1. The first part of this lecture will cover material in the paper by Fleischman et al. on the first complete genome sequence of a bacterium, Hemophilus influenza, by the TIGR team. You should read this paper prior to the mid-term exam to familiarize yourselves with issues discussed in the lecture. The second part of the lecture will cover the assigned reading from the syllabus LI-COR Random Sequencing Paper; that outlines the features of the automated sequencing instruments available at NMSU. The last part of the lecture will move to the computer room for some hands-on exercises looking at whole genome information on the Web.
I. History of genome sequencing
II. Random vs "Mapped" Sequencing Projects
III. Probability calculations to determine coverage of sequence
IV. Sequence Strategy
A. Plasmid libraries and templates
B. Lambda libraries and templates
C. Advantages of each type of template
D. Assembly of contigs: sequence gaps and physical gaps
V. Sequence Gap closure method
VI. Physical Gap closure methods
A. Fingerprinting with Southern Blots
B. Peptide Links
C. Lambda library screening
D. combinatorial PCR
VII. Summary of Data in Table 2,
VIII. Perspectives on whole genomes
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