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_111040scaffold_111040genetic_marker
scaffold_11617scaffold_11617genetic_marker
scaffold_11771scaffold_11771genetic_marker
scaffold_120214scaffold_120214genetic_marker
scaffold_13275scaffold_13275genetic_marker
scaffold_18380scaffold_18380genetic_marker
scaffold_18824scaffold_18824genetic_marker
scaffold_19017scaffold_19017genetic_marker
scaffold_20967scaffold_20967genetic_marker
scaffold_21777scaffold_21777genetic_marker
scaffold_24341scaffold_24341genetic_marker
scaffold_26291scaffold_26291genetic_marker
scaffold_29411scaffold_29411genetic_marker
scaffold_31246scaffold_31246genetic_marker
scaffold_3314scaffold_3314genetic_marker
scaffold_35862scaffold_35862genetic_marker
scaffold_37046scaffold_37046genetic_marker
scaffold_37951scaffold_37951genetic_marker
scaffold_38278scaffold_38278genetic_marker
scaffold_42843scaffold_42843genetic_marker
scaffold_4374scaffold_4374genetic_marker
scaffold_48237scaffold_48237genetic_marker
scaffold_50168scaffold_50168genetic_marker
scaffold_51535scaffold_51535genetic_marker
scaffold_5180scaffold_5180genetic_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