A first genetic map of date palm (Phoenix dactylifera) reveals long-range genome structure conservation in the palms

Lisa Sara Mathew, Manuel Spannagl, Ameena Al-Malki, Binu George, Maria F. Torres, Eman Aldous, Eman K. Al-Azwani, Emad Hussein, Sweety Mathew, Klaus F X Mayer, Yasmin Ali Mohamoud, Karsten Suhre, Joel Malek

Research output: Contribution to journalArticle

36 Citations (Scopus)

Abstract

Background: The date palm is one of the oldest cultivated fruit trees. It is critical in many ways to cultures in arid lands by providing highly nutritious fruit while surviving extreme heat and environmental conditions. Despite its importance from antiquity, few genetic resources are available for improving the productivity and development of the dioecious date palm. To date there has been no genetic map and no sex chromosome has been identified.Results: Here we present the first genetic map for date palm and identify the putative date palm sex chromosome. We placed ~4000 markers on the map using nearly 1200 framework markers spanning a total of 1293 cM. We have integrated the genetic map, derived from the Khalas cultivar, with the draft genome and placed up to 19% of the draft genome sequence scaffolds onto linkage groups for the first time. This analysis revealed approximately ~1.9 cM/Mb on the map. Comparison of the date palm linkage groups revealed significant long-range synteny to oil palm. Analysis of the date palm sex-determination region suggests it is telomeric on linkage group 12 and recombination is not suppressed in the full chromosome.Conclusions: Based on a modified gentoyping-by-sequencing approach we have overcome challenges due to lack of genetic resources and provide the first genetic map for date palm. Combined with the recent draft genome sequence of the same cultivar, this resource offers a critical new tool for date palm biotechnology, palm comparative genomics and a better understanding of sex chromosome development in the palms.

Original languageEnglish
Article number285
JournalBMC Genomics
Volume15
Issue number1
DOIs
Publication statusPublished - 15 Apr 2014

Fingerprint

Genome
Sex Chromosomes
Fruit
Extreme Heat
Synteny
Sexual Development
Phoeniceae
Biotechnology
Genomics
Genetic Recombination
Oils
Chromosomes

Keywords

  • Comparative genomics
  • Genotyping by sequencing
  • Sex chromosome

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Cite this

A first genetic map of date palm (Phoenix dactylifera) reveals long-range genome structure conservation in the palms. / Mathew, Lisa Sara; Spannagl, Manuel; Al-Malki, Ameena; George, Binu; Torres, Maria F.; Aldous, Eman; Al-Azwani, Eman K.; Hussein, Emad; Mathew, Sweety; Mayer, Klaus F X; Ali Mohamoud, Yasmin; Suhre, Karsten; Malek, Joel.

In: BMC Genomics, Vol. 15, No. 1, 285, 15.04.2014.

Research output: Contribution to journalArticle

Mathew, Lisa Sara ; Spannagl, Manuel ; Al-Malki, Ameena ; George, Binu ; Torres, Maria F. ; Aldous, Eman ; Al-Azwani, Eman K. ; Hussein, Emad ; Mathew, Sweety ; Mayer, Klaus F X ; Ali Mohamoud, Yasmin ; Suhre, Karsten ; Malek, Joel. / A first genetic map of date palm (Phoenix dactylifera) reveals long-range genome structure conservation in the palms. In: BMC Genomics. 2014 ; Vol. 15, No. 1.
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