-
1
-
-
0036682224
-
PRIMROSE: A computer program for generating and estimating the phylogenetic range of 16S rRNA oligonucleotide probes and primers in conjunction with the RDP-II database
-
Ashelford, K. E., A. J. Weightman, and J. C. Fry. 2002. PRIMROSE: a computer program for generating and estimating the phylogenetic range of 16S rRNA oligonucleotide probes and primers in conjunction with the RDP-II database. Nucleic Acids Res. 30:3481-3489.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 3481-3489
-
-
Ashelford, K.E.1
Weightman, A.J.2
Fry, J.C.3
-
2
-
-
0030899619
-
Desulfovibrio profundis sp. nov., a novel barophilic sulfate-reducing bacterium from the deep sediment layers in the Japan Sea
-
Bale, S. J., K. Goodman, P. A. Rochelle, J. R. Marchesi, J. C. Fry, A. J. Weightman, and R. J. Parkes. 1997. Desulfovibrio profundis sp. nov., a novel barophilic sulfate-reducing bacterium from the deep sediment layers in the Japan Sea. Int. J. Syst. Bacteriol. 47:515-521.
-
(1997)
Int. J. Syst. Bacteriol.
, vol.47
, pp. 515-521
-
-
Bale, S.J.1
Goodman, K.2
Rochelle, P.A.3
Marchesi, J.R.4
Fry, J.C.5
Weightman, A.J.6
Parkes, R.J.7
-
3
-
-
0035068917
-
A multiple-outgroup approach to resolving division-level phylogenetic relationships using 16S rDNA data
-
Daleri, D., P. Hugenholtz, and L. L. Blackall. 2001. A multiple-outgroup approach to resolving division-level phylogenetic relationships using 16S rDNA data. Int. J. Syst. Evol. Microbiol. 51:385-391.
-
(2001)
Int. J. Syst. Evol. Microbiol.
, vol.51
, pp. 385-391
-
-
Daleri, D.1
Hugenholtz, P.2
Blackall, L.L.3
-
4
-
-
0013258174
-
Molecular characterization of sulfate-reducing bacteria in the Guaymas Basin
-
Dhillon, A., A. Teske, J. Dillon, D. A. Stahl, and M. L. Sogin. 2003. Molecular characterization of sulfate-reducing bacteria in the Guaymas Basin. Appl. Environ. Microbiol. 69:2765-2772.
-
(2003)
Appl. Environ. Microbiol.
, vol.69
, pp. 2765-2772
-
-
Dhillon, A.1
Teske, A.2
Dillon, J.3
Stahl, D.A.4
Sogin, M.L.5
-
5
-
-
0034069650
-
Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria
-
Dojka, M. A., J. K. Harris, and N. R. Pace. 2000. Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria. Appl. Environ. Microbiol. 66:1617-1621.
-
(2000)
Appl. Environ. Microbiol.
, vol.66
, pp. 1617-1621
-
-
Dojka, M.A.1
Harris, J.K.2
Pace, N.R.3
-
6
-
-
0033582323
-
Microsporidia are related to fungi: Evidence from the largest subunit of RNA polymerase II and other proteins
-
Hirt, R. P., J. M. Logsdon, B. Healy, M. W. Dorey, W. F. Doolittle, and T. M. Embley. 1999. Microsporidia are related to fungi: evidence from the largest subunit of RNA polymerase II and other proteins. Proc. Natl. Acad. Sci. USA 96:580-585.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 580-585
-
-
Hirt, R.P.1
Logsdon, J.M.2
Healy, B.3
Dorey, M.W.4
Doolittle, W.F.5
Embley, T.M.6
-
7
-
-
0031662188
-
Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity
-
Hugenholtz, P., B. M. Goebel, and N. R. Pace. 1998. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180:4765-4774.
-
(1998)
J. Bacteriol.
, vol.180
, pp. 4765-4774
-
-
Hugenholtz, P.1
Goebel, B.M.2
Pace, N.R.3
-
8
-
-
0035748326
-
Archaeology of Archaea: Geomicrobiological record of Pleistocene thermal events concealed in a deep-sea subseafloor environment
-
Inagaki, F., K. Takai, T. Komatsu, T. Kanamatsu, K. Fujioka, and K. Horikoshi. 2001. Archaeology of Archaea: geomicrobiological record of Pleistocene thermal events concealed in a deep-sea subseafloor environment. Extremophiles 5:385-392.
-
(2001)
Extremophiles
, vol.5
, pp. 385-392
-
-
Inagaki, F.1
Takai, K.2
Komatsu, T.3
Kanamatsu, T.4
Fujioka, K.5
Horikoshi, K.6
-
9
-
-
2142857748
-
Microbial communities associated with geological horizons in coastal subseafloor sediments from the sea of Okhotsk
-
Inagaki, F., M. Suzuki, K. Takai, H. Oida, T. Sakamoto, K. Aoki, K. H. Nealson, and K. Horikoshi. 2003. Microbial communities associated with geological horizons in coastal subseafloor sediments from the sea of Okhotsk. Appl. Environ. Microbiol. 69:7224-7235.
-
(2003)
Appl. Environ. Microbiol.
, vol.69
, pp. 7224-7235
-
-
Inagaki, F.1
Suzuki, M.2
Takai, K.3
Oida, H.4
Sakamoto, T.5
Aoki, K.6
Nealson, K.H.7
Horikoshi, K.8
-
10
-
-
0031980181
-
Extremely barophilic bacteria isolated from the Mariana Trench, Challenger Deep, at a depth of 11,000 meters
-
Kato, C., L. Li, Y. Nogi, Y. Nakamura, J. Tamaoka, and K. Horikoshi. 1998. Extremely barophilic bacteria isolated from the Mariana Trench, Challenger Deep, at a depth of 11,000 meters. Appl. Environ. Microbiol. 64:1510-1513.
-
(1998)
Appl. Environ. Microbiol.
, vol.64
, pp. 1510-1513
-
-
Kato, C.1
Li, L.2
Nogi, Y.3
Nakamura, Y.4
Tamaoka, J.5
Horikoshi, K.6
-
11
-
-
0038107871
-
Molecular analysis of deep subsurface microbial communities in Nankai Trough sediments (ODP Leg 190, site 1176)
-
Karmas, K. A., D. C. Smith, V. Edgcomb, and A. Teske. 2003. Molecular analysis of deep subsurface microbial communities in Nankai Trough sediments (ODP Leg 190, site 1176). FEMS Microbiol. Ecol. 45:115-125.
-
(2003)
FEMS Microbiol. Ecol.
, vol.45
, pp. 115-125
-
-
Karmas, K.A.1
Smith, D.C.2
Edgcomb, V.3
Teske, A.4
-
12
-
-
0028181246
-
Reconstructing evolutionary trees from DNA and protein sequences: Paralinear distances
-
Lake, J. A. 1994. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proc. Natl. Acad. Sci. USA 91:1455-1459.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 1455-1459
-
-
Lake, J.A.1
-
13
-
-
0035514153
-
Bacteria and Archaea physically associated with Gulf of Mexico gas hydrates
-
Lanoil, B. D., R. Sassen, M. T. La Duc, S. T. Sweet, and K. H. Nealson. 2001. Bacteria and Archaea physically associated with Gulf of Mexico gas hydrates. Appl. Environ. Microbiol. 67:5143-5153.
-
(2001)
Appl. Environ. Microbiol.
, vol.67
, pp. 5143-5153
-
-
Lanoil, B.D.1
Sassen, R.2
La Duc, M.T.3
Sweet, S.T.4
Nealson, K.H.5
-
14
-
-
0032882298
-
Microbial diversity in sediments collected from the deepest cold-seep area, the Japan Trench
-
Li, L., C. Kato, and K. Horikoshi. 1999. Microbial diversity in sediments collected from the deepest cold-seep area, the Japan Trench. Mar. Biotechnol. 1:391-400.
-
(1999)
Mar. Biotechnol.
, vol.1
, pp. 391-400
-
-
Li, L.1
Kato, C.2
Horikoshi, K.3
-
15
-
-
0029935637
-
Evolution of chlorophyll and bacteriochlorophyll: The problem of invariant sites in sequence analysis
-
Lockhart, P. J., A. W. D. Larkum, M. A. Steel, P. J. Waddel, and D. Penny. 1996. Evolution of chlorophyll and bacteriochlorophyll: the problem of invariant sites in sequence analysis. Proc. Natl. Acad. Sci. USA 93:1930-1934.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 1930-1934
-
-
Lockhart, P.J.1
Larkum, A.W.D.2
Steel, M.A.3
Waddel, P.J.4
Penny, D.5
-
16
-
-
0031937375
-
Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA
-
Marches!, J. R., T. Sato, A. J. Weightman, T. A. Martin, J. C. Fry, S. J. Hiom, and W. G. Wade. 1998. Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl. Environ. Microbiol. 64:795-799.
-
(1998)
Appl. Environ. Microbiol.
, vol.64
, pp. 795-799
-
-
Marchesi, J.R.1
Sato, T.2
Weightman, A.J.3
Martin, T.A.4
Fry, J.C.5
Hiom, S.J.6
Wade, W.G.7
-
17
-
-
0034535113
-
Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis
-
Marchesi, J. R., A. J. Weightman, B. A. Cragg, R. J. Parkes, and J. C. Fry. 2001. Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis. FEMS Microbiol. Ecol. 34:221-228.
-
(2001)
FEMS Microbiol. Ecol.
, vol.34
, pp. 221-228
-
-
Marchesi, J.R.1
Weightman, A.J.2
Cragg, B.A.3
Parkes, R.J.4
Fry, J.C.5
-
18
-
-
0027460328
-
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
-
Muyzer, G., E. C. De Waal, and A. G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59:695-700.
-
(1993)
Appl. Environ. Microbiol.
, vol.59
, pp. 695-700
-
-
Muyzer, G.1
De Waal, E.C.2
Uitterlinden, A.G.3
-
19
-
-
1342289953
-
Diversity of prokaryotes and methanogenesis in deep subsurface sediments from the Nankai Trough, Ocean Drilling Program Leg 190
-
Newberry, C. J., G. Webster, A. J. Weightman, and J. C. Fry. 2004. Diversity of prokaryotes and methanogenesis in deep subsurface sediments from the Nankai Trough, Ocean Drilling Program Leg 190. Environ. Microbiol. 6:274-287.
-
(2004)
Environ. Microbiol.
, vol.6
, pp. 274-287
-
-
Newberry, C.J.1
Webster, G.2
Weightman, A.J.3
Fry, J.C.4
-
20
-
-
0028162155
-
Deep bacterial biosphere in Pacific Ocean sediments
-
Parkes, R. J., B. A. Cragg, S. J. Bale, J. M. Getliff, K. Goodman, P. A. Rochelle, J. C. Fry, A. J. Weightman, and S. M. Harvey. 1994. Deep bacterial biosphere in Pacific Ocean sediments. Nature 371:410-413.
-
(1994)
Nature
, vol.371
, pp. 410-413
-
-
Parkes, R.J.1
Cragg, B.A.2
Bale, S.J.3
Getliff, J.M.4
Goodman, K.5
Rochelle, P.A.6
Fry, J.C.7
Weightman, A.J.8
Harvey, S.M.9
-
22
-
-
0034467819
-
Effects of agronomic treatments on structure and function of ammonia-oxidizing communities
-
Phillips, C. J., D. Harris, S. L. Dollhopf, K. L. Gross, J. I. Presser, and E. A. Paul. 2000. Effects of agronomic treatments on structure and function of ammonia-oxidizing communities. Appl. Environ. Microbiol. 66:5410-5418.
-
(2000)
Appl. Environ. Microbiol.
, vol.66
, pp. 5410-5418
-
-
Phillips, C.J.1
Harris, D.2
Dollhopf, S.L.3
Gross, K.L.4
Presser, J.I.5
Paul, E.A.6
-
23
-
-
0034628432
-
Stable-isotope probing as a tool in microbial ecology
-
Radajewski, S., P. Ineson, N. R. Parekh, and J. C. Murrell. 2000. Stable-isotope probing as a tool in microbial ecology. Nature 403:646-649.
-
(2000)
Nature
, vol.403
, pp. 646-649
-
-
Radajewski, S.1
Ineson, P.2
Parekh, N.R.3
Murrell, J.C.4
-
24
-
-
0036667422
-
Identification of active methylotroph populations in an acidic forest soil by stable-isotope probing
-
Radajewski, S., G. Webster, D. S. Reay, S. A. Morris, P. Ineson, D. B. Nedwell, J. I. Presser, and J. C. Murrell. 2002. Identification of active methylotroph populations in an acidic forest soil by stable-isotope probing. Microbiology 148:2331-2342.
-
(2002)
Microbiology
, vol.148
, pp. 2331-2342
-
-
Radajewski, S.1
Webster, G.2
Reay, D.S.3
Morris, S.A.4
Ineson, P.5
Nedwell, D.B.6
Presser, J.I.7
Murrell, J.C.8
-
25
-
-
0036330519
-
Microbial communities from methane hydrate-bearing deep marine sediments in a forearc basin
-
Reed, D. W., Y. Fujita, M. E. Delwiche, D. B. Blackwelder, P. P. Sheridan, T. Uchida, and F. S. Colwell. 2002. Microbial communities from methane hydrate-bearing deep marine sediments in a forearc basin. Appl. Environ. Microbiol. 68:3759-3770.
-
(2002)
Appl. Environ. Microbiol.
, vol.68
, pp. 3759-3770
-
-
Reed, D.W.1
Fujita, Y.2
Delwiche, M.E.3
Blackwelder, D.B.4
Sheridan, P.P.5
Uchida, T.6
Colwell, F.S.7
-
26
-
-
0028019502
-
Effect of sample handling on estimation of bacterial diversity in marine sediments by 16S rRNA gene sequence diversity
-
Rochelle, P. A., B. A. Cragg, J. C. Fry, R. J. Parkes, and A. J. Weightman. 1994. Effect of sample handling on estimation of bacterial diversity in marine sediments by 16S rRNA gene sequence diversity. FEMS Microbiol. Ecol. 15:215-226.
-
(1994)
FEMS Microbiol. Ecol.
, vol.15
, pp. 215-226
-
-
Rochelle, P.A.1
Cragg, B.A.2
Fry, J.C.3
Parkes, R.J.4
Weightman, A.J.5
-
27
-
-
0003319275
-
Leg 190 summary
-
G. F. Moore, A. Taira, A. Klaus, et al. (ed.). Ocean Drilling Program, College Station, Tex
-
Shipboard Scientific Party. 2001. Leg 190 summary, p. 1-87. In G. F. Moore, A. Taira, A. Klaus, et al. (ed.), Proceedings of the Ocean Drilling Program, initial reports. Ocean Drilling Program, College Station, Tex.
-
(2001)
Proceedings of the Ocean Drilling Program, Initial Reports
, pp. 1-87
-
-
-
28
-
-
4644325156
-
Leg 201 summary
-
S. L. D'Hondt, B. B. Jørgenson, D. J. Miller, et al. (ed.). Ocean Drilling Program, College Station, Tex
-
Shipboard Scientific Party. 2003. Leg 201 summary, p. 1-81. In S. L. D'Hondt, B. B. Jørgenson, D. J. Miller, et al. (ed.), Proceedings of the Ocean Drilling Program, initial reports. Ocean Drilling Program, College Station, Tex.
-
(2003)
Proceedings of the Ocean Drilling Program, Initial Reports
, pp. 1-81
-
-
-
29
-
-
0036242945
-
Enumeration of 16S rDNA of Desulfotomacutum lineage 1 in rice field soil by real-time PCR with SybrGreen detection
-
Stubner, S. 2002. Enumeration of 16S rDNA of Desulfotomacutum lineage 1 in rice field soil by real-time PCR with SybrGreen detection. J. Microbiol. Methods 50:155-164.
-
(2002)
J. Microbiol. Methods
, vol.50
, pp. 155-164
-
-
Stubner, S.1
-
31
-
-
0036205605
-
Microbial diversity of hydrothermal sediments in the Guaymas Basin: Evidence for anaerobic methanotrophic communities
-
Teske, A., K. U. Hinrichs, V. Edgcomb, A. de Vera Gomez, D. Kysela, S. P. Sylva, M. L. Sogin, and H. W. Jannasch. 2002. Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. Appl. Environ. Microbiol. 68:1994-2007.
-
(2002)
Appl. Environ. Microbiol.
, vol.68
, pp. 1994-2007
-
-
Teske, A.1
Hinrichs, K.U.2
Edgcomb, V.3
De Vera Gomez, A.4
Kysela, D.5
Sylva, S.P.6
Sogin, M.L.7
Jannasch, H.W.8
-
32
-
-
0031574072
-
The ClustalX-Windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The ClustalX-Windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-4882.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
33
-
-
0036135250
-
Grassland management regimens reduce small-scale heterogeneity and species diversity of β-proteobacterial ammonia oxidizer populations
-
Webster, G., T. M. Embley, and J. I. Presser. 2002. Grassland management regimens reduce small-scale heterogeneity and species diversity of β-proteobacterial ammonia oxidizer populations. Appl. Environ. Microbiol. 68:20-30.
-
(2002)
Appl. Environ. Microbiol.
, vol.68
, pp. 20-30
-
-
Webster, G.1
Embley, T.M.2
Presser, J.I.3
-
34
-
-
0142091782
-
Assessment of bacterial community structure in the deep sub-seafloor biosphere by 16S rDNA-based techniques: A cautionary tale
-
Webster, G., C. J. Newberry, J. C. Fry, and A. J. Weightman. 2003. Assessment of bacterial community structure in the deep sub-seafloor biosphere by 16S rDNA-based techniques: a cautionary tale. J. Microbiol. Methods 55:155-164.
-
(2003)
J. Microbiol. Methods
, vol.55
, pp. 155-164
-
-
Webster, G.1
Newberry, C.J.2
Fry, J.C.3
Weightman, A.J.4
-
36
-
-
0037180507
-
Cultivating the uncultured
-
Zengler, K., G. Toledo, M. Rappé, J. Elkins, E. J. Mathur, J. M. Short, and M. Keller. 2002. Cultivating the uncultured. Proc. Natl. Acad. Sci. USA 99:15681-15686.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15681-15686
-
-
Zengler, K.1
Toledo, G.2
Rappé, M.3
Elkins, J.4
Mathur, E.J.5
Short, J.M.6
Keller, M.7
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