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Welcome to the GEM Lab
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Posts
Linda Toberer
Published:
Introducing Spear Lab volunteer researcher Linda Toberer.
Olivia Salmon
Published:
Next in our round of introductions: grad student Olivia Salmon.
Michael Vega
Published:
Next in our round of introductions: grad student Michael Vega.
Emily Kraus
Published:
Next in our round of introductions: grad student Emily Kraus.
Sharp Lab in the News
Published:
The Orange County Water District has a great new post describing some of the work the Sharp lab is up to in the Prado Wetlands. Check it out to see how Dr. Sharp and his students are using engineered wetlands as a less energy intensive method of nitrogen removal in water treatment.
Adam Brady
Published:
Next up in our round of introductions in the GEM Lab is Ph.D. student Adam Brady.
Kalen Rasmussen
Published:
Next up in our round of introductions in the GEM Lab is masters student Kalen Rasmussen.
Laura Leonard
Published:
This is the first of many introductions, written by the graduate students, techs, postdocs, and PIs of the GEM Lab- PhD student Laura Leonard was kind enough to jump off first so without further adieu…
Welcome to the GEM Lab
Published:
Always appropriate for a new web page so…
publications
Diversity and stratification of Archaea in a hypersaline microbial mat
Published in Applied and Environmental Microbiology, 2008
Robertson, C.E., J.R. Spear, J.K. Harris and N.R. Pace
Anaerobic ammonium oxidation by Nitrosomonas spp. and anammox bacteria in a sequencing batch reactor
Published in Journal of Environmental Management, 2009
P. Noophan, S. Sripiboon, M. Damrongsri and J. Munakata-Marr
Analysis of Microbial Communities Associated with Septic Tank Effluent and the Wastewater Induced Soil Biozone
Published in Applied and Environmental Microbiology, 2009
Tomaras, J.M.B., J.R. Spear, J.W. Sahl, R.L. Siegrist
[Fe-Fe]-hydrogenase genetic diversity provides insight into molecular adaptation in a saline microbial mat community
Published in Applied and Environmental Microbiology, 2009
Boyd, E.S., J.R. Spear and J.W. Peters
Comparitive dissolution kinetics of biogenic and chemogenic uraninite under oxidizing conditions in the presence of carbonate
Published in Environ Sci Technol, 2009
Veeramani H., Schofield E, Sharp J.O., Suvorova E., Ulrich K.U., Mehta A., Giammar D.E., Bargar J.R., Bernier-Latmani R.
Structural similarities between biogenic uraninites produced by phylogenetically diverse bacteria
Published in Environ Sci Technol, 2009
Sharp J.O., Schofield E.J., Veeramani H., Suvorova EI, Junier P., Kennedy D.W., Marshall M.J., Mehta A, Bargar J.R. and Bernier-Latmani R.
Microbial Diversity in Modern Marine Stromatolites, Highborne Cay, Bahamas
Published in Environmental Microbiology, 2009
Baumgartner, L. K., J.R. Spear, D.H. Buckley, N.R. Pace, R.P. Reid, C. Dupraz and P.T. Visscher
Comparitive dissolution kinetics of biogenic and chemogenic uraninite under oxidizing conditions in the presence of carbonate
Published in Geochim Cosmochim Acta, 2009
Ulrich K.U., Ilton E., Veeramani H., Sharp J.O., Bernier-Latmani R., Schofield E.J., Bargar J.R., Giammar D.E.
Microbial Species Richness and Metabolic Activities in Hypersaline Microbial Mats: Insight into Biosignature Formation Through Lithification
Published in Astrobiology, 2009
Baumgartner, L. K., C. Dupraz, D.H. Buckley, J.R. Spear, N.R. Pace, P.T. Visscher
Novel Microbial Diversity Retrieved from an Autonomous Robotic Exploration of the World’s Deepest Phreatic Sinkhole
Published in Astrobiology, 2010
Sahl, J.W., N. Fairfield, J.K. Harris, D. Wettergreen, W.C. Stone, and J.R. Spear
Comparison of normalization methods for construction of large multiplex amplicon pools for next-generation sequencing
Published in Applied and Environmental Microbiology, 2010
Harris, J.K., J.W. Sahl, T.A. Castoe, B.D. Wagner, D.D. Pollock and J.R. Spear
[Fe-Fe]-hydrogenase in Yellowstone National Park: Evidence for dispersal limitation and phylogenetic niche conservatism
Published in International Society of Microbial Ecology, 2010
Boyd, E.S., T.L. Hamilton, J.R. Spear, M. Lavin and J.W. Peters
Functional insights towards propane- enhanced n-nitrosodimethylamine removal by two actinomycetes
Published in Biotechnol Bioeng, 2010
Sharp J.O., Sales C, and Alvarez-Cohen L.
A Comparative Molecular Analysis of Water-Filled Limestone Sinkholes in Northeastern Mexico
Published in Environmental Microbiology, 2010
Sahl, J.W., M.O. Gary, J.K. Harris and J.R. Spear
Nitrogen Removal of Anammox Culture under Different Enrichment Conditions
Published in Journal of Environmental Science and Health Part A, 2010
K. Saricheewin, S. Sirivithayapakorn, P. Noophan, C. Wantawin, S. Techkarnjanaruk and J. Munakata-Marr
Non-uraninite products of microbial U(VI) reduction
Published in Environ Sci Technol, 2010
Bernier-Latmani R., Veeramani H., Vecchia E.D., Junier P., Lezama-Pacheco J.S., Suvorova EI, Sharp J.O., Stubbs J.E., Wigginton, Bargar J.R.
Products of abiotic U(VI) reduction by biogenic magnetite and vivianite
Published in Geochim Cosmochim Acta, 2011
Veeramani H., Alessi D.S., Suvorova E.I., Lezama-Pacheco J.S., Stubbs J.E., Sharp J.O., Dippon U., Kappler A., Bargar J.R., Bernier-Latmani R
Low temperature sulfur biomineralization at a supraglacial spring system in the Canadian High Arctic
Published in Geobiology, 2011
Gleeson, D.F., C. Williamson, S. Grasby, J.R. Spear, R. Pappalardo, and A. Templeton
Bioenergetics of Microbial Sulfur-redox Reactions in a Glacial Environment
Published in Applied Geochemistry, 2011
Wright, K.E., S.E. Grasby, C. Williamson, J.R. Spear, and A.S. Templeton
Differences in Lateral Gene Transfer in Hypersaline Versus Thermal Environments
Published in BMC Evolutionary Biology, 2011
Rhodes, M.E., J.R. Spear, A. Oren and C.H. House
Hot Spring Siliceous Stromatolites from Yellowstone National Park: Assessing Growth Rate and Laminae Formation
Published in Geobiology, 2011
Berelson, W.M., F.A. Corsetti, C. Pepe-Ranney, D.E. Hammond, W. Beaumont and J.R. Spear
Hot Spring Siliceous Stromatolites from Yellowstone National Park: Assessing Growth Rate and Laminae Formation
Published in Geochimica et Cosmochimica Acta, 2011
Osburn, M.R., A.L. Sessions, C. Pepe-Ranney and J.R. Spear
Uranium speciation and stability after reductive immobilization in sediments
Published in Geochim Cosmochim Acta, 2011
Sharp J.O., Schofield EJ, Lezama J, Ulrich K, Veeramani H, Junier P, Roquier C, Suvorova EI, Webb S, Tebo B, Giammar DE, Bargar J.R., Bernier-Latmani R.
Mountain pine beetle infestation impacts: Modeling water and energy budgets at the hill-slope scale
Published in Ecohydrology, 2011
Mikkelson K.M., Maxwell R.M., Ferguson I.M., McCray J.E., Stednick JD, Sharp J.O.
Effect of the solid content on biogas production from Jatropha curcas seed cake
Published in International Journal of Global Warming, 2011
N. Sinbuathong, J. Munakata-Marr, B. Sillapacharoenkul and S. Chulalaksananukul
Cyanobacterial Construction of Hot Spring Siliceous stromatolites in Yellowstone National Park
Published in Environmental Microbiology, 2012
Pepe-Ranney, C., W.M. Berelson, F.A. Corsetti, M. Treants and J.R. Spear
Bacterial Attachment to Metal Substrate and its Effects on Microbiologically-influenced Corrosion in Transporting Hydrocarbon Pipelines
Published in Journal of Pipeline Engineering, 2012
Al-Abbas, F.M., J.R. Spear, A. Kakpovbia, N.M. Balhareth, D.L. Olson and B. Mishra
Effects of oxytetracycline on anammox activity
Published in Journal of Environmental Science and Health Part A, 2012
P. Noophan, P. Narinkongnong, C. Wantawin and J. Munakata-Marr
Influences of Gas Production and Filament Orientation on Stromatolite Microfabric
Published in Palaios, 2012
Mata, S.A., C.L. Harwood, F.A. Corsetti, N.J. Stork, K. Eilers, C. Pepe-Ranney, W.M. Berelson and J.R. Spear
Phototrophic Phylotypes Dominate Mesothermal Microbial Mats Associated with Hot Springs in Yellowstone National Park
Published in Microbial Ecology, 2012
Ross, K.A., L.M. Feazel, C.E. Robertson, B.Z. Fathepure, K.E. Wright, R.M. Turk, M.M. Chan, N.L. Held, J.R. Spear, N.R. Pace
Dissolved organic carbon influences microbial community composition and diversity in geographically distinct managed aquifer recharge systems
Published in Appl Envron Microbiol, 2012
Li D., Sharp J.O., Saikaly P., Ali S., Alidina M., Alarawi M.S., Keller S., Hoppe-Jones C., Drewes J.
Phylogenetic Stratigraphy of the Most Diverse Microbial Community Known
Published in ISME Journal, 2012
Harris, J.K., J.G. Caporaso, J.J. Walker, J.R. Spear, N.J. Gold, C.E. Robertson, P. Hugenholtz, J. Goodrich, D. McDonald, D. Knights, P Marshall, H. Tufo, R. Knight and N.R. Pace
The Effect of System Variables on In situ Sweep-Efficiency Improvement via Viscosity Modification
Published in Journal of Contaminant Hydrology, 2012
J.A.K. Silva, M.M. Smith, J. Munakata-Marr and J.E. McCray
Secondary Metabolites Produced by Fungi Derived From a Microbial Mat encountered in an Iron-Rich Natural Spring
Published in Tetrahedron Letters, 2012
Gerea, A.L., K.M. Branscum, J.B. King, J. You, D.R. Powell, A.N. Miller, J.R. Spear and R.H. Cichewicz
Microbiological Water Quality Monitoring in a Resource-Limited Urban Area: A Study in Cameroon, Africa
Published in Journal of Public Health in Africa, 2012
Nelson, A.W., L.M. Feazel, C.E. Robertson, J.R. Spear, and D.N. Frank
Identifying Well Contamination through the use of 3-D Fluorescence Spectroscopy to Classify Coalbed Methane Produced Water
Published in Environmental Science & Technology, 2012
K.G. Dahm, C.M. Van Straaten, J. Munakata-Marr and J.E. Drewes
Electrochemical Characterization of Microbiologically Influenced Corrosion on Linepipe Steel Exposed to Facultative Anaerobic Desulfovibrio sp.
Published in Int. J. of Electrochemical Science, 2013
Al-Abbas, F.M., R. Bhola, J.R. Spear, D.L. Olson and B. Mishra
Contrasting Patterns of Community Assembly in the Stratified Water Column of Great Salt Lake, UT
Published in Microbial Ecology, 2013
Meuser, J.E., B.K. Baxter, J.R. Spear, J.W. Peters, M.C. Posewitz and E.S. Boyd
Surface Orientation Affects the Direction of Cone Growth by Leptolyngbya sp. Strain C1, a Likely Architect of Coniform Structures Octopus Spring (Yellowstone National Park)
Published in Applied and Environmental Microbiology, 2013
Reyes, K., N.I. Gonzalez, J. Stewart, F. Ospino, D. Nguyen, D. T. Cho, N. Ghahremani, J. R. Spear and H.A. Johnson
Influence of Sulfate Reducing Bacterial Biofilm on Corrosion Behavior of Low-Alloy, High- Strength Steel (API-5L X80)
Published in International Biodeterioration & Biodegradation, 2013
Al-Abbas, F.M., C. Williamson, S.M. Bhola, J.R. Spear, D.L. Olson, B. Mishra and A. E. Kakpovbia
Metagenomic Evidence for Sulfur Lithotrophy by Epsilonproteobacteria as the Major Energy Source for Primary Productivity in a Sub-aerial Arctic Glacial Deposit, Borup Fiord Pass
Published in Frontiers in Microbiology, 2013
Wright, K.E., C. Williamson, S.E. Grasby, J.R. Spear and A.S. Templeton.
Diatom Ecology and Microbial Mat Structure and Function in Antarctic Dry Valleys
Published in Palaios, 2013
Stanish, L.F. and J.R. Spear
Microbial community evolution during managed aquifer recharge in response to different biodegradable dissolved organic carbon (BDOC) concentrations
Published in Water Research, 2013
Li D., Alidina M., Ouf M., Sharp J.O., Saikaly P., Drewes J.
The YNP Metagenome Project: Environmental Parameters Responsible for Microbial Distribution in the Yellowstone Geothermal Ecosystem
Published in Frontiers in Microbiology, 2013
Inskeep, W.P., Z.J. Jay, S.G. Tringe, M.J. Herrgard, D.B. Rusch, J.R. Spear and YNP Metagenome Project Steering Committee and Working Group Members
Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages Between Metabolic Potential and Geochemistry
Published in Frontiers in Microbiology, 2013
Inskeep, W.P., Z.J. Jay, M.J. Herrgard, M.A. Kozubal, D.B. Rusch, S.G. Tringe, R.E. Macur, R. deM. Jennings, E.S. Boyd, J.R. Spear and F.F. Roberto
Bacterial Abundance and Composition in Marine Sediments Beneath the Ross Ice Shelf, Antarctica
Published in Geobiology, 2013
Carr, S.A., S.W. Vogel, R.B. Dunbar, J. Brandes, J.R. Spear, R. Levy, T.R. Naish, R.D. Powell, S.G. Wakeham and K.W. Mandernack
Differential microbial transformation of nitrosamines by an inducible propane monooxygenase
Published in Environ Sci Technol, 2013
Homme C. and Sharp J.O.
The effect of coal oxidation on methane production and microbial community structure in Powder River Basin coal”, International Journal of Coal Geology
Published in International Journal of Coal Geology, 2013
L.K. Gallagher, A.W. Glossner, L.L. Landkamer, L.A. Figueroa, K.W. Mandernack and J. Munakata-Marr
Integration of managed aquifer recharge systems in urban water infrastructure – overcoming current limitations and engineering challenges
Published in Environ Engrg Science, 2013
Regnery J., Lee J., Kitandidis P., Illangasekare T., Sharp J.O., Drewes J.
Unit process wetlands for removal of trace organic contaminants and pathogens from municipal wastewater effluent
Published in Environ Engrg Science, 2013
Jasper J.T., Nguyen M.T., Jones Z.L., Ismail N.S., Sedlak D.L., Sharp J.O., Luthy R.G., Horne A.J., Nelson K.L.
The Shielding Effect of Wild-Type Iron Reducing Bacterial Flora on the Corrosion of Linepipe Steel.” Engineering Failure Analysis
Published in Engineering Failure Analysis, 2013
Al-Abbas, F.M., S.M. Bhola, J.R. Spear, D.L. Olson and B. Mishra. 2013
Bark beetle infestation impacts on nutrient cycling, water quality and interdependent hydrological effects
Published in Biogeochemistry, 2013
Mikkelson K.M., Bearup L.A., Maxwell R.M., Stednick J.D., McCray J.E., Sharp J.O.
Diverse Capacity for 2-methylhopanoid Production Correlates with a Specific Ecological Niche
Published in ISME Journal, 2013
Ricci, J.N., M.L. Coleman, P.V. Welander, A.L. Sessions, R.E. Summons, J.R. Spear and D.K. Newman
Adverse water quality impacts from climate-induced forest die-off
Published in Nature Clim Change, 2013
Mikkelson K., Dickenson E., McCray J., Maxwell R., Sharp J.O.
Microbial Corrosion in Linepipe Steel under the Influence of Sulfate Reducing Consortium Isolated from an Oil Field
Published in J. Materials Eng. and Performance, 2013
Al-Abbas, F.M., C. Williamson, S.M. Bhola, J.R. Spear, D.L. Olson, B. Mishra and A. Kakpovbia
The Effect of Acetobacter sp. and a Sulfate-Reducing Bacterial Consortium from Ethanol Fuel Environments on Fatigue Crack Propagation in Pipeline and Storage Tank Steels
Published in Corrosion Science, 2014
Sowards, J.W., C.H.D. Williamson, T.S. Weeks, J.D. McColskey, and J.R. Spear
Changes in metal mobility associated with bark beetle-induced tree mortality
Published in Environ Sci: Processes Impacts, 2014
Mikkelson K.M., Bearup L.A., Navarre-Sitchler A.K., McCray J.E., Sharp J.O.
Comparison of nitrogen removal rates and nitrous oxide production from enriched anaerobic ammonium oxidizing bacteria in suspended and attached growth reactors
Published in Journal of Environmental Science and Health, Part A: Toxic/ Hazardous Substances and Environmental Engineering, 2014
S. Panwivia, S. Sirvithayapakorn, C. Wantawin, P. Noophan and J. Munakata-Marr
Biotransformation of trace organic contaminants in open-water unit process treatment wetlands
Published in Environ Sci Technol, 2014
Jasper J.T., Jones Z.L., Sharp J.O., Sedlak D.L.
Microbial Response to Single Cell Protein Production and Brewery Wastewater Treatment
Published in Microbial Biotechnology, 2014
Lee, J.Z., A. Logan, S. Terry and J.R. Spear
Disturbance and Temporal Partitioning of the Activated Sludge Metacommunity
Published in ISME Journal, 2014
Vuono, D.C., J. Benecke, J. Henkel, W.C. Navidi, T.Y. Cath, J. Munakata-Marr, J.R. Spear and J.E. Drewes
Disturbance and temporal partitioning of the activated sludge metacommunity
Published in International Society for Microbial Ecology Journal, 2014
D.C. Vuono, J. Benecke, J. Henkel, W.C. Navidi, T.Y. Cath, J. Munakata-Marr, J.R. Spear and J.E. Drewes
Analysis of Sources of Bulk Conductivity Change in Saturated Silica Sand after Unbuffered TCE Oxidation by Permanganate
Published in Journal of Contaminant Hydrology, 2014
R.D. Hort, A. Revil and J. Munakata-Marr
Nitrate removal in shallow, open-water treatment wetlands
Published in Environ. Sci. Technol, 2014
Jasper JT, Jones Z.L., Sharp J.O., Sedlak D.L.
Draft Genome of a Novel Chlorobi Assembled by Tetranucleotide Binning of a Hot Spring Metagenome
Published in Genome Announcements, 2014
Stamps, B.W., F.A. Corsetti, J.R. Spear, and B.S. Stevenson
Metal fate and partitioning in soils under bark beetle-killed trees
Published in Sci Total Environ, 2014
Bearup L., Mikkelson K., Wiley J., Navarre-Sitchler A., Maxwell R., Sharp J.O., McCray J.
Thioarsenic species associated with increased arsenic release during biostimulated subsurface sulfate reduction
Published in Environ Sci Technol, 2014
Stucker V.K., Silverman D.R., Williams K.H., Sharp J.O., Ranville J.F.
Quadrature conductivity: a quantitative indicator of bacterial abundance in porous media
Published in Geophysics, 2014
C. Zhang, A. Revil, Y. Fujita, J. Munakata-Marr and G. Redden
Trends in water quality variability for coalbed methane produced water
Published in Journal of Cleaner Production, 2014
K.G. Dahm, K.L. Guerra, J. Munakata-Marr and J.E. Drewes
Identification and Quantification of Bacteria and Archaea Responsible for Ammonia Oxidation in Different Activated Sludge of Full Scale Wastewater Treatment Plants
Published in Environmental Science and Health Part A, 2015
N. Sinthusith, A. Terada, M. Hahn, P. Noophan, J. Munakata-Marr and L.A. Figueroa
Near-Infrared Spectroscopy of Lacustrine Sediments in the Great Salt Lake Desert: An Analog Study for Martian Paleolake Basins
Published in JGR Planets, 2015
Lynch, K.L., B.H. Horgan, J. Munakata-Marr, J. Hanley, R.J. Schneider, K.A. Rey, J.R. Spear, W.A. Jackson and S.M. Ritter
Near-Infrared Spectroscopy of Lacustrine Sediments in the Great Salt Lake Desert: An Analog Study for Martian Paleolake Basins
Published in Journal of Geophysical Research - Planets, 2015
K.L. Lynch, B.H. Horgan, J. Munakata-Marr, J. Hanley, R.J. Schneider, K.A. Rey, J.R. Spear, W.A. Jackson and S.M. Ritter
Polygold FISH for signal amplification of metallo-labeled microbial cells
Published in J Basic Microbio, 2015
Almstrand R., Drennan D., Sharp J.O.
Disturbance Opens Recruitment Sites for Bacterial Colonization in Activated Sludge
Published in Environmental Microbiology, 2015
Vuono, D.C., J. Munakata-Marr, J.R. Spear and J.E. Drewes
Disturbance opens recruitment sites for bacterial colonization in activated sludge
Published in Environmental Microbiology, 2015
D.C. Vuono, J. Munakata-Marr, J.R. Spear and J.E. Drewes
Enhanced biofilm production by a toluene-degrading Rhodococcus observed after exposure to perfluoralkyl acids
Published in Environ Sci Technol., 2015
Weathers T.S., Higgins C.P., Sharp J.O.
Evaluating the Potential for Quantitative Monitoring of In Situ Chemical Oxidation of Aqueous-Phase TCE Using In-Phase and Quadrature Electrical Conductivity
Published in Water Resources Research, 2015
R.D. Hort, D. Mao, A. Revil and J. Munakata-Marr
Propane biostimulation in biologically active carbon selects for clades adept at degrading persistent water pollutants
Published in Environmental Science: Processes & Impacts, 2015
Mikkelson K.M., Homme C.L., Li D., Sharp J.O.
Low Bone Mineral Density and Risk of Incident Fracture in HIV-infected Adults
Published in Antiviral Therapy, 2015
Battalora, L., K. Buchacz, C. Armon, E.T. Overton, J. Hammer, P. Patel, J.S. Chmiel, K. Wood, T.J. Bush, J.R. Spear, J.T. Brooks and B. Young
Microbiologically Influenced Corrosion Communities Associated with Fuel-grade Ethanol Environments
Published in Applied Microbiology and Biotechnology, 2015
Williamson, C.H.D., L.A. Jain, B. Mishra, D.L. Olson and J.R. Spear. 2015
Life cycle and economic assessments of engineered osmosis and osmotic dilution for desalination of Haynesville shale pit water
Published in Desalination, 2015
B.D. Coday, L. Miller-Robbie, E.G. Beaudry, J. Munakata-Marr and T.Y. Cath
Abundant Atribacteria in Deep Marine Sediment from the Adélie Basin, Antarctica
Published in Frontiers in Microbiology, 2015
Carr, S.A., B.N. Orcutt, K.W. Mandernack and J.R. Spear
Resistivity and self-potential tomography applied to groundwater remediation and contaminant plumes: Sandbox and field experiments
Published in International Journal of Coal Geology, 2015
D. Mao, A. Revil, R.D. Hort, J. Munakata-Marr, E.A. Atekwana and B. Kulessa
Organoheterotrophic bacterial abundance associates with zinc removal in lignocellulose-based sulfate-reducing systems
Published in Environ Sci Technol., 2015
Drennan D.M., Almstrand R., Lee I., Landkamer L., Figueroa L., Sharp J.O.
Influence of wastewater discharge on the metabolic potential of the microbial community in river sediments
Published in Microb Ecol., 2016
Li D., Sharp J.O., Drewes J.E.
Draft genome sequences of two novel acidimicrobiaceae from an acid mine drainage biofilm metagenome
Published in Genome Announcements, 2016
Pinto A.J., Sharp J.O., Yoder M.J., Almstrand R.
Draft genome of a novel Desulfobacteraceae member from a sulfate-reducing bioreactor metagenome
Published in Genome Announcements, 2016
Almstrand R., Pinto A.J., Figueroa L.A., Sharp J.O.
Life-Cycle Assessment of Two Potable Water Reuse Technologies: MF/RO/UV-AOP Treatment and Hybrid Osmotic Membrane Bioreactors
Published in Journal of Membrane Science, 2016
R.W. Holloway, L. Miller-Robbie, M. Patel, J.R. Stokes, J. Munakata-Marr, J. Dadakis and T.Y. Cath
Effects of aqueous film-forming foams (AFFFs) on tricholoethene (TCE) dechlorination by a Dehalococcoides mccartyi-containing microbial community. Environ Sci Technol
Published in Environ Sci Technol., 2016
Harding-Marjanovic K.C., Yi S., Weathers T.S., Sharp J.O., Sedlak D.L., Alvarez-Cohen L.
Altered edaphic parameters couple to shifts in terrestrial bacterial community structure associated with insect-induced tree mortality
Published in Soil Biology Biogeochem., 2016
Mikkelson K.M., Lozupone C.A., Sharp J.O.
Antimicrobial Activity and Biologic Potential of Silver-Substituted Calcium Phosphate Constructs Produced with Self-Propogating High-Temperature Synthesis
Published in Journal of Materials Science: Materials in Medicine, 2016
Vollmer, N.L., J.R. Spear and R.A. Ayers
Coupled thermally-enhanced bioremediation and renewable energy storage system and method
Published in U.S. patent, 2016
Moradi, A., K.M. Smits and J. Sharp
Factors Influencing Bacterial Diversity and Community Composition in Municipal Drinking Waters in the Ohio River Basin, USA
Published in PLoS ONE, 2016
Stanish, L.F., N.M. Hull, C.E. Robertson, J.K. Harris, M.J. Stevens, J.R. Spear and N.R. Pace
From the Cover: Microbialite Response to an Anthropogenic Salinity Gradient in Great Salt Lake, Utah
Published in Geobiology, 2016
Lindsay, M.R., C. Anderson, N. Fox, G. Scofield, J. Allen, E. Anderson, L. Bueter, S. Poudel, K. Sutherland, J.H. Munson-McGee, J.D. Van Nostrand, J. Zhou, J.R. Spear, B.K. Baxter, D.R. Lageson and E.S. Boyd
Using Geochemical Indicators to Distinguish High Biogeochemical Activity in Floodplain Soils and Sediments
Published in Science of the Total Environment, 2016
Kenwell, A., A. Navarre-Sitchler, R. Prugue, J.R. Spear, R.M. Maxwell, A.S. Hering, R.W.H. Carroll and K.H. Williams
Rare taxa maintain microbial diversity and contribute to terrestrial community dynamics throughout bark beetle infestation
Published in Appl. Envron. Microbio., 2016
Mikkelson K.M., Bokman C.M., Sharp J.O.
Environmental Drivers of Differences in Microbial Community Structure in Crude Oil Reservoirs Across a Methanogenic Gradient
Published in Frontiers in Microbiology, 2016
Shelton, J.L., D.M. Akob, J.C. McIntosh, N. Fierer, J.R. Spear, P.D. Warwick and J.E. McCray
The International Workshop on Biology and Technology of Thermophilic Microorganisms
Published in University Printing and Mail, University of Tennessee, Knoxville, 2016
Vishnivetskaya, T.A., R. Ramaley, J.R. Spear, W. Swingley, L. Ziolkowski, E. Becraft, F. Perler, D. Polosukhina
Sacrificing Power for More Cost-Effective Treatment: A Techno-Economic Approach for Engineering Microbial Fuel Cells
Published in Chemosphere, 2016
Stoll, Z.A., Z. Ma, C.B. Trivedi, J.R. Spear and P. Xu
Resuscitation of starved suspended-and attached-growth anaerobic ammonium oxidizing bacteria with and without acetate
Published in Water Science & Technology, 2016
S. Phanwilai, C. Wantawin, A. Terada, P. Noophan and J. Munakata-Marr
Factors controlling the co-occurrence of microbial sulfate reduction and methanogenesis in coal bed reservoirs, International Journal of Coal Geology
Published in International Journal of Coal Geology, 2016
A.W. Glossner, L.K. Gallagher, L. Landkamer, L. Figueroa, J. Munakata-Marr and K.W. Mandernack
Hypoaeration of activated sludge to reduce energy requirements at distributed reclaimed water plants: studies at bench and pilot scales
Published in Environmental Science: Water Research & Technology, 2016
D. Ramey, J. Munakata-Marr and T.Y. Cath
Water quality following extensive beetle-induced tree mortality: Interplay of aromatic carbon loading, disinfection byproducts, and hydrologic drivers
Published in Sci Total Environ., 2016
Brouillard B., Dickenson E.R.V., Mikkelson K.M., Sharp J.O.
Linking trace organic chemical attenuation to microbiome metabolic capabilities: Insights from laboratory- and full-scale managed aquifer recharge systems
Published in In ACS Book, 2016
Regnery J., Li D., Roberts S., Higgins C., Sharp J.O., Drewes J.E.
Comparison of Nitrogen Removal and Full-Scale Wastewater Treatment Plant Characteristics in Thailand and Japan
Published in Environment Asia, 2017
P. Noophan, S. Phanwilai, T. Kasahara, J. Munakata-Marr and L.A. Figueroa
Pilot-scale columns equipped with aqueous and solid-phase sampling ports enable geochemical and molecular microbial investigations of anoxic biological processes
Published in BioProtoc, 2017
Drennan D.M., Almstrand R., Lee I., Landkamer L., Figueroa L., Sharp J.O.
Low-temperature Formation and Stabilization of Rare Allotropes of Cyclooctasulfur (β-S8 and γ-S8) in the Presence of Organic Carbon at a Sulfur-rich Glacial Site in the Canadian High Arctic
Published in Geochimica et Cosmochimica Acta, 2017
Lau, G.E., J. Cosmidis, S.E. Grasby, C.B. Trivedi, J.R. Spear and A.S. Templeton
FAQ: Microbes and Climate Change
Published in American Academy of Microbiology, 2017
Maloy, S., M. Moran, M.R. Mulholland, H.M. Sosik and J.R. Spear
Tailored water treatment using enhanced primary clarification for nutrient recovery and production of water for turfgrass irrigation
Published in Environmental Science: Water Research & Technology, 2017
D. Ramey,J. Munakata-Marr and T.Y. Cath
Perfluoralkyl acids inhibit reductive dechlorination of tricholorethene by repressing Dehalococcoides
Published in Environ Sci Technol., 2017
Weathers T.S., Harding-Marjanovic K., Higgins C.P., Alvarez-Cohen L., Sharp J.O.
Effect of advanced oxidation on n-nitrosodimethylamine (NDMA) formation and microbial ecology during pilot-scale biological activated carbon filtration
Published in Water Research, 2017
Li D., Stanford B., Dickenson E., Khunjar W., Homme C., Rosenfeldt E.J., Sharp J.O.
BugBase Predicts Organism-Level Microbiome Phenotypes
Published in Genome Biology, 2017
Ward, T., J. Larson, J. Meulemans, B. Hillmann, J. Lynch, D. Sidiropoulos, J.R. Spear, G. Caporaso, R. Blekhman, R. Knight, R. Fink, and D. Knights
Spatial effects of inorganic ligand availability and localized microbial community structure on mitigation of mining influenced water in sulfate-reducing bioreactors
Published in Water Research, 2017
Drennan D.M., Almstrand R., Ladderud J., Lee I., Landkamer L., Figueroa L., Sharp J.O.
Sulfide-induced dissimilatory nitrate reduction to ammonium facilitates anammox in an open water unit process wetland
Published in Appl Environ Microbio, 2017
Jones Z.L., Jasper J.T., Sedlak DL, Sharp J.O.
Co-treatment of Residential and Oil and Gas Production Wastewater with a Hybrid Sequencing Batch Reactor-Membrane Bioreactor Process
Published in Journal of Water Process Engineering, 2017
Frank, V.B., J. Regnery, K.E. Chan, D.F. Ramey, J.R. Spear and T.Y. Cath
The Deep Hot Biosphere: Twenty-Five Years of Retrospection
Published in Proceedings of the National Academy of Sciences, 2017
Colman, D.R., S. Poudel, B.W. Stamps, E.S. Boyd and J.R. Spear
Biologically Active Filtration for Fracturing Flowback and Produced Water Treatment
Published in Journal of Water Process Engineering, 2017
Freedman, D.E., S.M. Riley, Z.L. Jones, J.S. Rosenblum, J.O. Sharp, J.R. Spear and T.Y. Cath
Biologically active filtration for fracturing flowback and produced water treatment
Published in J. of Water Process Eng., 2017
Freedman D.E., Riley S.M., Jones Z.J., Rosenblum J.S., Sharp J.O., Spear J.R., Cath T.Y.
Extent of tree mortality influences compensatory biogeochemical responses in bark beetle infested mountain pine forests
Published in Soil Biol Biogeochem, 2017
Brouillard B., BoK.M.an C.M., Mikkelson K.M., J.O. Sharp
Carbonate-Rich Dendrolitic Cones: Insights into a Modern Analogue for Incipient Microbialite Formation, Little Hot Creek, Long Valley Caldera, California
Published in npj Biofilms and Microbiomes, 2017
Bradley, J.A., L.K. Daille, C.B. Trivedi, C.L. Bojanowski, B.W. Stamps, B.S. Stevenson, H.S. Nunn, H.A. Johnson, S.J. Loyd, W.M. Berelson, F.A. Corsetti and J.R. Spear
High-Throughput DNA Sequencing to Profile Microbial Water Quality of Potable Reuse
Published in Water Innovations, 2018
Leddy, M.B., Plumlee, M.H., Kantor, R.S., Nelson, K.L., Miller, S.E., Kennedy, L.C., Stamps, B.W., Spear, J.R., Hasan, N.A., Colwell, R.R.
Temporal Characterization and Statistical Analysis of Flowback and Produced Waters and Their Potential for Reuse
Published in Science of the Total Environment, 2018
Oetjen, K., K.E. Chan, K. Gulmark, J.H. Christensen, J. Blotevogel, T. Borch, J.R. Spear, T.Y.Cath and C.P Higgins
Microscale Biosignatures and Abiotic Mineral Authigenesis in Little Hot Creek, California
Published in Frontiers in Microbiology, 2018
Kraus, E., S. Beeler, R.A. Mors, J.G. Floyd, Geobiology 2016, B.W. Stamps, H.S. Nunn, B.S. Stevenson, H.A. Johnson, R.S. Shapiro, S.J. Loyd, F.A. Corsetti and J.R. Spear
Low-Temperature Sulfidic-Ice Microbial Communities, Borup Fiord Pass, Canadian High Arctic
Published in Frontiers in Microbiology, 2018
Trivedi, C.B., G.E. Lau, S.E. Grasby, A.S. Templeton, and J.R. Spear
Environmental and Biological Influences on Carbonate Precipitation within Hot Spring Microbial Mats in Little Hot Creek, California
Published in Frontiers in Microbiology, 2018
Wilmeth, D.T., H.A. Johnson, B.W. Stamps, W.M. Berelson, B. S. Stevenson, H.S. Nunn, S.L. Grim, M.L. Dillon, O. Paradis, F.A. Corsetti and J.R. Spear
talks
Talk 1 on Relevant Topic in Your Field
Published:
This is a description of your talk, which is a markdown files that can be all markdown-ified like any other post. Yay markdown!
Conference Proceeding talk 3 on Relevant Topic in Your Field
Published:
This is a description of your conference proceedings talk, note the different field in type. You can put anything in this field.
teaching
CEEN 301 - FUNDAMENTALS OF ENVIRONMENTAL SCIENCE AND ENGINEERING I
Class, Colorado School of Mines, CEEN, 2018
CEEN301 Instructor Josh O. Sharp
This course introduces fundamentals of environmental science & engineering as applied to water resource management and environmental problem solving. Topics include environmental regulation, toxicology, material balance, applications in environmental chemistry, hydrology, water quality management, water supply and treatment, and wastewater treatment and reuse. Topical discussions will address major sources and concerns in measurement, practice and underlying theory in the field of environmental engineering. The course also includes field trips to local water and wastewater treatment facilities to integrate theory with practice. Prerequisites: CHGN122, PHGN100. 3 hours lecture; 3 semester hours.
CEEN 560 - MOLECULAR MICROBIAL ECOLOGY AND THE ENVIRONMENT
Class, Colorado School of Mines, CEEN, 2018
CEEN560 Instructor: John R. Spear
This course explores the diversity of microbiota in a few of the countless environments of our planet. Topics include microbial ecology (from a molecular perspective), microbial metabolism, pathogens, extreme environments, engineered systems, oxidation / reduction of metals, bioremediation of both organics and inorganics, microbial diversity, phylogenetics, analytical tools and bioinformatics. The course has an integrated laboratory component for applied molecular microbial ecology to learn microscopy, DNA extraction, PCR, gel electrophoresis, cloning, sequencing, data analysis and bioinformatic applications. Prerequisite: College Biology and/or CHGC562, CHGC563 or equivalent and enrollment in the ESE graduate program. 3 hours lecture, some field trips; 3 semester hours.
CEEN 573 - RECLAMATION OF DISTURBED LANDS
Class, Colorado School of Mines, CEEN, 2018
CEEN573 Instructor: John R. Spear
Basic principles and practices in reclaiming disturbed lands are considered in this course, which includes an overview of present legal requirements for reclamation and basic elements of the reclamation planning process. Reclamation methods, including recontouring, erosion control, soil preparation, plant establishment, seed mixtures, nursery stock, and wildlife habitat rehabilitation, will be examined. Practitioners in the field will discuss their experiences. Prerequisite: none. 3 hours lecture; 3 semester hours.
CEEN 598A- MOLECULAR MICROBIAL ECOLOGY
Class, Colorado School of Mines, CEEN, 2018
CEEN598A Instructor: John R. Spear
Pilot course- more coming soon!
BIOL 598A: Applied Bioinformatics
Class, Colorado School of Mines, BIOL, 2018
BIOL598A: Overview
Throughout both natural and engineered systems, microorganisms are ever-present. Modern tools of DNA and RNA sequencing enable us to explore ecosystems to an unprecedented depth; however, these sequencing techniques also require an understanding of computation and data processing to decipher what microorganisms might be in an environment, and what they are doing. Applied Bioinformatics will instruct students on topics in bioinformatics and microbial ecology, giving both biologists and engineers an introduction to DNA sequencing technologies, the bioinformatic tools needed to analyze these data, and the confidence to process large datasets. The course will enable students to produce publication quality graphics in R and explore the topic of reproducible research. Statistical concepts in biological and non-biological systems within R will also be discussed. Finally, the course will expose students to high-performance and cloud computing, using microbiological datasets as case studies.