Fike, D. A., C. L. Gammon, V. J. Orphan (in press). Micron-scale mapping of sulfur cycling across the oxycline of a cyanobacterial mat: A paired nanoSIMS and CARD-FISH approach. ISME Journal

Pernthaler, A., A. E. Dekas, C. Titus Brown, S. K. Goffredi, T. Embaye, and
V. J. Orphan (in press). Diverse syntrophic partnerships from deep-sea methane vents revealed by direct cell capture and metagenomics. Proc. Natl. Acad. Sci.

Tavormina, P., W. Ussler III, V.J. Orphan. (in press). Planktonic and sediment-associated aerobic methanotrophs in two methane seep systems along the North American margin. Appl. Environ. Microbiol.

Orphan, V.J., L.L. Jahnke, T. Embaye, K.A. Turk, A. Pernthaler, R.E. Summons, D.J. Des Marais (in press). Characterization and spatial distribution of methanogens and methanogenic biosignatures in hypersaline microbial mats of Baja California. Geobiology.

Jahnke L. L., Orphan V. J., Embaye T., Turk K. A., Kubo M., Summons R. E., Des Marais D. J. (in press) Lipid biomarker and phylogenetic analyses to reveal archaeal biodiversity and distribution in a hypersaline microbial mat and underlying sediment. Geobiology.

Goffredi S.K., R. Wilpiszeski, R. W. Lee, and V. J. Orphan (2008) Temporal evolution of methane cycling and phylogenetic diversity of archaea in sediments from a deep-sea whale fall in Monterey Canyon (CA). ISME Journal. 2: 204-220

Moran, J., E. Beal, J. M. Vrentas, V. J. Orphan, K. H. Freeman, and C. H. House (2007) Methyl sulfides as intermediates in the anaerobic oxidation of methane. Environ. Microbiol. 10: 162-173.

Treude, T, V. J. Orphan, K. Knittel, J. Gieske, C. H. House, and A. Boetius (2007) Consumption of methane and CO2 by methanotrophic microbial mats from gas seeps of the anoxic Black Sea. Appl. Environ. Microbiol. 73: 2271-2283.

Naehr, T.M., P. Eichhubl, V. J. Orphan, M. Hovland, C. K. Paull, W. Ussler, T. D. Lorenson, and H. G. Greene (2007) Authigenic carbonate formation at hydrocarbon seeps in continental margin sediments: A comparative study. Deep Sea Research II 54:1268-1291.

Goffredi S.K., Orphan V.J. Rouse G.W., Jahnke L., Embaye T., Turk K., Lee R. and Vrijenhoek R.C. (2005) Evolutionary innovation: A bone-eating marine symbiosis. Environ. Microbiol. 7: 1369-78.

Orphan, V. J., W. Ussler III, T. Naehr, K.-U. Hinrichs, C.H. House and C.K. Paull. 2004. Geological, geochemical, and microbiological heterogeneity of seafloor methane vents in the Eel River Basin, offshore California. Chem. Geol. 205: 265-289.

Goffredi, S.K., A. Warén, V.J., Orphan, C.L. Van Dover, R.C. Vrijenhoek. 2004. Novel forms of structural integration between microbes and a hydrothermal vent gastropod from the Indian Ocean. Appl. Environ. Microbiol., 70(5): 3082-3090.

Orphan, V. J., J. Boles, S. K. Goffredi, and E. F. Delong, 2003. Geochemical influence on community structure and microbial processes in high temperature oil reservoirs. Geomicrobiol. Journal, V20(4): 295-311.

Girguis, P.R., V.J., Orphan, S.J. Hallam, and E.F. Delong, 2003. Growth and methane oxidation rates of anaerobic methanotrophic Archaea in a continuous -flow bioreactor. Appl. Environ. Microbiol., 69(9): 5472-5482.

Orphan, V. J., C.H. House, K.-U. Hinrichs, K.D. McKeegan, and E.F. Delong, 2002. Multiple Archaeal Groups Mediate Methane Oxidation in Anoxic Cold Seep Sediments. Proc. Natl. Acad. Sci. U.S.A., 99(11): 7663-7668.

Orphan, V. J., C.H. House, K.-U. Hinrichs, K.D. McKeegan, and E.F. Delong, 2001. Methane-Consuming Archaea Revealed by Directly Coupled Isotopic and Phylogenetic Analysis. Science, 293: 484-487.

Orphan, V. J., K.-U. Hinrichs, W. Ussler III, C.K. Paull, L.T. Taylor, S. Sylva, J.M. Hayes, and E.F. Delong, 2001. Comparative analysis of methane-oxidizing archaea and sulfate-reducing bacteria in anoxic marine sediments. Appl. Environ. Microbiol., 67: 1922-1934.

Orphan, V. J., D. Haffenbradl, L. T. Taylor, and E. F. Delong, 2000. Culture-Dependent and Culture-independent characterization of Microbial Assemblages associated with high temperature petroleum reservoirs. Appl. Environ. Microbiol., 66: 700-711.

K.-U. Hinrichs, R.R. Summons, V.J. Orphan, S. Sylva, and J.M. Hayes, 2000. Molecular and isotopic analysis of anaerobic methane-oxidizing communities in marine sediments. Org. Geochem., 31: 1685-1701.

OTHER:

Clague,D, R. Zierenberg, A. Davis, S. Goffredi, J. McCain, N. Maher, E. Olsen, V. Orphan, S. Ross, K. Von Damm. 2001. RIDGE Events. October, pg. 6-12.

PATENTS

A. Pernthaler and V. Orphan. Purification of environmental microbes by in situ hybridization and subsequent capture using paramagnetic beads. Preliminary Patent Filed (Aug 2005). CIT #: 4637.