DNA markers developed from genome sequencing analysis in Japanese pear (Pyrus pyrifolia)

Publication Overview
TitleDNA markers developed from genome sequencing analysis in Japanese pear (Pyrus pyrifolia)
AuthorsYamamoto T, Terakami S, Moriya S, Hosaka F, Kurita K, Kanamori H, Katayose Y, Saito T, Nishitani C
TypeJournal Article
Journal NameActa horticulturae
Issue976
Year2013
Page(s)477-483
CitationYamamoto T, Terakami S, Moriya S, Hosaka F, Kurita K, Kanamori H, Katayose Y, Saito T, Nishitani C. DNA markers developed from genome sequencing analysis in Japanese pear (Pyrus pyrifolia). Acta horticulturae. 2013; (976)477-483.

Abstract

We performed random shotgun sequencing to obtain genome sequences from Japanese pear 'Housui' (Pyrus pyrifolia) for use in developing molecular markers. Nearly 2.7 million single-read sequences were obtained, with an average read length of 374 bases. More than 990 Mb of nucleotide sequence were recovered, which is equivalent to twice the size of the Japanese pear genome. We designed 237 simple sequence repeat (SSR) markers with motifs of 4, 5, or 10-14 nucleotides based on more than 50,000 SSR sequences. Out of these 237 markers, 128 loci could be added to at least one of three genetic linkage maps: European pears (P. communis) ‘Bartlett’ and 'La France', and Japanese pear ‘Housui’. 86 of the 144 tested expressed sequence tag (EST)-SSR markers from apple (Malus × domestica) were mapped in one or more of the pear cultivars. The new genetic linkage map of 'Bartlett' consisted of 485 loci from SSR and single-nucleotide polymorphism markers, covering 17 linkage groups with a total length of 965 cM. The linkage map of 'La France' contained 370 loci in 17 linkage groups, with a total length of 1160 cM, and that of ‘Housui’ contained 415 loci in 20 linkage groups, with a total length of 1177 cM. The information obtained from this study will help us develop genome-wide markers and perform marker-assisted selection in pear breeding programs.
Stocks
This publication contains information about 1 stocks:
Stock NameUniquenameType
BartlettBartlettcultivar
Features
This publication contains information about 117 features:
Feature NameUniquenameType
TsuGNH244TsuGNH244genetic_marker
Mdo.chr.11.11Mdo.chr.11.11genetic_marker
Mdo.chr.11.17Mdo.chr.11.17genetic_marker
Mdo.chr.11.25Mdo.chr.11.25genetic_marker
Mdo.chr.11.27Mdo.chr.11.27genetic_marker
Mdo.chr.11.29Mdo.chr.11.29genetic_marker
Mdo.chr.11.30Mdo.chr.11.30genetic_marker
Mdo.chr.11.35Mdo.chr.11.35genetic_marker
Mdo.chr.11.44Mdo.chr.11.44genetic_marker
Mdo.chr.11.45Mdo.chr.11.45genetic_marker
Mdo.chr.11.5Mdo.chr.11.5genetic_marker
Mdo.chr.11.7Mdo.chr.11.7genetic_marker
TsuGNH013TsuGNH013genetic_marker
TsuGNH023TsuGNH023genetic_marker
TsuGNH029TsuGNH029genetic_marker
TsuGNH042TsuGNH042genetic_marker
TsuGNH043TsuGNH043genetic_marker
TsuGNH045TsuGNH045genetic_marker
TsuGNH050TsuGNH050genetic_marker
TsuGNH061TsuGNH061genetic_marker
TsuGNH063TsuGNH063genetic_marker
TsuGNH076TsuGNH076genetic_marker
TsuGNH080TsuGNH080genetic_marker
TsuGNH081TsuGNH081genetic_marker
TsuGNH082TsuGNH082genetic_marker

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Pear-Ba-F1-2013
Properties
Additional details for this publication include:
Property NameValue
Publication TypeJournal Article
Publication Date2013
Published Location|||
Language Abbreng
Publication Model[electronic resource].
Notesp. 477-483.
URLhttp://www.actahort.org/books/976/976_67.htm
KeywordsMalus domestica, Pyrus communis, Pyrus pyrifolia, apples, chromosome mapping, cultivars, expressed sequence tags, genetic markers, genome, linkage groups, loci, marker-assisted selection, microsatellite repeats, nucleotides, pears, sequence analysis, single nucleotide polymorphism
Cross References
This publication is also available in the following databases:
DatabaseAccession
AGL: USDA National Agricultural LibraryAGL:4718854