Plant & Animal Genomes XIII Conference Plant & Animal Genomes XIII ConferenceJanuary 15-19, 2005
Town & Country Convention Center
San Diego, CA
J Shultz , J Potter , K Wakefield , Chet Langin , MJ Iqbal , DA Lightfoot
The soybean physical map is made from 3 libraries. Two libraries are made in a T-DNA vector and are ready for plant transformations mediated by Agrobacterium. One library is made in a small BAC vector and is ready for sequencing. About 90,000 clones from these BAC libraries were fingerprinted with HindIII and HaeIII. The map Version 2 (automatic build) contigs and Version 3 (first manual edit) were built from 78,001 fingerprints. Contigs were manually examined to find the best non-redundant tile path through the contigs. In order to generate a useful clone set for soybean genomics we used the information from version 2-3 to re-pick an 8,064 clone set that formed a minimal tiling path for the build 3 contigs (MTP1). This tiling path is used extensively and has been released. The clones were end sequenced. Build 4 was made from 50,000 of the highest quality fingerprints at high stringency to facilitate positional cloning. Highly conserved homeologous regions of the genome (25%) were left coalesced. Following build 4we have isolated clones that were selected by position within 2854 contigs in 12 HindIII/BamHI (MTP2) plates (T-DNAs) and 12 EcoRI (MTP3) plates (sequence ready). Each MTP had just 4,608 clones because they include conserved repeat contigs once in a separate plate (384 clones). The three MTPs provide a unique resource for soybean genomics and are shown on Gbrose at http://bioinformatics.siu.edu. Supported by NSF project #9872635