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Italy: tomato chr. 12 Country Representative: Dr. Giovanni Giuliano Contribution from Naples Funding Agency: Italian Ministry of Agriculture (MiPAF) Project.

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Presentation on theme: "Italy: tomato chr. 12 Country Representative: Dr. Giovanni Giuliano Contribution from Naples Funding Agency: Italian Ministry of Agriculture (MiPAF) Project."— Presentation transcript:

1 Italy: tomato chr. 12 Country Representative: Dr. Giovanni Giuliano Contribution from Naples Funding Agency: Italian Ministry of Agriculture (MiPAF) Project title:AGRO-NANOTECH Coordinator: Prof. Luigi Frusciante (UNIV. of Naples) Investigators: Dr. Silvana Grandillo (IGV-CNR, Naples) Dr. Maria Raffaella Ercolano (UNIV. of Naples) Dr. Amalia Barone (UNIV. of Naples) Dr. Maria Luisa Chiusano (UNIV. of Naples) Total award for sequencing: 560,000 euro Start date: April 2004

2 CT211A TG180 7.4 CT19A 6.4 TG68 14.4 CT79 4.3 5.5 CT219 2.2 TG360 0.8 CD6A 1.6 TG283 4.5 TG394 13.4 CT287A 6.3 TG28A 1.0 CT239B 2.0 TG296 2.4 CT156 7.2 CT80B 6.1 CT276 5.8 TG473 1.8 CD2 12 o TM14B T659 cM#BACs Overgo probes 11.0 2 cLPT6E914.0 13 TG26319.0 1 TG6821.0 1 T148726.0 6 T148132.0 14 T002833.0 14 T098936.0 19 T166740.0 3 cLET8K441.0 22 T173652.012 T121152.010 T109352.0 6 T104552.0 13 T107855.0 1 T162256.0 3 T145159.0 21 P6259.0 17 SSR4460.0 4 SSR12460.0 20 TG39468.0 17 T126671.0 3 T167684.0 8 T178496.0 5 TG29696.0 2 T088297.0 3 T0770101.0 6 T1504110.0 1 T0800110.0 1 CD2120.0 2 249 30 markers Chromosome 12 seed BACs STATUS: Seed BACs to be sequenced are being selected from the available list of 250 seed BACs which were identified in Cornell, for chr. 12, by means of 30 OverGo probes (http://www.sgn.cornell.edu). Projected # of BACs 113 Euchromatin portion = 11Mb

3 Sequencing Service Center Chromatogram (.abi,.scf) Phred scores Raw sequence (fasta) Local Bioinformatics Service (setup according to the Sol Genome Pipeline) Analysis Computational prediction Project specific analysis: Comparative genomics Phylogenetics Miglioramento genetico …….. Conflicts resolution and manual curation Project specific analysis: Comparative genomics and Phylogenetics Identification and characterization of genes Identification of Molecular Markers SNP Microarray design …….. Re-sequencing 5 BACs Available BACs 50 BACs Structural and functional annotation 113 BACs ???

4  Computational Hardware: Servers (Silicon Graphics, SUN, IBM) Workstations (Linux, Windows XP, Mac/OS), Personal Computers Software: open source software for structure and functional analyses of Nucleic Acids and Proteins  Biothecnological DNA sequencers (ABI 310, ABI 3100, ABI 3100avant) Real Time PCR Typhoon image scan Facilities:

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