David A. Stahl

Professor
Environmental Eng. & Science

More 302, Box 352700
University of Washington
Seattle, WA 98195-2700
ph (206) 685-3464
fx (206) 543-1543
dastahl@u.washington.edu

http://www. stahl.ce.washington.edu

EDUCATION

PhD, University of Illinois, Urbana, 1978, Microbiology
MS, University of Illinois, Urbana, 1975, Microbiology
BS, (magna cum laude), University of Washington, Seattle, 1971, Microbiology

RESEARCH INTERESTS

General Microbial Ecology
Applied Microbial Ecology
Microbial Evolution and Systematics

PUBLICATIONS

Journal Publications

Van Mooy, B., B.J. MacGregor, D. Hollander, K. Nealson, and D.A. Stahl. Linkage between suspended particulate organic matter and active bacterial biomass in Lake Michigan (prepared for submission).

MacGregor, B.J., D.P, Moser, B.J. Baker, E.W. Alm, D. Ringelberg, D.C. White, D. Hollander, K.H. Nealson, and D.A. Stahl. Distribution and activity of Archaea in oxic and anoxic Lake Michigan sedments inferred by rRNA and lipid profiles (prepared for submission).

Ziemer, C.J., R. Sharp, M.D. Stern, and D.A. Stahl. Use of chemical and molecular criteria to evaluate the comparability of model and natural rumen systems (prepared for submission).

Becker, J.G., G. Berardesco, B.E. Rittmann, and D.A. Stahl. Adaptaition mechanisms in anaerobic 3-chlorobenzoate-degradating microbial communities. (prepared for submission).

Shapiro, L., G. Berardesco, M.D. Johnson, K.H. Nealson, and D.A. Stahl. Identification of unique bacteria living wthin the phycosphere of marine phytoplankton by the use of denaturing gradient gel electrophoresis (DGGE) (submitted).

Davis, J.W., J.M. Odom, K.A. DeWeerd, D.A. Stahl, S.S. Fishbain, R.J. West, and G.M. Klecka. Natural attenuation of chlorinated solvents at Area 6, Dover Air Force Base: Part II. Characteization of Microbial Community Structure (submitted).

Alm, E. and D.A. Stahl. Evaluation of key parameters for extraction of native rRNA from different environmental matrices. J. Microbiol. Meth. (2000).

Becker, J.G, D. A. Stahl, and B.E. Rittmann. Dehalogenation and conversion of 2-Chlorophenol to 3-Chlorobenzoate in a methanogenic community: Implications for predicting the environmental fate of chlorinated pollutants. Appl. Environ. Microbiol. 65: 5169-5172 (1999).

Minz, D., J.L. Flax, S.J. Green, G. Muyzer, Y. Cohen, M. Wagner, B.E. Rittmann, and D.A. Stahl. Diversity of sulfate-reducing bacteria in oxic and anoxic regions of a microbial mat characterized by comparative analysis of dissimilatory (bi-)sulfite reductase genes. Appl. Environ. Microbiol. 65: 4666-4671 (1999).

Minz, D., S.J. Green, G Muyzer,.Y. Cohen,.B.E. Rittmann, and D.A. Stahl. Unexpected Population distribution in a microbial mat community: Sulfate-reducing bacteria localized to the highly oxic chemocline in contrast to a eukaryotic preference for anoxia . Appl. Environ. Microbiol. Appl. Environ. Microbiol. 65: 4659-4665 (1999).

Costantino, V., H.W. Jannasch, B.J. MacGregor, D.A. Stahl, and A.-L. Reysenbach. Population structure and phylogenetic characterization of marine benthic archaea in deep-sea sediments. Appl. Environ. Microbiol. 65: 4375-4384 (1999).

Rittmann, M. Pettis, B.E., H. Reeves, and D. Stahl. How biofilm clusters affect substrate flux and ecological selection. Water Sci. Technol. 39: 99-105 (1999).

Noguera, D.R., G. Pizarro, D.A. Stahl, and B.E. Rittmann. Simulation of multispecies development in three dimensions. Water Sci. Technol. 39: 123-130 (1999).

Lazarova, V., D. Bellahcen, J. Manem, D.A. Stahl, and B.E. Rittmann. Influence of operating conditions on population dynamics in nitrifying biofilms. Water Sci. Technol. 39: 5-11 (1999).

Rittmann, B.E., C.S. Laspidou, J. Flax, D.A. Stahl, V. Urbain, H. Harduin, J.J. van der Waarde, B. Geurkink, M.J.C. Henssen, H. Brouwer, A. Klapwijk, and M. Wetterauw. Molecular and modeling analyses of the structure and function of nitrifying activated sludge. Water Sci. Technol. 39: 51-59 (1999).

Nielsen, A.T., W.-T. Liu, C. Filipe, L. Grady Jr., S. Molin, and D.A. Stahl. Identification of a novel group of bacteria in sludge from a deteriorated biological phosphorus removal process. Appl. Environ. Microbial. 65: 1251-1258 (1999).

Sahm, K., B.J. MacGregor, Bo B. Joergensen, and D.A. Stahl. Sulfate reduction and vertical distribution of sulfate-reducing bacteria quantified by rRNA slot-blot hybridization in a coastal marine sediment. Environ. Microbiol. 1: 65-74 (1999).

Urbain, V., B. Mobarry, V. De Silva, D.A. Stahl, B.E. Rittmann, J. Manem. Integration of performance, molecular biology and modeling to describe the activated sludge process. Water Sci. Technol. 37: 223-229 (1998).

McMahon, K.D., D.A. Stahl, and L. Raskin. A comparison of the use of in vitro-transcribed and native rRNA for the quantification of microorganisms in the environment. Microbiol. Ecol. 36: 362-371 (1998).

Seagren, E. A., B. F. Smets, D. J. Hollander, D. A. Stahl, and B. E. Rittmann. Total alkalinity as a bioremediation monitoring tool. In: Wickraamanayake, G. B. and Hinchee, R. E., eds. Natural Attenuation, Battelle Press, Columbus, Ohio, pp. 117-123 (1998).

Becker, J. G., G. Berardesco, B. E. Rittmann, and D. A. Stahl. Molecular and metabolic characterization of a 3-chlorobenzoate degrading anaerobic microbial community. In: Wickraamanayake, G. B. and Hinchee, R. E., eds. Natural Attenuation, Battelle Press, Columbus, Ohio, pp. 93-98 (1998)

Wagner, M., A. J. Roger, J.L. Flax, G.A. Brusseau, D.A. Stahl. Phylogeny of dissimilatory sulfite reductases supports an early origin of sulfate respiration. J. Bacteriol. 180: 2975-2982 (1998).

Sharp, R., C.J. Ziemer, M.D. Stern, and D.A. Stahl. Taxon Specific Associations Between Protozoal and Methanogen Populations in the Rumen and a Model Rumen System. FEMS Microbiol. Ecol. (1998)

Noguera, D.R., G.A. Brusseau, B.E. Rittmann,and D.A. Stahl. A unified model describing the role of hydrogen in the growth of Desulfovibrio vulgaris under different environmental conditions. Bioeng.. Biotechnol. 59: 733-746 (1998).

Brusseau, G.A., B.E. Rittmann, and D.A. Stahl. Addressing the microbial ecology of marine biofilms. In : K.E. Cooksey ( Ed.) Molecular Approaches to the Study of the Ocean. Chapman & Hall. (1998).

Burlage, R.S., R. Atlas, D. Stahl, G. Geesey, and G. Sayler (Editors). Techniques in Microbial Ecology. 432 pages. Oxford University Press. Oxford (1998).

Nealson, K.H. and D.A. Stahl. Microorganisms and biogeochemical cycles: What can we learn from layered microbial communities? pp. 5-34. In: J.F. Banfield and K.H. Nealson (Eds.), P.H. Ribbe (Series Ed.) Geomicrobiology: Interactions between microbes and minerals. Reviews in Mineralogy. Vol. 35. Mineralogical Society of America. Washington, D.C. (1997).

Tuhela, L, J.B. Robinson, S. Fishbain, D.A. Stahl, and O.H. Tuovinen. Isolation and characterization of an appendaged methylotrophic bacterium Hyphomicrobium sp. Curr. Microbiol. 35: 244-248 (1997).

Guschin, D.Y., B.K. Mobarry, D. Proudnikov, D.A. Stahl., B.E. Rittmann, and A.D. Mirzabekov. Oligonucleotide microchips as genosensors for determinative and environmental studies in microbiology. Appl. Environ. Microbiol. 63: 2397-2402 (1997).

Lin, C., L. Raskin, and D.A. Stahl. Microbial community structure in gastrointestinal tracts of domestic animals: Comparative analyses using rRNA-targeted oligonucleotide probes. FEMS Microbiol. Ecol.. 22: 281-294 (1997).

MacGregor, B.A., D.P. Moser, K.H. Nealson, and D.A Stahl. Crenarchaeota in Lake Michigan Sediment Appl. Environ. Microbol. 63: 1178-1181 (1997).

Raskin, L., W.C. Capman, R. Sharp, and D.A. Stahl. Molecular Ecology of Gastrointestinal Ecosystems. In: Mackie, R.I., B.A. White, and R.E. Isaacson (Eds.), Ecology and Physiology of Gastrointestinal Microbes, Volume 2: Gastrointestinal Microbiology and Host Interactions, Chapman and Hall. (1997).

Fry, N.K., J.K. Fredrickson, S. Fishbain, M. Wagner, and D.A. Stahl. Population structure of microbial communities associated with two deep, anaerobic, alkaline aquifers. Appl. Environ. Microbiol. 63: 1498-1504 (1997)

Fry, N.K., L. Raskin, R. Sharp, E. Wheeler-Alm, B. Mobarry and D.A. Stahl. In situ analysis of bacterial populations. In: J. Shapiro and M. Dworkin (Eds.) Bacteria as Multicellular Organisms, Oxford University Press (1997).

Stahl, D.A. Molecular approaches for the measurement of density, diversity, and phylogeny. In: Manual of Environmental Microbiology, ASM Press, Washington, D.C. (1997).

Zheng, D., E.W. Alm, D.A. Stahl, and L. Raskin. Characterization of universal small subunit rRNA hybridization probes for quantitative molecular microbial ecology studies. Appl. Environ. Microbiol. 62: 4314-4317 (1996).

Alm, E., D. Oerther, N. Larsen, L. Raskin, and D.A. Stahl. The oligonucleotide probe database (OPD). Appl. Environ. Microbiol. 62: 3557-3559 (1996).

Raskin, L., B.E. Rittmann, and D.A. Stahl. Competition and co-existence of sulfate-reducing and methanogenic populations in anaerobic biofilms. Appl. Environ. Microbiol. 62: 3847-3857 (1996).

Mobarry, B.K., M. Wagner, V. Urbain, B.E. Rittmann, and D.A. Stahl. Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria. Appl. Environ. Microbiol. 62: 2156-2162 (1996).

Devereux, R., M.R. Winfrey, J. Winfrey, and D.A. Stahl. Profiles of sulfate-reducing bacterial ribosomal RNA and mecrcury methylation in an estuarine sediment. FEMS Microbiol. Ecol. 20: 23-31 (1996).

Devereux, R., M.E. Hines, and D.A. Stahl. S Cycling: Characterization of natural communities of sulfate-reducing bacteria by 16S rRNA sequence comparisons. Microb. Ecol. 32: 283-292 (1996).

Raskin, L., W.C. Capman, M.D. Kane, B.E. Rittmann, and D.A. Stahl. Sensitivity and precision of RNA quantification using nylon membranes for oligonucleotide hybridization. Appl. Environ. Microbiol. 62: 300-303 (1996).

Alm, E. and D.A. Stahl. Extraction of DNA from sediments. In: Akkermans, A.K.L., J.D. van Elsas, and F.J. de Bruijn (Eds.) Molecular Microbial Ecology Manual. Kluwer academic publishers, Dordrecht, The Netherlands (1996).

Ohashi, A., D.G.V. de Silva, B. Mobarry, J. Manem, D.A. Stahl. and B.E. Rittmann. Influence of substrate C/N ratio on the structure of multi-species biofilms consisting of nitrifiers and heterotrophs. Water Science and Technology 32: 75-84 (1995).

Smets, B. F., B. E. Rittmann, and D. A. Stahl. Quantification of the effect of substrate concentration on the conjugal transfer rate of the TOL plasmid in short-term batch mating experiments. Lett. Appl. Microb. 21:167-172 (1995).

Stahl, D.A. Application of phylogenetically-based probes to microbial ecology. Molecular Ecol. 4: 535-542 (1995).

Lin, C. and D.A. Stahl. Comparative analyses reveal a highly conserved endoglucanase in the cellulolytic genus Fibrobacter. J. Bacteriol. 177: 2543-2549 (1995).

Raskin, L., R.I. Amann, L.K. Poulsen, B.E. Rittmann, and D.A. Stahl. Use of ribosomal RNA-based molecular probes for characterization of complex microbial communities in anaerobic biofilms. Water. Sci. Technol. 31: 261-272 (1995).

Rittmann, B.F. Smets, J.A. MacDonald, and D.A. Stahl. Plasmid transfer for enhancing degradation capabilities. Environment Health Perspectives 103, Supplement 5: 113-115 (1995).

Lin, C. and D.A. Stahl. Taxon-specific probes for the cellulolytic genus Fibrobacter reveal novel and abundant equine-associated populations. Appl. Environ. Microbiol. 61: 1348-1351. (1995)

Stackebrandt, E., D.A. Stahl, and R. Devereux. Taxonomic relationships. In Barton, L.L. (Ed.) Biotechnology HandBooksSulfate-Reducing Bacteria. Plenum Publishing Company. New York, N.Y. (1995).

Stahl, D.A., R.I. Amann, L.K. Poulsen, L. Raskin, and W.C. Capman. The use of fluorescent probes for determinative microscopy. pp. 111-121. In: Archaea: A laboratory manual. F.T. Robb, K.R. Sowers, S. DasSarma, A.R. Place, H.J. Schreier, and E.M. Fleischmann (Eds.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (1995).

FULL CURRICULUM VITAE (PDF)