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

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 10-12. Feb. 5 No lecture, Jan. 29 no lab.

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

Textbook A primer of genome science Week 1 reading - p. 1-4. 21-26. 46-55. Box 2.2. Not focused on prokaryotic genomes. 1-4. 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.

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

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

Functional Genomics B. subtilis DNA microarray

Proteomics 2-D gel electrophoresis

Structural genomics Structure of the YlqF GTPase of B. subtilis

High-throughput genetics Determine the function of every gene in a genome Determine the genes essential for life Minimal genome concept Mycoplasma - 500 genes ~256 genes estimated for life. Can we build a bacterium (phage recently completed).

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?

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

Information in microbial genomes

E. coli nucleoid