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OAK genome in numbers

Main characteristics

  • 12 pairs of chromosomes
  • physical size of the Quercus robur genome: 1.5Gb/2C

Kremer A, Casasoli M, Barreneche T, Bodénès C, Sisco P, Kubisiak T, Scalfi M, Leonardi S, Bakker EG, Buiteveld J, Romero-Severson  J, Arumuganathan K, Derory J, Scotti-Saintagne C, Roussel G, Bertocchi ME, Lexer C, Porth I, Hebard F, Clark C, Carlson J, Plomion C, Koelewijn HP, Villani F (2007) Fagaceae In: Genome Mapping and Molecular Breeding in Plants, Vol 7 Forest Trees, pp165-187,Chitta R Kole (Ed) Springer, Heidelberg, Berlin, New York, Tokyo (PDF : Kremer-BookKole-2007)

  • genetic size: 933 cM in 12 linkage groups with 5,460 SNPs, established using LPMerge software (PDF : Bioinformatics-2014-Endelman-1623-4), from 8K SNP-based genetic linkage maps (Bodénès et al., unpublished)

 

The draft genome

Version 1 (November 2014)
  • 3 years of work
  • 18k scaffolds (> 2kb), N50 size 257kb, Cumulative size 1.35Gb

    • 8,444 scaffolds containing genes, N50 291kb, Cumulative size 1.23Gb, 3,049 scaffolds (740 Mb) anchored to the linkage map
  • 54,000 annotated genes with stop and start codons
Version 2 (in progress)

 

Its variability

  • 57 Millions SNPs detected with each of the four species resequenced 300X (pool of several individuals) : Q. robur, Q. petraea, Q. pyrenaica, Q. pubescens

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