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The California State University

Publications

  • Xie, W., C.L. Zhang, J. Wang, Y. Chen, Y. Zhu, J.R. de la Torre, H. Dong, H.E. Hartnett, B.P. Hedlund and M.G. Klötz. 2015. Distribution of ether lipids and composition of the archaeal community in terrestrial geothermal springs. Environmental Microbiology 17: 1600-1614.

  • Urakawa, H., W. Martens-Habbena, C. Huguet, J.R. de la Torre, A. Ingalls, A. Devol and D. Stahl. 2014. Ammonia availability shapes the seasonal distribution and activity of archaeal and bacterial ammonia oxidizers in the Puget Sound Estuary. Limnology and Oceanography 59: 1321-1335.

  • Hamilton, T., E. Koonce, A. Howells, J. Havig, T. Jewell, J.R. de la Torre, J. Peters and E. Boyd. 2014. Competition for Ammonia Influences the Structure of Chemotrophic Communities in Geothermal Springs. Applied and Environmental Microbiology 80: 653-661.

  • Stahl, D.A. and J.R. de la Torre. 2012. Physiology and Diversity of Ammonia-Oxidizing Archaea. Annual Review of Microbiology 66: 83-101.

  • Dodsworth, J.A., B. Hungate, J.R. de la Torre, H.C. Jiang and B.P. Hedlund. 2011. MEASURING NITRIFICATION, DENITRIFICATION, AND RELATED BIOMARKERS IN TERRESTRIAL GEOTHERMAL ECOSYSTEMS. Methods in Enzymology: Research on Nitrification and Related Processes, Vol 486, Part a 486: 171-203.

  • Pelve, E., A. Lindås, W. Martens‐Habbena, J. de la Torre, D. Stahl and R. Bernander. 2011. Cdv‐based cell division and cell cycle organization in the thaumarchaeon Nitrosopumilus maritimus. Molecular Microbiology 82: 555-566.

  • Walker, C., J. de la Torre, M. Klotz, H. Urakawa, N. Pinel, D. Arp, C. Brochier-Armanet, P. Chain, P. Chan and A. Gollabgir. 2010. Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea. Proceedings of the National Academy of Sciences of the United States of America 107: 8818-8823.

  • Bernhard, A., Z. Landry, A. Blevins, J. de la Torre, A. Giblin and D. Stahl. 2010. Abundance of Ammonia-Oxidizing Archaea and Bacteria along an Estuarine Salinity Gradient in Relation to Potential Nitrification Rates. Applied & Environmental Microbiology 76: 1285-1289.

  • Martens-Habbena, W., P. Berube, H. Urakawa, J. de la Torre and D. Stahl. 2009. Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria. Nature 461: 976-979.

  • Foesel, B., A. Gieseke, C. Schwermer, P. Stief, L. Koch, E. Cytryn, J.R. de la Torre, J. Van Rijn, D. Minz and H. Drake. 2008. Nitrosomonas Nm143‐like ammonia oxidizers and Nitrospira marina‐like nitrite oxidizers dominate the nitrifier community in a marine aquaculture biofilm. FEMS Microbiology Ecology 63: 192-204.

  • de la Torre, J., C. Walker, A. Ingalls, M. Konneke and D. Stahl. 2008. Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environmental Microbiology 10: 810-818.

  • Hallam, S., K. Konstantinidis, N. Putnam, C. Schleper, Y. Watanabe, J. Sugahara, C. Preston, J. de la Torre, P. Richardson and E. DeLong. 2006. Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum. Proceedings of the National Academy of Sciences of the United States of America: 18296-18301.

  • Könneke, M., A. Bernhard, J.R. de la Torre, C. Walker, J. Waterbury and D. Stahl. 2005. Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature (London): 543-546.

  • Suzuki, M.T., C.M. Preston, O. Béjà, J.R. de la Torre, G.F. Steward and E.F. DeLong. 2004. Phylogenetic Screening of Ribosomal RNA Gene-Containing Clones in Bacterial Artificial Chromosome (BAC) Libraries from Different Depths in Monterey Bay. Microbial Ecology 48: 473-488.

  • de la Torre, J.R., B. Goebel, E. Friedmann and N. Pace. 2003. Microbial Diversity of Cryptoendolithic Communities from the McMurdo Dry Valleys, Antarctica. Applied and Environmental Microbiology 69: 3858-3867.

  • de la Torre, J., L. Christianson, O. Béjà, M. Suzuki, D. Karl, J. Heidelberg and E. DeLong. 2003. Proteorhodopsin Genes Are Distributed among Divergent Marine Bacterial Taxa. Proceedings of the National Academy of Sciences of the United States of America 100: 12830-12835.

  • de la Torre, J.R., V.H. Höpker, G. Ming, M. Poo, M. Tessier-Lavigne, A. Hemmati-Brivanlou and C.E. Holt. 1997. Turning of Retinal Growth Cones in a Netrin-1 Gradient Mediated by the Netrin Receptor DCC. Neuron 19: 1211-1224.

  • Kennedy, T., T. Serafini, J.R. de la Torre and M. Tessier-Lavigne. 1994. Netrins are diffusible chemotropic factors for commissural axons in the embryonic spinal cord. Cell 78: 425-435.

  • Hemmati-Brivanlou, A., J.R. de la Torre, C. Holt and R. Harland. 1991. Cephalic expression and molecular characterization of Xenopus En-2. Development 111: 715-724.

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Educational Background

  • 1998 – Ph.D., University of California, San Francisco (Biochemistry & Molecular Biology)

  • 1990 – BA, University of California, Berkeley (Molecular Biology)

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Grants

  • NSF MIP: Diversity and Distribution of Ammonia-Oxidizing Archaea

  • NSF MRI: Acquisition of a Next-Generation Sequencer for a Shared Genomics Core Facility at San Francisco State University and the California Academy of Sciences

  • NSF PIRE: Toward a holistic and global understanding of hot spring ecosystems: A US-China based international collaboration

  • NSF RUI: Thermophilic Ammonia-Oxidzing Archaea: Physiology, Genomics and Role in Nitrogen Cycling at High Temperature.

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