BIOLOGY 375/575: MICROBIOLOGY Spring Semester 2014 Tuesdays and Thursdays noon1:30 pm; Location: Goddard 101 Instructor:

Mecky Pohlschroder: pohlschr@sas.upenn.edu. Office Hours: T R 11am-noon 201 Leidy Labs 215 573 2283 mohd@sas.upenn.edu Office hours: MW 4-5pm (tentative) M 5:00pm 6:00pm (tentative) GLAB 101

TA: Farid Halim Recitation time and location: Goals of the Course

Microbiology plays a central role in diverse areas of human life such as infectious disease, ecology and biotechnology. This course will cover broad aspects of modern microbiology with an emphasis on prokaryotic organisms. Moreover, scientists from Penn as well as other institutions will present their research topics. Topics such as the spread antibiotic resistant bacteria, research on HIV, the biodiversity of the human microbiome, and the development of strategies for producing biofuels will be covered. The lecture course runs in parallel with an optional lab course (Biol 376) that also strives to cover a broad range of topics and introduces well established as well as cutting-edge microbiological techniques. Combining the practical approaches learned in the lab with theoretical knowledge gleaned from the lectures provides a great opportunity learn to independently design and execute experiments. Grading and Organization There will be three 1-hour exams, each worth 100 points. Two are scheduled as shown on the lecture syllabus; the third will be given at the time of the final exam. The last few lectures will be graduate student presentations of primary research papers. At the beginning of the presentation, the presenting students will pose one question about the paper the answers to these questions will also be graded and make up 10% of the final grade. Biol. 575 students will either write a term paper or present a research paper at the end of the semester, which will count for 25% of the final grade. The textbook used for the class is Biology of Microorganisms by Madigan, Martinko, Dunlap and Clark (Prentice Hall), 13th edition.

Biol.375/575 Goddard 101, T and R, noon-1.30pm

Class Date Topic Chapter/Unit Lecturer

1 2 3 4 5 6 7

Jan. 16 Jan. 21 Jan. 23 Jan. 28 Jan. 30 Feb. 4 Feb. 6 Feb. 11

Overview Structure/ Function Structure/Function/protein transport Nutrition, Culture and Metabolism Microbial growth/biofilm Gene Expression/Regulation Gene expression/Application Genetic selections and screens Exam 1 Metagenomics Microbial Ecology and application Food microbiology Host-Microbe Interaction Innate Immunity Adaptive Immunity Spring Break

Ch. 1-2 Ch. 3 Ch. 3 Ch. 4/13 Ch. 5/19/23 Unit 3 Unit 3

M. Pohlschroder M. Pohlschroder M. Pohlschroder M. Pohlschroder M. Pohlschroder A. Shatzman A. Shatzman M. Pohlschroder

Ch. 15

Feb. 13 9 10 11 12 13 14 Feb. 18

Unit 7 Unit 7

R. Bushman K. Hogan M. Pohlschroder

Feb. 20 Feb. 25 Feb. 27 Mar. 4 Mar. 6 March 8-16

Unit 9 Unit 9 Unit 9

Jun Zhu M. Pohlschroder M. Pohlschroder

15 16

Mar. 18 Mar. 20 Mar. 25

Case study Case Study Exam 2

Unit 9 Unit 9

Sunny Shiin Jeff Weiser

17 18 21 22 23 23 24 25

Mar. 27 Apr. 1 Apr. 3 Apr. 8 Apr. 10 Apr. 15 Apr. 17 Apr. 22

Basic Virology Viral Diversity Viral Pathogenesis Flu and Retroviruses Vaccines/Antibiotics Parasitology 1 Parasitology 2 Epidemiology

Ch. 9 Ch. 21 Ch. 9 Ch. 9 Unit 8 Unit 8 Unit 8 Ch. 32

B. Doms B. Doms B. Doms B. Doms M. Pohlschroder D. Roos D. Roos M. Levy

26 25

Apr. 24 Apr. 29

Student Presentations Student Presentations