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_116137_223scaffold_116137_223genetic_marker
scaffold_11618_6665scaffold_11618_6665genetic_marker
scaffold_11618_6732scaffold_11618_6732genetic_marker
scaffold_11618_6737scaffold_11618_6737genetic_marker
scaffold_116249_25scaffold_116249_25genetic_marker
scaffold_11648_1119scaffold_11648_1119genetic_marker
scaffold_116484_341scaffold_116484_341genetic_marker
scaffold_116484_352scaffold_116484_352genetic_marker
scaffold_116525_279scaffold_116525_279genetic_marker
scaffold_116728_151scaffold_116728_151genetic_marker
scaffold_116983_281scaffold_116983_281genetic_marker
scaffold_11714_2181scaffold_11714_2181genetic_marker
scaffold_11726_3057scaffold_11726_3057genetic_marker
scaffold_11726_4501scaffold_11726_4501genetic_marker
scaffold_11726_4503scaffold_11726_4503genetic_marker
scaffold_11726_4507scaffold_11726_4507genetic_marker
scaffold_11775_216scaffold_11775_216genetic_marker
scaffold_117779_442scaffold_117779_442genetic_marker
scaffold_11783_3409scaffold_11783_3409genetic_marker
scaffold_11783_3446scaffold_11783_3446genetic_marker
scaffold_11790_3007scaffold_11790_3007genetic_marker
scaffold_117942_599scaffold_117942_599genetic_marker
scaffold_118119_189scaffold_118119_189genetic_marker
scaffold_1182_9666scaffold_1182_9666genetic_marker
scaffold_11821_2651scaffold_11821_2651genetic_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