An ultra-high-density, transcript-based, genetic map of lettuce

Maria José Truco, Hamid Ashrafi, Alexander Kozik, Hans Van Leeuwen, John Bowers, Sebastian Reyes Chin Wo, Kevin Stoffel, Huaqin Xu, Theresa Hill, Allen Van Deynze, Richard W Michelmore

Research output: Contribution to journalArticle

60 Citations (Scopus)

Abstract

We have generated an ultra-high-density genetic map for lettuce, an economically important member of the Compositae, consisting of 12,842 unigenes (13,943 markers) mapped in 3696 genetic bins distributed over nine chromosomal linkage groups. Genomic DNA was hybridized to a custom Affymetrix oligonucleotide array containing 6.4 million features representing 35,628 unigenes of Lactuca spp. Segregation of single-position polymorphisms was analyzed using 213 F7:8 recombinant inbred lines that had been generated by crossing cultivated Lactuca sativa cv. Salinas and L. serriola acc. US96UC23, the wild progenitor species of L. sativa. The high level of replication of each allele in the recombinant inbred lines was exploited to identify single-position polymorphisms that were assigned to parental haplotypes. Marker information has been made available using GBrowse to facilitate access to the map. This map has been anchored to the previously published integrated map of lettuce providing candidate genes for multiple phenotypes. The high density of markers achieved in this ultradense map allowed syntenic studies between lettuce and Vitis vinifera as well as other plant species.

Original languageEnglish (US)
Pages (from-to)617-631
Number of pages15
JournalG3: Genes, Genomes, Genetics
Volume3
Issue number4
DOIs
StatePublished - 2013

Fingerprint

Lettuce
Asteraceae
Vitis
Oligonucleotide Array Sequence Analysis
Haplotypes
Alleles
Phenotype
DNA
Genes

Keywords

  • Lactuca sativa
  • Linkage analysis
  • Microarray
  • Recombination

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology
  • Genetics(clinical)

Cite this

Truco, M. J., Ashrafi, H., Kozik, A., Van Leeuwen, H., Bowers, J., Wo, S. R. C., ... Michelmore, R. W. (2013). An ultra-high-density, transcript-based, genetic map of lettuce. G3: Genes, Genomes, Genetics, 3(4), 617-631. https://doi.org/10.1534/g3.112.004929

An ultra-high-density, transcript-based, genetic map of lettuce. / Truco, Maria José; Ashrafi, Hamid; Kozik, Alexander; Van Leeuwen, Hans; Bowers, John; Wo, Sebastian Reyes Chin; Stoffel, Kevin; Xu, Huaqin; Hill, Theresa; Van Deynze, Allen; Michelmore, Richard W.

In: G3: Genes, Genomes, Genetics, Vol. 3, No. 4, 2013, p. 617-631.

Research output: Contribution to journalArticle

Truco, MJ, Ashrafi, H, Kozik, A, Van Leeuwen, H, Bowers, J, Wo, SRC, Stoffel, K, Xu, H, Hill, T, Van Deynze, A & Michelmore, RW 2013, 'An ultra-high-density, transcript-based, genetic map of lettuce', G3: Genes, Genomes, Genetics, vol. 3, no. 4, pp. 617-631. https://doi.org/10.1534/g3.112.004929
Truco MJ, Ashrafi H, Kozik A, Van Leeuwen H, Bowers J, Wo SRC et al. An ultra-high-density, transcript-based, genetic map of lettuce. G3: Genes, Genomes, Genetics. 2013;3(4):617-631. https://doi.org/10.1534/g3.112.004929
Truco, Maria José ; Ashrafi, Hamid ; Kozik, Alexander ; Van Leeuwen, Hans ; Bowers, John ; Wo, Sebastian Reyes Chin ; Stoffel, Kevin ; Xu, Huaqin ; Hill, Theresa ; Van Deynze, Allen ; Michelmore, Richard W. / An ultra-high-density, transcript-based, genetic map of lettuce. In: G3: Genes, Genomes, Genetics. 2013 ; Vol. 3, No. 4. pp. 617-631.
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