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Publications and Presentations

Publications

2011

Moran JJ, MK Newburn, ML Alexander, RL Sams, JF Kelly, and HW Kreuzer.  2011.  "Laser ablation isotope ratio mass spectrometry for enhanced sensitivity and spatial resolution in stable isotope analysis."  Rapid Communications in Mass Spectrometry 25(9):1282-1290.  doi:10.1002/rcm.4985

2010

Plugge CM, JC Scholten, DE Culley, L Nie, FJ Brockman, and W Zhang.  2010.  "Global transcriptomics analysis of the Desulfovibrio vulgaris change from syntrophic growth with Methanosarcina barkeri to sulfidogenic metabolism."  Microbiology 156(9):2746-2756. doi:10.1099/mic.0.038539-0

2009

Konopka A. 2009. "What is microbial community ecology?" The ISME Journal 3(11):1223-1230. doi:10.1038/ismej.2009.88

Book Chapters

2011

Wu S, N Tolic, Z Tian, EW Robinson, and L Pasa-Tolic.  2011.  "An integrated top-down and bottom-up strategy for characterization protein isoforms and modifications."  Chapter 18 in Bioinformatics for Comparative Proteomics: Methods in Molecular Biology, vol. 694, ed. CH Wu and C Chen, pp. 291-304.  Springer, New York, NY.

Resat H, MN Costa, and H Shankaran.  2011.  "Spatial Aspects in Biological System Simulations."  Chapter 17 in Methods in Enzymology: Computer Methods, Part C, vol. 487, ed. M Johnson and L Brand, pp. 485-511.  Elsevier, Amsterdam, Netherlands.

Presentations

2011

Bailey VL, SJ Fansler, and LA McCue. 2011. "Linking Genomic Structure to Function in Soil Aggregates." Presented by Vanessa Bailey at ISMOM 2011, Montpellier, France on June 28, 2011. PNNL-SA-80839.

Resat H. 2011. "Modeling Cellular Dynamics." Presented by Haluk Resat (Invited Speaker) at WSU Collaboration Mtg, Please select a state on June 13, 2011. PNNL-SA-80494.

Grate JW. 2011. "Pore-Network Microfluidic Models for Visualization and Study of Microbial Communities and Carbon Sequestration." Presented by Jay Grate at Codexis, Inc., Redwood City , CA on June 2, 2011. PNNL-SA-80295.

Kleese van Dam K, I Gorton, CS Lansing, YJ Liu, J Yin, AL Corrigan, and ZC Guillen. 2011. "Designing the Cloud-based DOE Systems Biology Knowledgebase." Presented by Carina Lansing at IEEE DataCloud 2011, AK on May 16, 2011. PNNL-SA-79983.

Konopka A. 2011. "Delving into the black box: Seeing the world that microbes see." Presented by Allan Konopka (Invited Speaker) at University of Minnesota BTI Synthetic Ecology Symposium, Minneapolis, MN on April 20, 2011. PNNL-SA-79039.

Resat H, VL Bailey, LA McCue, and A Konopka. 2011. "Modeling Microbial Dynamics in Heterogeneous Environments." Presented by Haluk Resat at Keystone Symposium - Microbial Communities as Drivers of Ecosystem Complexity, Breckenridge, CO on March 28, 2011. PNNL-SA-78740.

McCue LA, VL Bailey, SJ Fansler, and A Konopka. 2011. "Community Diversity in Soil Aggregates." Presented by Lee Ann McCue at Keystone Symposium -Microbial Communities as Drivers of Ecosystem Complexity, Breckenridge, CO on March 27, 2011. PNNL-SA-78739.

Konopka A. 2011. "PNNL's Microbial Communities Initiative." Presented by Allan Konopka (Invited Speaker) at Rifle IFRC 2011 Planning Meeting, Carmel, CA on March 8, 2011. PNNL-SA-78202.

Konopka A. 2011. "Microbial Communities Initiative: melding technology, experimentation and theory." Presented by Allan Konopka (Invited Speaker) at PNNL Distinguished Lecture Series, Richland, WA on January 25, 2011. PNNL-SA-77397.

2010

Manowitz DH, DE Schwab, and RC Izaurralde. 2010. "Preparing the EPIC Model for Evaluating Bioenergy Production Systems: A Test of the Denitrification Submodel using a Long-Term Dataset." Presented by David H Manowitz at American Geophysical Union (AGU) Fall Meeting 2010, San Francisco, CA on December 14, 2010. PNNL-SA-76842.

Bailey VL, SJ Fansler, LA McCue, A Konopka, H Bolton, Jr, and MJ Wilkins. 2010. "Microbial Communities Research at PNNL." Presented by Vanessa Bailey (Invited Speaker) at WSU Department of Crop and Soil Sciences Seminar Series, Pullman, WA on October 25, 2010. PNNL-SA-75833.

Konopka A, VL Bailey, and LA McCue. 2010. "Designing ecologically meaningful experiments." Presented by Allan Konopka (Invited Speaker) at Argonne Soils Workshop, Argonne, IL on October 7, 2010. PNNL-SA-75569.

McCue LA, VL Bailey, SJ Fansler, and A Konopka. 2010. "Community Diversity in Individual Soil Aggregates." Presented by Lee Ann McCue at International Society for Microbial Ecology, Seattle, WA on August 26, 2010. PNNL-SA-74683.

Scheibe TD. 2010. "Beyond the Black Box: Integrating Advanced Characterization of Microbial Processes with Subsurface Reactive Transport Models." Presented by Timothy D. Scheibe (Invited Speaker) at 2010 Henry Darcy Distinguished Lectureship, Santa Barbara, CA on January 5, 2010. PNNL-SA-69689.

2009

Konopka A. 2009. "Microbial Communities Initiative: melding technology, experimentation and theory." Presented by Allan Konopka (Invited Speaker) at Microbial Communities Mini-Symposium, Richland, WA on October 9, 2009. PNNL-SA-69558.

Konopka A. 2009. "Microbial Communities Initiative - Melding Technology, Experimentation and Theory." Presented by Allan E. Konopka (Invited Speaker) at Symposium: Microbial Communities: Stewards of the Biosphere, Richland, WA on October 9, 2009. PNNL-SA-69375.

Fredrickson JK. 2009. "Why Microbial Communities." Presented by Jim K. Fredrickson (Invited Speaker) at Symposium: Microbial Communities: Stewards of the Biosphere, Richland, WA on October 9, 2009. PNNL-SA-69374.

Konopka A. 2009. "Microbial Community Ecology- what questions might omics answer?" Presented by Allan Konopka (Invited Speaker) at 1st Annual Argonne Soils Workshop, Argonne, IL on October 26, 2009. PNNL-SA-69340.

Konopka A. 2009. "Microbial Communities LDRD Initiative." Presented by Allan Konopka (Invited Speaker) at BER MCI Review and Discussion Meeting, Germantown, MD on August 26, 2009. PNNL-SA-68093.

Bjornstad BN, JA Horner, VR Vermeul, DC Lanigan, and PD Thorne. 2009. "The IFRC Well Field: Drilling, Sampling, Well Construction, and Preliminary Hydrogeologic Interpretations." Presented by Bruce Bjornstad at ERSP PI Meeting, Lansdowne, VA on April 22, 2009. PNNL-SA-66151.

Nicora CD, AD Norbeck, RD Smith, and MS Lipton. 2009. "Protocol development for protein extraction from sediment bound microbes for bioremediation purposes." Presented by Carrie D. Nicora (Invited Speaker) at ABRF - Association of Biomolecular Resource Facilities, Memphis, TN on February 10, 2009. PNNL-SA-65738.

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Beyond the Batch: Understanding the Physical and Biological Structure of Microbial Communities
February 7, 2011
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EMSL Auditorium

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Microengineering and Microanalytics

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Simulation Modeling

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Extending Genomics & Proteomics to Quantitative Functional Analyses

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