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National Institute of Environmental Health Sciences

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Your Environment. Your Health.

Project Publications: Cornell University: Microscale Evaluation of Pollutant Bioavailability Leading to Structured Models for Contaminant Fate in Porous Media

Superfund Research Program

Microscale Evaluation of Pollutant Bioavailability Leading to Structured Models for Contaminant Fate in Porous Media

Project Leaders: William C. Ghiorse, Eugene L. Madsen, Michael L. Shuler
Grant Number: P42ES005950
Funding Period: 1995 - 2000

Project-Specific Links

Publications

2001

  • Liu A, Ahn I, Mansfield C, Lion LW, Shuler ML, Ghiorse WC. 2001. Phenanthrene desorption from soil in the presence of bacterial extracellular polymer: Observations and model predictions of dynamic behavior. Water Res 35(3):835-843. PMID:11228983

2000

  • Dees PM, Ghiorse WC. 2000. Sequence analysis of rRNA genes from hot compost reveals a predominance of Gram-positive bacteria. In: Proceedings of the Annual Meeting of the American Society for Microbiology.
  • Dees PM, Ghiorse WC. 2000. The value of DGGE for analysis of community diversity in hot compost. In: Proceedings of the American Society for Microbiology Conference on Microbial Biodiversity. Chicago, IL.
  • Hohnstock AM, Stuart-Keil KG, Kull EE, Madsen EL. 2000. Naphthalene and donor cell density influence field conjugation of naphthalene catabolism plasmids. Appl Environ Microbiol 66(7):3088-3092. PMID:10877811
  • Kim JY, Cohen C, Shuler ML, Lion LW. 2000. The use of amphiphilic particles for in situ extraction of sorbed phenanthrene from a contaminated aquifer material. Environ Sci Technol 34(19):4133-4139.
  • Madsen EL. 2000. Nucleic-acid characterization of the identity and activity of subsurface microorganisms. Hydrogeology Journal 8(1):112-125. doi:10.1007/s100400050012
  • Madsen EL, Yager R, Plummer SM. 2000. Petroleum hydrocarbons native to a fractured aquifer may serve as electron donors for in situ reductive dechlorination of trichloroethenes contamination. In: Proceedings of the American Society of Microbiology Annual Meeting. Los Angeles, CA. pp.569.

1999

  • Ahn I, Lion LW, Shuler ML. 1999. Validation of a hybrid "two-site"/"gamma" model for naphthalene desorption kinetics. Environ Sci Technol 33(18):3241-3248.
  • Eaglesharm B, Nelson YM, Lion LW, Shuler ML, Ghiorse WC. 1999. Development of light and electron microscope methods for study of the microscale distribution of heavy metal adsorption sites in Cayuga Lake biofilms. In: Proceedings of the International Symposia for Environmental Biogeochemistry: Interfacial Processes from the Molecular to the Global Scale. Huntsville, Ontario, Canada.
  • Miller DN, Bryant JE, Madsen EL, Ghiorse WC. 1999. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl Environ Microbiol 65(11):4715-4724. PMID:10543776
  • Miller DN, Ghiorse WC, Yavitt JB. 1999. Seasonal patterns and controls on methane and carbon dioxide fluxes in forested swamp pools. Geomicrobiol J 16:325-331.
  • Miller DN, Ghiorse WC, Zinder SH. 1999. High purity 14CH4 generation using the thermophilic acetotrophic methanogen Methanothrix sp. strain CALS-1. J Microbiol Methods 35(2):151-156. PMID:10192047
  • Nelson YM, Lion LW, Ghiorse WC, Shuler ML. 1999. Production of biogenic Mn oxides by Leptothrix discophora SS-1 in a chemically defined growth medium and evaluation of their Pb absorption characteristics. Appl Environ Microbiol 65:175-180. PMID:9872777
  • Nelson YM, Lion LW, Shuler ML, Ghiorse WC. 1999. Lead binding to metal oxide and organic phases of natural aquatic biofilms. Limnology and Oceanography 44(7):1715-1729.
  • Wilson MS, Bakermans C, Madsen EL. 1999. In situ, real-time catabolic gene expression: extraction and characterization of naphthalene dioxygenaase mRNA transcripts from groundwater. Appl Microbiol Biotechnol 65:80-87. PMID:9872763

1998

  • Ahn I. 1998. Mathematical Modeling and Experimental Verification of Naphthalene Transport and Biodegradation in Soil. Ph.D. Dissertation, Graduate Field of Chemical Engineering, Cornell University, Ithaca, NY.
  • Ahn I, Ghiorse WC, Lion LW, Shuler ML. 1998. Growth kinetics of Pseudomonas putida G7 on naphthalene and occurrence of naphthalene toxicity during nutrient deprivation. Biotechnol Bioeng 59(5):587-594. PMID:10099376
  • Madsen EL. 1998. Epistemology of environmental microbiology. Environ Sci Technol 32:429-439.
  • Madsen EL. 1998. Theoretical and Applied Aspects of Bioremediation: The Influence of microbiological processes on organic compounds in field sites. In: Techniques in Microbial Ecology. Oxford University Press, New York, NY. pp.354-407.
  • Mufti NA, Shuler ML. 1998. Different In vitro systems affect CYPIA1 activity in response to 2,3,7,8-tetrachlorodibenzo-p-dioxin. Toxicol In Vitro 12:259-272. PMID:20654408
  • Stuart-Keil KG, Hohnstock AM, Dees PM, Herrick JB, Madsen EL. 1998. Plasmids responsible for horizontal transfer of naphthalene catabolic genes between bacteria at a coal tar-contaminated site are homologous to pOTG1 from Pseudomonas putida. In: Proceedings of the Annual Meeting of American Society for Microbiology, Atlanta, GA. Atlanta, GA. pp.9816-4.

1997

  • Ahn I, Ghiorse WC, Lion LW, Shuler ML. 1997. Independent prediction of naphthalene transport and biodegradation in soil with a mathematical model. Biotechnol Bioeng 24:PMID:10440672
  • Bakermans C, Madsen EL. 1997. Progress towards direct cloning of soil DNA. In: Proceedings of the American Society for Microbiology 1997 Annual Meeting. Miami, FL.
  • Czajka DR, Lion LW, Shuler ML, Ghiorse WC. 1997. Evaluation of the utility of bacterial extracellular polymers for treatment of metal contaminated soils: Polymer persistence, mobility and the influence of lead. Water Resour Res 31:2827-2839.
  • Kachlany SC. 1997. Identification, partial purification, and characterization of metal-binding capsular exopolysaccharide from the biofilm bacterium Pseudomonas putida G7. B.S. Thesis (Honors). Section of Microbiology, Division of Biological Sciences, Cornell University, Ithaca, NY.
  • Kachlany SC, Ghiorse WC. 1997. Structure and component carbohydrate analysis of an exopolysaccharide capsule of biofilm-forming Pseudomonas putida G7. In: Proceedings of the American Society for Microbiology 1997 Annual Meeting. Miami, FL. pp.62.
  • Kachlany SC, Shah R, Ghiorse WC. 1997. Isolation, purification, and characterization of metal-binding exopolymers from Pseudomonas putida G7 and Burkholderia cepacia17616. In: Proceedings of A Decade of Improved Health Through Multidisciplinary Research, NIEHS (National Institute of Environmental Health Sciences). Durham, NC.
  • Madsen EL. 1997. Methods for determining biodegradability. In: Manual of Environmental Microbiology. American Society of Microbiology, Washington, DC. pp.709-720.
  • Madsen EL, Mann CL, Bilotta S, Yager R. 1997. In situ attenuation of chlorinated ethenes by naturally-occurring microorganisms in a fractional dolomite aquifer near Niagara Falls, NY. In: Proceedings of the American Society for Microbiology Annual Meeting ,1997. Miami, FL.
  • Siering PL, Ghiorse WC. 1997. Development and application of 16S ribosomal RNA-targeted probes for detection of iron- and manganese-oxidizing sheathed bacteria in environmental samples. Appl Environ Microbiol 63:644-651. PMID:9023942
  • Siering PL, Ghiorse WC. 1997. PCR detection of a putative manganese oxidation gene (mofA) in environmental samples and assessment of mofA homology among diverse manganese oxidizing bacteria. Geomicrobiol J 14:109-125.
  • Wilson MS. 1997. Transient molecular markers of in situ naphthalene biodegradation at a coal tar-contaminated field site. Ph.D. Thesis, Department of Microbiology, Cornell University, Ithaca, NY.

1996

  • Ahn I, Lion LW, Shuler ML. 1996. Microscale-based modeling of polynuclear aromatic hydrocarbon transport and biodegradation in soil. Biotechnol Bioeng 51:1-14. PMID:18627082
  • Al-Roumi Y. 1996. Synthesis, characterization, and applications of core polymerized inverted nano-micelles, and core polymerized double-layered nanospheres. Ph.D. Dissertation, Graduate Field of Chemical Engineering, Cornell University, Ithaca, NY.
  • Ghiorse WC, Miller DN, Sandoli RL, Siering PL. 1996. Applications of laser scanning microscopy for analysis of aquatic microhabitats. Microsc Res Tech 33(1):73-86. PMID:8820665
  • Madsen EL, Mann CL, Bilotta S. 1996. Oxygen limitations and aging as explanation for the persistence of naphthalene in coal-tar contaminated surface sediments. Environ Toxicol Chem 15:1876-1882.
  • Sandoli RL, Ghiorse WC, Madsen EL. 1996. Regulation of microbial phenanthrene mineralization in sediments by sorbent- sorbate contact time, inoculum, and gamma irradiation-induced sterilization artifacts. Environ Toxicol Chem 15:1901-1907.
  • Siering PL. 1996. Application of molecular approaches to investigate the role of microorganisms in manganese cycling in wetland environments. Ph.D. Thesis, Department of Microbiology, Cornell University, Ithaca, NY.
  • Siering PL, Ghiorse WC. 1996. Phylogeny of the Sphaeotilus Leptothria group inferred from morphological comparisons, genomic fingerprinting, and 16S ribosomal DNA sequence analyses. Int J Syst Bacteriol 46:173-182. PMID:8573492

1995

  • Chen J, Czajka DR, Lion LW, Shuler ML, Ghiorse WC. 1995. Trace metal mobilization in soil by bacterial polymers. Environ Health Perspect 103(supp.1):53-58. PMID:7621800
  • Chen J, Lion LW, Ghiorse WC, Shuler ML. 1995. Mobilization of adsorbed cadmium and lead in aquifer material by bacterial extracellular polymers. Water Resour Res 29:421-430.
  • Czajka DR. 1995. Application of Bacterial Extracellular Polymers for Treatment of Metal Contaminated Soils: Polymer Persistence, Mobility, and the Influence of Lead. M.S. Thesis, Cornell University, Ithaca, NY.
  • Ghiorse WC, Herrick JB, Sandoli RL, Madsen EL. 1995. Natural selection of PAH-degrading bacterial guilds at coal-tar disposal sites. Environ Health Perspect 103(supp.5):103-111. PMID:8565896
  • Herrick JB. 1995. Detection, Divergence, and Phylogeny of a Naphthalene Dioxygenase Gene and Naphthalene-degrading Bacteria Native to a Coal tar-contaminated Site. Ph.D. Thesis, Department of Microbiology, Cornell University, Ithaca, NY.
  • Miller DN, Madsen EL, Ghiorse WC. 1995. Detection and enumeration of indigenous Type I and Type II methanotrophs from wetland sediments using a PCR-MPN technique. In: Proceedings of American Society for Microbiology, 1995 National Meeting. pp.338.
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