1. Robert Britton - Instructor Debora Rodrigues - TA
Microbial Genomics 433
Robert Britton - Instructor
Debora Rodrigues - TA

2. Important info about the schedule
Meet Tues. and Thurs. 10:20-11:10
Lab is Thurs. 11:50-2:40 Chem 121
Feb. 2 - Mon. NCBI 9-12
Feb. 3 - Tues. NCBI lab
Feb. 5 No lecture, Jan. 29 no lab.

3. Exams and Labs Two exams - 2/3 of the grade Lab - 1/3 of the grade
Individual labs = 1/2 lab grade
Final lab project = 1/2 lab grade

4. Textbook A primer of genome science
Week 1 reading - p Box 2.2.
Not focused on prokaryotic genomes Read aims - keep them in mind but realize this is vision of authors. Not necessary to memorize but many of these points will be touched upon during class throughout semester.

5. What is genomics? The -omics revolution of science Functional genomics
Structural genomics
Physiological genomics
Toxicogenomics
Proteomics
Metabolomics
What does it all mean?

6. Genomics Philosophical - New way to approach biological problems.
Practical - High-throughput methods for analyzing biological systems.
FAST evolving field

7. Functional Genomics
B. subtilis DNA microarray

8. Proteomics
2-D gel electrophoresis

9. Structural genomics
Structure of the YlqF GTPase of B. subtilis

10. High-throughput genetics
Determine the function of every gene in a genome
Determine the genes essential for life
Minimal genome concept
Mycoplasma genes
~256 genes estimated for life.
Can we build a bacterium (phage recently completed).

11. The informatics problem
NCBI contains 28 billion basepairs in 22 million DNA sequences
Over 50 million PubMed searches are performed each month
Microarrays, proteomics, networks
How does one handle all of the data?

12. Microbial Genomes Old view New view Single, circular chromosome
Different sized genomes
Linear as well as circular chromosomes
Multiple chromosomes

13. Information in microbial genomes

14. E. coli nucleoid