Figure 1

Concordant identification of linkage between version 1 scaffolds from EST mate pairs, and BAC paired-end sequences. (a) Multiple 5'- and 3'-EST mate pairs identified a linkage between version 1 scaffolds 21 and 103. (b) Paired end sequence data of two independent BAC clones also identified this joined-scaffold linkage. (c) Identification of such linkages and FISH data constitute a larger scaffold representing chromosome 9. This new scaffold includes 61 of version 1 scaffolds. Black and red arrows indicate version 1 scaffolds in leftward and rightward directions. (d) FISH data are used to orient and place tentative joined scaffolds, which are built by EST mate pairs and paired BAC ends, on chromosomes. Left panel: two-color FISH of GECi23_g02 (green) and GECi42_e12 (red) BAC clones, which are mapped onto the same tentative joined scaffold, determines the orientation of this tentative joined-scaffold on the chromosome 9. Right panel: similarly, two-color FISH of GECi45_n13 (green) and GECi42_e12 (red) BAC clones, which are mapped onto different tentative joined-scaffolds, indicates that these two tentative joined scaffolds are in this order on chromosome 9. White arrowheads indicate the centromere.