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_11828_430scaffold_11828_430genetic_marker
scaffold_118707_673scaffold_118707_673genetic_marker
scaffold_11882_5584scaffold_11882_5584genetic_marker
scaffold_118851_684scaffold_118851_684genetic_marker
scaffold_118949_621scaffold_118949_621genetic_marker
scaffold_119092_456scaffold_119092_456genetic_marker
scaffold_119092_472scaffold_119092_472genetic_marker
scaffold_11914_4853scaffold_11914_4853genetic_marker
scaffold_11935_895scaffold_11935_895genetic_marker
scaffold_119452_364scaffold_119452_364genetic_marker
scaffold_119621_277scaffold_119621_277genetic_marker
scaffold_11977_5875scaffold_11977_5875genetic_marker
scaffold_119801_313scaffold_119801_313genetic_marker
scaffold_11982_2357scaffold_11982_2357genetic_marker
scaffold_119843_175scaffold_119843_175genetic_marker
scaffold_119843_205scaffold_119843_205genetic_marker
scaffold_11986_2944scaffold_11986_2944genetic_marker
scaffold_11986_2989scaffold_11986_2989genetic_marker
scaffold_11986_3001scaffold_11986_3001genetic_marker
scaffold_11986_3053scaffold_11986_3053genetic_marker
scaffold_11986_5052scaffold_11986_5052genetic_marker
scaffold_120110_223scaffold_120110_223genetic_marker
scaffold_12013_3267scaffold_12013_3267genetic_marker
scaffold_120192_179scaffold_120192_179genetic_marker
scaffold_12021_5334scaffold_12021_5334genetic_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