Sequencing and assembly of highly heterozygous genome of Vitis vinifera L. cv Pinot Noir: problems and solutions.
A new approach to sequencing and assembling a highly heterozygous genome, that of grape, species Vitis vinifera cv Pinot Noir, is described. The combining of genome shotgun of paired reads produced by Sanger sequencing and sequencing by synthesis of unpaired reads was shown to be an efficient procedure for decoding a complex genome. About 2 million SNPs and more than a million heterozygous gaps have been identified in the 500 Mb genome of grape. More than 91% of the sequence assembled into 58,611 contigs is now anchored to the 19 linkage groups of V. vinifera.
Zharkikh
Andrey
A
Myriad Genetics Inc., 320 Wakara Way, Salt Lake City, UT 84108, USA.
Troggio
Michela
M
Pruss
Dmitry
D
Cestaro
Alessandro
A
Eldrdge
Glenn
G
Pindo
Massimo
M
Mitchell
Jeff T
JT
Vezzulli
Silvia
S
Bhatnagar
Satish
S
Fontana
Paolo
P
Viola
Roberto
R
Gutin
Alexander
A
Salamini
Francesco
F
Skolnick
Mark
M
Velasco
Riccardo
R
D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D003352:Corynebacterium / Q000235:genetics*; D018745:Genome, Plant / Q000235:genetics*; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*; D027843:Vitis / Q000235:genetics*
D010940:Plant Proteins