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SOL Genomics Network

SOL Genomics Network. Formed in 2003 to answer two questions: How can a common set of genes give rise to such a wide range of morphologically and ecologically distinct organisms that occupy our planet?

illana-christensen
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SOL Genomics Network

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  1. SOL Genomics Network • Formed in 2003 to answer two questions: • How can a common set of genes give rise to such a wide range of morphologically and ecologically distinct organisms that occupy our planet? • How can a deeper understanding of the genetic basis of plant diversity be harnessed to better meet the needs of society in an environmentally-friendly and sustainable manner?

  2. Lynn Bohs More than 3,000 Solanaceaespecies world-wide. Major evolutionary progress in South America unaltered by ice-ages and fueled by extreme climates.

  3. 2n=2x=24 950 Mb 2n=2x=24 3000 Mb 2n=2x=24 950 Mb 2n=2x=24 1300 Mb 2n=4x=24 1800 Mb 2n=2x= 22 ca. 1000 Mb

  4. SOL Tomato Sequencing • Genome size of 950 Mb. ~35,000 genes. • 25% DNA lies in gene-dense euchromatin regions. • Anchor BACs to genetic map (S. esculentum x S. pennellii F2) then choose new BACs based on sequenced ends. Verify physical location by FISH.

  5. Comparable Maps • Arabidopsis: • Arabidopsis COSII • Eggplant: • Eggplant-LXM 2002 • Pepper: • Pepper-FA03 • Pepper-AC99 • Potato: • Potato-TXB 1992 • Tobacco: • Tobacco SSR 2007 • Tomato: • Tomato FISH map • Tomato-EXPIMP 2001 • Tomato-EXHIR 1997 • Tomato-EXPIMP 2008 • Tomato-EXPEN 1992 • Tomato-EXPEN 2000 • Tomato IL map (2) • Tomato physical map • Tomato FPC map • Tomato AGP map

  6. Chrom. 1 2 3 4 5 6 7 8 9 10 11 12 Mb* 24 26 26 19 11 20 27 17 16 10 13 11 T=220 Short arm Centromere Italy USA USA Long arm The Netherlands USA Spain USA France UK China Korea USA euchromatin euchromatin heterochromatin heterochromatin AT-rich satellite DNA AT-rich satellite DNA * Euchromatinportion

  7. The 10 missions of SOL • Sequence the reference tomato genome using BAC minimal tiling paths. • Develop deep EST databases and shotgun genomic sequences for other Solanaceae crops as well as SNP analysis of diverse germplasm. • Construct COS maps and interspecific introgression resources for all SOL crops • Establish asaturation set of mutagenesis lines and cloned gene specific tags (GST). • Construct a comprehensive phylogenetic and geographical distributional information network. • Apply transcription, proteomic & metabolic profiling to explore chemical and developmental evolution. • Apply non-destructive ‘Real Time’ physiology and phenotyping. • Improve the efficiency of plant breeding -- especially through use of natural diversity. • Educate the public about the value of biodiversity, domestication and plant improvement. • Develop an international bioinformatics platform which will facilitate a systems approach to SOL research.

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