (Voir le texte intégral maintenant)

Texte intégral

(1)

HAL Id: hal-02736390

https://hal.inrae.fr/hal-02736390

Submitted on 2 Jun 2020

HAL is a multi-disciplinary open access archive for the deposit and dissemination of sci- entific research documents, whether they are pub- lished or not. The documents may come from teaching and research institutions in France or abroad, or from public or private research centers.

L’archive ouverte pluridisciplinaire HAL, est destinée au dépôt et à la diffusion de documents scientifiques de niveau recherche, publiés ou non, émanant des établissements d’enseignement et de recherche français ou étrangers, des laboratoires publics ou privés.

Genome-wide study of structural variants in French dairy and beef breeds

Didier Boichard, Mekki Boussaha, Cécile Grohs, Rabia Letaief, Sebastien Fritz, Johanna Barbieri, Christophe Klopp, Romain Philippe, Dominique

Rocha, Aurelien Capitan

To cite this version:

Didier Boichard, Mekki Boussaha, Cécile Grohs, Rabia Letaief, Sebastien Fritz, et al.. Genome-wide study of structural variants in French dairy and beef breeds. 69. Annual Meeting of the European Federation of Animal Science (EAAP), Aug 2018, Dubrovnik, Croatia. �hal-02736390�

(2)

Session 31 Theatre 8

Genome-wide study of structural variants in French dairy and beef breeds M. Boussaha1, C. Grohs1, R. Letaief1, S. Fritz1,2, J. Barbieri3, C. Klopp4, R. Philippe5, D. Rocha1, A. Capitan1,2 and D. Boichard1. 1GABI, INRA, AgroParisTech, Université Paris-Saclay, Domaine de Vilvert, 78350 Jouy-en-Josas, France, 2Allice, Maison Nationale des Eleveurs, 75012 Paris, France, 3GenPhySE, INRA, Université de Toulouse INPT ENSAT, Université de Toulouse INPT ENVT, 52627 Castanet-Tolosan, France, 4SIGENAE, INRA, SIGENAE, 52627 Castanet- Tolosan, France, 5GMA, INRA, Université de Limoges, 87060 Limoges Cedex, France; mekki.boussaha@inra.fr.

Deep whole genome sequencing coupled with the development of several computational approaches provide opportunities to investigate chromosomal alterations between individual samples across the genome. These structural variants (SVs) affect DNA segments greater than 50 base pairs and correspond to deletions, inversions and tandem duplications and translocations. Several studies revealed involvement of structural variants in phenotypic changes in many species including cattle. In the present study, we performed genome-wide study of SVs using whole-genome sequence data from 360 bulls corresponding to 20 dairy and beef breeds.

Bioinformatics detection of potential SVs was performed using Pindel, Delly and BreakDancer. Predicted SVs were filtered using different strategies in order to minimize false positive results. Filtered SVs were subsequently merged in order to define potential SV regions. A panel of SV regions were genotyped using the bovine LD beadchip. Genotyping data were used for validation studies. Furthermore, a genome-wide association study (GWAS) was performed on several thousands of dairy animals in order to assess the impact of validated SVs on routinely measured traits in dairy cattle.

352 EAAP – 69th Annual Meeting, Dubrovnik 2018

(3)

614 EAAP – 69th Annual Meeting, Dubrovnik 2018

Références

Télécharger maintenant ( PDF - 3 Page - 456.45 KB )

Documents relatifs

Genome-wide association studies (GWAS) in sugarcane context: Experience from a case study and questions about ways of optimization of GWAS. MO11

The low frequency of all markers in the panel (8-20%) combined with a high virus incidence mean reflects (1) the absence of selection in breeding programs due to

Genome-wide association study of reproductive traits in Nellore heifers using Bayesian inference

As expected, all SNPs that were significant for AFC were also significant for HR (Table 1), since both traits are indicators of reproductive efficiency in beef cattle and should be,

Genome-wide association study of footrot in Texel sheep

Background: This is the first study based on a genome-wide association approach that investigates the links between ovine footrot scores and molecular polymorphisms in Texel sheep

Merino and Merino-derived sheep breeds: a genome-wide intercontinental study

In agreement with the known history of the breeds and with previous studies [12], the ADMIXTURE analysis detected, at K = 7 and K = 10, clear signals of merinization in European

Genome-wide association study for calving performance using high-density genotypes in dairy and beef cattle

Deirdre C Purfield, Daniel G Bradley, Ross D Evans, Francis J Kearney, Donagh P Berry. To cite

Genome-wide association study for conformation traits in three Danish pig breeds

Thus, the objectives of this study were (1) to identify the QTL that are associ- ated with conformation traits in three Danish pig breeds (Landrace, Yorkshire and Duroc) by

Genome-wide association study of endo-parasite phenotypes using imputed whole-genome sequence data in dairy and beef cattle

A limited number of previous studies have attempted to locate genomic regions associated with endo-parasitic diseases in cattle, but none used antibody response or liver

Weighting sequence variants based on their annotation increases the power of genome-wide association studies in dairy cattle

Several reasons can explain why our approaches detected only a fraction of the candidate genes reported in previ- ous studies [ 41 , 42 ]: (1) loss of power for NKF and NKI