Current Sequencing Status of Tomato Chromosome 2 PLANT GENOME RESEARCH CENTER, KRIBB, KOREA Sanghyeob Lee Sung-Hwan Jo Dal-Hoe Koo Chul-Goo Hur Hong-Seok.

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Presentation transcript:

Current Sequencing Status of Tomato Chromosome 2 PLANT GENOME RESEARCH CENTER, KRIBB, KOREA Sanghyeob Lee Sung-Hwan Jo Dal-Hoe Koo Chul-Goo Hur Hong-Seok Park Doil Choi Jul 26, 2006 Madison, USA

Organization of chromosome 2 euchromatin heterochromatin AT-rich satellite DNA 2 26 Mb* Korea Chrom. * Euchromatin portion (based on deJong and Stack) NOR PH CEN TEL Euchromatin Heterochromatin µm = Mb µm = Mb Mb HK NOR: nucleolar organizing region PH: pericentromeric heterochromatin HK: heterochromatic knob CEN: centromere TEL: telomere

A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC A B C Overgo anchored BAC BAC to BAC Sequencing

CEN PH NOR 13 cM 142 cM HK TEL H303I24 H163K16 H190N21 H101G09 H162I09 M045L06 H160F05 H072A04 M018P14 M019I01 H323A14 H204D01 H320D04 H198A03 H291P19 H060J03 H009K06 H164H08 H213A01 H134G09 H016A12 H011A02 M014P22 M042B19 H0461M08 H150M11 H210D10 H073P13 H155D20 H064B17 H194L19 H257H21 LG H007F24 HK Identification of Euchromatin Border

Selection & Confirmation of “Seed BACs“

Seed BACs BAC extension Finishing (on pipeline) 40 Seed BAC Sequencing Summary

BAC Extension A B C

Using Pachytene- / Fiber- FISH for Confirmation of Extended BACs H066C13 H072A04 M045L06 H168N10 M045L06 H168N10 M045L06 H168N10

Seed BACs BAC extension Finishing (on pipeline) (6) Total reading length : 8.2 Mb(31%) Summary of BAC Extension 8.2Mb, 76 BACs 16 contigs 17 Single BAC Sequence

Problem : No more extendible BACs Only 6 BAC clones (on the sequencing pipeline) Is available for further extension ????

7.28 µm = 2.29 Mb 20 cM = 2.15 Mb Problem : Big Gap

Problem : Redundant Sequences C (34290bp) B (128329bp) A (115036bp) 9.1kb 25.2kb AB C Require large contig FPC

Waiting for UK’s New FPC Map Waiting for UK’s New FPC Map

Thanks for your attention..