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.
Features
This publication contains information about 117 features:
Feature NameUniquenameType
TsuGNH011TsuGNH011genetic_marker
TsuGNH022TsuGNH022genetic_marker
TsuGNH036TsuGNH036genetic_marker
TsuGNH041TsuGNH041genetic_marker
TsuGNH049TsuGNH049genetic_marker
TsuGNH051TsuGNH051genetic_marker
TsuGNH052TsuGNH052genetic_marker
TsuGNH053TsuGNH053genetic_marker
TsuGNH055TsuGNH055genetic_marker
TsuGNH057TsuGNH057genetic_marker
TsuGNH064TsuGNH064genetic_marker
TsuGNH069TsuGNH069genetic_marker
TsuGNH084TsuGNH084genetic_marker
TsuGNH094TsuGNH094genetic_marker
TsuGNH097TsuGNH097genetic_marker
TsuGNH100TsuGNH100genetic_marker
TsuGNH102TsuGNH102genetic_marker
TsuGNH106TsuGNH106genetic_marker
TsuGNH124TsuGNH124genetic_marker
TsuGNH127TsuGNH127genetic_marker
TsuGNH137TsuGNH137genetic_marker
TsuGNH157TsuGNH157genetic_marker
TsuGNH161TsuGNH161genetic_marker
TsuGNH170TsuGNH170genetic_marker
TsuGNH174TsuGNH174genetic_marker

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Pear-Ba-F1-2013
Stocks
This publication contains information about 1 stocks:
Stock NameUniquenameType
BartlettBartlettaccession