Publications

Recent Peer-Reviewed Articles

2024
  • Rasmussen, K.L., P.H. Thieringer, S. Nevadomski, A.M. Martinez, K.S. Dawson, F.A. Corsetti, X-Y Zheng, Y. Lv, X. Chen, A.J. Celestian, W.M. Berelson, N.E. Rollins and J.R. Spear. 2024. “Living to Lithified: Construction and Preservation of Silicified Biomarkers.” Submitted to Geobiology.
  • Hoagland, B., K.Rasmussen, K. Singha, J.R. Spear and A. Navarre-Sitchler. 2024. “Metal-oxide Precipitation Influences Microbiome Structure in Hyporheic Zones Receiving Acid Rock Drainage.” Accepted to Applied and Environmental Microbiology.
  • Daille, L.K., J.R. Spear, I. Beech, I.T. Vargas and R. De la Iglesia. 2024.  “Seasonal Variation in the Biological Succession of Marine Diatoms over 316L Stainless Steel in a Coastal Environment of Chile.” Biofouling. doi: 10.1080/08927014.2023.2300150.
2023
    • Remphert, K.R., E.A. Kraus, D.B. Nothaft, N. Dildar, J.R. Spear, J. Sepúlveda and A.S. Templeton. 2023. “Intact Polar Lipodome and Membrane Adaptations of Microbial Communities Inhabiting Serpentinite-Hosted Fluids.” Frontiers in Microbiology, 14 (2023): 1198786. doi: 10.3389/fmicb.2023.1198786.
    • Thieringer, P.H., E.S. Boyd, A.S. Templeton and J.R. Spear. 2023. “Metapangenomic Investigation Provides Insight into Niche Differentiation of Methanogenic Populations from the Subsurface Serpentinizing Environment, Samail Ophiolite, Oman.” Frontiers in Microbiology, 14 (2023). doi: 10.3389/fmicb.2023.1205558.
    • Rasmussen, K.L., B.W. Stamps, G.F. Vanzin, S.M. Ulrich and J.R. Spear. 2023. “Spatial and Temporal Dynamics at an Actively Silicifying Hydrothermal System.” Frontiers in Microbiology, 14 (2023): 1172798. doi: 10.3389/fmicb.2023.1172798.
    • Remphert, K.R., D.B. Nothaft, E.A. Kraus, C.K. Asamoto, D.R. Evans, J.R. Spear, J.M. Matter, S.H. Kopf and A.S. Templeton. 2023. “Subsurface Biogeochemical Cycling of Nitrogen in the Actively Serpentinizing Samail Ophiolite, Oman.” Frontiers in Microbiology, 14 (2023): 1139633. doi: 10.3389/fmicb.2023.1139633.
    • Seyler, L.M., E.A. Kraus, C. McClean, J.R. Spear, A.S. Templeton and M.O. Schrenk. 2023. “An Untargeted Exometabolomics Approach to Characterize Dissolved Organic Matter in Groundwater of the Samail Ophiolite.” Frontiers in Microbiology, 14 (2023): 1093372. doi: 10.3389/fmicb.2023.1093372.
    • Honeyman, A.S., T. Merl, J.R. Spear and K. Koren.  2023. “Optode-Based Chemical Imaging of Laboratory Burned Soil Reveals Millimeter-scale Heterogeneous Biogeochemical Responses.” Environmental Research, 224: doi: 10.1016/j.envres.2023.115469.
    • Spear, J.R., S.T. Robinson, P. Slayback, P.H. Thieringer and C. Villarruel. 2023. “The Shoshone Canyon Conduit Cave: A Greater Yellowstone Ecosystem Sulfur Cave.” ARPHA Conference Abstracts for the 2023 International Society for Subsurface Microbiology Meeting, Banff, Alberta, 22 – 27 October 2023. doi: 10.3897/aca.6.e108455.
    • Shaffer, J.F., J.R. Spear, K.L. Rasmussen and P.H. Thieringer. 2023. “Tackling the STEM Skills Gap in 3 Weeks.” Op/Ed; Career Advice; Teaching. Inside Higher Ed. 2 August 2023. https://www.insidehighered.com/opinion/career-advice/teaching/2023/08/02/accelerating-student-stem-skills-three-week-program#
    2022
    • Colman, D.R., E.A. Kraus, K. Remphert, A.S. Templeton, J.R. Spear and E.S. Boyd. 2022.  “Adaptations of Deeply-rooted Acetogens to Serpentinized Subsurface Fluids.” Proceedings of the National Academy of Sciences, 119(42): 1- 11; doi: 10.1073/pnas.2206845119.
    • Honeyman, A.S., T.S. Fegel, H.F. Peel, N.A. Masters, D.C. Vuono, W. Kleiber, C.C. Rhoades and J.R. Spear.  2022.  “Featured / Cover Image: Statistical Learning and Uncommon Soil Microbiota Explain Biogeochemical Responses After Wildfire.” Applied and Environmental Microbiology, 88(13): e00343-22;  doi: 10.1128/aem.00343-22.
    • Wilmeth, D.T., S.V. Lalonde, W.M. Berelson, V. Petryshyn, A.J. Celestian, N.J. Beukes, S.M. Awramik, J.R. Spear, T. Mahseredjian and F.A. Corsetti.  2022.  “Evidence for Benthic Oxygen Production in Neoarchean Lacustrine Stromatolites.”  Geology, 50: 907 – 911; doi: 10.1130/G49894.1.
    • Lau, G.E., C.B. Trivedi, S.E. Grasby, J.R. Spear, J. Cosmidis and A.S. Templeton. 2022. “Sulfur- and Iron-Rich Mineralogical Features Preserved in Permafrost in the Canadian High Arctic: Analogs for the Astrobiological Exploration of Mars.” Frontiers in Astronomy and Space Sciences, 9: 1 – 21; Article 825019;  doi: 10.3389/fspas.2022.825019.
    2021
    • Thieringer, P.H., A.S. Honeyman and J.R. Spear.  2021.  “Spatial and Temporal Constraints on the Composition of Microbial Communities in Subsurface Boreholes of the Edgar Experimental Mine.” Microbiol. Spectr., 9(3): e00631-21. doi: 10.1128/Spectrum.00631-21.
    • Templeton, A.S., E.T. Ellison, C. Glombitza, Y. Morono, K.R. Rempfert, T.M. Hoehler, S.D. Ziegler, E.A. Kraus, J.R. Spear, D.B. Nothaft, E.M. Fones, E.S. Boyd, R.M. Munro-Ehrlich, L.E. Mayhew, D. Cardace, J.M. Matter, P.B. Kelemen and the Oman Drilling Project Science Party. 2021.  “Accessing the Subsurface Biosphere within Rocks Undergoing Active Low-temperature Serpentinization in the Samail Ophiolite, (Oman Drilling Project).” Journal of Geophysical Research: Biogeosciences. doi: 10.1029/2021JG006315.
    • Medina-Ferrer, F., M.R. Rosen, J. Feyhl-Buska, V.V. Russell, F. Sønderholm, S. Loyd, R. Shapiro, B.W. Stamps, V. Petryshyn, C. Demirel-Floyd, J.V. Bailey, H.A. Johnson, J.R. Spear and F.A. Corsetti.  2021.  “From the Cover: Potential Role for Microbial Ureolysis in the Rapid Formation of Carbonate Tufa Mounds.” Geobiology, 20: 79 – 97; doi: 10.1111/gbi.12467.
    • Battalora, L., C. Armon, F. Palella, J. Li, E.T. Overton, J. Hammer, J. Fuhrer, R.M. Novak, J.R. Spear, K. Buchacz, for the HIV Outpatient Study (HOPS) Investigators.  2021.  “Incident Bone Fracture and Mortality in a Large HIV Cohort Outpatient Study, 2000 – 2017, USA.” Archives of Osteoporosis, 16: 117; doi.10.1007/s11657-021-00949-y.
    • Murphy, C.L., A. Sheremet, P.F. Dunfield, J.R. Spear, R. Stepanauskas, T. Woyke, M.S. Elshahed and N.H. Youssef.  2021.  “Genomic Analysis of the Yet-Uncultured Binatota Reveals Broad Methylotrophic, Alkane-Degradation, and Pigment Production Capacities.” mBio, 12: e00985-21; doi.10.1128/mBio.00985-21.
    • Petryshyn, V.A., E.N. Junkins, B.W. Stamps, J.V. Bailey, B.S. Stevenson, J.R. Spear and F.A. Corsetti.  2021.  “Builders, Tenants and Squatters: The Origins of Genetic Material in Modern Stromatolites.”  Geobiology, 19: 261 – 277; doi: 10.1111/gbi.12429.
    • Fones, E.M., D.R. Colman, E.A. Kraus, R. Stepanauskas, A.S. Templeton, J.R. Spear and E.S. Boyd. 2021. “Diversification of Methanogens into Hyperalkaline Serpentinizing Environments Through Adaptations to Minimize Oxidant Limitation.” ISME Journal. doi: 10.1038/s41396-020-00838-1.
    • Kraus, E.A., D. Nothaft, B.W. Stamps, K.R. Remphert, E.T. Ellison, J.M. Matter, A.S. Templeton, E.S. Boyd and J.R. Spear.  2021.  “Molecular Evidence for an Active Microbial Methane Cycle in Subsurface Serpentinite-hosted Groundwaters in the Samail Ophiolite, Oman.” Applied and Environmental Microbiology, 87(2): 1 – 18, e02068-20, doi: 10.1128/AEM.02068-20.
      2020
      • Nayfach, S., S. Roux, R. Seshadri, D. Udwary, N. Varghese, F. Schulz, D. Wu, D. Paez-Espino, I-M. Chen, M. Huntemann, K. Palaniappan, J. Ladau, S. Mukherjee, T.B.K. Reddy, T. Nielsen, E. Kirton, J.P. Faria, J.N. Edirisinghe, C.S. Henry, S.P. Jungbluth, D. Chivian, P. Dehal, E.M. Wood-Charlson, A.P. Arkin, S. Tinge, A. Visel, IMG/M Data Consortium (John R. Spear), T. Woyke, N.J. Mouncey, N.N. Ivanova, N.C. Kyrpides and E.A. Eloe-Fadrosh. 2020. “A Genomic Catalogue of Earth’s Microbiomes.” Nature Biotechnology. doi: 10.1038/s41587-020-0718-6. 

      • Beam, J.P., E.D. Becraft, J.M. Brown, F. Schulz, J.K. Jarett, O. Bezuidt, N. Poulton, K. Clark, P.F. Dunfield, N.V. Ravin, J.R. Spear, B.P. Hedlund, K.A. Kormas, S.M. Sievert, M.S. Elshahed, H.A. Barton, M.B. Stott, J.A. Eisen, D.P. Moser, T.C. Onstott, T. Woyke and R. Stepanauskas.  2020.  “Ancestral Absence of Electron Transport Chains in Patescibacteria and DPANN.” Frontiers, 11: 1848, doi: 10.3389/fmicb.2020.01848.

      • Trivedi, C.B., B.W. Stamps G.E. Lau, S.E. Grasby, A.S. Templeton and J.R. Spear.  2020.  “Microbial Metabolic Redundancy is a Key Mechanism in a Sulfur-Rich Glacial Ecosystem.” mSystems, 5: e00504-20, doi: 10.1128/mSystems.00504-20.

      • Jarett, J.K., M. Džunková, F. Schulz, S. Roux, D. Paez-Espino, E. Eloe-Fadrosh, S. Jungbluth, N. Ivanova, J.R. Spear, S.A. Carr, C.B. Trivedi, F.A. Corsetti, H.A. Johnson, E. Becraft, N. Kyrpides, R. Stepanauskas and T. Woyke.  2020.  “Insights into the Dynamics Between Phages and Their Hosts in a Hot Spring Microbial Mat.”  ISME Journal; doi: 10.1038/s41396-020-0705-4.

      • Stamps, B.W. and J.R. Spear. 2020. “Identification of Metagenome Assembled Genomes Containing Antimicrobial Resistance Genes Isolated from an Advanced Water Treatment Facility.” Microbial Resource Announcements, 9(14): e00003-20; doi: 10.1128/MRA.00003-20.

      2019
      • Lindsay, M.R., D.R. Colman, M.J. Amenabar, K.E. Fristad, K.M. Fecteau, R.V. Debes, J.R. Spear, E.L. Shock, T.M. Hoehler and E.S. Boyd.  2019.  “Probing the Geological Source and Biological Fate of Hydrogen in Yellowstone Hot Springs.” Environmental Microbiology. 21(10): 3816 – 3830; doi: 10.1111/1462-2920.14730.
      • Bolyen, E. J. Rideout, M. Dillon, N. Bokulich, J.R. Spear, R. Knight and J. G. Caporaso, et al. 2019. “Reproducible, Interactive, Scalable, and Extensible Microbiome Data Science Using QIIME 2.” Nature Biotechnology, 37: 848-857; doi: 10.1038/s41587-019-0209-9.
      • Chan, M.A., N.W. Hinman, S.L. Potter-McIntyre, K.E. Schubert, R.J. Gillams, S.M. Awramik, P.J. Boston, D.M. Bower, D.J. Des Marais, J.D. Farmer, T.Z. Jia, P.L. King, R.M. Hazen, R.J. Léveillé, D. Papineau, K.R. Rempfert, M. Sánchez-Román, J.R. Spear, G. Southam, J.C. Stern and H.J. Cleaves.  2019.  “Deciphering Biosignatures in Planetary Contexts.”  Astrobiology, 19(5): 1 – 13; doi: 10.1089/ast.2018.1903.
      • Lynch, K.L., W.A. Jackson, K.A. Rey, J.R. Spear, F. Rosenzweig and J. Munakata-Marr. 2019.  “From the Cover–Evidence for Biotic Perchlorate Reduction in Naturally Perchlorate-rich Sediments of Pilot Valley Basin, Utah.”  Astrobiology, 19(5): 629 – 641; doi: 10.1089/ast.2018.1864 .
      • Fones, E.M., D.R. Colman, E.A. Kraus, D.B. Nothaft, S. Poudel, K.R. Remphert, N.R. Fox, J.R. Spear, A.S. Templeton and E.S. Boyd. 2019. “Physiological Adaptations to Serpentinization in the Samail Ophiolite, Oman.” ISME Journal, 13: 1750 – 1762, doi: 10.1038/s41396-019-0391-2. 
      • Chan, M.A., B.B. Bowen, F.A. Corsetti, W.H. Farrand, E.S. Law, H.E. Newsom, S.M. Perl, J.R. Spear and D.R. Thompson.  2019. “Exploring, Mapping, and Data Management Integration of Habitable Environments in Astrobiology.”  Frontiers in Microbiology, 10: 1 – 17 #147, doi: 10.3389/fmicb.2019.00147.
      • Wilmeth, D.T., F.A. Corsetti, N.J. Beukes, S.M. Awramik, V. Petryshyn, J.R. Spear and A.J. Celestian.  2019.  “Neoarchean (2.7 Ga) Lacustrine Stromatolite Deposits in the Hartbeesfontein Basin, Ventersdorp Supergroup, South Africa: Implications for Oxygen Oases.” Precambrian Research, 320: 291-302; doi: 10.1016/j.precamres.2018.11.009.
      • Junkins, E.N., B.W. Stamps, F.A. Corsetti, R.S. Oremland, J.R. Spear and B.S. Stevenson.  2019. “Draft Genome Sequence of Picocystis sp. strain ML, Cultivated from Mono Lake, California.”  Microbiology Resource Announcements (MRA), 8(4): 1 – 3, e01353-18;  doi: 10.1128/MRA.01353-18.
      2018
      • Honeyman, A.S., M. Day and J.R. Spear.  2018. “Regional Fresh Snowfall Microbiology and Chemistry are Driven by Geography in Storm-Tracked Events, Colorado, USA.”  PeerJ, 6: e5961;  doi: 10.7717/peerj.5961.
      • Stamps, B.W., H.S. Nunn, V.A. Petryshyn, R.S. Oremland, L.G. Miller, M.R. Rosen, K.W. Bauer, K.J. Thompson, E.M. Tookmanian, A. Waldeck, S.J. Loyd, H.A. Johnson, B.S. Stevenson, W.M. Berelson, F.A. Corsetti and J.R. Spear.  2018.  “Metabolic Capability and Phylogenetic Diversity of Mono Lake During a Bloom of the Eukaryotic Phototroph Picocystis sp. Strain ML.” Applied and Environmental Microbiology, 84(21): 1 – 15; doi: e01171-18.
      • Stamps, B.W., M.B. Leddy, M.H. Plumlee, N.A. Hasan, R.R. Colwell and J.R. Spear.  2018.  “Characterization of the Microbiome at the World’s Largest Potable Water Reuse Facility.” Frontiers in Microbiology, 9: 1 – 16 #2435, doi: 10.3389/fmicb.2018.02435.
      • Stamps, B.W., J.R. Spear, M.B. Leddy, M.H. Plumlee, and R.R. Colwell.  2018.  “Characterization of the Microbiome of a State-of-the-Art Water Reuse System to Enhance Treatment Performance.” Desalination and Water Purification Research and Development Program Report, #215, U.S. Bureau of Reclamation. (https://www.usbr.gov/research/dwpr/reportpdfs/report215.pdf)
      • Trivedi, C.B., G.E. Lau, S.E. Grasby, A.S. Templeton and J.R. Spear.  2018.  “Low-temperature Sulfidic-Ice Microbial Communities, Borup Fiord Pass, Canadian High Arctic.” Frontiers in Extreme Microbiology, 9: 1 – 16 #1622; doi: 10.3389/fmicb.2018.01622.
      • 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.  2018.  “Environmental and Biological Influences on Carbonate Precipitation within Hot Spring Microbial Mats in Little Hot Creek, California.”  Frontiers in Microbiology, 9: 1 – 13 #1464; doi: 10.3389/fmicb.2018.01464.
      • Kraus, E., S. Beeler, R.A. Mors, J.G. Floyd, Geobiology 2018, 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.  2018.  “Microscale Biosignatures and Abiotic Mineral Authigenesis in Little Hot Creek, California.”  Frontiers in Microbiology, 7: 1 – 13 #1535; doi: 10.3389/fmicb.2018.00997.
      • Oetjen, K., K.E. Chan, K. Gulmark, J.H. Christensen, J. Blotevogel, T. Borch, J.R. Spear, T.Y.Cath and C.P Higgins.  2018.  “Temporal Characterization and Statistical Analysis of Flowback and Produced Waters and Their Potential for Reuse.”  Science of the Total Environment, 619-620: 654-664; doi: 10.1016/j.scitotenv.2017.11.078.
      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.  2017.  “BugBase Predicts Organism-Level Microbiome Phenotypes.”  bioRxiv, doi: 10.1101/133462.
      • 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.  2017.  “Carbonate-Rich Dendrolitic Cones: Insights into a Modern Analogue for Incipient Microbialite Formation, Little Hot Creek, Long Valley Caldera, California.”  npj Biofilms and Microbiomes, 3(32): doi: 10.1038/s41522-017-0041-2.
      • Colman, D.R., S. Poudel, B.W. Stamps, E.S. Boyd and J.R. Spear.  2017. “The Deep Hot Biosphere: Twenty-Five Years of Retrospection.”  Proceedings of the National Academy of Sciences, 114(27): 6895-6903; doi: 10.1073/pnas.1701266114.
      • Maloy, S., M. Moran, M.R. Mulholland, H.M. Sosik and J.R. Spear.  2017.  “FAQ:  Microbes and Climate Change.”  American Academy of Microbiology.
      • Freedman, D.E., S.M. Riley, Z.L. Jones, J.S. Rosenblum, J.O. Sharp, J.R. Spear and T.Y. Cath.  2017.  “Biologically Active Filtration for Fracturing Flowback and Produced Water Treatment.” Journal of Water Process Engineering, 18(2017): 29-40; doi: 10.1016/jwpe.2017.05.008.
      • Frank, V.B., J. Regnery, K.E. Chan, D.F. Ramey, J.R. Spear and T.Y. Cath.  2017.  “Co-treatment of Residential and Oil and Gas Production Wastewater with a Hybrid Sequencing Batch Reactor-Membrane Bioreactor Process.” Journal of Water Process Engineering, 17(2017): 82-94.
      • Lau, G.E., J. Cosmidis, S.E. Grasby, C.B. Trivedi, J.R. Spear and A.S. Templeton.  2017.  “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.”  Geochimica et Cosmochimica Acta, 200: 218-231; doi: 10.1016/j.gca.2016.11.036.
      • 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.  2017.  “From the Cover: Microbialite Response to an Anthropogenic Salinity Gradient in Great Salt Lake, Utah.”  Geobiology, 15(1): 131 – 145; doi: 10.1111/gbi.12201.
      2016
      • Stoll, Z.A., Z. Ma, C.B. Trivedi, J.R. Spear and P. Xu.  2016.  “Sacrificing Power for More Cost-Effective Treatment: A Techno-Economic Approach for Engineering Microbial Fuel Cells.”  Chemosphere, 161: 10-18.
      • Shelton, J.L., D.M. Akob, J.C. McIntosh, N. Fierer, J.R. Spear, P.D. Warwick and J.E. McCray.  2016.  “Environmental Drivers of Differences in Microbial Community Structure in Crude Oil Reservoirs Across a Methanogenic Gradient.”  Frontiers in Microbiology, 7: 1 – 12 #1535; doi: 10.3389/fmicb.2016.01535.
      • Kenwell, A., A. Navarre-Sitchler, R. Prugue, J.R. Spear, R.M. Maxwell, A.S. Hering, R.W.H. Carroll and K.H. Williams.  2016.  “Using Geochemical Indicators to Distinguish High Biogeochemical Activity in Floodplain Soils and Sediments.”  Science of the Total Environment, 563: 386-395; doi: 10.1016/j.scitotenv.2016.04.014.
      • Stanish, L.F., N.M. Hull, C.E. Robertson, J.K. Harris, M.J. Stevens, J.R. Spear and N.R. Pace.  2016.  “Factors Influencing Bacterial Diversity and Community Composition in Municipal Drinking Waters in the Ohio River Basin, USA.”  PLoS ONE, 11(6): e0157966.
      • Vollmer, N.L., J.R. Spear and R.A. Ayers.  2016.  “Antimicrobial Activity and Biologic Potential of Silver-Substituted Calcium Phosphate Constructs Produced with Self-Propogating High-Temperature Synthesis.”  Journal of Materials Science: Materials in Medicine, 27: 1-12, #104; doi: 10.1007/s10856-016-5715-4.
      • Vuono, D.C., J. Munakata-Marr, J.R. Spear and J.E. Drewes.  2016.  “Disturbance Opens Recruitment Sites for Bacterial Colonization in Activated Sludge.”  Environmental Microbiology, 18(1): 87 – 99; (doi: 10/1111/1462-2920.12824).
      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 for the HIV Outpatient Study (HOPS) and SUN Study Investigators.  2015.  “Low Bone Mineral Density and Risk of Incident Fracture in HIV-infected Adults.”  Antiviral Therapy, 21(1): 45-54, doi: 10.3851/IMP2979.

      recent Conference Proceedings

      2022
      ASM Colloquium Report: Microbes & Climate Change—Science, People & Impacts, April, 2022.
      J.R. Spear, co-author. American Academy of Microbiology & American Society for Microbiology, Washington, D.C. https://asm.org/Reports/Microbes-Climate-Change-Science,-People,-Impacts
      2020

      American Geophysical Union 2020, “Examining the Role of Fe-Cycling in Microbial Mat Lithification and Stromatolite Abundance through Earth History.”  Invited Talk. F.A. Corsetti, V. Petryshyn, W. Berelson, K. Rasmussen, B.S. Stevenson and J.R. Spear. San Fransisco, CA, 10-6 December 2020 (online due to COVID-19).

      Geological Society of America 2020, “Oxidation-Reduction Couples in the Formation of Stromatolites: An Example of Iron Cycling Obsidian Pool Prime Hot Spring, Yellowstone National Park, Wyoming.”  Invited Talk. W. Berelson, F.A. Corsetti, V. Petryshyn, J.R. Spear, K. Rasmussen, B. Stevenson, S-C. Yang and S. John. Phoenix, AX, 4 – 7 October 2020 (online due to COVID-19).

      Geological Society of America 2020, “Temporal and Spatial Variation in Actively Silicifying Hydrothermal Microbial Communities and Ramification in the Rock Record.”  Invited Talk. K. Rasmussen, B.W. Stamps, S.M. Ulrich, F.A. Corsetti and J.R. Spear. Phoenix, AX, 4 – 7 October 2020 (online due to COVID-19).

      Water is Life 2020, “Water IS Alive!” Invited Keynote Talk. Water is Life Association, St. Stephen’s Episcopal School, Bradenton, Florida, 21 – 23 June 2020. (Covid-19 cancellation).

      Front Range Microbiome Symposium 2020, “Metagenomics of Methanogenesis in the Subsurface Samail Ophiolite, Oman.” Invited Talk. Colorado State University, Ft. Collins, Colorado, 24 April 2020. (Covid-19 cancellation).

      American Chemical Society 2020, “Molecular Evidence for an Active Microbial Methane Cycle in Subsurface Serpentinite-hosted Fluids in the Samail Ophiolite, Oman.” Invited Talk. J.R. Spear, E.A. Kraus, E.S. Boyd and A.S. Templeton. Philadelphia, Pennsylvania, 23 March 2020. (Covid-19 cancellation).

      Southeastern Branch American Society for Microbiology (SEBASM) 2020, “Cone WOR 3: Return of the Reductase.” Invited Talk. H. Larissa, G.T. Cayman, S.A. Carr, J.R. Spear, E.D. Becraft. Huntsville, Alabama, 21 February 2020.

      2019

      ISME Latin America, 2019, “Microbial Gradients in Carbonate Tufas from Big Soda Lake, Nevada.” Invited Talk. F.M. Ferrer, M.R. Rosen, V.V. Russell, J. Feyhl-Buska, F. Sønderholm, S. Loyd, R. Shapiro, B. Stamps, V. Petryshyn, J.V. Bailey, H. Johnson, J.R. Spear, F.A. Corsetti and International GeoBiology Course 2016. Valparaiso, Chile, 11 – 13 September 2019.

      Gordon Conference, Applied and Environmental Microbiology, Shaping the Earth’s Microverse, 2019, “Life, Ice and S @ 81N 81W.” Invited Talk. J.R. Spear. Mt. Holyoke College, South Hadley, MA, 14 – 19 July 2019.

      Astrobiology Science Conference 2019, “N = 1 or X ?: Lessons on Earth from 20 Years of NAI.” Invited Talk. J.R. Spear. Bellevue, Washington, 24 – 28 June 2019.

      Astrobiology Science Conference 2019, “Biopsies to the Underworld: Lessons from Serpentinites.” Session Convener. J.R. Spear and E.S. Boyd. Bellevue, Washington, 24 – 28 June 2019.

      Astrobiology Science Conference 2019, “Active Biological Methane Cycling in Hypersaline Serpentinization-Impacted Waters and Implications for Methane Isotopic Biosignatures.” Invited Talk. E.K. Kraus, B.W. Stamps, K.R. Rempfert, D.B. Nothaft, E.T. Ellison, J.M. Matter, E.S. Boyd, A.S. Templeton and J.R. Spear. Bellevue, Washington, 24 – 28 June 2019.

      Astrobiology Science Conference 2019, “The Pilot Valley Project: Investigating Transitional Subsurface Habitable Zones in a Martian Paleolake Analog Environment.” Invited Talk. K. Lynch, K. Rey, R. Bond, J. Biddle, G. Christman, J.J. Wray, J.R. Spear, J. Munakata-Marr, B.H.N. Horgan, J. Hanley, F. Rosenzweig and W.A. Jackson. Bellevue, Washington, 24 – 28 June 2019.

      Astrobiology Science Conference 2019, “Identifying How an Anaerobic Peridotite-Hosted Biosphere Functions.” Invited Talk. A.S. Templeton, E.S. Boyd, E.T. Ellison, K.R. Rempfert, L.E. Mayhew, E. Fones, D.R. Colman, C. Glombitza, E. A. Kraus, T.M. Hoehler, D.A. Fike and Oman Drilling Project Phase II Science Party. Bellevue, Washington, 24 – 28 June 2019.

      Next Generation Polar Researchers Symposium, 2019, “Life, Ice and S @ 82N 82W: Lessons on Strategies for Solid Field Science.” Invited Talk. J.R. Spear. USC Wrigley Institute for Environmental Studies, Catalina Island, California, 5 – 11 May 2019.

      Next Generation Polar Researchers Symposium, 2019, Invited Mentor. J.R. Spear. USC Wrigley Institute for Environmental Studies, Catalina Island, California, 5 – 11 May 2019.

      Front Range Microbiome Symposium 2019, “Biological Methane Cycling in a Serpentization-Impacted Ecosystem.” Poster. E.A. Kraus, B.W. Stamps, K.R. Rempfert, D.B. Nothaft, E.S. Boyd, J.M. Matter, A.S. Templeton and J.R. Spear.  Colorado State University, 18-19 April 2019.

      Front Range Microbiome Symposium 2019, “Evaluating Hydrothermal Microbial Communities and Associated Insights into the Rock Record.” Poster. K. Rasmussen, B.W. Stamps, S.M. Ulrich and J.R. Spear. Colorado State University, 18-19 April 2019.

      European Geosciences Union 2019, “Tectonic Map of the Central and Southwestern Pearya Terrane, Ellesmere Island, Canada.” Invited Talk. Karsten Piepjohn and the CASE Team. Vienna, Austria, 7 – 12 April 2019.

      Conference on Retroviruses and Opportunistic Infections (CROI) 2019, “Breaking Bones is Bad: Incident Fracture and Mortality in the HIV Outpatient Study.”  Poster and Talk.  L.A. Battalora, J. Fuhrer, F.J. Palella, E.T. Overton, J.R. Spear, C. Armon and K. Buchacz. Seattle, Washingotn, 4 – 7 March, 2019.

      2018

      American Geophysical Union 2018,“Characterization of Microbial Communities with Advanced Wastewater Treatment for Water Reuse.” Poster. N.A. Hasan, M.B. Leddy, K. Graubics, B.W. Stamps, J.R. Spear, J. Cotruvo and R. Colwell. Washington, D.C., December, 2018.

      American Geophysical Union 2018, “Identifying Subsurface Biologically-Mediated Processes Occurring During Modern Water/Rock Interaction in the Samail Ophiolite.” Poster. A.S. Templeton, E. Ellison, D. Nothaft, K.R. Remphert, S. Zeigler, L. Mayhew, E. Boyd, E. Fones, C. Glombitza, E. Kraus, K. Rasmussen, J.R. Spear, J. Zaloumis, A. Sousa, D. Cardace, J. Matter, P.K. Kelemen and the Oman Drilling Project Phase II Science Party. Washington, D.C., December, 2018.

      American Geophysical Union 2018, “Biological Methane Cycling in Serpentinization-Impacted Fluids of the Samail Ophiolite of Oman.” Poster. E.A. Kraus, B.W. Stamps, K.R. Remphert, E.S. Boyd, A.S. Templeton and J.R. Spear. Washington, D.C., December, 2018.

      American Geophysical Union 2018, “Subsurface Cycling of Nitrogen in the Actively Serpentinizing Samail Ophiolite, Oman.” Poster. K. R. Remphert, S. Poudel, E.A. Kraus, J.R. Spear, E.S. Boyd, J.M. Matter, S.H. Kopf and A.S. Templeton. Washington, D.C., December, 2018.

      Geological Society of America 2018, “Rapid Rates of Oxygenic Photosynthesis within Neoarchean Stromatolites.”  Poster and Talk. D.T. Wilmeth, F.A. Corsetti, W.M. Berelson, N.J. Beukes, S.M. Awramik,   V.A. Petryshyn, J.R. Spear and A.J. Celestian.  Indianapolis, IN, 4 – 7 November 2018.

      Goldschmidt 2018, “Builders, Tenants and Squatters: Organic Matter Preservation and its Relationship to Stromatolite Formation.”  Poster and Talk. V.A. Petryshyn, J.V. Bailey, B.W. Stamps, J.R. Spear, B.S. Stevenson and F.A. Corsetti, Boston, MA, 13 – 17 August 2018.

      Microbiology of the Built Environment (MoBE) Gordon Research Conference 2018, “Biodeterioration in Spaceflight Ecosystems: Implications for Material / Microbiome Interactions on the International Space Station.”  Poster and Talk.  B.W. Stamps and J.R. Spear. University of New England, Biddeford, ME, 15 – 20 July, 2018.

      International Conference on Arctic Margins VIII (ICAM VIII) 2018, “Preliminary Tectonic Map of The Central and Southwestern Pearya Terrane, Ellesmere Island, Canada.”  Poster and Talk.  K. Piepjohn, J.R. Spear and CASE 11 – 19 Teams.  Stockholm, Sweden, June, 2018.

      American Society for Microbiology Microbe 2018, “Metagenomic Characterization of Microorganisms in an Advanced Water Treatment Facility.”  Poster and Talk.  N.A. Hasan, M.B. Leddy, B.Fanelli, B.W. Stamps, J.R. Spear and R. Colwell.  Washington D.C., June, 2018.

      Critical Materials Institute 2018, “Evaluating the Impact of Lanthanide Series Elements on Municpal Wastewater Treatment by Microorganisms.”  Poster.  K. Rasmussen, G. Vanzin, S. Nguyen, J.R. Spear, Y. Fujita and J. Munakata Marr, Colorado School of Mines, Golden, Colorado, January, 2018.

      Gordon Research Conference: Geobiology 2018, “Subsurface Source and Biological Fate of Hydrogen in the Yellowstone Geothermal Complex.”  Poster and Talk.  M.R. Lindsay, K.E. Fristad, D.R. Colman, M.J. Amenabar, M.R. Urschel, K.M. Fecteau, R.V. Debes, J.R. Spear, J.B. Lowenstern, E.L. Shock, T.M. Hoehler and E.S. Boyd.  Galveston, Texas, January, 2018.

      2017

      American Geophysical Union 2017, “Characterizing Dissolved Organic Matter and Metabolites in an Actively Serpentinizing Ophiolite Using Global Metabolomics Techniques.”  Poster.  L.M. Seyler, K. R. Remphert, E.A. Kraus, J.R. Spear, A.S. Templeton and M.O. Schrenk.  New Orleans, Louisiana, December, 2017.

      American Geophysical Union 2017, “Results of Preliminary Biological Sampling of Phase 1 ODP Cores and Existing Subsurface Wells.”  Poster.  E.A. Kraus, K. Remphert, E. Ellison, D. Nothaft, E.S. Boyd,  B.W. Stamps, A.S. Templeton and J.R. Spear.  New Orleans, Louisiana, December, 2017.

      International Society for Subsurface Microbiology 2017, “Lessons Learned from The Deep Hot Biosphere.”  Invited Keynote Talk. J.R. Spear.  Rotorua, New Zealand, November, 2017.

      Geological Society of America 2017, “New Voices in Geobiology.”  Session Chair. J.R. Spear.  Seattle, Washington, October, 2017.

      University of Colorado, Denver, “Life, Ice and S @ 81N 81W”  Invited Talk, Department of Integrative Biology.  J.R. Spear.  Denver, Colorado, September, 29, 2017.

      Earth Life Science Institute 2017, “Life, Ice and S @ 81N 81W”  Invited Talk.  J.R. Spear. Omiachi (Tokyo), Japan, September, 2017.

      American Water Works Association 2017, “Effective Removal of Microorganisms in a Groundwater Replenishment System.”  Menu Leddy, B.W. Stamps, R. Colwell and J.R. Spear.  Philadelphia, PA, June, 2017.

      Astrobiology Science Conference 2017, “Subsurface Source and Biological Fate of Hydrogen in Hot Spring Ecosystems.”  Talk.  M.R. Lindsay, K.E. Fristad, M.J. Amenabar, M.R. Urschel, R.V. Debes, J.R. Spear, T.M. Hoehler, E.L. Shock and E.S. Boyd.  Mesa, AZ, April, 2017.

      Astrobiology Science Conference 2017, “Investigating the Coexistence of Perchlorate Reducing Bacteria and Naturally Occurring Perchlorate-Rich Sediments in the Pilot Valley Paleolake Basin.”  Talk.  K.L. Lynch, W.A. Jackson, J.R. Spear, R.F. Rosenzweig, and J. Munakata Marr.  Mesa, AZ, April, 2017.

      Astrobiology Science Conference 2017, “Surface Expressions of Potentially Habitable Subsurface Environments on Mars: Sulfur Alteration Features at Borup Fiord Pass.”  Talk.  G.E. Lau, C.B. Trivedi, S.E. Grasby, J.R. Spear and A.S. Templeton.  Mesa, AZ, April, 2017.

      Astrobiology Science Conference 2017, “The Geobiology that Drives a Sulfur-Dominated Glacial Spring System Found in the Canadian High Arctic.”  Poster.  C.B. Trivedi, G.E. Lau, A.S. Templeton, S.E. Grasby and J.R. Spear.  Mesa, AZ, April, 2017.

      CROI, Conference on Retroviruses and Opportunistic Infections 2017, “FRAX Tool and Fracture Risk: Have Some Backbone! 10-Year Osteoporotic Fracture Risk Comparison Using Femoral Neck with/without Lumbar Spine T-Scores in an Ambulatory HIV+ Population.”  Poster.  L.A. Battalora, C. Armon, K. Buchacz, J. Hammer, J.R. Spear, J.T. Brooks, B. Young, E.T. Overton.  Seattle, WA, February, 2017.

      2016

      American Geophysical Union 2016, “Fifteen Years of GeoBiology: The Significant Highlights and the Future.”  Primary Convener:  J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “Investigation of a Modern Incipient Stromatolite from Obsidian Pool Prime, Yellowstone National Park: Implications for Early Lithification in the Formation of Light-Dark Stromatolite Laminae.”  Invited Talk.  F.A. Corsetti, W. Berelson, C. Pepe-Ranney, S.A. Mata and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “The Biogeography of Endorheic Soda Lakes in the Western United States.”  Invited Talk.  B.W. Stamps, V. Petryshyn, H.A. Johnson, W. Berelson, H.S. Nunn, B.S. Stevenson, S.J. Loyd, R.S. Oremland, L.G. Miller, M.S. Rosen, F.A. Corsetti and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “The Biogenicity of Carbonate/Silica Structures in Little Hot Creek: Tenants and Builders.”  Poster.  E.A. Kraus, R.A Mors, S.R. Beeler, J.G. Floyd, B.W. Stamps, H.S. Nunn, B. S. Stevenson, R.S. Shapiro, H.A. Johnson, GeoBiology 2016, F.A. Corsetti and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “A Eukaryotic Green Alga, Picocystis, Dominates Mono Lake, California in an Alga Bloom–Hints at Cryptic Oxygen Cycle in Euxinic Waters. ”  Poster.  K.W. Bauer, K. Thompson, E.M. Tookmanian, A. Waldeck, W. Berelson, B.S. Stevenson, B.W. Stamps, H.A. Johnson, A.L. Sessions, L.G. Miller, R.S. Oremland, M.R. Rosen, GeoBiology 2016, F.A. Corsetti and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “Assessing the Biological Contribution to Mineralized Cap Formation in the Little Hot Creek Hot Spring System.”  Poster.  J.G. Floyd, S.R. Beeler, R.A. Mors, E.A. Kraus, O. Piazza, C.M. Frantz, S.J. Loyd, W. Berelson, B. S. Stevenson, P.J. Marenco, J.R. Spear, F.A. Corsetti and GeoBiology 2016.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “Microbial and Metabolic Diversity of the Alkaline Hot Springs of Paoha Island: A Late Archean and Proterozoic Ocean Analog Environment.” Poster.  I.S. Foster, C. Demirel, A. Hyde, S. Motamedi, C.M. Frantz, B.W. Stamps, H.S. Nunn, R.S. Oremland, M. Rosen, L.G. Miller, F.A. Corsetti and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “Microbial Composition and Preliminary Age of Ooids from The Great Salt Lake, Utah.”  Poster.  O. Piazza, F.A. Corsetti, B.W. Stamps, B.S. Stevenson, A Bardsley, D.E. Hammond, H.S. Nunn, W. Berelson and J.R. Spear.  San Francisco, CA, December, 2016.

      American Geophysical Union 2016, “Assessing the Biogenicity of Tufas and Their Potential as Biosignature Repositories.”  Poster.  F. Medina, V.V. Russell, J. Feyhl-Buska, F. Sønderholm, S.J. Loyd, R.S. Shapiro, M.R. Rosen, B.W. Stamps, V. Petryshyn, H.A. Johnson, J.R. Spear, F.A. Corsetti and GeoBiology 2016.  San Francisco, CA, December, 2016.

      American Society for Microbiology 2016, “International Workshop and Evaluation of Science in Countries of the Caucasus Region.” Poster.  F. Perler, E. Becraft, J. Bird, D. McCrimmon, D. Polosukhina, R. Ramaley, J. Spear, W. Swingley, L. Ziolkowski and T.A. Vishnivetskaya.  Boston, MA, May, 2016.

      Southern California Geobiology Symposium, “Patterns of Carbonate Precipitation in a Laminated Microbial Mat.” Oral Presentation, Dylan Wilmeth, F.A. Corsetti, J.R. Spear, W. Berelson, B. Stevenson, H. Johnson, M. Krusor, S. Grim, B. Stamps and O. Piazza.  Caltech, Pasadena, California, 7 May 2016.

      Molecular Biology Program Symposium 2016–Mission Exobiology: Life Beyond Planet Earth. “Speaking of Europa: A Robotic Dive into a Warm Pot and an Exploration of Sulfidic Ice.” Invited Talk.  J.R. Spear.  University of Colorado School of Medicine, Denver, CO, 21 April 2016.

      European Geosciences Union 2016, “Hydrobiogeochemical Controls on a Low-Carbon Emitting Energy Extraction Mechanism: Exploring Methanogenic Crude Oil Biodegradation.”  Poster.  J.L. Shelton, J.C. McIntosh, D. M. Akob, J.R. Spear, P.D. Warwick and J.E. McCray.  Vienna, Austria, 17 – 22 April 2016.

      European Geosciences Union 2016, “Vertical Microbial Community Variability of Carbonate-based Cones May Provide Insight into Ancient Conical Stromatolite Formation.”  Poster.  J. Bradley, L. Daille, C. Trivedi, C. Bojanowski, H. Nunn, B.W. Stamps, H.A. Johnson, B.S. Stevenson, W. Berelson, F. Corsetti, and J.R. Spear.  Vienna, Austria, 17 – 22 April 2016. (2016EGUGA..18.9403B).

      Conference on Retroviruses and Opportunistic Infections 2016, “Osteoporosis and Fractures in HIV-Infected Adults: Who is Afraid of the Lumbar Spine?” Poster. L. Battalora, K. Buchacz, C. Armon, J. Hammer, J.S. Chmiel, J.R. Spear, J.T. Brooks, B. Young, E.T. Overton for the HIV Outpatient Study (HOPS) and SUN Study Investigators.  Boston, MA, 22 – 25 February 2016.

      recent Book Chapters

      2020

      Matter, J.M. and J. Coggon et al., 2020. “Scientific Drilling in the Samail Ophiolite, Sultanate of Oman: Proceedings of the Oman Drilling Project.” http://publications.iodp.org/other/Oman/OmanDP.html#pgfId-1140190 and http://publications.iodp.org/other/Oman/OmanDP.html

      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., 2018. “High-Throughput DNA Sequencing to Profile Microbial Water Quality of Potable Reuse.” Water Innovations (wateronline.com) January, 33-37.

      Spear, J.R.  2018.  “Katrina J. Edwards: A Force in the World of Environmental Microbiology,” in Whitaker R.J., Barton H.A. (ed), Women in Microbiology, American Society for Microbiology Press, Washington D.C.

      2016

      Vishnivetskaya, T.A., R. Ramaley, J.R. Spear, W. Swingley, L. Ziolkowski, E. Becraft, F. Perler, D. Polosukhina.  2016.  “The International Workshop on Biology and Technology of Thermophilic Microorganisms.”  Report to the National Science Foundation (NSF) and the Georgia Innovation and Technology Agency (GITA).  University Printing and Mail, University of Tennessee, Knoxville, October, 2016. (http://ceb.utk.edu/international-workshop-on-biology-and-biotechnology-of-thermophilic-microorganisms/).

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