Ecology Department
Ecology Department Presentations & Media (2009)
December
Faybishenko, B. and T. C. Hazen. Contributed. Multiple Factor Analysis and k-Means Clustering-Based Classification of the DOE Groundwater Contaminant Database. December 2009, San Francisco, CA. American Geophysical Union Annual Meeting.
Hazen, T. C., E. Sonnenthal, S. Mukhopadhyay, C. Steefel, P. Long, and B. Faybishenko. Contributed. Field and Numerical Modeling Study of Reductive Bioimmobilization of Cr (VI) in Groundwater at Hanford 100-H Site. December 2009, San Francisco, CA. American Geophysical Union Annual Meeting.
Hazen, T. C., B. Faybishenko, and P. Jordan. Invited. Characterization of a Contaminant Inventory at DOE Sites, as a Tool for Selecting Monitoring and Remediation Technologies. December 2009, San Francisco, CA. American Geophysical Union Annual Meeting.
Chakraborty, R., E. L Brodie, D. C Joyner, T. Torok, J. L Fortney, S. E Borglin, P. E Long, D. R Newcomer, S. Choudhuri, H. R Beller, Y. M Piceno, L. Tom, G. L Andersen, B. Faybishenko, and T. C. Hazen. Contributed. Microbial community changes during sustained Cr(VI) reduction at the 100H site in Hanford, WA. December 2009, San Francisco, CA. American Geophysical Union Annual Meeting.
Wu*, C. H., B. R. Lam, J. Chou, M. Bill, J. Henriksen, K. E. Wright, E. L. Brodie, G. L. Andersen, T. C. Hazen, Y. Fujita, and M. E. Conrad. Contributed. Microbial metabolism of triethylphosphate, a potential phosphate source for radionuclide mineralization. December 2009, San Francisco, CA. American Geophysical Union Annual Meeting.
November
October
Hazen, T. C. Invited. Life in the Slow Lane: Ecogenomics in Extreme Environments - Implications for Enhanced Oil Recovery. October 2009, Berkeley, CA. University of California at Berkeley, Energy Biosciences Institute Seminar.
Martinez*, R. J., K. Salome, C. W., T. C. Hazen, G. L. Andersen, M. Taillfert, and P. A. Sobecky. Contributed. Uranium Immobilization by the Activities of Microbial Phosphatases. October 2009, Portland, OR. Geological Society of America Annual Meeting.
September
Hazen, T. C., and G. L. Andersen. Invited. LBNL SuperChip Grand Challenge. September 2009, Washington, DC. Science and Technology, U. S. Department of Homeland Security.
Dubinsky, E., C. Wu, J. Hulls, T. C. Hazen, and G. L. Andersen. Contributed. A complete microbial community approach to tracking fecal pollution in coastal waters. September 2009, San Francisco, CA. 9th Biennial State of the San Francisco Estuary Conference.
August
July
Hazen, T. C. and B. A. Simmons. Invited Symposia. Systems Biology Approaches to Environmental Microbial Adaptations for Bioenergy Products. July 2009, Toronto, Canada. Society for Industrial Microbiology Annual Meeting.
DeAngelis, K., W. Silver, P. D’haseleer, J. Fortney, M. K. Firestone, and T. C. Hazen. Invited. Puerto Rico tropical forest soils as reservoirs for novel lignocellulolytic enzymes and organisms July 2009, Toronto, Canada. Society for Industrial Microbiology Annual Meeting.
Hazen, T. C. Invited. Systems Biology (Integration of the Omics, Bioinformatics, and Biogeochemistry): The New Frontier for Environmental Biotechnology. July 2009, Granada, Spain. Master Universitario in Biotecnologia, University of Granada.
June
Stringfellow, W.T., Graham, J., Rogers, M., Borglin, S., Brunell, M., Hanlon, J., Spier, C., and Nguyen, K., 2009. Water Quality Changes Occuring in Agricultural Drains of Varying Riparian Function, AEES Conference, Corvallis, OR, June 2009.
Spier, C., Hanlon, J., Graham, J., Nguyen, K., Borglin, S., Stringfellow, W.T., 2009. The Potential for a Riparian Corridor in California’s San Joaquin Valley, AEES Conference, Corvallis, OR, June 2009
Stringfellow, W.T., Hanlon, J., Borglin, S., Rogers, M., Markel, J., Linneman, C., and Klassen, P., 2009. Evaluation of Riparian Areas, Ponds, and Wetlands as BMPs for Mitigating the Water Quality Impacts of Irrigated Agriculture in the San Joaquin Valley, ASABE Conference, Reno, NV, June 2009
Holman, H.-Y.N. “Case Study: The Bio-Geological Interface – Microbes”, Canadian Light Source Saskastoon Summer School, Saskatoon, Saskatchewan, Canada, June, 2009.
M.E. Conrad, E.L. Brodie, C.W. Radtke, M. Bill, M.E. Delwiche , M.H. Lee, D.L. Swift , F.S. Colwell. Isotopic evidence for TCE co-metabolism stimulated by electron donor addition to groundwater. Goldschmidt 2009, Davos, Switzerland, June 2009.
Hazen, T. C. Invited. EBI Microbial Enhanced Hydrocarbon Recovery. June 2009, Urbana/Champagne, IL. Environmental Bioenergy Institute Annual Retreat.
Hazen, T. C., B. K. Fouke, and J. D. Coates. Contributed. EBI Microbial Enhanced Hydrocarbon Recovery. June 2009, Urbana/Champagne, IL. Environmental Bioenergy Institute Annual Retreat.
Skerker, J., A. Deutschbauer, P. Novichkov, A. Gerasimova, J. Mar, K. Wetmore, J. Baumohl, M. Price, P. Dehal, J. Kuehl, C. Wu, I. Dubchak, T. C. Hazen, A. P. Arkin. Invited. An idiosyncratic view of Fuel Synthesis Challenges. June 2009, Urbana/Champagne, IL. Environmental Bioenergy Institute Annual Retreat.
Skerker, J., A. Deutschbauer, J. Mar, K. Wetmore, M. Price, P. Dehal, J. Baumohl, I. Dubchak, T. C. Hazen, A. P. Arkin. Contributed. A systems biology approach for optimizing biofuel production in Zymomonas mobilis. June 2009, Urbana/Champagne, IL. Environmental Bioenergy Institute Annual Retreat.
Hazen, T. C. Invited. Life in the Slow Lane: Ecogenomics of an Extreme Environment. June 2009, Uppsala, Sweden. BAGECON 10 International Conference.
Hazen, T. C. Invited. Metagenomics of Soil Rain Forest. June 2009, Uppsala, Sweden. Terragenome Workshop.
Godoy-Vitorino, Goldfarb, K.C., Brodie, E.L. , Garcia-Amado, M.A., Michelangeli, F., and M.G. Domínguez-Bello. Developmental changes in the Hoatzin crop bacterial ecosystem. 10th International Symposium on Bacterial Genetics and Ecology, Uppsala, Sweden, June 2009.
Bradbury, D., Dubinsky, E., Brodie, E.L., Placella, S., Herman, S., DeAngelis, K., Balser, T., Firestone, M.K. Microbial communities as transducers of ecosystem response to climate change. 10th International Symposium on Bacterial Genetics and Ecology, Uppsala, Sweden, June 2009.
D. Bradbury, E. A. Dubinsky, E.L. Brodie, S. Placella, K. DeAngelis, T. Balser and M.K. Firestone. Microbial Communities as tranducers of ecosystem response to climate change. 10th International Symposium on Bacterial Genetics and Ecology. June 2009, Uppsala, Sweden.
Holman, H.-Y. N. Invited lecture: “Case Study: The Bio-Geological Interface – Microbes”, Canadian Light Source Saskatoon Summer School, Saskatoon, Saskatchewan, Canada, June, 2009.
Holman, H.-Y. N. Invited lecture: “Bioavailability: a Risk Assessment “National Student Leadership Council, June, 2009.
Wessen, E., K. Nyberg, J.K. Jansson and S. Hallin. Enrivonmental controls on ammonia oxidizing bacteria and archaea in soil under different long-term management practices. 10th International Symposium on Bacterial genetics and ecology (BAGECO-10) June 15-19, 2009, Uppsala, Sweden. Poster.
Arthurson, V., D. Baggesen, K. Brankatschk, A. Dalsgaard, B. Duffy, C. Fenzl, J.K. Friedel, E. Hackl, A. Hartmann, F. Hedin, A. Hofmann, J.K. Jansson, A.N. Jensen, L. Jaderlund, M. Klerks, M. Koller, P. Mader, T. Rinnofner, M. Schmid, C. Storn, A.H.C. van Bruggen, F. Widmer, G.S. Wyss, C.A. Zijlstra and A. Sessitch. Incidence of thermophilic campylobacter spp. In animal manure and organically produced vegetables. 10th International Symposium on Bacterial genetics and ecology (BAGECO-10) June 15-19, 2009, Uppsala, Sweden. Poster.
Dicksved, J., B. Willing, J. Halfvarson, A. Andersson, G. Jarnerot, C. Tysk, L. Engstrand and J.K. Jansson. Dysbiosis in the microbiota of twins is correlated with inflammatory bowel disease. 10th International Symposium on Bacterial genetics and ecology (BAGECO-10) June 15-19, 2009, Uppsala, Sweden. Contributed oral.
David, M., E. Navarro, J.K. Jansson and T.M. Vogel. Comparison between total and active bacterial communities in soil contaminated by chlorinated compounds using pyrosequencing and microarrays. 10th International Symposium on Bacterial genetics and ecology (BAGECO-10) June 15-19, 2009, Uppsala, Sweden. Poster.
J.K. Jansson. Exploring the human environment using a combination of omics approaches. 3rd Congress of European Microbiologists (FEMS 2009). June 28-July 2, 2009. Gothenburg, Sweden. Invited oral.
Kelly, L., A. Herrera, K. Olsson-Francis, G. Andersen, Y. Piceno, and C. Cockell. A Geobiological Comparison of High- and Low-Silica Containing weathered Volcanic Glass. June 2009, Davos, Switzerland. Goldschmidt 2009, Challenges to Our Volatile Planet.
Tsiamis, G., A. Chamalaki, N. Krypides, Y. Piceno, G. Andersen, K. Bourtzis. Microbial Community Analysis of a Meromictic Lagoon in Western Greece. June 2009, Uppsala, Sweden. BAGECON 10 International Conference.
May
Faybishenko*, B., T. C. Hazen, and S. S. Hubbard. Invited. Application of Innovative Bioremediation Technologies for Metals and Radionuclides in Soils and Groundwater. May 2009, Astana, Kazakhstan. IAEA International Conference on Remediation of Land Contaminated by Radioactive Material Residues.
Zhou*, J., and T. C. Hazen*. Invited co-convener. High Throughput Genomic Technologies for Complex Microbial Community Analysis. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
He, Z., Y. Deng, J. D. Van Nostrand, L. Wu*, C. L. Hemme, T. J. Gentry, J. Liebich, Q. Tu, A. P. Arkin, T. C. Hazen, and J. Zhou. Contributed. Development and Applications of GeoChip 3.0 for Analysis of Microbial Community Structures, Compositions, and Potential Functions. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Zhou, A., Z. He, G. M. Zane, C. Hemme, Y. Chen*, A. P. Arkin, T. C. Hazen, J. D. Wall, and J. Zhou. Contributed. Study of Global Gene Regulation by CRP/FNR in Desulfovibrio vulgaris Hildenborough. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Elias*, D. A., M. Auer, M. D. Biggin, G. Butland, S. Chhabra, A. Fagorala, T. C. Hazen, D. Jorgans, D. C. Joyner, T. R. Juba, M. Perez, J. P. Remis, A. Tauscher, and J. D. Wall. Contributed. Protein Complex Analysis Project (PCAP): Localization of Multi-Protein Complexes through SNAP-Tag Labeling. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Kang*, S., H. L. Gough, J. Van Nostrand, Z. He, L. Wu, D. A. Stahl, T. C. Hazen, and J. Zhou. Contributed. Controlling Factors of Sediment Microbial Communities at the Metal Contaminated Freshwater Lake (Lake DePue). May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Wu*, L. Y., J. P. Xie, Y. Q. Luo, J. D. Van Nostrand, R. A. Sherry, Z. L. He, T. C. Hazen, and J. Z. Zhou. Contributed. The Responses of the Underground Microbial Communities of Grassland to the Global Warming and Different Land-use Practices Revealed by GeoChip and Pyrosequencing Analyses. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Brileya*, K. A., C. B. Walker, S. Stolyar, D. A. Stahl, A. P. Arkin, T. C. Hazen, and M. W. Fields. Contributed. Temporal and Spatial Organization within a Syntrophic Bacterial-Archaeal Biofilm. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Chhabra*, S. R., G. Butland, D. Elias, V. Fok, R. Prathapam, T. Juba, J-M. Chandonia, E. Witkowska, T. C. Hazen, J. Wall, and J. Keasling. Contributed. A High Throughput Genetics Pipeline for Identifying Protein-Protein Interactions in Desulfovibrio vulgaris Using Tandem-affinity Purification. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Van Nostrand, J. D., P. Waldron, D. B. Watson, Z. He, L. Wu, P. Jardine*, T. C. Hazen, and J. Zhou. Contributed. GeoChip Analysis of Groundwater Microbial Communities across a Gradient of pH, Heavy Metal, and Nitrate Contamination. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Van Nostrand, J. D., P. J. Waldron*, W. Wu, L. Wu, Y. Deng, J. Carley, Z. He, C. S. Criddle, P. Jardine, T. C. Hazen, and J. Zhou. Contributed. GeoChip-based Analysis of Functional Microbial Communities in a Bioreduced Uranium-contaminated Aquifer during Nitrate Exposure. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Ray*, J., E. Luning, A. Deutschbauer, K. Keller, J. Robertson, G. Zane, M. Price, S. Chhabra, J. Wall, A. Arkin, T. C. Hazen, J. Keasling, and A. Mukhopadhyay. Contributed. Study of Two-component Signal Transduction Systems in Desulfovibrio vulgaris Hildenborough. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
DeAngelis*, K. M, W. L. Silver, and T. C. Hazen. Contributed. Identification and Characterization of Lignocellulolytic Microbial Communities in Puerto Rican Wet Tropical Forest Soils. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Hemme*, C. L., Y. Deng, T. J. Gentry, M. W. Fields, L. Wu, K. Barry, S. Green-Tringe, D. B. Watson, Z. He, T. C. Hazen, J. M. Tiedje, E. M. Rubin, and J. Zhou. Contributed. Analysis of a Microbial Metagenome from a Pristine Groundwater Ecosystem. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Wu*, L. Y., J. D. Van Nostrand, T. J. Gentry, Z. J. Huang, C. W. Schadt, W. M. Wu, D. Watson, M. W. Fields, C. S. Criddle, J. Tiedje, T. C. Hazen, and J. J. Zhou. Contributed. Microbial Community Dynamics and the Effect of Geochemistry in Uranium Bioremediation Revealed by Functional Gene Array Analysis. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Zhou*, A., Z. He, M. J. Joachimiak, P. S. Dehal, A. Pl Arkin, K. Hillesland, D. Stahl, J. Wall, T. C. Hazen, and J. Zhou. Contributed. Genetic Adaptation to Salt Stress during the Long-Term Evolution of Desulfovibrio vulgaris Hildenborough. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Wu*, C. H., B. Sercu, L. C. Van De Werfhorst, T. Z. DeSantis, E. L. Brodie, T. C. Hazen, G. L. Andersen, and P. A. Holden. Contributed. Bacterial Biogeography of an Urban Creek Impacted with Fecal Pollution. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology Meeting.
Martinez*, R. J., M. J. Beazley, C. H. Wu, G. L. Andersen, T. C. Hazen, M. Taillefert, and P. A. Sobecky. Contributed. Microbial Phosphatase Activity Involved in Subsurface Uranium Sequestration. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Chakraborty*, R., J. Fortney, A. Zhou, M. Joachimiak, S. Borglin, A. Mukhopadhyay, Z. He, A. P Arkin, J. Zhou, T. C Hazen. Contributed. Investigation of salt stress responses in the metal reducing organism Geobacter metallireducens. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Kozina*, C. L., A. S. Pawate, D. Joyner, K. L. Sale, D. S. Reichmuth, T. C. Hazen, and R. Sapra. Contributed. Metabolic engineering of a novel thermophilic ethanologen Geobacillus thermoglucosidasius M10EXG for enhanced ethanol production. May 2009, San Francisco, CA. 31st Symposium on Biotechnology for Fuels and Chemicals, Society for Industrial Microbiology.
Knierim*, B., L. Prak, S. Singh, D. Jorgens, M. Zemla, K. DeAngelis, A. P. Reddy, J. VanderGheynst, T. C. Hazen, B. M. Holmes, R. Sapra, B. A. Simmons, P. D. Adams, and M. Auer. Contributed. Electron Microscopic Imaging at JBEI. May 2009, San Francisco, CA. 31st Symposium on Biotechnology for Fuels and Chemicals, Society for Industrial Microbiology.
Reddy*, A. P., M. Allgaier, P. Hugenholtz, B. A. Simmons, T. C. Hazen, and J. VanderGheynst. Contributed. Tracking Microbial Community Changes during Decomposition of Switchgrass. 31st Symposium on Biotechnology for Fuels and Chemicals, Society for Industrial Microbiology.
La Duc, M. S. Osman, Y. Piceno, G. Andersen, P. Vaishampayan, K. Venkateswaran. Cloning and Mass Sequencing vs. DNA Microarray approaches in Elucidating Spacecraft Associated Microbial Diversity. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Parnell, J. J., G. Rompato. G. Ganesan, L. Latta, M. E. Pfrender, D. Naftz, G. Andersen, J. VanNostrand, Z. He, J. Zhou, B. C. Weimer. Phylogentic and Functional Diversity Across an Extreme Salinity Gradient. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Wortman, J., V. Markowitz, G. Andersen, T. DeSantis, N. Kyrpides, R. Knight, M. Giglio, O. White. A Data Analysis and Coordination Center for the Human Microbiome Project. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
He, Z., M. Xu, Y. Piceno, Y. Deng, L. Wu, Q. Tu, G. Andersen, J. Zhou. AComparitive Analysis of Microbial Community Structures, Compositions and Functional Activity in Response to Elevated CO2. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Lee, P. K. H., N. C. VerBerkmoes, G. L. Andersen, S. H. Zinder, L. Alvarez-Cohen. Transcriptomic and Proteomic Analysis ofDehalococcoides ethenogenes Strain 195 under Nitrogen Limitation. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Andersen, G. L. Invited. Advances in High-Density PhyloChip Technology for Understanding the Dynamics of Microbial Communities Important to Human Health. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Cox, M. J., M. Allgaier, B. Taylor, E. L. Brodie, M. S. Baek, J. Koff, Y. J. Huang, G. L. Andersen, M. Kleinhenz, S. V. Lynch. Complex Microbial Community Structure in Adult Cystic Fibrosis Airways as Revealed by 16S rRNA PhyloChip Analysis. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
Goh, E.-B., J. D. Keasling, and H. R. Beller. Whole-genome transcriptional analysis of the alkene-producing bacterium Micrococcus luteus. Poster at the 109th General Meeting of the American Society for Microbiology, Philadelphia, PA, May, 2009.
Brodie, E. L., C. A. Santee, U. Karaoz, R. Han, H. R. Beller. 2009. Microbial community dynamics under changing electron-accepting conditions in chromium-reducing, aquifer-derived microcosms. Poster at the 109th General Meeting of the American Society for Microbiology, Philadelphia, PA, May, 2009.
E. L. Brodie, U. Karaoz, K. Goldfarb, Z. Gao , M. J. Blaser . Biogeography of Bacterial Populations on Healthy Skin. Presented at the American Society for Microbiology, Philadelphia, May 2009.
K. C. Goldfarb, C. A. Hanson, U. Karaoz, K. K. Treseder, M. D. Wallenstein, E. L. Brodie. Combining Immunocapture and High-density Microarray Analysis to Investigate Resource Partitioning to Investigate Resource Partitioning in Soil Bacterial Communities. Presented at the American Society for Microbiology, Philadelphia, May 2009.
K. E. Fujimura, M. J. Cox, E. L. Brodie, D. R. Ownby, K. J. Woodcroft, C. C. Johnson, H. A. Boushey, S. V. Lynch. Comparison of Bacterial Community Composition of Dust Households with or without Pets to Determine the Link with Allergy and Asthma Development in Children. Presented at the American Society for Microbiology, Philadelphia, May 2009.
M. J. Cox, M. Allgaier, B. Taylor, E. L. Brodie, M. S. Baek, J. Koff , Y. J. Huang, G. L. Andersen, M. Kleinhenz, S. V. Lynch. Complex Microbial Community Structure in Adult Cystic Fibrosis Airways as Revealed by 16S rRNA PhyloChip Analysis. Presented at the American Society for Microbiology, Philadelphia, May 2009.
E. L. Brodie, U. Karaoz, K. Goldfarb, Z. Gao , M. J. Blaser . Biogeography of Bacterial Populations on Healthy Skin. Presented at the American Society for Microbiology, Philadelphia, May 2009.
E. L. Brodie, K. C. Goldfarb, C. A. Santee, U. Karaoz, R. Han, H. R. Beller. Microbial Community Dynamics under Changing Electron-Accepting Conditions in Chromium-Reducing, Aquifer-Derived Microcosms. Presented at the American Society for Microbiology, Philadelphia, May 2009.
K. C. Goldfarb, C. A. Hanson, U. Karaoz, K. K. Treseder, M. D. Wallenstein, E. L. Brodie. Combining Immunocapture and High-density Microarray Analysis to Investigate Resource Partitioning to Investigate Resource Partitioning in Soil Bacterial Communities. Presented at the American Society for Microbiology, Philadelphia, May 2009.
Hettich, R.L., A. Russell, N.C. VerBerkmoes, M. Shah, M. Lefsrud, A. Godzik, J. Jansson, C. Fraser-Liggett. Metagenomic analysis of the structure and function of the human gut microbiota in Crohn’s disease. American Society for Mass Spectrometry. May 31-June 4, 2009. Philadelphia, PA.
J.K. Jansson. Exploring the human environment using “omics”. Rutgers Symposium on the New Biology of Environment and Health. May 27-28, 2009. Invited oral.
Beller, H. R. 2009. Application of biomolecular and mass spectrometric techniques to enhance the assessment of microbially mediated Monitored Natural Attenuation of PAH. Invited talk at the U.S. EPA Workshop on the Monitored Natural Attenuation of Polynuclear Aromatic Hydrocarbons at Manufactured Gas Plant Sites. Dallas, TX, May, 2009.
Andersen, G. L. Invited. Advances in High-Density PhyloChip Technology for Understanding the Dynamics of Microbial Communities Important to Human Health. May 2009, Philadelphia, PA. Annual meeting of the American Society for Microbiology.
April
Blakely, E.A., Thompson, A.C., Chang, P.Y., Schwarz, R.I., Bjornstad, K.A., Rosen, C.J., Homan, H.-Y.N., Holman, D. and B. Parvin. “Multicellular Crosstalk in Radiation Damage”. April 8th, 2009, Bethesda, MD. Low Dose Radiation Research Program Workshop 2009.
Beller, H. R., E. L. Brodie, R. Han, J. Geller, K. C. Goldfarb, C. A. Santee, and L. Yang. 2009. Use of biomolecular signatures to unravel biogeochemical reaction networks underlying chromium reduction at the Hanford 100H site. Poster at the DOE Environmental Remediation Science Program 4th Annual PI Meeting, Lansdowne, VA, April, 2009.
Quinn N.W.T., T.J. Lundquist., JA. Benemann. 2009. Engineering & Economic Assessment of Algae Biofuel Production. EBI review. Berkeley, CA. April 2009.
Daly, A., Brodie, E.L., Kim, Y. ,Wan, J., Tokunaga, T.K. Firestone, M.K. Microbial community trajectories in response to accelerated remediation of subsurface metal contaminants. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Beller, H.R., Brodie, E.L., Goldfarb, K.C., Han, R., Santee, C.A. Use of biomolecular signatures to unravel biogeochemical reaction networks underlying chromium reduction at the Hanford 100H site. LBNL Sustainable Systems SFA. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Daly, A., Brodie, E.L., Kim, Y. ,Wan, J., Tokunaga, T.K. Firestone, M.K. Microbial community trajectories in response to accelerated remediation of subsurface metal contaminants. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
.Hazen*, T. C. and B. Faybishenko. Invited. Update on Groundwater Issues across the DOE Complex. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Sobecky*, P. A., R. J. Martinez, M. J. Beazley, K. Salome, C. Wu, T. C. Hazen, G. L. Andersen, S. M. Webb, and M. Taillefert. Invited. Uranium Immobilization by the Activities of Microbial Phosphatases. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Van Nostrand*, J. D., P. J. Waldron, M. Xu, W. Wu, L. Wu. Z. He, Y. Deng, C. Hemme, D. Watson, C. Criddle, P. Jardine, T. C. Hazen, and J. Zhou. Invited. Improvements to GeoChip 3.0 and Application for Microbial Community Analysis. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Hubbard*, S. S., J. Aho-Franklin, H. Beller, E. Brodie, J. Chen, J. Christensen, M. Conrad, M. Denham, D. DePaolo, B. Faybishenko, S. Finsterle, Y. Fujita, T. C. Hazen, M. Kowalsky, L. Li, P. Long, P. Nico, E. Sonnethal, N. Spycher, C. Steefel, T. Tokunaga, J. Wan, K. H. Williams, and Y. Wu. Invited. LBNL Sustainable Systems SFA. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Conrad*, M. E., Y. Fujita, C. H. Wu, M. Bill, K. E. Wright, S. D. Chamberlain, B. R. Lam, E. L. Brodie, P. S. Nico, N. Spycher, and T. C. Hazen. Invited. Enhanced Immobilization of Metals and Radionuclides in the Vadose Zone. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Hazen*, T. C., B. Faybishenko, H. Beller, E. Brodie, S. S. Hubbard, J. Peterson, E. Sonnenthal, C. Steefel, L. Yang, J. Larsen, M. Conrad, J. Christensen, S. Brown, D. Joyner, S. Borglin, J. Geller, R. Chakraborty, P. Nico, T. Tokunaga, J. Wan, M. Firestone, P. Long, D. Newcomer, and L. N’Guessan. Invited. Field-Scale Investigations of Cryptic Growth and Memory Response Hypotheses at the Chromium Contaminated Hanford 100-H Site. April 2009, Lansdowne, VA. 4th Annual DOE-ERSP PI Meeting.
Hazen, T. C. Invited. Systems Biology: The New Frontier for Bioenergy. April 2009, Norman, OK. Department of Microbiology, University of Oklahoma.
Dubinsky, E.A., C. Wu, S. Osman, J. Hulls, T. Hazen, G. Andersen. A complete microbial community approach to monitoring and source tracking coastal-zone pollution. U.S. EPA National Beach Conference. April 2009, Huntington Beach, CA.
March
K. E. Fujimura, M. J. Cox, E. L. Brodie, D. R. Ownby, K. J. Woodcroft, C. C. Johnson, H. A. Boushey, S. V. Lynch. Comparison of Bacterial Community Composition of Dust Households with or without Pets to Determine the Link with Allergy and Asthma Development in Children. 12th Annual Bay Area Pathogenesis Meeting, San Francisco, March 2009.
Quinn N.W.T. 2009. California Water and Environmental Modeling Forum, Review of workshops and model user groups. Annual Meeting, Pacific Grove. March 1-3, 2009.
Quinn N.W.T. 2009. Adaptive Fluid Electrical Conductivity Logging to Determine the Salinity Profiles in Groundwater Wells Serving Seasonal Managed Wetlands. Invited talk : California Groundwater Association Biannual Conference: Groundwater Salinity: A Groundwater Dilemma March 24-25, 2009 Radisson Hotel, Sacramento, CA.
Hazen, T. C. Invited. Systems Biology: The New Frontier for Bioenergy. March 2009, Oklahoma City, OK. NanoFocus and Bioenergy Oklahoma EPSCoR Annual State Conference 2009.
Hazen, T. C. Invited. Environmental Biotechnology – a Tour through the ‘Omics’. March 2009, San Diego, CA. AEHS annual west coast meeting.
Hazen, T. C. Invited. Systems Biology for Bioenergy. March 2009, Emeryville, CA. DOE Bioenergy Research Centers Biweekly Conference Call.
Andersen, G. L. Invited. Phylochip Analysis of Microbial Diversity, March 25-27, 2009 Walnut Creek, CA. JGI’s 4th Annual User Meeting
February
Holman, H.-Y. N. Invited lecture: “Synchrotron Infrared Spectromicroscopy of Cellulose Degradation Strategies of Living Cellulolytic Bacteria” DOE-GTL Workshop, February, 2009.
Holman, H.-Y. N., Hao, Z., Hu, P., Miles, R., Pisano, A., Park, I., and S. Choi “Synchrotron Infrared Spectromicroscopy of Cellulose Degradation Strategies of Living Cellulolytic Bacteria”, February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Lacayo, C. I., Holman, H.-Y. N., Hwang, M., Hiddessen, A., Malkin, A.J., and Thelen, M.P.. “Probing the Architecture of the Plant Cell Wall during Deconstruction in Single Cells from Zinnia elegans”. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Hazen, T. C. Invited. Hanford 100H Cr Bioremediation. February 2009, Richland, WA. DOE EM RO conference on 100 area Cr.
Hazen, T. C. Invited Keynote. A Systems Biology Approach to Bioremediation. February 2009, Winnipeg, CA. Manitoba Environmental Industry Association Meeting.
Hazen, T. C. Invited Keynote. Bioremediation: the Hope and the Hype. February 2009, Winnipeg, CA. Manitoba Environmental Industry Association Meeting.
Knierim*, B., L. Prak, S. Singh, D. Jorgens, M. Zemla, K. DeAngelis, A. Reddy, J. VanderGheynst, T. C. Hazen, B. Holmes, R. Sapra, B. Simmons, P. Adams, and M. Auer. Invited. Electron Microscopic Imaging a JBEI. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Chivian*, D., E. J. Alm, E. L. Brodie, D. E. Culley, P. S. Dehal, T. Z. DeSantis, T. M. Gihring, A. Lapidus, L.-H. Lin, S. R. Lowry, D. P. Moser, P. Richardson, G. Southam, G. Wanger, L. M. Pratt, G. L. Andersen, T. C. Hazen, F. J. Brockman, A. P. Arkin, and T. C. Onstott. Invited. Environmental Genomics Reveals a Single-Species Ecosystem Deep Earth. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Ramsay*, B., C. Hwang, S. Carroll, A. Lapidus, J. C. Detter, C. Han, M. Land, L. Hauser, T. C. Hazen, A. Arkin, A. Beliaev, R. Sanford, F. Löeffler, and M. W. Fields. Invited. Characterization of Metal-Reducing Communities and Isolates from Uranium-Contaminated Groundwater and Sediments. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Brileya*, K., C. Walker, S. Stolyar, D. A. Stahl, A. P. Arkin, T. C. Hazen, and M. W. Fields. Invited. Temporal and Spatial Organization within a Syntrophic Bacterial-Archaeal Biofilm. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Elias*, D. A., Elliott C. Drury, A. M. Redding, A. Mukhopadhyay, M. Joachimiak, H.-C. B. Yen, M. W. Fields, T. C. Hazen, A. P. Arkin, J. D. Keasling, and J. D. Wall. Invited. Expression profiling of hypothetical genes in Desulfovibrio vulgaris leads to improved functional annotation. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Zhou*, A., Z. He, M. P. Joachimiak, P. S Dehal, A. P. Arkin, K. Hillesland, D. Stahl, J. Wall, T. C. Hazen, and J. Zhou. Invited. The molecular mechanism of adaptation to salt stress revealed by the long-term evolution of Desulfovibrio vulgaris Hildenborough. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
He*, Q., Z. He, D. C. Joyner, M. Joachimiak, M. N. Price, Z. K. Yang, H.-C. B. Yen, C. L. Hemme, R Chakraborty, W. Chen, M. M. Fields, D. A. Stahl, J. D. Keasling, M. Keller, A. P. Arkin, T. C. Hazen, J. D. Wall, and J. Zhou. Invited. Impact of Elevated Nitrate on Sulfate-Reducing Bacteria: Implications of inhibitory mechanisms in addition to osmotic stress. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
He, Z., A. Zhou*, Q. He, A. Mukhopadhyay, E. Baidoo, M. Joachimiak, C. L. Hemme, P. Benke, A. M. Redding, M. M. Fields, D. A. Stahl, J. D. Keasling, A. P. Arkin, T. C. Hazen, J. D. Wall, and J. Zhou. Invited. Desulfovibrio vulgaris Hildenborough responses to salt and H2O2 stresses. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Van Nostrand*, J. D., L. Wu, P. Waldron, Ye Deng, Z. He, W. Wu, S. Carroll, C. Schadt, A. Palumbo, D. Watson, C. Criddle, P. Jardine, T. C. Hazen, and J. Zhou. Invited. Applications of GeoChip for analysis of different microbial communities. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Deutschbauer, A., J. Kuehl*, M. Price, P. Dehal, T. C. Hazen, and A. P. Arkin. Invited. The development and application of an integrated functional genomics platform in Desulfovibrio desulfuricans G20. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Dehal*, P. S., E. J. Alm, D. Chivian, K. H. Huang, M. P. Joachimiak, K. Keller, M. N. Price, R Chakraborty, M. W. Fields, J. Zhou, D. A. Stahl, J. D. Wall, A. P. Arkin, and T. C. Hazen. Invited. Comparative Sequencing and Analysis of Multiple Desulfovibrio and Other Sulfate Reducing Species. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Auer, M., M. D. Biggin, G. Butland, S. Chhabra, D. A. Elias*, A. Fagorala, T. C. Hazen, D. Jorgens, D. C. Joyner, T. R. Juba, M. Perez, J. P. Remis, A. Tauscher, and J. D. Wall. Invited. Protein Complex Analysis Project (PCAP): Localization of Multi-Protein Complexes through SNAP-Tag Labeling. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Chhabra, S., G. Butland*, D. Elias, V. Fok, R. Prathapam, T. Juba, J.-M. Chandonia, E. Witkowska, M. Biggin, T. C. Hazen, J. D. Wall, and J. D. Keasling. Invited. A high throughput pipeline for identifying protein-protein interactions in Desulfovibrio vulgaris using tandem-affinity purification. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Walian*, P. J., S. Allen, L. Zeng, E. Szakal, E. Johansen, S. C. Hall, S. J. Fisher, M. E. Singer, C. Park, T. C. Hazen, H. E. Witkowska, M. D. Biggin, and B. K. Jap. Invited. Protein Complex Analysis Project (PCAP): Isolation and Identification of Membrane Protein Complexes from D. vulgaris. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Dong, M., M. Daly, H. Liu, S. Allen, E. Szakal, S. C. Hall, S. J. Fisher, T. C. Hazen, J. T. Geller, M. E. Singer, L. L. Yang, J. Jin, H. E. Witkowska*, and M. D. Biggin. Invited. Analysis of an Intact Dissimilatory Sulfite Reductase Protein Complex from Desulfovibrio vulgaris using an Ion Mobility QTOF Analyzer. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Liu*, H., L. Yang, N. Khainovski, M. Dong, E. D. Szakal, M. Choi, S. Allen, T. C. Hazen, J. T. Geller, M. E. Singer, P. Walian, B. Jap, S. C. Hall, S. J. Fisher, H. E. Witkowska, J. Jin, and M. D. Biggin. Invited. Protein Complex Analysis Project (PCAP): Introduction of Iterative MS/MS Acquisition (IMMA) to the MALDI LC MS/MS Workflow To Enable High Throughput Protein Complex Identification using Tagless Strategy. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Dong*, M., H. Liu, L. Yang, M. Choi, E. D. Szakal, S. Allen, S. C. Hall, S. J. Fisher, G. Butland, T. C. Hazen, J. T. Geller, M. E. Singer, P. Walian, B. Jap, J. Jin, J.-M. Chandonia, H. E. Witkowska, and M. D. Biggin. Invited. Protein Complex Analysis Project (PCAP): Protein Complex Purification and Identification by ”Tagless” Strategy. February 2009, Bethesda, MD. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
DeAngelis*, K. M., W. L. Silver, J. Fortney, and T. C. Hazen. Invited. Discovery and Optimization of Lignocellulolytic Bacteria from Puerto Rican Rainforest Soils. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Hazen*, T. C., G. Anderson, S. Borglin, E. Brodie, S. van Dien, M. Fields, J. Fortney, J. Geller, E. Hendrickson, K. L Hillesland, H.-Y. Holman, J. Leigh, T. Lie, J. Jacobsen, D. Joyner, R Chakraborty, M. Keller, A. Mukhopadhyay, C. Schadt, D. Stahl, S. Stolyar, C. Walker, J. Wall, Z. Yang, H.-C. B. Yen, G. Zane, and J. Zhou. Invited. Applied Environmental Microbiology Core Research on Stress Response Pathways in Metal-Reducers VIMSS:ESPP. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Hazen*, T. C., P. Hugenholtz, S. Singer, J. VanderGheynst, P. M. D’haeseleer, M. P. Thelen, K. DeAngelis, A. Reddy, M. Allgaier, J. Fortney, G. Andersen, T. DeSantis, E. Brodie, C. Wu, D. Goodheart, M. Firestone, W. Silver, and B. Simmons. Invited. JBEI Microbial Communities Deconstruction Research Activities. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Hazen*, T. C., H.-Y. Holman, J. Keasling, A. Mukhopadhyay, S. Chhabra, J. T. Geller, M. Singer, D. Joyner, L. Camp, T. Torok, J. Wall, D. Elias, and M. D. Biggin. Invited. Protein Complex Analysis Project (PCAP): High Throughput Identification and Structural Characterization of Multi-Protein Complexes during Stress Response in Desulfovibrio vulgaris: Microbiology Subproject. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Meagher*, R. J., M. Z. Hadi, Y. K. Light, P. Dehal, T. C. Hazen, A. P. Arkin, and A. K. Singh. Invited. Microfluidic tools for single-cell genomic analysis of environmental bacteria. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Miller*, L. D., A. Venkateswaran, J. Mosher, M. Drake, Z.K. Yang, M. Rodriguez, S.D. Brown, T. J. Phelps, M. Podar, A. V. Palumbo, C. W. Schadt, M. Keller, D. C. Joyner, T. C. Hazen, S. Stolyar, K. Hillesland, and D.A. Stahl. Invited. Development and Analysis of Multispecies Consortia to Study Microbial Community Stress and Survival. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Allgaier*, M., A. Reddy, J. VanderGheynst, A. Copeland, V. Kunin, P. D’haeseleer, K. DeAngelis, J. Fortney, D. Chivian, P. S. Dehal, B. Simmons, T. C. Hazen, and P. Hugenholtz. Invited. Metagenomic Characterization of Compost and Rain Forest Soil Microbial Communities. February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Mukhopadhyay*, A., E. Luning, J. Ray, A. Deutschbauer, K. Keller, J. Robertson, G. Zane, M. Price, S. Chhabra, J. Wall, A. P. Arkin, T. C. Hazen, and J. Keasling. Invited. ESPP2: Study of Two component signal transduction systems in Desulfovibrio vulgarisHildenborough. February 2009, Washington, DC. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Baidoo, E., H. R. Beller, et al. 2009. The Fuels Synthesis Division of the Joint BioEnergy Institute (JBEI). Poster at the DOE Genomics:GtL Workshop, Bethesda, MD, February, 2009.
Andersen, G. L. Invited. Phylogenetic Microarrays for Analysis of Microbial Community Dynamics. February 2009, UC Davis, CA. Department of Plant Pathology 290 Seminar Speaker.
Brodie, E., J. Pett-Ridge, P. Webber, G. Andersen, M. Blackwell, N. Nguyen, S. Gross, and P. Hoeprich. Profiling Microbial Identity and Activity: Novel Applications of NanoSIMS and High Density Microarrays February 2009, Bethesda, MD. Genomics:GTL Contractor-Grantee Workshop VII, USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009.
Andersen, G. L. Invited. Phylogenetic Microarrays for Analysis of Microbial Community Dynamics. February 2009, UC Davis, CA. Department of Plant Pathology 290 Seminar Speaker.
January
Hazen, T. C. Invited. A Systems Biology Approach to Environmental Biotechnology using Ecogenomics. January 2009, Singapore. International Society for Microbial Ecology and International Water Association Special Colloquia.
Hazen, T. C. and G. L. Andersen. Invited. A Systems Biology Approach to Environmental Biotechnology using Ecogenomics. January 2009, Singapore. National University of Singapore.
Hazen, T. C. Invited. Systems Biology the New Frontier for Bioenergy. January 2009, Singapore. National University of Singapore.