Unformatted text preview: Civil and Environmental Engineering 266
4 units, Fall Quarter, 2011
Lectures Mon. & Wed. 12-1:50 PM
5419 Boelter Hall
Professor Shaily Mahendra
5732C Boelter Hall
E-mail: [email protected]
Office Hours: Mon. 2-3 PM, Fri. 1-2 PM Overview: Environmental biotechnology refers to the application of biological processes in
natural and engineered environmental systems. Although the discipline of environmental
biotechnology has been around for nearly a century, starting with the use of activated sludge and
anaerobic digestion for waste treatment by sanitary engineers, the introduction of new
technologies in molecular biology and process engineering has enabled engineers and scientists
to address more contemporary environmental problems such as managing global nutrient cycles,
hazardous waste remediation, and production of biofuels.
This graduate course will cover fundamental microbiological principles in a quantitative
engineering context to describe, predict, and design environmental biological systems. This
course will be taught in an interactive, active-learning fashion, and it will be based on the
textbooks and primary literature in environmental biotechnology. Recommended Textbooks on Reserve in SEAS Library:
1. Environmental Biotechnology: Principles and Applications, Bruce E. Rittmann & Perry
L. McCarty. 2001. McGraw Hill 1st Edition (TD192.5 .R58 2001).
2. Environmental Microbiology: From Genomes to Biogeochemistry, Eugene L. Madsen.
2008. Wiley-Blackwell (QR100 .M33 2008).
3. Brock Biology of Microorganisms, M. T. Madigan, J. M. Martinko, and J. Parker. 2009.
Prentice Hall, N.J., 12th Edition (QR41.2 .M336 2009).
4. Molecular Biotechnology, B. R. Glick and J. J. Pasternak. 2010. ASM Press 4th Edition
(TP248.2 .G58 2010).
5. Biological Wastewater Treatment, C. P. L. Grady, G. T. Daigger and H. C. Lim. 2011.
Marcel Dekker, Inc., N.Y. 3rd Edition (TD755 .G72 2011).
6. Wastewater Engineering: Treatment, Disposal, Reuse, Metcalf and Eddy, 2003.
McGraw-Hill Book Company, New York. Third Edition (TD645.W293 2003).
7. Principles of Biochemistry, A. L. Lehninger, D. L. Nelson, and M. M. Cox. 2008. Worth
Publishers, New York, Fifth Edition (QD415 .L44 2008).
8. Fundamentals of Biochemistry, D. Voet, J. G. Voet, C. W. Pratt. (2008) Wiley, 3rd
Edition (QD415 .V63 2008). 9. Modern Biotechnology: Connecting Innovations in Microbiology and Biochemistry to
Engineering Fundamentals, N. Mosier and M. Ladisch. 2009. John Wiley (TP248.2
10. Microbial Ecology, Fundamentals and Applications, R. M. Atlas and R. Bartha,
Benjamin/Cummins Publishing Company, 4th Edition (QW 4 A881m 1998).
11. Prescott's Microbiology. Joanne Willey, Linda Sherwood, Chris Woolverton. 2011.
McGraw Hill, 8th Edition. (QR41.2 .P74 2011).
Grading: Homeworks (4)
30% Homework will typically be distributed in class on Wednesday and will be due in class
the following Wednesday. All homework assignments must be turned in to pass this
course. Late work will not be graded. Specific reading assignments will be given in
class, and posted on courseweb.
Exams will be closed book and notes, and will emphasize (to the extent possible)
comprehension over memorization, however, the nature of the material necessitates
extensive amounts of both. No make up exams unless you have a valid medical
A term project must be completed in teams of two or three students. Please discuss
potential topics and teams with the professor to avoid last minute confusion and conflicts.
The sequence of submissions will be as follows: (i) paper topic/broad subject area within
environmental biotechnology, (ii) an outline and executive summary of the article to be
prepared, (iii) in-class presentation, and (iv) a final paper. The paper should review any
particular phenomenon, issue, or technology of your choice related to environmental
microbiology and biotechnology. The paper must be typed, ten pages maximum length
(double-spaced, excluding references), and contain references to primary scientific
literature (i.e., journal articles). Oral presentations (about 15 minutes) summarizing your
paper will be held in the last weeks of classes.
To effectively learn the material in this class, careful understanding of the assigned
reading and class lectures is required. The assignments are designed to ensure that you
review and understand the relevant material. You may discuss homework problems with
the professor or other students. However, you may not examine the written work of other
students (including those of a previous class).
All students are expected to act in an honest and ethical manner consistent with
University of California’s policies and academic integrity. The consequences for acts of
academic dishonesty will range from punitive grade reduction to course failure.
Specifically, students should understand the definition of plagiarism.
Dates Topics Covered Sept. 26 Assigned Reading ENVIRONMENTAL BIOTECHNOLOGY
- Introduction & course objectives
- Assignments & grading expectations
BASICS OF MICROBIOLOGY
- Review of Organic Chemistry
- Cell biology 1.0-1.5 (R&M)
online Sept. 28 STIOCHIOMETRY AND ENERGETICS
- Redox reactions
- Electron transport
- Energy concepts & calculations 1.9-1.10, 2.1-2.6 Oct. 3 ENZYME KINETICS
- Michaelis-Menton Equation
- Lineweaver-Burk Plots
- Inhibition and Other Rate Expressions 1.8-1.9, 3.1- 3.2 Oct. 5
Homework 1 due CELLULAR GROWTH
- Monod Cell Growth Kinetics
- Chemostat Kinetics Handout of calculations Oct. 10 BACTERIAL ENUMERATION AND METABOLISM
- Biomass estimation techniques
- Culturable & unculturable microbes
- Microbial classification Handout (journal papers) Oct. 12
Homework 2 due MICROBIAL MOLECULAR BIOLOGY
- DNA structure & replication
- RNA synthesis
- genetic code, protein synthesis Brock chap. 7 Oct. 17 BACTERIAL GENETICS
- Chromosomes and plasmids
- Mutations Brock chap. 11 Oct. 19
Paper topics due GENETIC ENGINEERING
- restriction enzymes
- cloning Handout (Glick &
Pasternak) Oct. 24 BIOGEOCHEMICAL CYCLES
- Phosphorus Online resource Oct. 26
Homework 3 due BIOGEOCHEMICAL CYCLES (cont.)
- Trace elements
- Acid mine drainage Handout (journal papers) Oct. 31 CATCH-UP and REVIEW Nov. 2 MIDTERM EXAM material covered until
Oct. 26 and homework 3 Nov. 7 BIOLOGICAL REMEDIATION
- Natural attenuation & engineered
- Monitoring Chap. 14, 15 (R&M) Nov. 9 BIOLOGICAL REMEDIATION (cont.)
- Organic compound classes
- Phytoremediation Chap. 14, 15 (R&M) Nov. 14 MICROBIAL PRODUCTION OF FUELS and
- Microbial, algal, plant-based fuels
- Alcohol fermentation, vinegar 13.3 (R&M) + journal
articles Nov. 16
Homework 4 due
Nov. 18 (Fri.) Class presentations Nov. 21 Class presentations Nov. 23 Class presentations Nov. 28 PATHOGENS AND MICROBIAL CONTROL
- Waterborne diseases
- Physical/Chemical Disinfection
- Antibiotics & Antibiotic resistance 27.1-27.9,
36.4-36.8 (Brock) Nov. 30 BIOLOGICAL TREATMENT PROCESSES
- Biofilms and reactors
- Activated sludge
- Nutrient removal
- Anaerobic processes
- Wetlands and lagoons Skim chap. 5, 6
7.1, 7.2, 7.5, 7.10 (R&M)
+ Handout Dec. 2 (Fri.)
Papers due CATCH-UP and REVIEW Dec. 6 (Tue.) FINAL EXAM, 11:30 AM - 2:30 PM Class presentations Comprehensive ...
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This note was uploaded on 02/02/2012 for the course CEE 266 taught by Professor Shailymahendra during the Fall '11 term at UCLA.
- Fall '11