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Lisa Alvarez-Cohen
- Chair of Civil & Environmental Engineering
- Fred and Claire Sauer Professor
- Faculty Scientist, Ecology Dept., Earth Sciences Division, Lawrence Berkeley National Laboratory
Mailing Address:
Civil and Environmental Engineering
760 Davis Hall
University of California
Berkeley, CA 94720-1710
Email:
chair@ce.berkeley.edu
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Phone:
(510) 643-8739
Fax:
(510) 643-5264
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Biography
Lisa Alvarez-Cohen is the Fred and Claire Sauer Professor, and Chair of the Department of Civil and Environmental Engineering at UC Berkeley. She received her Bachelors Degree in Engineering and Applied Science from Harvard University and her M.S. and Ph.D. in Environmental Engineering and Science from Stanford University. She is a fellow of the American Academy of Microbiology and a member of the National Academy of Engineering. She is on the Editorial Advisory Board of Environmental Science and Technology and is an Associate Editor of Environmental Engineering Science.
Teaching and Research
Professor Alvarez-Cohen teaches graduate and undergraduate courses in environmental microbiology, environmental engineering, biological process engineering, and hazardous waste management. She is the co-author of the undergraduate textbook, Environmental Engineering Science.
Her research areas include environmental microbiology and ecology, biotransformation and fate of environmental contaminants, nutrient cycling in soils, and innovative molecular and isotopic techniques for studying microbial ecology of complex communities. Specifically, her research focuses on the application of omics-based molecular tools and isotopic techniques to understand and optimize the bioremediation of emerging and conventional environmental contaminants by naturally occurring microorganisms and to facilitate beneficial carbon cycling in the environment. Bioremediation and nutrient cycling are processes that rely upon complex mixed microbial communities that interact to catalyze important reaction pathways.
Alvarez-Cohen’s lab takes a systems-based approach to understand communities as holistic units of interacting species, capable of performing environmentally relevant reactions.



Ongoing research projects include:
Professor Alvarez-Cohen co-authored a textbook entitled Environmental Engineering Science,
available from John Wiley and Sons. Prof. Alvarez-Cohen, along with Prof. Bill Nazaroff, developed
this text through using experience from teaching CE 111, a junior-level undergraduate
environmental engineering class at UC Berkeley.
Selected Recent Publications
- Zhuang, W.Q., S. Yi, X. Feng, S. H. Zinder, Y.J. Tang, and L. Alvarez-Cohen. 2011. “Exogenous Amino Acids by Dehalococcoides ethenogenes strain 195 and the Effects on Growth and Dechlorination Activity”, Applied and Environmental Microbiology, in press.
- Men, Y., H. Feil, N. C. VerBerkmoes, D. R. Johnson, P. K. H. Lee, K. A. West, S. H. Zinder, G. L. Andersen, and L. Alvarez-Cohen. 2011. “Sustainable syntrophic growth of Dehalococcoides ethenogenes with Desulfovibrio vulgaris Hildenborough and Methanobacterium congolense”, International Society for Microbial Ecology Journal, in press.
- Sales, C.M., S. Mahendra, A. Grostern, R. E. Parales, L. Goodwin, T. Woyke, M. Nolan, A. Lapidus, O. Chertkov, G. Ovchinnikova, A. Szcyrba, and L. Alvarez-Cohen. 2011. “Genome sequence of 1,4-dioxane degrading Pseudonocardia dioxanivorans strain CB1190”, Journal of Bacteriology, in press.
- Lee, P. K. H., D. Cheng, P. Hu, K. A. West, G. J. Dick, E. L. Brodie, G. L. Andersen, S. H. Zinder, J. Z. He, and L. Alvarez-Cohen. 2011. “Comparative genomics of two newly isolated Dehalococcoides strains and an enrichment using a genus microarray”, International Society for Microbial Ecology Journal, 5: 1014–1024. doi:10.1038/ismej.2010.202
- Robrock, K.R., W. W. Mohn, L.D. Eltis and L. Alvarez-Cohen. 2011. “Biphenyl and Ethylbenzene Dioxygenases of Rhodococcus jostii RHA1 Transform Polybrominated Diphenyl Ethers”, Biotechnology and Bioengineering, 108 (2) 313-321. DOI: 10.1002/bit.22952
- Tang, K. H., X. Feng, W. Q. Zhuang, L. Alvarez-Cohen, R. E. Blankenship, Y. J. Tang. 2010. “Carbon Flow of Heliobacterium Modesticaldum is More Related to Clostridia than to the Green Sulfur Bacteria”, Journal of Biological Chemistry, 285 (45) 35104-35112. 10.1074/jbc.M110.163303
- Xia, S., L. Duan, Y. Song, J. Li, Y. M. Piceno, G. L. Andersen, L. Alvarez-Cohen, I. Moreno-Andrade, C.-L. Huang, S. W. Hermanowicz. 2010. “Bacterial community structure in wastewater treatment”, Environmental Science and Technology, 44 (19) 7391-7396.
- Sharp, J. O., C. M. Sales, and L. Alvarez-Cohen. 2010. “Functional characterization of propane-enhanced n-nitrosodimethylamine degradation by two Actinomycetales”, Biotechnology and Bioengineering, 107 (6) 924-932. DOI: 10.1002/bit.22899
- Zeng, X., K.R. Robrock, S.L. Simonich, L. Alvarez-Cohen, P. Korytár, and D. F. Barofsky. 2010. “Application of a congener specific degradation model to study photodebromination, anaerobic microbial debromination, and Fe0 reduction of PBDEs”. Environmental Toxicology and Chemistry, 29 (4) 770-778. DOI: 10.1002/etc.119
- Fan, A.F., P. K. H. Lee, W.J. Ng, L. Alvarez-Cohen, E.L. Brodie, G.L. Andersen, J.Z. He. 2009. “Influence of trace erythromycin and erythromycin-H2O on carbon and nutrient removal and on resistance selection in sequencing batch reactors”, Applied Microbiology and Biotechnology, 85 (1): 185-195. PMID: 19727707
- Lee, P. K. H., J. Z. He, S. H. Zinder, and L. Alvarez-Cohen. 2009. “Evidence for Nitrogen fixation by “Dehalococcoides ethenogenes” strain 195”, Applied and Environmental Microbiology, 75 (23):7551-7555. PMID: 19820162
- Tang, Y.J., S. Yi, W.Q. Zhuang, S. H. Zinder, J.D. Keasling, and L. Alvarez-Cohen, 2009, “Investigation of Carbon Metabolism in “Dehalococcoides Ethenogenes” strain 195 Using Isotopomer and Transcriptomic Analysis,” Journal of Bacteriology, 191(16): 5224-5231.
- Zeng, X., S.L. Simonich, K.L. Robrock, P. Korytár, L. Alvarez-Cohen, and D. F. Barofsky, 2008, “Development and Validation of a Congener Specific Photodegradation Model for PBDEs,” Environmental Toxicology and Chemistry, 27(12): 2427-2435.
- West, K. A., D. R. Johnson, P. Hu, T. Z. DeSantis, E. L. Brodie, P.K.H. Lee, H. Feil, G. L. Andersen, S. H. Zinder and L. Alvarez-Cohen, 2008, “Comparative Genomics of “Dehalococcoides ethenogenes” 195 and an Enrichment Culture Containing Unsequenced “Dehalococcoides” Strains,” Applied and Environmental Microbiology, Applied and Environmental Microbiology, 74(11): 3533-3540.
- Johnson, D. R., E. L. Brodie, A. E. Hubbard, G. L. Andersen, S. H. Zinder, and L. Alvarez-Cohen, 2008, “Temporal Transcriptomic Microarray Analysis of “Dehalococcoides ethenogenes” Strain 195 during the Transition into Stationary Phase,” Applied and Environmental Microbiology, 74(9): 2864-2872.
- Sharp, J. O., Sales, C.M., LeBlanc, J., Liu, J., Wood, T. K., Eltis, L.D., Mohn, W. W. and L. Alvarez-Cohen, 2007, “An Inducible Propane Monooxygenase is Responsible for N-nitrosodimethylamine Degradation by Rhodococcus sp. Strain RHA1,” Applied and Environmental Microbiology, 73(21): 6930-6938.
- National Research Council Committee on Metagenomics (LA-C committee member) 2007, “The New Science of Metagenomics: Revealing the Secrets of our Microbial Planet,” National Academy Press, Washington DC.
- Lee, P. K. H., Johnson, D. R., Holmes, V. F., He, J , and L. Alvarez-Cohen, 2006, “Reductive Dehalogenase Gene Expression as a Biomarker for Physiological Activity of Dehalococcoides spp.,” Applied and Environmental Microbiology, 72 (9):6161-6168.
- He, J., K. R. Robrock and L. Alvarez-Cohen, 2006, “Microbial Reductive Debromination of Polybrominated Diphenyl Ethers (PBDEs),” Environmental Science and Technology, 40 (14): 4429 -4434.
- Holmes, V. F., He, J, Lee, P. K. H., and L. Alvarez-Cohen, 2006, “Discrimination of Multiple Dehalococcoides Strains in a TCE Enrichment by Quantification of their Reductive Dehalogenase Genes,” Applied and Environmental Microbiology, 72 (9):5877-5883.
- Johnson, D. R., Lee, P. K. H., Holmes, V. F., and L. Alvarez-Cohen, 2005, “Transcriptional Expression of the tceA Gene in a Dehalococcoides-Containing Microbial Enrichment,” Applied and Environmental Microbiology, 71 : 7145-7151.
- Freeborn R. A., V. K. Bhupathiraju, S. Chauhan, K. A. West,
B. G. Rahm, R. E. Richardson, L. Alvarez-Cohen, 2005, "Phylogenetic
Analysis of TCE-Dechlorinating Consortia Enriched on a Variety
of Electron Donors,"Environmental Science and Technology, 39(21): 8358-8368.
- Johnson, D. R., Lee, P. K. H., Holmes, V. F., and L. Alvarez-Cohen,
2005, "An Internal Reference Technique for Accurately Quantifying
Specific mRNAs by Real-Time PCR with Application to the tceA Reductive
Dehalogenase Gene," Applied and Environmental Microbiology, 71(7): 3866-3871.
- Rahm, B.G., Chauhan, S., Holmes, V.F., Macbeth, T W., Sorenson,
K. S., and L. Alvarez-Cohen, 2005, "Molecular Characterization
of Microbial Populations at Two Sites with Differing Reductive
Dechlorination Abilities,"Biodegradation,
17 (6): 523-534.
- Templeton, A. S., K-H Chu, L. Alvarez-Cohen, and M. E. Conrad,
2005, "Causes of variable Carbon Isotope Fractionation Exhibited
by Methane-Oxidizing Bacteria," Geochimica et Cosmochimica Acta, 70(2006): 1739-1752.
- Sharp, J. O., Wood, T.K. and L. Alvarez-Cohen, 2005, "Aerobic
Biodegradation of N-Nitrosodimethylamine (NDMA) by Axenic Bacterial
Cultures," Biotechnology and Bioengineering, 89(5): 608-618.
- Mahendra, S. and L. Alvarez-Cohen, 2005, "Pseudonocardia
dioxanivorans sp. nov., a Novel Actinomycete that Grows on 1,4-Dioxane,"
International Journal of Systematic and Evolutionary Microbiology,
55: 593-598.
- National Research Council Committee on Source Removal of Contaminants
in the Subsurface (LA-C committee member) 2004, "Contaminants in
the Subsurface: Source Zone Assessment and Remediation," National
Academy Press, Washington DC.
- Chu, K-H, S. Mahendra, D. L. Song, M. E. Conrad, and L. Alvarez-Cohen,
2004, "Stable Carbon Isotope Fractionation During Aerobic
Biodegradation of Chlorinated Ethenes," Environmental Science
and Technology, 38(11): 3126-3130.
- Deeb, R.A., K.H. Chu, T. Shih, S. Linder, M. Suffett, M. C.
Kavanaugh and L. Alvarez-Cohen, 2003, "MTBE and Other Oxygenates:
Environmental Sources, Analysis, Occurrence and Treatment," Environmental Engineering Science, 20(5): 433-447.
- Mitch W.A., J.O. Sharp, R.R. Trussel, R.L. Valentine, L. Alvarez-Cohen,
and D.L. Sedlak, 2003, "N-Nitrosodimethylamine
as a Drinking Water Contaminant: A Review," Environmental Engineering
Science, 20(5): 389-404.
- Richardson, R. E., C. A. James, V. K. Bhupathiraju, and L.
Alvarez-Cohen, 2002, "Microbial Activity in Soils Following
Steam Treatment," Biodegradation, 13(4): 285-295.
- Richardson, R. E., V. K. Bhupathiraju, D. S. Song, T. Goulet,
and L. Alvarez-Cohen, 2002, "Phylogenetic Characterization
of Microbial Communities that Reductively Dechlorinate TCE Based
upon a Combination of Molecular Techniques," Environmental
Science and Technology, 36(12): 2652-2662.
- Song, D. L., M. E. Conrad, K. S. Sorenson, and L. Alvarez-Cohen,
2002, "Stable Carbon Isotope Fractionation During Enhanced
In-Situ Bioremediation of Trichloroethene," Environmental
Science and Technology, 36(10): 2262 -2268.
- Deeb, R. A., J. O. Sharp, A. Stocking, S. McDonald, K. A. West,
M. Laugier, P. J. J. Alvarez, M. C. Kavanaugh and L. Alvarez-Cohen,
2002, "Impact of Ethanol on Benzene Plume Lengths: Microbial
and Modeling Studies," ASCE Journal of Environmental Engineering,
128(9): 868-75.
- Bhupathiraju, V. K., P. Krauter, H-Y. N. Holman, M. E. Conrad,
P. F. Daley, A. S. Templeton, J. R. Hunt, M. Hernandez, and L.
Alvarez-Cohen, 2002, "Assessment of in-situ Bioremediation
at a Refinery Waste-Contaminated Site and an Aviation Gasoline
Contaminated Site," Biodegradation, 13(2): 79-90.
- Nazaroff, W. W, and L. Alvarez-Cohen, 2001, "Environmental Engineering
Science," 690 pg. textbook, John Wiley and Sons, Collegiate Division,
ISBN 0-471-14494-0.
- Deeb, R.A., A. Stocking, L. Alvarez-Cohen, and M. C. Kavanaugh,
2001, "Biodegradability of Methyl Tert-Butyl Ether and Tert-Butyl
Alcohol," Chap. 16 in, "Oxygenates in Gasoline, Environmental
Aspects," A. F. Diaz and D. L. Drogos Eds., ACS Symposium Series
No. 799, American Chemical Society Books, ISBN: 0-8412-3760-3.
- Alvarez-Cohen, L., and G. E. Speitel, 2001, "Kinetics
of Aerobic Cometabolism of Chlorinated Solvents,"Biodegradation,
12(2): 105-126.
- Deeb, R.A., H-Y Hu, J.R. Hanson, K.M. Scow, and L. Alvarez-Cohen,
2001, "Substrate
Interactions in BTEX and MTBE Mixtures by an MTBE-Degrading Isolate,"
Environmental Science and Technology, 35(2): 312-317.
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