Construction of a High-Density American Cranberry (Vaccinium macrocarpon Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage mapping

Publication Overview
TitleConstruction of a High-Density American Cranberry (Vaccinium macrocarpon Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage mapping
AuthorsSchlautman B, Covarrubias-Pazaran G, Diaz-Garcia L, Iorizzo M, Polashock J, Grygleski E, Vorsa N, Zalapa J
TypeJournal Article
Journal NameG3 (Bethesda, Md.)
Year2017
CitationSchlautman B, Covarrubias-Pazaran G, Diaz-Garcia L, Iorizzo M, Polashock J, Grygleski E, Vorsa N, Zalapa J. Construction of a High-Density American Cranberry (Vaccinium macrocarpon Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage mapping. G3 (Bethesda, Md.). 2017 Mar 01.

Abstract

The American cranberry (Vaccinium macrocarpon Ait.) is a recently domesticated, economically important, fruit crop with limited molecular resources. New genetic resources could accelerate genetic gain in cranberry through characterization of its genomic structure and by enabling molecular-assisted breeding strategies. To increase the availability of cranberry genomic resources, genotyping-by-sequencing (GBS) was used to discover and genotype thousands of single nucleotide polymorphisms (SNPs) within three inter-related cranberry full-sib populations. Additional simple sequence repeat (SSR) loci were added to the SNP datasets and used to construct bin maps for the parents of the populations, which were then merged to create the first high-density cranberry composite map containing 6073 markers (5437 SNPs and 636 SSRs) on 12 linkage groups (LGs) spanning 1124 cM. Interestingly, higher rates of recombination were observed in maternal than paternal gametes. The large number of markers in common (mean of 57.3) and the high degree of observed collinearity (mean Pair-wise Spearman Rank Correlations > 0.99) between the LGs of the parental maps demonstrates the utility of GBS in cranberry for identifying polymorphic SNP loci that are transferable between pedigrees and populations in future trait-association studies. Furthermore, the high-density of markers anchored within the component maps allowed identification of segregation distortion regions, placement of centromeres on each of the 12 LGs, and anchoring of genomic scaffolds. Collectively, the results represent an important contribution to the current understanding of cranberry genomic structure and to the availability of molecular tools for future genetic research and breeding efforts in cranberry.

Stocks
This publication contains information about 3 stocks:
Stock NameUniquenameType
CNJ04CNJ04population
CNJ02CNJ02population
[BGx(BLxNL)]95_x_ GH1x35-F1[BGx(BLxNL)]95_x_ GH1x35-F1population
Features
This publication contains information about 4,496 features:
Feature NameUniquenameType
scaffold_15395_2991scaffold_15395_2991genetic_marker
scaffold_154098_259scaffold_154098_259genetic_marker
scaffold_154448_150scaffold_154448_150genetic_marker
scaffold_1549_9592scaffold_1549_9592genetic_marker
scaffold_155_4200scaffold_155_4200genetic_marker
scaffold_155015_128scaffold_155015_128genetic_marker
scaffold_155313_304scaffold_155313_304genetic_marker
scaffold_155464_207scaffold_155464_207genetic_marker
scaffold_15548_1005scaffold_15548_1005genetic_marker
scaffold_15552_2650scaffold_15552_2650genetic_marker
scaffold_15552_2728scaffold_15552_2728genetic_marker
scaffold_15560_4962scaffold_15560_4962genetic_marker
scaffold_15579_3317scaffold_15579_3317genetic_marker
scaffold_15579_3318scaffold_15579_3318genetic_marker
scaffold_15579_3320scaffold_15579_3320genetic_marker
scaffold_156331_44scaffold_156331_44genetic_marker
scaffold_156331_52scaffold_156331_52genetic_marker
scaffold_15663_5346scaffold_15663_5346genetic_marker
scaffold_15665_704scaffold_15665_704genetic_marker
scaffold_1569_1562scaffold_1569_1562genetic_marker
scaffold_15701_2749scaffold_15701_2749genetic_marker
scaffold_15701_2753scaffold_15701_2753genetic_marker
scaffold_15701_2760scaffold_15701_2760genetic_marker
scaffold_15705_4453scaffold_15705_4453genetic_marker
scaffold_15718_3534scaffold_15718_3534genetic_marker

Pages

Properties
Additional details for this publication include:
Property NameValue
Publication ModelPrint-Electronic
ISSN2160-1836
eISSN2160-1836
Publication Date2017 Mar 01
Journal AbbreviationG3 (Bethesda)
PIIg3.116.037556
Elocation10.1534/g3.116.037556
DOI10.1534/g3.116.037556
CopyrightCopyright © 2017 Author et al.
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountryUnited States
Cross References
This publication is also available in the following databases:
DatabaseAccession
PMID: PubMedPMID:28250016