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In preparation for this workshop, we asked all applicants
to submit their top 5 list of subseafloor references, as well
as their top 5 list of critical-but-overlooked references.
The results with a minimum of two nominations are compiled
below in order of frequency.
Top Subseafloor
References
D'Hondt, S., Jørgensen, B. B., Miller, D. J., Batzke,
A., Blake, R., Cragg, B. A., Cypionka, H., Dickens, G. R.,
Ferdelman, T., Hinrichs, K.-U., Holm, N. G., Mitterer, R.,
Spivack, A. J., Guizhi, W., Benkins, B., Engelen, B., Ford,
K., Gettemy, G., Rutherford, S. D., Sass, H., Skilbeck, C.
G., Aiello, I. W., Guerin, G., House, C. H., Inagaki, F.,
Meister, P., Naehr, T., Niitsuma, S., Parkes, R. J., Schippers,
A., Smith, D. C., Teske, A., Wiegel, J., Padilla, C. N., and
Acosta, J. L. 2004. Distributions
of microbial activities in deep subseafloor sediments.
Science 306, 2216-2221.
Cowen, J. P., Giovannoni, S. J., Kenig, F., Johnson, H. P.,
Butterfield, D. A., Rappe, M. S., Hutnak, M., and Lam, P.
2003. Fluids
from aging ocean crust that support microbial life. Science
203, 120-123.
Bach, W. and Edwards, K. J. 2003. Iron
and sulfide oxidation within the basaltic ocean crust: Implications
for chemolithoautotrophic microbial biomass production.
Geochim Cosmochim Acta 67, 3871-3887.
Edwards, K. J., Bach, W., and McCollom, T. M. 2005. Geomicrobiology
in oceanography: Microbe-mineral interactions at and below
the seafloor. Trends Microbiol 13, 449-456.
Schippers, A., Neretin, L. N., Kallmeyer, J., Ferdelman, T.
G., Cragg, B. A., Parkes, R. J., and Jorgensen, B. B. 2005.
Prokaryotic
cells of the deep sub-seafloor biosphere identified as living
bacteria. Nature 433, 861-864.
Whitman, W. B., Coleman, D. C., and Wiebe, W. J., 1998. Prokaryotes:
The unseen majority. Proc Natl Acad Sci USA 95, 6578-6583.
Biddle, J. F., Lipp, L. S., Lever, M. A., Lloyd, K. G., Sorensen,
K. B., Anderson, R., Fredricks, H. F., Elvert, M., Kelly,
T. J., Schrag, D. P., Sogin, M. L., Brenchley, J. E., Teske,
A., House, C. H., and Hinrichs, K.-U. 2006. Heterotrophic
archaea dominate sedimentary subsurface ecosystems off Peru.
Proc Natl Acad Sci USA 103, 3846-3851.
D'Hondt, S., Rutherford, S., and Spivack, A. J. 2002. Metabolic
activity of subsurface life in deep-sea sediments. Science
295, 2067-2070.
Huber, J. A., Johnson, H. P., Butterfield, D. A., and Baross,
J. A. 2006. Microbial
life in ridge flank crustal fluids. Environ Microbiol
8, 88-99.
Inagaki, F., Nunoura, T., Nakagawa S., Teske A., Lever M.,
Lauer, A., Suzuki, M., Takai, K., Delwiche, M., Colwell, F.
S., Nealson, K. H., Horikoshi, K., D'Hondt, S., and Jørgensen,
B. B. 2006. Biogeographical
distribution and diversity of microbes in methane hydrate-bearing
deep marine sediments on the Pacific Ocean Margin. Proc
Natl Acad Sci USA 103, 2815-2820.
Jørgensen, B. B., and Boetius, A. 2007. Feast
and famine — microbial life in the deep-sea bed.
Nat Rev Microbiol 5, 770-781.
Parkes, R. J., Cragg, B. A., Bale S. J., Getliff, J. M., Goodman,
K., Rochelle, P. A., Fry, J. C., Weightman, A. J., and Harvey
S. M. 1994. Deep
bacterial biosphere in Pacific Ocean sediments. Nature
371, 410-413.
Parkes, R. J., Webster, G., Cragg, B. A., Weightman, A. J.,
Newberry, C. J., Ferdelman, T. G., Kallmeyer, J., Jørgensen,
B. B., Aiello, I. W., and Fry, J. C. 2005. Deep
sub-seafloor prokaryotes stimulated at interfaces over geological
time. Nature 436, 390-394.
Santelli, C. M., Orcutt, B. N., Banning, E., Bach, W., Moyer,
C. L., Sogin, M. L., Staudigel, H., and Edwards, K. J. 2008.
Abundance
and diversity of microbial life in ocean crust. Nature
453, 653-656.
Amend, J. P., and Teske, A. 2005. Expanding
frontiers in deep subsurface microbiology. Palaeogeogr
Palaeoclimatol Palaeoecol 219, 131-155.
Becker, K., and Davis, E. E. 2005. A
review of CORK designs and operations during the Ocean Drilling
Program. In Fisher, A. T., Urabe, T., Klaus, A., and the
Expedition 301 Scientists (eds), Proc IODP 301. Integrated
Ocean Drilling Program Management International, College Station,
TX.
Biddle, J. F., Fitz-Gibbon, S., Schuster, S. C., Brenchley,
J. E., and House, C. H. 2008. Metagenomic
signatures of the Peru Margin subseafloor biosphere show a
genetically distinct environment. Proc Natl Acad Sci USA
105, 10583-10588.
Deming, J. W., and Baross, J. A. 1993. Deep-sea
smokers: Windows to a subsurface biosphere? Geochim Cosmochim
Acta 57, 3219-3230.
Fisher, A. T., Davis, E. E., Hutnak, M., Spiess, V., Zühlsdorff,
L., Cherkaoui, A., Christiansen, L., Edwards, K., Macdonald,
R., Villinger, H., Mottl, M. J., Wheat, C. G., and Becker,
K. 2003. Hydrothermal
circulation across 50 km on a young ridge flank: the role
of seamounts in guiding recharge and discharge at a crustal
scale. Nature 421, 618-621.
Fisk, M. R., Giovannoni, S. J., and Thoreth, I. H. 1998. Alteration
of oceanic volcanic glass: Textural evidence of microbial
activity. Science 281, 978-980.
Fry, J. C., Parkes, R. J., Cragg, B. A., Weightman, A. J.,
and Webster, G. 2008. Prokaryotic
biodiversity and activity in the deep subseafloor biosphere.
FEMS Microbiol Ecol 66, 181-196.
Huber, J. A., Mark Welch, D. B., Morrison, H. G., Huse, S.
M., Neal, P. R., Butterfield, D. A., and Sogin, M. L. 2007.
Microbial
population structures in the deep marine biosphere. Science
318, 97-100.
Lipp, J. S., Morono, Y., Inagaki, F., and Hinrichs, K.-U.
2008. Significant
contribution of Archaea to extant biomass in marine subsurface
sediments. Nature 454, 991-994.
Rouxel, O., Ono, S., Alt, J., Rumble, D., and Ludden, J. 2008.
Sulfur
isotope evidence for microbial sulfate reduction in altered
oceanic basalts at ODP Site 801. Earth Planet Sci Lett
268, 110-123.
Sogin, M. L., Morrison, H. G., Huber, J. A., Mark Welch, D.
B., Huse, S. M., Neal, P. R., Arrieta, J. M., and Herndl,
G. J. 2006. Microbial
diversity in the deep sea and the underexplored "rare
biosphere". Proc Natl Acad Sci USA 103, 12115-12120.
Wilcock, W. S. D., DeLong, E. F., Kelley, D. S., Baross, J.
A., and Cary, S. C. (eds). 2004. The Subseafloor Biosphere
at Mid-Ocean Ridges, Geophys Monogr Ser 144. American Geophysical
Union, Washington DC. 1-11.
Top Critical-But-Overlooked
References
Hoehler, T. M. 2004. Biological
energy requirements as quantitative boundary conditions for
life in the subsurface. Geobiology 2, 205-215.
Engelen B., Ziegelmuller, K., Wolf, L., Kopke, B., Gittel,
A., Cypionka, H., et al. 2008. Fluids
from the oceanic crust support microbial activities within
the deep biosphere. Geomicrobiol J 25, 56-66.
Horsfield, B., Schenk, H.-J., Zink, K., Ondrak, R., Dieckmann,
V., Kallmeyer, J., Mangelsdorf, K., Di Primio, R., Wilkes,
H., Parkes, R. J., and Fry, J. C. 2006. Living
microbial ecosystems within the active zone of catagenesis:
Implications for feeding the deep biosphere. Earth Planet
Sci Lett 246, 55-69.
Kallmeyer, J., Smith, D. C., Spivack, A. J., D'Hondt, S. 2008.
New
cell extraction procedure applied to deep subsurface sediments.
Limnol Oceanogr Methods 6, 236-245.
Kimura, H., Ishibashi, J.-I., Masuda, H., Kato, K., and Hanada,
S. 2007. Selective
phylogenetic analysis targeting 16S rRNA genes of hyperthermophilic
archaea in the deep-subsurface hot biosphere. Appl Environ
Microbiol 73, 2110-2117.
Lang, S. Q., Butterfield, D. A., Lilley, M. D., Johnson, H.
P., and Hedges, J. I. 2006. Dissolved
organic carbon in ridge-axis and ridge-flank hydrothermal
systems. Geochim Cosmochim Acta 70, 3830-3842.
McCollom, T. M., and Shock, E. L. 1997. Geochemical
constraints on chemolithoautotrophic metabolism by microorganisms
in seafloor hydrothermal systems. Geochim Cosmochim Acta
61, 4375-4391.
Roussel, E. G., Bonavita, M. C., Querellou, J., Cragg, B.
A., Webster, G., Prieur, D., and Parkes, R. J. 2008. Extending
the sub-sea-floor biosphere. Science 320, 1046.
Summit, M., and Baross, J. A. 2001. A
novel microbial habitat in the mid-ocean ridge subseafloor.
Proc Natl Acad Sci USA 98, 2158-2163.
Bach, W. and Edwards,
K. J. 2003. Iron
and sulfide oxidation within the basaltic ocean crust: Implications
for chemolithoautotrophic microbial biomass production.
Geochim Cosmochim Acta 67, 3871-3887.
Edwards, K. J., Bach,
W., McCollom, T. M., and Rogers, D. R. 2004. Neutrophilic
iron-oxidizing bacteria in the ocean: Their habitats, diversity,
and roles in mineral deposition, rock alteration, and biomass
production in the deep-sea. Geomicrobiol J 21, 393-404.
Jørgensen, B.
B., and D'Hondt, S. 2006. A
starving majority deep beneath the seafloor. Science 314,
932-934.
Lin, L.-H., Wang, P.-L.,
Rumble, D., Lippmann-Pipke, J., Boice, E., Pratt, L. M., Sherwood
Lollar, B., Brodie, E., L., Hazen, T. C., Andersen, G. L.,
DeSantis, T. Z., Moser, D. P., Kershaw, D., and Onstott, T.
C. 2006. Long-term
sustainability of a high-energy, low-diversity crustal biome.
Science 314, 479-482.
Sørensen, K. B.,
and Teske, A. 2006. Stratified
communities of active archaea in deep subsurface sediments.
Appl Environ Microbiol 72, 4596-4603.
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