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
TsuGNH095TsuGNH095genetic_marker
TsuGNH111TsuGNH111genetic_marker
TsuGNH113TsuGNH113genetic_marker
TsuGNH116TsuGNH116genetic_marker
TsuGNH120TsuGNH120genetic_marker
TsuGNH121TsuGNH121genetic_marker
TsuGNH130TsuGNH130genetic_marker
TsuGNH153TsuGNH153genetic_marker
TsuGNH159TsuGNH159genetic_marker
TsuGNH164TsuGNH164genetic_marker
TsuGNH167TsuGNH167genetic_marker
TsuGNH173TsuGNH173genetic_marker
TsuGNH175TsuGNH175genetic_marker
TsuGNH187TsuGNH187genetic_marker
TsuGNH189TsuGNH189genetic_marker
TsuGNH191TsuGNH191genetic_marker
TsuGNH194TsuGNH194genetic_marker
TsuGNH203TsuGNH203genetic_marker
TsuGNH208TsuGNH208genetic_marker
TsuGNH212TsuGNH212genetic_marker
TsuGNH213TsuGNH213genetic_marker
TsuGNH215TsuGNH215genetic_marker
TsuGNH227TsuGNH227genetic_marker
TsuGNH228TsuGNH228genetic_marker
TsuGNH234TsuGNH234genetic_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