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

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 interrelated 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.

Dataset Info

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FieldValue
Authors
Schlautman, Brandon
(ORCID)
Covarrubias-Pazaran, Giovanny
(ORCID)
Diaz-Garcia, Luis
(ORCID)
Iorizzo, Massimo
Polashock, James J.
(ORCID)
Grygleski, Edward
Vorsa, Nicholi
Zalapa, Juan
(ORCID)
Product Type
Dataset
Publisher
G3: Genes, Genomes, Genetics
Contact Name
Zalapa, Juan
Contact Email
Public Access Level
Public
Primary Article

Schlautman, B., Covarrubias-Pazaran, G., Diaz-Garcia, L., Iorizzo, M., Polashock, J., Grygleski, E., Vorsa, N. & Zalapa, J. (2017). Construction of a High-Density American Cranberry (Vaccinium macrocarpon Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage Mapping. G3:Genes, Genomes, Genetics, 7(4), 1177-1189.

License
Funding Source(s)
U.S. Department of Agriculture
2008-51180-04878
National Institute of Food and Agriculture
2013-67013-21107
Agricultural Research Service
3655-21220-001-00
National Science Foundation
DBI-1228280
National Institute of Food and Agriculture
Hatch project 1008691
Dataset DOI (digital object identifier)
10.1534/g3.116.037556
Program Code
005:037 - Department of Agriculture - Research and Education
Bureau Code
005:18 - Agricultural Research Service
Modified Date
2018-12-18
Release Date
2018-09-19
Ag Data Commons Keywords: 
  • Plants & Crops
  • Traits
  • Genomics & Genetics
  • Genome
  • Genomics & Genetics
  • Metagenomics
  • Genomics & Genetics
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