exploring rice phenotypes using gramene molly fogleman – outreach coordinator a comparative...

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