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Exploring Rice Phenotypes Using Gramene A Comparative Mapping Resource GRAMENE.

Published byBeryl Greene Modified over 9 years ago

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Presentation on theme: "Exploring Rice Phenotypes Using Gramene A Comparative Mapping Resource GRAMENE."— Presentation transcript:

1 Exploring Rice Phenotypes Using Gramene A Comparative Mapping Resource GRAMENE

2 http://www.gramene.org What is Gramene? Comparative mapping resource for cereals Rice genome browser Genetic and physical maps for rice and other cereals Rice mutant phenotypes, QTL and proteins Literature Ontology

3 GRAMENE http://www.gramene.org Gramene Home Page

4 GRAMENE http://www.gramene.org Gramene Modules Genome Browser BLAST CMap Proteins Mutants QTL Ontology Literature Markers Germplasm Environment Diversity

5 GRAMENE http://www.gramene.org Rice blast resistance gene Pi-ta Bryan et al. (2000) Plant Cell 12:2003-2045 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

6 Are there any putative homologs for Pi-ta in the rice genome?

7 GRAMENE http://www.gramene.org Gramene Literature Page Q9AY26

8 GRAMENE http://www.gramene.org Gramene Protein Page

9 GRAMENE http://www.gramene.org

10 GRAMENE http://www.gramene.org Gramene Protein Page

11 GRAMENE http://www.gramene.org Gramene BLAST Search

12 GRAMENE http://www.gramene.org

13 GRAMENE http://www.gramene.org Ensembl Protein Report

14 GRAMENE http://www.gramene.org Ensembl Gene Report AC135644

15 GRAMENE http://www.gramene.org Ensembl Genome Browser

16 GRAMENE http://www.gramene.org Gramene QTL Database 7,738 quantitative trait loci Rice, maize, barley, oat, pearl millet, foxtail millet, wild rice ( Zizania ) Literature curated from 1994-Aug. 2004 Biotic stress

17 GRAMENE http://www.gramene.org QTL Trait Browser Trait Categories Abiotic stress Anatomy Biochemical Biotic stress Development Quality Sterility or fertility Vigor Biotic stress

18 GRAMENE http://www.gramene.org QTL Text Search blast*resistance

19 GRAMENE http://www.gramene.org Blast disease resistance (BLRS) QTL Data Fields Species name Trait name Trait synonyms Linkage group Trait category Trait symbol Published symbol QTL Accession ID

20 GRAMENE http://www.gramene.org CMap Comparative Map Viewer

21 GRAMENE http://www.gramene.org AC135644 BLRS Xa21 Xa23 Pi18 Pilm2 Pi1

22 GRAMENE http://www.gramene.org Millet in Gramene SpeciesGenetic mapsQTL mapsQTL Pearl millet45284 Foxtail millet165 Sorghum2

23 GRAMENE http://www.gramene.org Millet QTL CategoryFoxtail milletPearl millet Abiotic stress17 Anatomy31 Biotic stress24 Development35 Vigor6515 Yield162

24 GRAMENE http://www.gramene.org The Gramene Team Susan McCouch Pankaj Jaiswal Junjian Ni Molly Fogleman Noel Yap Lincoln Stein Doreen Ware Ken Clark Kiran Ratnapu Liya Ren Wei Zhao Steve Schmidt Shuly Avraham

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