Description of SNPs and INDELs identified from the whole-genome resequencing of 8 tomato accessions, parents of a tomato MAGIC population.
Project funded by INRA and ANR MagicTom-SNP project

Accessions:
- Cervil (breeding line)
- Criollo
- Ferum (breeding line)
- LA0147    (LA 0147)
- LA1420    (LA 1420)
- Levovil (breeding line)
- Plovdiv   (Plovdiv24A)
- Stupicke  (Stupicke Polni Rane)

Raw sequences files have been deposited at ENA (European Nucleotide Archive) :
http://www.ebi.ac.uk/ena/data/view/PRJEB4395 (release 25-SEP-2013)
ENA run accession numbers: ERR327646..ERR327656

VCF files have been deposited at ENA and DGVa (Database of Genomic Variants archive).
ENA accession numbers: ERZ015686..ERZ015701

Files in this folder:
- 8 BAM files corresponding to the mapping with bwa against the tomato genome reference SL2.40 
  - MAGICTom_Cervil_SL2.40.bam
  - MAGICTom_Criollo_SL2.40.bam
  - MAGICTom_Ferum_SL2.40.bam
  - MAGICTom_LA0147_SL2.40.bam
  - MAGICTom_LA1420_SL2.40.bam
  - MAGICTom_Levovil_SL2.40.bam
  - MAGICTom_Plovdiv_SL2.40.bam
  - MAGICTom_Stupicke_SL2.40.bam

- 2 csv files (separator: ';') describing SNPs and INDELS identified in the study
  - MAGICTom_SNPs.csv
  - MAGICTom_InDels.csv

Persons to contact:
- mathilde.causse@avignon.inra.fr
- jean-paul.bouchet@avignon.inra.fr

Last update: 2013, 17 september

INRA-GAFL
INRA, Institut National de la Recherche Agronomique
Centre de Recherche PACA
UR 1052, GAFL - Unité de Génétique et Amélioration des Fruits et Légumes
67 allée des chênes
CS 60094 - 84143 MONTFAVET CEDEX (France)
http://w3.avignon.inra.fr/gafl/en