International Journal of Plant Genomics / 2008 / Article / Fig 2

Review Article

Structural and Functional Genomics of Tomato

Figure 2

Strategy for selection of candidate extending BACs based on combined use of bioinformatics analysis and experimental molecular data. Specific primer pairs were designed on sequenced seed BAC-end (P1 pair), on “bridge” seed BAC (P2 pair), and on potential extending BACs (P3, P4, P5 pairs), selected from the BAC-end database. All primer pairs were tested to amplify fragments from candidate extending BACs. Sequences of P1 and P2 fragments were aligned to the sequenced seed BAC and to the “bridge” seed BAC, respectively, to confirm both overlapping and direction of candidate extending BACs. Amplification of P3, P4 and P5 fragments allowed the selection of the longest extending BAC. IL mapping through specific IL-12 lines confirmed the position of the selected extending BAC on chromosome 12.

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