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_14726_5289scaffold_14726_5289genetic_marker
scaffold_14726_5290scaffold_14726_5290genetic_marker
scaffold_14726_5291scaffold_14726_5291genetic_marker
scaffold_14726_5292scaffold_14726_5292genetic_marker
scaffold_14726_5293scaffold_14726_5293genetic_marker
scaffold_14726_5294scaffold_14726_5294genetic_marker
scaffold_147305_234scaffold_147305_234genetic_marker
scaffold_1474_5314scaffold_1474_5314genetic_marker
scaffold_1474_5331scaffold_1474_5331genetic_marker
scaffold_147512_363scaffold_147512_363genetic_marker
scaffold_147512_365scaffold_147512_365genetic_marker
scaffold_1478_9928scaffold_1478_9928genetic_marker
scaffold_14787_4659scaffold_14787_4659genetic_marker
scaffold_1479_3043scaffold_1479_3043genetic_marker
scaffold_148_20039scaffold_148_20039genetic_marker
scaffold_1482_12901scaffold_1482_12901genetic_marker
scaffold_14830_4373scaffold_14830_4373genetic_marker
scaffold_14841_818scaffold_14841_818genetic_marker
scaffold_14846_3505scaffold_14846_3505genetic_marker
scaffold_14851_3643scaffold_14851_3643genetic_marker
scaffold_14868_593scaffold_14868_593genetic_marker
scaffold_148885_273scaffold_148885_273genetic_marker
scaffold_14912_1011scaffold_14912_1011genetic_marker
scaffold_14917_865scaffold_14917_865genetic_marker
scaffold_14917_902scaffold_14917_902genetic_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