Sequencing and assembly of highly heterozygous genome of Vitis vinifera L. cv Pinot Noir:: Problems and solutions

被引：22

作者：

Zharkikh, Andrey ^{[2
]}

Troggio, Michela ^{[1
]}

Pruss, Dmitry ^{[2
]}

Cestaro, Alessandro ^{[1
]}

Eldrdge, Glenn ^{[2
]}

Pindo, Massimo ^{[1
]}

Mitchell, Jeff T. ^{[2
]}

Vezzulli, Silvia ^{[1
]}

Bhatnagar, Satish ^{[2
]}

Fontana, Paolo ^{[1
]}

Viola, Roberto ^{[1
]}

Gutin, Alexander ^{[2
]}

Salamini, Francesco ^{[3
]}

Skolnick, Mark ^{[2
]}

Velasco, Riccardo ^{[1
]}

机构：

[1] IASMA Res Ctr, I-38010 San Michele All Adige, TN, Italy

[2] Myriad Genet Inc, Salt Lake City, UT 84108 USA

[3] Localita Cascina Codazza, Technol Pk Lodi, I-26900 Lodi, Italy

来源：

JOURNAL OF BIOTECHNOLOGY | 2008年 / 136卷 / 1-2期

关键词：

whole-genome shotgun; sanger sequencing; sequencing by synthesis; genome assembly; heterozygosity; polymorphism;

D O I：

10.1016/j.jbiotec.2008.04.013

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

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 500Mb 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. (C) 2008 Elsevier B.V. All rights reserved.

引用

页码：38 / 43

页数：6

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