Increasing the Diversity of EST Sequences for Fragaria


NRI Award #2005-35300-15537
PI: Janet P. Slovin, Co-PI: Pablo D. Rabinowicz
Fruit Laboratory, USDA/ARS BARC-W
Beltsville MD 20705-2350
E-mail:slovinj@ba.ars.usda.gov
Telephone: 301-504-5629
Website: http://www.ba.ars.usda.gov/fruit/pandp/slovin.html


Accomplishments:

All of the proposed objectives have been met except for final publication of the results.

Broad Impacts:

The sequences deposited represent 91% of the EST sequences in GenBank for F. vesca and substantially increase the number of sequences available for stress responsive genes in the Rosaceae. The sequence data has formed the basis for developing gene-specific markers for loci potentially involved in abiotic stress resistance, and provides a foundation for studies of stress response systems in the Rosaceae.

The deposited F. vesca sequences have also proven useful for annotation of gene sequences in a separate NRI Rosaceae Genome project to sequence 35 gene-targeted and randomly selected fosmids (T. Davis, PI). Dr. Slovin has developed 3 new collaborations with laboratories currently working on Arabidopsis because these sequences are publicly available.

Deliverables:
  • Publications:
    • Slovin JP and Rabinowicz P (in press) Fragaria vesca, a useful tool for Rosaceae genomics. In: Takeda, F. (ed) Proceedings of the 6th National Strawberry Symposium. Slovin JP, Rabinowicz P, Folta K, Chan AP, and Cheung, F. (submitted) The Fragaria vesca abiotic stress transcriptome. BMC Genomics.
  • Presentations:
    • Slovin JP and Rabinowicz (2005) Increasing the diversity of ESTs in Fragaria. ASHS Workshop "Rosaceae Genomics, Genetics, and Breeding"
    • Slovin JP, Park S, and Cohen JD (2006) Strawberry fruit protein with a novel posttranslational indole-acyl modification. International Horticultural Congress, Seoul, Korea
    • Slovin JP and Rabinowicz P (2007) Fragaria vesca, a useful tool for Rosaceae genomics. 6th National Strawberry Symposium, Ventura, CA
  • Meeting Abstracts:
    • Slovin JP, Park S, and Cohen JD (2006) Strawberry fruit protein with a novel posttranslational indole-acyl modification. IHC, Seoul Korea
  • Web sites:
    • http://plantta.tigr.org/
  • Community resources generated (sequences, populations, plant materials, etc):
    • 41,430 ESTs available in NCBI GenBank
  • Training:
    • Jennifer, McCallister, USDA/ARS technician trained in molecular biology techniques.
    • Matthew Barton, undergraduate student, trained in molecular biology techniques and plant cultivation. Matt helped grow plants, isolated DNA
    • Jake Koster, undergraduate student, trained in molecular biology techniques.
    • Two High School students, Kant Klingenstein and Britney Hardy learned molecular biology techniques as part of a High School internship program. This program allows students to work in laboratories for half a day, four days per week and is designed to encourage students into careers in research.
Collaborations:
  • Alan Smith, Dept Hort Sci, Univ. Minnesota
  • Stephen Mount, Dept. of Cell Biology and Molecular Genetics, Univ. MD College Park
  • Todd Michael, Plant Biology & Pathology, Waksman Institute, Rutgers Univ.