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Chemical and Biological Process Development

David Culley

Pacific Northwest National Laboratory
PO Box 999
Richland, WA 99352

Selected Publications

2008

  • Pinchuk GE, CG Ammons, DE Culley, SM Li, JS McLean, MF Romine, KH Nealson, JK Fredrickson, and AS Beliaev. 2008. "Utilization of DNA as a Sole Source of Phosphorus, Carbon, and Energy by Shewanella spp.: Ecological and Physiological Implications for Dissimilatory Metal Reduction." Applied and Environmental Microbiology 74(4):1198-1208.  doi:10.1128/AEM.02026-07

2007

  • Bretschger O, A Obraztsova, CA Sturm, IS Chang, YA Gorby, SB Reed, DE Culley, CL Reardon, S Barua, MF Romine, J Zhou, AS Beliaev, R Bouhenni, D Saffarini, F Mansfeld, BH Kim, JK Fredrickson, and KH Nealson. 2007. "Current Production and Metal Oxide Reduction by Shewanella Oneidensis MR-1 Wild Type and Mutants." Applied and Environmental Microbiology 73(21):7003-7012.  doi:10.1128/AEM.01087-07
  • Coleman JR, DE Culley, WB Chrisler, and FJ Brockman. 2007. "mRNA-targeted Fluorescent in Situ Hybridization (FISH) of Gram-negative Bacteria Without Template Amplification or Tyramide Signal Amplification." Journal of Microbiological Methods 71(3):246-255.  doi:10.1016/j.mimet.2007.09.011
  • Nie L, G Wu, DE Culley, JC Scholten, and W Zhang. 2007. "Integrative analysis of transcriptomic and proteomic data: challenges, solutions and applications." Critical Reviews in Biotechnology 27(2):63-75.  doi:10.1080/07388550701334212
  • Scholten JC, DE Culley, FJ Brockman, G Wu, and W Zhang. 2007. "Evolution of the syntrophic interaction between Desulfovibrio vulgaris and Methanosarcina barkeri: involvement of an ancient horizontal gene transfer." Biochemical and Biophysical Research Communications 352(1):48-54. 
  • Scholten JC, DE Culley, L Nie, KJ Munn, L Chow, FJ Brockman, and W Zhang. 2007. "Development and Assessment of Whole-Genome Oligonucleotide Microarrays to Analyze an Anaerobic Microbial Community and its Responses to Oxidative Stress." Biochemical and Biophysical Research Communications 358(2):571-577.  doi:10.1016/j.bbrc.2007.04.160
  • Zhang W, DE Culley, L Nie, and JC Scholten. 2007. "Comparative Transcriptome Analysis of Desulfovibrio Vulgaris Grown in Planktonic Culture and Mature Biofilm on a Steel Surface." Applied Microbiology and Biotechnology 76(2):447-457.  doi:10.1007/s00253-007-1014-9

2006

  • Culley DE, WP Kovacik, Jr, FJ Brockman, and W Zhang. 2006. "Optimization of RNA Isolation from the Archaebacterium Methanosarcina Barkeri and Validation for Oligonucleotide Microarray Analysis." Journal of Microbiological Methods 67(1):36-43.  doi:10.1016/j.mimet.2006.02.014
  • Gorby YA, S Yanina, JS Mclean, KM Rosso, DM Moyles, A Dohnalkova, TJ Beveridge, IS Chang, BH Kim, KS Kim, DE Culley, SB Reed, MF Romine, D Saffarini, EA Hill, L Shi, DA Elias, DW Kennedy, GE Pinchuk, K Watanabe, S Ishii, B Logan, KH Nealson, and JK Fredrickson. 2006. "Electrically Conductive Bacterial Nanowires Produced by Shewanella Oneidensis Strain MR-1 and Other Microorganisms ." Proceedings of the National Academy of Sciences of the United States of America 103(30):11358-11363. 
  • Marshall MJ, AS Beliaev, A Dohnalkova, DW Kennedy, L Shi, Z Wang, MI Boyanov, B Lai, KM Kemner, JS Mclean, SB Reed, DE Culley, VL Bailey, CJ Simonson, D Saffarini, MF Romine, JM Zachara, and JK Fredrickson. 2006. "c-Type Cytochrome-Dependent Formation of U(IV) Nanoparticles by Shewanella oneidensis ." PloS Biology 4(8):1324-1333. 
  • Zhang W, DE Culley, G Wu, and FJ Brockman. 2006. "Two-Component Signal Transduction Systems of Desulfovibrio Vulgaris: Structural and Phylogenetic Analysis and Deduction of Putative Cognate Pairs." Journal of Molecular Evolution 62:473-487.  doi:10.1007/s00239-005-0116-1
  • Zhang W, DE Culley, JC Scholten, M Hogan, L Vitiritti, and FJ Brockman. 2006. "Global Transcriptomic Analysis of Desulfovibrio vulgaris Grown on Different Carbon Sources." Antonie Van Leeuwenhoek 89(2):221-237. 
  • Zhang W, DE Culley, L Nie, and FJ Brockman. 2006. "DNA Microarray Analysis of Anaerobic Methanosarcina Barkeri Reveals Responses to Heat Shock and Air Exposure." Journal of Industrial Microbiology and Biotechnology 33(9):784-790.  doi:10.1007/s10295-006-0114-3
  • Zhang W, DE Culley, M Hogan, L Vitiritti, and FJ Brockman. 2006. "Oxidative Stress and Heat-Shock Responses in Desulfovibrio vulgaris by Genome-Wide Transcriptomic Analysis." Antonie Van Leeuwenhoek 90:41-55.  doi:10.1007/s10482-006-9059-9
  • Zhang W, DE Culley, MA Gritsenko, RJ Moore, L Nie, JC Scholten, K Petritis, EF Strittmatter, DG Camp, II, RD Smith, and FJ Brockman. 2006. "LC-MS/MS Based Proteomic Analysis and Functional Inference of Hypothetical Proteins in Desulfovibrio Vulgaris." Biochemical and Biophysical Research Communications 349(4):1412-1419.  doi:10.1016/j.bbrc.2006.09.019
  • Zhang W, MA Gritsenko, RJ Moore, DE Culley, L Nie, K Petritis, EF Strittmatter, DG Camp, II, RD Smith, and FJ Brockman. 2006. "A Proteomic View of Desulfovibrio Vulgaris Metabolim as Determined by Liquid Chromatography Coupled with Tandem Mass Spectrometry." Proteomics 6(15):4286-4299.  doi:10.1002/pmic.200500930

2005

  • Wu G, DE Culley, and W Zhang. 2005. "Predicted Highly Expressed Genes in the Genomes of Streptomyces Coelicolor and Streptomyces Avermitilis and the Implications for their Metabolism." Microbiology 151(7):2175-2187.  doi:10.1099/mic.0.27833-0

Chemical and Biological Process Development

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