Sequencing the Maize (B73) Genome

The Plan

PowerPoint Presentation

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Minimum Tile Path Pipeline

Minimum Tile Path Pipeline Usage

Maize Production Sequencing

Maize BAC shotgun

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www.maizesequence.org

MapView

CytoView

ContigView

SyntenyView

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“Methyl-filtering” Approach for Genome Sequencing

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Maize Missouri 17 “chromosome 10” project update

Aims: “Plan A”

Challenges

Project goals for researchers and breeders

Milestones

Milestones

Even in expert hands, purity of chromosome prep is 85-90%

Alignment of Mo17 “gene space” with B73 allele ~97% identity

JGI Sorghum update

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Early peek at Sorghum-rice comparison shows syntenic segments

Maize divergences (transversions)

Gene Ontology (GO) Annotation

EST and Methyl Filtered GO Classifications

Kyoto Encyclopedia of Genes and Genomes (KEGG)

Obtaining KEGG Diagrams

Tobacco Alone

Tobacco vs. Solanaceae Unigenes

Tobacco, Solanaceae and Arabidopsis

Gene Annotation Data Repository

Old Pipeline vs. New Pipeline

Post Process Data Comparison

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Full Length Genes From Methyl Filtration Data

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Search tool

Introducing Tobacco and our Approach to Sequencing