| Abstract Detail
Tomato sequencing - Morning Li, Chuanyou [1], Chen, Mingsheng [1], Cheng, Zhukuan [1], Ling, Hongqing [1], Xue, Yongbiao [1], Wang, Ying [2]. Toward constructing a genome wide physical map of the tomato genome. TO facilitate BAC-by-BAC based tomato genome sequencing, we are constructing a genome-wide physical map of the tomato genome. First, we have made extensive manual editing of FPC (Fingerprinted Contigs) physical map based on fingerprinting of the Hind III BAC library of Heinz 1706 developed by Arizona Genomics Institute. The contig number has been reduced from about 7000 to 3000. The current FPC contains 88650 BAC clones, representing a 10X coverage of the tomato genome and covering about 788 Mb of physical regions. After integrating the overgo hybridization, BAC end sequence, genomic sequence, and partial PCR-based anchoring data, 457 contigs (covering about 200 Mb) were anchored to the euchromatic regions in the F2.2000 genetic map. The integrated FPC data can be accessed through WebFPC (http://tomato.genetics.ac.cn/TomatoFPC/). Second, in silico digestion of completely sequenced BACs has been performed and integrated with the FPC data in order to ensure the integrity of the physical map and provide additional anchoring information. The sequenced BACs downloaded from GenBank were named with the GenBank accession number plus suffix –sd1, such as AF411806sd1. The sequenced BACs downloaded from SGN were named with the BAC name plus suffix –sd1, such as a0016A12sd1. The in silico digested BACs were color-coded for easy recognization in WebFPC. Third, a total of 950 genetic markers with no overgo hybridization data were selected for PCR screening of BACs containing the markers. The thereafter remaining unanchored BAC contigs will be mapped to F2.2000 using CAPS markers developed from the BAC end sequences.
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1 - Institute of Genetics and Developmental Biology, Chinese Academy of Sc, Beijing, Beijing, 100101, China
2 - Wuhan Botanical Garden, Chinese Academy of Sciences, Moshan, Wuchang,, Wuhan, Hubei, 430074, China
Keywords:
none specified
Session: SAT04-4
Location: Hall of Ideas Room E/Monona Terrace
Date: Wednesday, July 26th, 2006
Time: 9:00 AM
Abstract ID:334 |
