de la Torre Lab

Images from the field...

José R. de la Torre

Assistant Professor
Department of Biology
San Francisco State University
668A Hensil Hall
1600 Holloway Avenue
San Francisco, CA 94132
(415) 338-7043    (office)
(415) 338-7099    (lab)
(415) 338-2295    (fax)
Email (  jdelator

Office Hours:  Mondays, 14:00-16:00


Curriculum Vitae



Ph.D., University of California, San Francisco; Biochemistry and Molecular Biology, 1998

B.A., University of California, Berkeley; Molecular Biology (Honors), 1990










Distribution of ether lipids and composition of the archaeal community in terrestrial geothermal springs: impact of environmental variables..
Xie W, Zhang CL, Wang J, Chen Y, Zhu Y, de la Torre JR, Dong H, Hartnett HE, Hedlund BP, and Klotz MG.
Environ Microbiol., (2014) Aug 20. doi: 10.1111/1462-2920.12595. [Epub ahead of print]

Ammonia availability shapes the seasonal distribution and activity of archaeal and bacterial ammonia oxidizers in the Puget Sound Estuary.
Urakawa H, Martens-Habbena W, Huguet C, de la Torre JR, Ingalls AE, Devol AH and Stahl DA.
Limnol. Oceanogr., (2014) 59(4):1321-1335.

Competition for Ammonia Influences the Structure of Chemotrophic Communities in Geothermal Springs.
Hamilton TL, Koonce E, Howells A, Havig JR, Jewell T, de la Torre JR, Peters JW, and Boyd ES.
Appl Environ Microbiol., (2014) 80:653-661.

Physiology and diversity of ammonia-oxidizing archaea.
Stahl DA, de la Torre JR.
Annu. Rev. Microbiol., (2012) 66:83-101.

Cdv-based cell division and cell cycle organization in the thaumarchaeon Nitrosopumilus maritimus.
Pelve EA, Lindås AC, Martens-Habbena W, de la Torre JR, Stahl DA, Bernander R.
Mol. Microbiol., (2011) 82(3):555-66.

Measuring nitrification, denitrification, and related biomarkers in terrestrial geothermal ecosystems.
Dodsworth JA, Hungate B, de la Torre JR, Jiang H, Hedlund BP.
Methods Enzymol., (2011) 486:171-203.

The Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine Archaea.
Walker CB, de la Torre JR, Klotz MG, Urakawa H, Pinel N, Arp DJ, Brochier-Armanet C, Chain PSG, Chan PP, Golabgir-Anbarani A, Hemp J, Hügler M, Karr EA, Könneke M, Lang D, Lowe T, Martens-Habbena W, Sayavedra-Soto LA, Shin M, Sievert SM, Rosenzweig AC, Manning G, and Stahl DA.
Proc. Natl. Acad. Sci. USA, (2010) 107(19):8818-23.

Abundance of ammonia-oxidizing archaea and bacteria along an estuarine salinity gradient in relation to potential nitrification rates.
Bernhard AE, Landry ZC, Blevins A, de la Torre JR, Giblin AE, and Stahl DA.
Appl. Environ. Microbiol., (2010) 76(4):1285-9.

Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria.
Martens-Habbena W, Berube PM, Urakawa H, de la Torre JR and Stahl DA.
Nature, (2009) 461:976-9.

Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol.
de la Torre JR, Walker CB, Ingalls AE, Könneke M, and Stahl DA.
Environ Microbiol., (2008) 10(3):810-8.

Nitrosomonas Nm143-like ammonia oxidizers and Nitrospira marina-like nitrite oxidizers dominate the nitrifier community in a marine aquaculture biofilm.
Foesel BU, Gieseke A, Schwermer C, Stief P, Koch L, Cytryn E, de la Torre JR, van Rijn J, Minz D, Drake HL, and Schramm A.
FEMS Microbiol Ecol., (2007) 63(2):192-204.

Genomic analysis of the uncultivated marine crenarchaeon, Cenarchaeum symbiosum.
Hallam SJ, Konstantinidis KT, Putnam N, Schleper C, Watanabe Y, Sugahara J, Preston C, de la Torre J, Richardson PM, and DeLong EF.
Proc. Natl. Acad. Sci. USA, (2006) 103(48):18296-18301.

Isolation of an autotrophic ammonia-oxidizing marine archaeon.
Könneke M, Bernhard AE, de la Torre JR, Walker CB, Waterbury JB, and Stahl DA.
Nature, (2005) 437:543-6.

Phylogenetic screening of ribosomal RNA gene-containing clones in Bacterial Artificial Chromosome (BAC) libraries from different depths in Monterey Bay.
Suzuki MT, Preston CM, Béjà O, de la Torre JR, Steward GF, and DeLong EF.
Environ. Microbiol., (2004) 48:473-488.

Proteorhodopsin genes are distributed among divergent marine bacterial taxa.
de la Torre JR, Christianson LM, Béjà O, Suzuki MT, Karl DM, Heidelberg JF and DeLong EF.
Proc. Natl. Acad. Sci. USA, (2003) 100:12830-12835.

Molecular characterization of cryptoendolithic communities from the McMurdo Dry Valleys, Antarctica.
de la Torre JR, Goebel BM, Friedmann EI, and Pace NR.
Appl. Environ. Microbiol., (2003) 69:3858-67.

Turning of retinal growth cones in a netrin-1 gradient mediated by the netrin receptor DCC.
de la Torre JR, Höpker VH, Ming GL, Poo MM, Tessier-Lavigne M, Hemmati-Brivanlou A, and Holt CE.
Neuron, (1997) 19(6): 1211-24.
Netrins are diffusible chemotropic factors for commissural axons in the embryonic spinal cord.
Kennedy TE*, Serafini T*, de la Torre JR*, and Tessier-Lavigne M.
Cell, (1994) 78(3): 425-35.
* These authors contributed equally.
Cephalic expression and molecular characterization of Xenopus En-2.
Hemmati-Brivanlou A, de la Torre JR, Holt C, and Harland RM.
Development, (1991) 111(3): 715-24.
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