Publications

For your convenience, here is a list of select publications, including links to PDF files.

Manuscripts In Review

Bose, A., Vidoudez, C., Parra, E.A., Gardel, E.J. and Girguis, P.R. Submitted. Mechanisms of Microbial Photoelectroautotrophy by Rhodopseudomonas palustris TIE-1.

Liao, L., Wankel, S.D., Cavanaugh, C.M., and Girguis, P.R., Submitted to the Marine Ecology Progress Series. Respiration or assimilation: nitrogen metabolism in the vestimentiferan tubeworm Ridgeia piscesae symbiosis.

 

Publications

Frank, K., Rogers, D.R., Olins, H.C., Vidoudez, C., and Girguis, P.R. 2013. Characterizing the distribution and rates of microbial sulfate reduction at Middle Valley hydrothermal vents. The ISME Journal,1-11 doi:10.1038/ismej.2013.17

Olins, H.C., Rogers, D.R., Frank, K., Vidoudez, C., and Girguis, P.R. 2013. Assessing the influence of physical, geochemical and biological factors on anaerobic microbial primary productivity within hydrothermal vent chimneys. Geobiology, 11:279-293. doi: 10.1111/gbi.12034

Robidart, J.R., Callister, S.J.,Song, P., Nicora, C.D., Wheat, C.G., and Girguis, P.R.2013. Characterizing microbial community and geochemical dynamics at hydrothermal vents using osmotically driven continuous fluid samplers. Envirnomental Science and Technology, 47(9): 4399-4407. doi: 10.1021/es3037302

Sanders, J.G., Beinart, R.A., Stewart, F.J., Delong, E.F., and Girguis, P.R. 2013. Metatranscriptomics reveal differences in in situ energy and nitrogen metabolism among hydrothermal vent snail symbionts. The ISME Journal, 1-12. doi:10.1038/ismej.2013.45

Wankel, S.D., Huang, Y., Gupta, M., Provencal, R., Leen, J.B. Fahrland, A., Vidoudez, C., and Girguis, P.R. 2013. Characterizing the Distribution of Methane Sources and Cycling in the Deep Sea via in Situ Stable Isotope Analysis. Environmental Science and Technology, 47:1478-1486. doi: 10.1021/es303661w

Sylvan, J.B., Sia, T.Y., Haddad, A.G., Briscoe, L.J., Toner, B.M., and Girguis, P.R.2013. Low temperature geomicrobiology follows host rock composition along a geochemical gradient in Lau Basin. Fontiers of Microbiology, 4(61):1-18. doi: 10.3389/fmicb.2013.00061

Choffines, Eileen R., LeighAnne Olsen, and Theresa M. Wizemann, et al., The Science and Applications of Microbial Genomics: Workshop Summary. Washington, D.C.: The National AcademiesPress, 2013.

Kolodkin-Gal, I., Elsholz, A.K.W., Muth, K., Girguis, P.R., Kolter, R., and Losick, R. 2013. Respiration control of multicellularity in Bacillus subtilis by a complex of the cytochrome chain with a membrane-embedded histidine kinase. Genes And Development, 27:887-899. doi: 10.1101/gad.215244.113

Adams, M.M., Hoarfrost, A.L., Bose, A., Joye, S.B., and Girguis, P.R. 2013. Anaerobic oxidation of short-chain alkanes in hydrothermal sediments: potential influences on sulfur cycling and microbial diversity. Frontiers in Microbiology, 4:1-11. doi: 10.3389/fmicb.2013.00110

Beinart, R.A., Sanders, J.G., Faure, B., Sylva, S.P., Lee, R.W., Becker, E.L., Gartman, A., Luther III, G.W., Seewald, J.S., Fisher, C.R., and Girguis, P.R. 2012. Evidence for the role of endosymbionts in regional-scale habitat partitioning by hydrothermal vent symbioses. PNAS, 109(47):E3241-3250. doi:10.1073/pnas.1202690109

Perner, M., Gonnella, G., Hourdez, S., Bohnke, S., Kurtz, S., and Girguis, P.R. 2012. In situ chemistry and microbial community compositions in five deep-sea hydrothermal fluid samples from Irina II in the Logatchev field. Environmental Microbiology. doi:10.1111/1462-2920.12038

Wankel, S.D., Adams, M.M., Johnston, D., Joyce, S.B. and Girguis, P.R. 2012. Anaerobic methane oxidation in metalliferous hydrothermal sediment: influence on carbon flux and decoupling from sulfate reduction. Environmental Microbiology. doi:10.1111/j.1462-2920.2012.02825.x

Gardel, E.J., Nielsen, M.E., Griselda, P.T., and Girguis, P.R. 2012. Duty cycling influences current generation in multi-anode environmental microbial fuel cells. Environmental Science and Technology, 46(9): 5222-5229. doi:10.1021/es204622m

Girguis, P.R., and Holden,J. 2012. On the potential for bioenergy and biofuels from hydrothermal vent microbes. Oceanography, 25(1): 213-217. doi:10.5670/oceanog.2012.20

Tivey, M.K., Becker, R., Beinart, R.A., Fisher, C.F., Girguis, P.R., Langmuir, P.J., Michael, P.J., and Reysenbach, A-L. 2012. Links from mantle to microbe at the Lau Intergrated Study Site: Insights from a back-arc spreading center. Oceanography, 25(1): 62-77 doi:10.5670/oceanog.2012.04

Dilly, G.F., Young, C.F., Lane, W.S., Pangilinan, J., Lee, R.W., and Girguis, P.R. 2012. Exploring the limit of metazoan thermal tolerance via comparative proteomics: thermally induced changes in protein abundance by two hydrothermal vent polychaetes. Proceedings of the Royal Societyof London Series B, 279: 3347-3356. doi:10.1098/rspb.2012.0098

Peterson, J.M., Zielinski, F.U., Pape, T., Seifert, R., Moraru, C., Amann,R., Hourdez, S., Girguis, P.R., Wankel, S.D., Barbe, V., Pelletier, E., Flink, D., Borowski, C., Bach, W., and Dubilier, N. 2011. Hydrogen is an energy source for hydrothermal vent symbioses. Nature, 474: 176-180, 11 August 2011. doi:10.1038/nature10325

Wankel, S.D., Germanovich, L., LilleyM.D., Genc, G., DiPerna, C.J., Bradley, A.S., Olson, E.J., and Girguis, P.R. 2011. Influence of subsurface biosphere on geochemical fluxes from diffuse hydrothermal fluid. Nature Geosciences, 4:461-468. doi:10.1038/Ngeo1183

Robidart, J.C., Roque, A., Song, P., and Girguis, P.R. 2011. Linking Hydrothermal Geochemistry to Organismal Physiology: Physiological Versatility in Riftia pachyptila from Sedimented and Basalt-hosted Vents. PLoS One, 6(7): e21692. doi:10.1371/journal.pone.0021692

Gartman, A., Yucel, M., Madison, A.S., Chu, D.W., Ma, S., Janzen, C.P., Becker, E.L., Beinart, R.A., Girguis, P.R., and LutherIII, G.W. 2011 Sulfide Oxidation across Diffuse Flow Zones of Hydrothermal Vents. Aquatic Geochemistry, 17(4): 583-601 doi:10.1007/s10498-011-9136-1

Luther III, G.W., Findlay, A.J., MacDonald, D.J. Owings, S.M. Hanson, T.E,. Beinart, R.A., and Girguis, P.R. 2011. Thermodynamics and kinetics of sulfide oxidation by oxygen: a look at inorganically controlled reactions and biologically mediated processes in the environment. Frontiers in Microbiology, 2(62): 1-9. doi: 10.3389/fmicb.2011.00062

Gong, Y., Radachowsky, S.E., Wolf, M., Nielson, M.E., Girguis, P.R., and Reimers, C.E. 2011. Benthic Microbial Fuel Cell as Direct Power Source for an Acoustic Modem and Seawater Oxygen/Temperature Sensor System. Environmental Science and Technology 45(11):5047-5053. doi:10.1021/es104383q.

Childress, J.J. and Girguis, P.R. 2011. The metabolic demands of endosymbiotic chemoautotrophic metabolism on host physiological capacities. Journal of Experimental Biology, 214: 312-325. doi:10.1242/jeb.049023

Rabaey, K., Girguis, P.R. and Nielsen, L.K. 2011. Metabolic and practical considerations on microbial electrosynthesis. Current Opinion in Biotechnology, 22(3): 371-377. doi:10.1016/j.copbio.2011.01.010

Scott, K.M., Fox, G., and Girguis, P.R. 2011. Measuring Isotope Fractionation by Autotrophic Microorganisms and Enzymes. Methods in Enzymology, 494: 281-299. doi:10.1016/B978-0-12-385112-3.00014-7

Wankel, S.D., S.B. Joye, Samarkin, V.A., Shah, S.R., Friederich, G., Kyriazi, J., and Girguis, P.R. 2010. New constraints on methane fluxes and rates of anaerobic methane oxidation in a Gulf of Mexico brine pool via in situ mass spectrometry. Deep Sea Research II. doi:10.1016/j.dsr2.2010.05.009

Girguis, P.R., Nielsen, M.E., and Figueroa, I. 2010. Harnessing energy from marine productivity using bioelectrochemical systems. Current Opinions in Biotech., 21(3): 252-258. doi:10.1016/j.copbio.2010.03.015.

Girguis, P.R., Nielsen, M.E. and Reimers, CE. 2010. Fundamentals of sediment-hosted microbial fuel cells. In Bioelectrochemical systems, First Edition (Ed. K. Raebey). Springer Verlag Press.

Nielsen, M.E., Wu, D.M., Girguis, P.R. and Reimers, C.E. 2009. Influence of substrate on electron transfer mechanisms in chambered benthic microbial fuel cells. Environ. Sci. Technol., 2009, 43 (22): 8671–8677. doi:10.1021/es9013773.

Yancey, P.H., Ishikawa, J., Meyer, B., Girguis, P.R., and Lee, R. 2009. Thiotaurine and Hypotaurine Contents in Hydrothermal-Vent Polychaetes without Thiotrophic Endosymbionts: Correlation with Sulfide Exposure. J. Exp. Zool., 311A: 439-447. doi:10.1002/jez.541.

White, H.K., Reimers, C.E., Cordes, E.E., Dilly, G.F., and Girguis, P.R. 2009. Quantitative population dynamics of microbial communities in plankton-fed microbial fuel cells: examining the relationship between power production, geochemistry and microbial ecology. The ISME Journal (26 Feb 2009) doi:10.1038/ismej.2009.12

Seibel, B.A., Girguis, P.R., and Childress, J.J., 2009. Variation in evolved limits to life preclude universal tolerance indices: a critique of the Respiration Index. Science e-Letters. http://www.sciencmag.org/cgi/eletters/324/5925/347#12814

Nielsen, M.E., Reimers, C.E., White, H.K., Sharma, S and Girguis, P.R. 2008. Sustainable energy from deep ocean cold seeps. Energy and Environmental Science, 1(5): 584-593. doi:10.1039/B811899J

Nyholm, S. V., J. Robidart, and Girguis, P.R. 2008. Coupling metabolite flux to transcriptomics: insights into the molecular mechanisms underlying primary productivity by the hydrothermal vent tubeworm Ridgeia piscesae. Biol. Bull. 214: 255–265.

Newton, I.L.G., Girguis, P.R., and Cavanaugh, C.M. 2008. Comparative genomics of vesicomyid clam (Bivalvia:Mollusca) chemosynthetic symbionts. BMC Genomics, 9: 585. doi:10.1186/1471-2164-9-585

Reimers, C.E., Stecher III, H.A., Westall, J.C., Alleau, Y., Howell, K.A., Soule, L., White, H.K., and Girguis, P.R. 2007. Substrate degradation kinetics, microbial diversity and the current efficiency of microbial fuel cells supplied with marine planktonApplied and Environmental Microbiology, 73(21): 7029-7040.doi:10.1128/AEM.01209-07

Fisher, C. R. and Girguis, P.R. 2007. A proteomic snapshot of life at a vent. Science, 315: 198-199 (Perspectives). doi:10.1126/science.1137739

Girguis, P.R.*, McBride, L. R.*, and Reimers, C.E. 2006. Power storage and conversion from an ocean microbial energy source. Proceedings of the Marine Technology Society / Institute of Electrical and Electronics Engineers. pp1-5. doi:10.1109/oceans.2006.306847 (* = authors contributed equally).

Girguis, P.R., Childress, J.J. 2006. Metabolite uptake, stoichiometry and chemoautotrophic function of the hydrothermal vent tubeworm Riftia pachyptila: Responses to environmental variations in substrate concentrations and temperature. Journal of Experimental Biology, 209: 3516-3528. doi:10.1242/jeb.02404

Girguis, P.R. and Lee, R.W. 2006. Thermal tolerance and preference of alvinellids. Science, 312: 231. doi:10.1126/science.1125286

Reimers, C., Girguis, P.R., Stecher III, H.A., Tender, L.M., Ryckelynck, N., and Whaling, P. 2006. Microbial fuel cell energy from an ocean cold seep. Geobiology, 4: 123–136.doi:10.1111/j.1472-4669.2006.00071.x

Girguis, P.R., Cozen, A., DeLong, E.E. 2005. Growth and Population Dynamics of Anaerobic Methane-Oxidizing Archaea and Sulfate-Reducing Bacteria in a Continuous-Flow Bioreactor. Applied and Environmental Microbiology, 71: 3725-3733.

Girguis, P.R., Cozen, A., and DeLong, E.E. 2005. Growth rates of methane-oxidizing archaeal-bacterial consortia in deep-sea marine sediments: insights into the physiology of microbially-mediated anaerobic methane oxidation. Applied and Environmental Microbiology, 71: 3725-3733. doi:10.1128/AEM.71.7.3725.3733.2005

Childress J.J., Fisher C.R., Felbeck, H., and Girguis, P.R. 2003. On the edge of a deep biosphere: true animals in extreme environments. In The Subseafloor Biosphere at Mid-Ocean Ridges, (eds. W.D. Wilcock, D.S. Kelley, J.A. Baross, E. DeLong, C. Cary), American Geophysical Union Monographs. Volume 144, pages 41-49.

Girguis, P.R., Orphan, V.J., Hallam, S.J., and DeLong, E.F. 2003. Growth and methane oxidation rates of anaerobic methanotrophic archaea in a continuous flow bioreactor. Applied and Environmental Microbiology, 69(9): 5472-5482. doi:10.1128/AEM.69.9.5483-5491.2003

Hallam, S.J., Girguis, P.R., Preston, C.M., Richardson, P.M., DeLong. E.F. 2003. Identification of methyl coenzyme m Reductase A (mcrA) genes associated with methane-oxidizing archaea. Applied and Environmental Microbiology, 69(9): 5492-5502. doi:10.1128/AEM.69..9.5483-5491.2003

Girguis, P.R., Childress, J.J., Freytag, J.A., Klose, K.A., and Stuber, R. 2002. Effects of metabolite uptake on proton-equivalent elimination by two species of deep-sea vestimentiferan tubeworm, Riftia pachyptila and Lamellibrachia cf luymesi. Journal of Exp. Biology, 205: 3055-3066.

Freytag, J.K., Girguis, P.R., Birquist, D.A., Fisher, C.R., and Childress, J.J. 2001. A paradox resolved: Sulfide acquisition by roots of seep tubeworms sustains net chemoautotrophy. Proceedings of the National Academies of Science, 98(23): 13408-13413. doi:10.1073/pnas.231589498.

Girguis, P.R. 2000. Metabolite flux of the hydrothermal vent tubeworm Riftia pachyptila: Stoichiometric balance of the chemoautotrophic symbiosis and the potential rates of primary production. U.C. Santa Barbara. Dissertation.

Girguis, P.R., Lee, R.W., Childress, J.J., Pospesel, M., Desaulniers, N.T., Zal, F., Felbeck, H. 2000. Fate of Nitrate acquired by the hydrothermal vent tubeworm Riftia pachyptila. Applied and Environmental Microbiology, 66(7): 2783-27909.

Goffredi, S.K., Girguis, P.R., Childress. J.J., Desaulniers, N.T. 1999. Physiological functioning of carbonic anhydrase in the hydrothermal vent tubeworm Riftia pachyptilaBiological Bulletin, 196: 257-264.

Girguis, P.R. and Childress, J.J. 1998. H+ equivalent elimination by the tubeworm Riftia pachyptila. Cahiers de Marine Biologie, 39: 295-296.