Publications

  • Greene, Charles H., Mark E. Huntley, Ian Archibal, Léda N. Gerber, Deborah L. Sills, Joe Granados, Jefferson W. Tester, Colin M. Beal, Michael J. Walsh, Robert R. Bidigare, Susan L. Brown, William P. Cochlan, Zackary I. Johnson, Xin Gen Lei, Stephen C. Machesky, D.G. Redalje, Ruth E. Richardson, Viswanath Kiron, Virginia Corless (2016) Microalgae: Climate, Energy, and Food Security from the Sea. Oceanography. 29(4):8-13.
  • Mansfeldt, Cresten B., Gretchen W. Heavner, Annette R. Rowe, Boris Hayete, Bruce Church, and Ruth E Richardson. (2016) Inferring gene networks for strains of Dehalococcoides highlights conserved relationships between genes encoding core catabolic and cell-wall structural proteins. PlosONE, in press.
  • Mansfeldt, C.B., Richter, L.V., Ahner, B.A., Cochlan, W.P., Richardson, R.E. (2016) Use of De Novo Transcriptome Libraries to Characterize a Novel Oleaginous Marine Chlorella Species during the Accumulation of Triacylglycerols. PlosONE 11, e0147527. doi:10.1371/journal.pone.0147527
  • Otwell, A.E., Callister, S.J., Zink, E.M., Smith, R.D., Richardson, R.E. (2016) Comparative Proteomic Analysis of Desulfotomaculum reducens MI-1: Insights into the Metabolic Versatility of a Gram-positive Sulfate and Metal-reducing Bacterium. Frontiers in Microbiology. doi:10.3389/fmicb.2016.00191
  • Li, Z., Kim, D.D., Nelson, O.D., Otwell, A.E., Richardson, R.E., Callister, S.J., Lin, H. (2015) Molecular dissection of a putative iron reductase from Desulfotomaculum reducens MI-1. Biochemical and Biophysical Research Communications 467, 503–508. doi:10.1016/j.bbrc.2015.10.016
  • Kostylev, M., Otwell, A.E., Richardson, R.E., Suzuki, Y. (2015) Cloning Should Be Simple: Escherichia coli DH5α-Mediated Assembly of Multiple DNA Fragments with Short End Homologies. PLOS ONE 10, e0137466. doi:10.1371/journal.pone.0137466
  • Otwell, A.E., Sherwood, R.W., Zhang, S., Nelson, O.D., Li, Z., Lin, H., Callister, S.J., Richardson, R.E. (2015) Identification of proteins capable of metal reduction from the proteome of the Gram-positive bacterium Desulfotomaculum reducens MI-1 using an NADH-based activity assay: Metal reductases from Gram-positive metal reducer. Environmental Microbiology 17, 1977–1990. doi:10.1111/1462-2920.12673
  • Otwell, A.E., Sherwood, R.W., Zhang, S., Nelson, O.D., Li, Z., Lin, H., Callister, S.J., Richardson, R.E. (2015) Identification of proteins capable of metal reduction from the proteome of the Gram-positive bacterium Desulfotomaculum reducens MI-1 using an NADH-based activity assay: Metal reductases from Gram-positive metal reducer. Environmental Microbiology 17, 1977–1990. doi:10.1111/1462-2920.12673
  • Mansfeldt, C.B., Logsdon, B.A., Debs, G.E., Richardson, R.E. (2015) SPINE: SParse eIgengene NEtwork Linking Gene Expression Clusters in Dehalococcoides mccartyi to Perturbations in Experimental Conditions. PLOS ONE 10, e0118404. doi:10.1371/journal.pone.0118404
  • Rowe, Annette R., Cresten B. Mansfeldt, Gretchen L. Heavner, and Ruth E. Richardson. (2015) Relating mRNA and Protein Biomarker Levels in a Dehalococcoides and Methanospirillum-Containing Community. Applied Microbiology and Biotechnology 99 (5): 2313–27. doi:10.1007/s00253-014-6220-7.
  • Mansfeldt, C.B., Rowe, A.R., Heavner, G.L.W., Zinder, S.H., Richardson, R.E. (2014) Meta-Analyses of Dehalococcoides mccartyi Strain 195 Transcriptomic Profiles Identify a Respiration Rate-Related Gene Expression Transition Point and Interoperon Recruitment of a Key Oxidoreductase Subunit. Applied and Environmental Microbiology 80, 6062–6072. doi:10.1128/AEM.02130-14
  • Heavner, G.L.W., Rowe, A.R., Mansfeldt, C.B., Pan, J.K., Gossett, J.M., and Richardson, R.E. (2013) Molecular Biomarker-Based Biokinetic Modeling of a PCE-Dechlorinating and Methanogenic Mixed Culture. Environmental Science & Technology 47: 3724-3733.
  • Matturro, B., Heavner, G.L., Richardson, R.E., and Rossetti, S. (2013) Quantitative estimation of Dehalococcoides mccartyi at laboratory and field scale: Comparative study between CARD-FISH and Real Time PCR. Journal of Microbiological Methods 93: 127-133.
  • Richardson, R.E. (2013) Genomic insights into organohalide respiration. Current Opinion in Biotechnology 24: 498-505.
  • Rowe, A.R., Mansfeldt, C.B., Heavner, G.L., and Richardson, R.E. (2013) Methanospirillum Respiratory mRNA Biomarkers Correlate with Hydrogenotrophic Methanogenesis Rate during Growth and Competition for Hydrogen in an Organochlorine-Respiring Mixed Culture. Environmental Science & Technology 47: 372-381.
  • Hug, L.A., Beiko, R.G., Rowe, A.R., Richardson, R.E., and Edwards, E.A. (2012) Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community. Bmc Genomics 13.
  • Rowe, A.R., Heavner, G.L., Mansfeldt, C.B., Werner, J.J., and Richardson, R.E. (2012) Relating Chloroethene Respiration Rates in Dehalococcoides to Protein and mRNA Biomarkers. Environmental Science & Technology 46: 9388-9397.
  • Walter, RK, PH Lin, ME Edwards, and RE Richardson (2011) Investigation of Factors Affecting the Accumulation of Vinyl Chloride in Polyvinyl Chloride Piping Used in Drinking Water Distribution Systems. Water Research 45:2607-15.
  • Powers, CA, NR Scott, and RE Richardson (2011) Performance of Microbial Fuel Cells With Dairy Manure as the Substrate and Combined with Anaerobic Digestion. Biological Engineering 3(3).
  • Werner, JW, S Zhang, AC Ptak, BG Rahm, and RE Richardson. (2009) Absolute quantification of Dehalococcoides proteins: Enzyme bioindicators of chlorinated ethene dehalorespiration. Environmental Microbiology 11(10): p. 2687-97.
  • Rowe, AR, BJ Lazar, RM Morris, and RE Richardson. (2008) Characterization of a dechlorinating mixed culture: community structure and comparisons of gene expression in planktonic and biofloc-associated Dehalococcoides and Applied and Environmental Microbiology 74 (21): 6709-6719.
  • Rahm, BG, and RE Richardson. (2008) Dehalococcoides’ gene transcripts as quantitative bioindicators of PCE, TCE and cDCE dehalorespiration rates. Environmental Science and Technology. 42 (14): 5099-5105.
  • Rahm, BG, and RE Richardson. (2008) Correlation of Respiratory Gene Expression Levels and Pseudo-Steady State PCE Respiration Rates in Dehalococcoides ethenogenes. Environmental Science and Technology. 42 (2): 416-421.
  • Morris, RM, JM Fung, BG Rahm, S Zhang, DL Freedman, SH Zinder, and RE Richardson. (2007) Comparative Proteomics of Dehalococcoides Reveals Strain-Specific Peptides Associated with Activity. Applied and Environmental Microbiology 73(1): 320-326.
  • Morris, RM, S Sowell, D Barofsky, SH Zinder, and RE Richardson. (2006) Transcription and mass-spectroscopic proteomic studies of electron transport oxidoreductases in Dehalococcoides ethenogenes. Environmental Microbiology 8 (9), 1499–1509.
  • Rahm, BG, RM Morris, and Richardson, RE. (2006) Temporal Expression of Respiratory Genes in an Enrichment Culture Containing Dehalococcoides ethenogenes. Applied and Environmental Microbiology 72(8): 5486–5491.
  • Freeborn, RA, VK Bhupathiraju, S Chauhan, KA West, BG Rahm, RE Richardson, and L Alvarez-Cohen. (2005) Phylogenetic Analysis of TCE-Dechlorinating Consortia Enriched on a Variety of Electron Donors. Environmental Science & Technology 39, 8358-8368.
  • Richardson, RE, CA James, VK Bhupathiraju, and L Alvarez-Cohen. (2002) Microbial Rebound in Soils Following Steam Exposure. Biodegradation. 13: 285-295.
  • Richardson, RE, VK Bhupathiraju, DL 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 & Technology 36(12): 2652-2662.