Candidate gene database and transcript map for peach, a model species for fruit trees

Renate Horn, Anne Claire Lecouls, Ann Callahan, Abhaya Dandekar, Lilibeth Garay, Per McCord, Werner Howad, Helen Chan, Ignazio Verde, Doreen Main, Sook Jung, Laura Georgi, Sam Forrest, Jennifer Mook, Tatyana Zhebentyayeva, Yeisoo Yu, Ran Kim Hye, Christopher Jesudurai, Bryon Sosinski, Pere ArúsVance Baird, Dan Parfitt, Gregory Reighard, Ralph Scorza, Jeffrey Tomkins, Rod Wing, Albert Glenn Abbott

Research output: Contribution to journalArticle

66 Scopus citations

Abstract

Peach (Prunus persica) is a model species for the Rosaceae, which includes a number of economically important fruit tree species. To develop an extensive Prunus expressed sequence tag (EST) database for identifying and cloning the genes important to fruit and tree development, we generated 9,984 high-quality ESTs from a peach cDNA library of developing fruit mesocarp. After assembly and annotation, a putative peach unigene set consisting of 3,842 ESTs was defined. Gene ontology (GO) classification was assigned based on the annotation of the single "best hit" match against the Swiss-Prot database. No significant homology could be found in the GenBank nr databases for 24.3% of the sequences. Using core markers from the general Prunus genetic map, we anchored bacterial artificial chromosome (BAC) clones on the genetic map, thereby providing a framework for the construction of a physical and transcript map. A transcript map was developed by hybridizing 1,236 ESTs from the putative peach unigene set and an additional 68 peach cDNA clones against the peach BAC library. Hybridizing ESTs to genetically anchored BACs immediately localized 11.2% of the ESTs on the genetic map. ESTs showed a clustering of expressed genes in defined regions of the linkage groups. [The data were built into a regularly updated Genome Database for Rosaceae (GDR), available at ( http://www.genome.clemson.edu/gdr/ ).].

Original languageEnglish (US)
Pages (from-to)1419-1428
Number of pages10
JournalTheoretical and Applied Genetics
Volume110
Issue number8
DOIs
StatePublished - May 1 2005

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Agronomy and Crop Science
  • Genetics

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    Horn, R., Lecouls, A. C., Callahan, A., Dandekar, A., Garay, L., McCord, P., Howad, W., Chan, H., Verde, I., Main, D., Jung, S., Georgi, L., Forrest, S., Mook, J., Zhebentyayeva, T., Yu, Y., Hye, R. K., Jesudurai, C., Sosinski, B., ... Abbott, A. G. (2005). Candidate gene database and transcript map for peach, a model species for fruit trees. Theoretical and Applied Genetics, 110(8), 1419-1428. https://doi.org/10.1007/s00122-005-1968-x