Exploring Rice Phenotypes Using Gramene
Molly Fogleman – Outreach coordinator
A Comparative Mapping Resource
GRAMENE
http://www.gramene.org GRAMENE
Rice blast resistance gene Pi-ta
• Bryan et al. (2000) Plant Cell 12:2033-2046
• Mediates gene-for-gene resistance against strains of the fungus Magnaporthe grisea that express avirulent alleles of AVR-Pita
• 928-aa cytoplasmic receptor with centrally localized nucleotide binding site (NBS)
• Mapped to centromeric region of rice chromosome 12
Are there any putative homologs for Pi-ta in the
rice genome that correlate with regions of known
resistance?
http://www.gramene.org GRAMENE
Gramene Literature Page
http://www.gramene.org GRAMENE
Gramene Protein Page
http://www.gramene.org GRAMENE
http://www.gramene.org GRAMENE
Gramene Protein Page
http://www.gramene.org GRAMENE
Gramene BLAST Search
http://www.gramene.org GRAMENE
http://www.gramene.org GRAMENE
Tigr_gene Protein Report
http://www.gramene.org GRAMENE
Tigr_gene Gene Report
AC135644
http://www.gramene.org GRAMENE
Ensembl Genome Browser
http://www.gramene.org GRAMENE
Gramene QTL Database
• ~8,000 quantitative trait loci• Rice, maize, barley, oat, pearl millet,
foxtail millet, wild rice (Zizania)• Literature curated from 1994-Aug.
2004
Biotic stressBiotic stress
http://www.gramene.org GRAMENE
QTL Trait Browser
Biotic stress
http://www.gramene.org GRAMENE
QTL Text Search
blast*resistance
http://www.gramene.org GRAMENE
Blast disease resistance (BLRS)
http://www.gramene.org GRAMENE
CMap Comparative Map Viewer
BLRS
http://www.gramene.org GRAMENE
AC135644BLRS
Xa21
Xa23
Pi18
Pilm2
Pi1
http://www.gramene.org GRAMENE
Region of disease resistance?
• Possible cluster of disease resistance genes and QTL at the end of rice chromosome 11
• May or may not be the same gene
http://www.gramene.org GRAMENE
The Gramene Team• Susan McCouch• Pankaj Jaiswal• Junjian Ni• Molly Fogleman• Noel Yap
• Lincoln Stein• Doreen Ware• Chengzhi Liang• Ken Clark• Kiran Ratnapu• Liya Ren• Wei Zhao• Steve Schmidt• Shuly Avraham• Will Spooner
http://www.gramene.org GRAMENE
Gramene PAG Workshops and Posters
• Workshops: – W183 Intl. Grass Genome Initiative - Genomes And
Phenomes, What Do Rice, Maize, Millet And Wheat Have In Common? Monday, January 17, 4:40-6:50pm
– Development and Implemention of Ontologies in the Database: An NSF sponsored Training Workshop Monday, January 17, 12:50-3:00pm
• Posters: – P242 An Update On Gramene QTL Data Module – P254 Gramene Comparative Genome Views: How Can
Gramene Leverage Rice For The Other Grasses? – P816 Gramene Diversity Module: Sharing The Data Behind
Germplasm, QTL, And Breeding Studies – P870 Gramene: A Comparative Mapping Resource For The
Grasses