-
1
-
-
33646559836
-
Environmental whole-genome amplification to access microbial populations in contaminated sediments
-
DOI 10.1128/AEM.72.5.3291-3301.2006
-
Abulencia, C. B., D. L. Wyborski, J. A. Garcia, M. Podar, W. Chen, S. H. Chang, H. W. Chang, D. Watson, E. L. Brodie, T. C. Hazen, and M. Keller. 2006. Environmental whole-genome amplification to access microbial populations in contaminated sediments. Applied and Environ. Microbiol. 72(5): 3291-3301. (Pubitemid 43727978)
-
(2006)
Applied and Environmental Microbiology
, vol.72
, Issue.5
, pp. 3291-3301
-
-
Abulencia, C.B.1
Wyborski, D.L.2
Garcia, J.A.3
Podar, M.4
Chen, W.5
Chang, S.H.6
Chang, H.W.7
Watson, D.8
Brodie, E.L.9
Hazen, T.C.10
Keller, M.11
-
2
-
-
34547493885
-
Activity and diversity of Fe(III)-reducing bacteria in a 3000-year-old acid mine drainage site analogue
-
DOI 10.1080/01490450701456974, PII 780799907
-
Adams, L. K., J. M. Harrison, J. R. Lloyd, S. Langley, and D. Fortin. 2007. Activity and diversity of Fe(III)-reducing bacteria in a 3000-year-old acid mine drainage site analogue. Geomicrobiol. J. 24(3-4): 295-305. (Pubitemid 47180061)
-
(2007)
Geomicrobiology Journal
, vol.24
, Issue.3-4
, pp. 295-305
-
-
Adams, L.K.1
Harrison, J.M.2
Lloyd, J.R.3
Langley, S.4
Fortin, D.5
-
3
-
-
84872541541
-
2010 FMD outbreak in Korea: Government's response to this emergency and important lessons learned
-
East Lansing, Mich.: Michigan State University, Department of Animal Science
-
Ahn, H. 2012. 2010 FMD outbreak in Korea: Government's response to this emergency and important lessons learned. In Proc. 4th Intl. Symposium on Animal By-Products. East Lansing, Mich.: Michigan State University, Department of Animal Science.
-
(2012)
Proc. 4th Intl. Symposium on Animal By-Products
-
-
Ahn, H.1
-
4
-
-
77956470482
-
The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments
-
SEPT.
-
Aklujkar, M., N. D. Young, D. Holmes, M. Chavan, C. Risso, H. E. Kiss, C. S. Han, M. L. Land, and D. R. Lovley. 2010. The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments. BMC Genomics 11(Sept.): 490.
-
(2010)
BMC Genomics
, vol.11
, pp. 490
-
-
Aklujkar, M.1
Young, N.D.2
Holmes, D.3
Chavan, M.4
Risso, C.5
Kiss, H.E.6
Han, C.S.7
Land, M.L.8
Lovley, D.R.9
-
5
-
-
84872591046
-
-
Ada, Okla.: U.S. Environmental Protection Agency, National Risk Management Research Laboratory
-
Azadpour-Keeley, A., M. J. Barcelona, K. Duncan, and J. M. Suflita. 2009. The use of molecular and genomic techniques applied to microbial diversity, community structure, and activities at DNAPL and metal-contaminated sites. Ada, Okla.: U.S. Environmental Protection Agency, National Risk Management Research Laboratory.
-
(2009)
The Use of Molecular and Genomic Techniques Applied to Microbial Diversity, Community Structure, and Activities at DNAPL and Metal-contaminated Sites
-
-
Azadpour-Keeley, A.1
Barcelona, M.J.2
Duncan, K.3
Suflita, J.M.4
-
6
-
-
0030619419
-
Azospirillum-plant relationships: Environmental and physiological advances (1990-1996)
-
Bashan, Y., and G. Holguin. 1997. Azospirillum-plant relationships: Environmental and physiological advances (1990-1996). Canadian J. Microbiol. 43(2): 103-121.
-
(1997)
Canadian J. Microbiol.
, vol.43
, Issue.2
, pp. 103-121
-
-
Bashan, Y.1
Holguin, G.2
-
7
-
-
77953436072
-
Phylogenetic identification of three strains of rhizosphere bacteria based on the results of 16s rRNA gene analysis and genetic typing
-
Bazhanov, D. P., K. K. Yatsevich, and A. A. Bazhanova. 2010. Phylogenetic identification of three strains of rhizosphere bacteria based on the results of 16s rRNA gene analysis and genetic typing. Microbiology 79(3): 374-384.
-
(2010)
Microbiology
, vol.79
, Issue.3
, pp. 374-384
-
-
Bazhanov, D.P.1
Yatsevich, K.K.2
Bazhanova, A.A.3
-
8
-
-
0030613913
-
A new high-pressure squeezing technique for pore fluid extraction from terrestrial soils
-
Böttcher, G., H. J. Brumsack, H. Heinrichs, and M. Pohlmann. 1997. A new high-pressure squeezing technique for pore fluid extraction from terrestrial soils. Water, Air, and Soil Pollution 94(3-4): 289-296.
-
(1997)
Water, Air, and Soil Pollution
, vol.94
, Issue.3-4
, pp. 289-296
-
-
Böttcher, G.1
Brumsack, H.J.2
Heinrichs, H.3
Pohlmann, M.4
-
10
-
-
84856747520
-
A molecular enrichment strategy based on cpn60 for detection of epsilonproteobacteria in the dog fecal microbiome
-
Chaban, B., M. G. Links, and J. E. Hill. 2011. A molecular enrichment strategy based on cpn60 for detection of epsilonproteobacteria in the dog fecal microbiome. Microbial Ecol. 63(2): 348-357.
-
(2011)
Microbial Ecol
, vol.63
, Issue.2
, pp. 348-357
-
-
Chaban, B.1
Links, M.G.2
Hill, J.E.3
-
11
-
-
0001463548
-
Non-Parametric estimation of the number of classes in a population
-
Chao, A. 1984. Non-parametric estimation of the number of classes in a population. Scandanavian J. Statistics 11(4): 265-270.
-
(1984)
Scandanavian J. Statistics
, vol.11
, Issue.4
, pp. 265-270
-
-
Chao, A.1
-
13
-
-
0036324056
-
High-throughput methods for culturing microorganisms in very-low-nutrient media yield diverse new marine isolates
-
DOI 10.1128/AEM.68.8.3878-3885.2002
-
Connon, S. A., and S. J. Giovannoni. 2002. High-throughput methods for culturing microorganisms in very-low-nutrient media yield diverse new marine isolates. Applied and Environ. Microbiol. 68(8): 3878-3885. (Pubitemid 34836698)
-
(2002)
Applied and Environmental Microbiology
, vol.68
, Issue.8
, pp. 3878-3885
-
-
Connon, S.A.1
Giovannoni, S.J.2
-
14
-
-
0034051181
-
Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed probes for their detection and quantitation
-
DOI 10.1128/AEM.66.3.1175-1182.2000
-
Crocetti, G. R., P. Hugenholtz, P. L. Bond, A. Schuler, J. Keller, D. Jenkins, and L. L. Blackall. 2000. Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed probes for their detection and quantitation. Appl. Environ. Microbiol. 66(3): 1175-1182. (Pubitemid 30130043)
-
(2000)
Applied and Environmental Microbiology
, vol.66
, Issue.3
, pp. 1175-1182
-
-
Crocetti, G.R.1
Hugenholtz, P.2
Bond, P.L.3
Schuler, A.4
Keller, J.5
Jenkins, D.6
Blackall, L.L.7
-
15
-
-
29044443396
-
Enumeration of specific bacterial populations in complex intestinal communities using quantitative PCR based on the chaperonin-60 target
-
DOI 10.1016/j.mimet.2005.04.006, PII S0167701205001235
-
Dumonceaux, T. J., J. E. Hill, S. A. Briggs, K. K. Amoako, S. M. Hemmingsen, and A. G. Van Kessel. 2006. Enumeration of specific bacterial populations in complex intestinal communities using quantitative PCR based on the chaperonin-60 target. J. Microbiol. Methods 64(1): 46-62. (Pubitemid 41790486)
-
(2006)
Journal of Microbiological Methods
, vol.64
, Issue.1
, pp. 46-62
-
-
Dumonceaux, T.J.1
Hill, J.E.2
Briggs, S.A.3
Amoako, K.K.4
Hemmingsen, S.M.5
Van Kessel, A.G.6
-
16
-
-
0033916615
-
Culturability and in situ abundance of pelagic Bacteria from the North Sea
-
DOI 10.1128/AEM.66.7.3044-3051.2000
-
Eilers, H., J. Pernthaler, F. O. Glöckner, and R. Amann. 2000. Culturability and in situ abundance of pelagic bacteria from the North Sea. Applied and Environ. Microbiol. 66(7): 3044-3051. (Pubitemid 30497616)
-
(2000)
Applied and Environmental Microbiology
, vol.66
, Issue.7
, pp. 3044-3051
-
-
Eilers, H.1
Pernthaler, J.2
Glockner, F.O.3
Amann, R.4
-
17
-
-
0036793702
-
Ammonia production by ruminal microorganisms and enumeration, isolation, and characterization of bacteria capable of growth on peptides and amino acids from the sheep rumen
-
DOI 10.1128/AEM.68.10.4925-4931.2002
-
Eschenlauer, S. C. P., N. McKain, N. D. Walker, N. R. McEwan, C. J. Newbold, and R. J. Wallace. 2002. Ammonia production by ruminal microorganisms and enumeration, isolation, and characterization of bacteria capable of growth on peptides and amino acids from the sheep rumen. Applied and Environ. Microbiol. 68(10): 4925-4931. (Pubitemid 35154801)
-
(2002)
Applied and Environmental Microbiology
, vol.68
, Issue.10
, pp. 4925-4931
-
-
Eschenlauer, S.C.P.1
McKain, N.2
Walker, N.D.3
McEwan, N.R.4
Newbold, C.J.5
Wallace, R.J.6
-
18
-
-
0003505334
-
-
21st ed. Washington, D.C.: American Public Health Association, American Water Works Association, Water Environment Federation
-
Franson, M. A. H. 2005. Standard Methods for the Examination of Water and Wastewater. 21st ed. Washington, D.C.: American Public Health Association, American Water Works Association, Water Environment Federation.
-
(2005)
Standard Methods for the Examination of Water and Wastewater
-
-
Franson, M.A.H.1
-
19
-
-
78751566567
-
Microbial and geochemical features suggest iron redox cycling within bacteriogenic iron oxide-rich sediments
-
Gault, A. G., A. Ibrahim, S. Langley, R. Renaud, Y. Takahashi, C. Boothman, J. R. Lloyd, I. D. Clark, F. G. Ferris, and D. Fortin. 2011. Microbial and geochemical features suggest iron redox cycling within bacteriogenic iron oxide-rich sediments. Chem. Geol. 281(1-2): 41-51.
-
(2011)
Chem. Geol.
, vol.281
, Issue.1-2
, pp. 41-51
-
-
Gault, A.G.1
Ibrahim, A.2
Langley, S.3
Renaud, R.4
Takahashi, Y.5
Boothman, C.6
Lloyd, J.R.7
Clark, I.D.8
Ferris, F.G.9
Fortin, D.10
-
20
-
-
0000803388
-
The population frequencies of species and the estimation of population parameters
-
Good, I. J. 1953. The population frequencies of species and the estimation of population parameters. Biometrika 40(3-4): 237-264.
-
(1953)
Biometrika
, vol.40
, Issue.3-4
, pp. 237-264
-
-
Good, I.J.1
-
21
-
-
79952007388
-
Soil beneficial bacteria and their role in plant growth promotion: A review
-
Hayat, R., S. Ali, U. Amara, R. Khalid, and I. Ahmed. 2010. Soil beneficial bacteria and their role in plant growth promotion: A review. Annals of Microbiol. 60(4): 579-598.
-
(2010)
Annals of Microbiol.
, vol.60
, Issue.4
, pp. 579-598
-
-
Hayat, R.1
Ali, S.2
Amara, U.3
Khalid, R.4
Ahmed, I.5
-
22
-
-
0036271968
-
Extensive profiling of a complex microbial community by high-throughput sequencing
-
DOI 10.1128/AEM.68.6.3055-3066.2002
-
Hill, J. E., R. Seipp, M. Betts, L. Hawkins, A. Van Kessel, W. Crosby, and S. M. Hemmingsen. 2002. Extensive profiling of a complex microbial community by high-throughput sequencing. Applied and Environ. Microbiol. 68(6): 3055-3066. (Pubitemid 34602031)
-
(2002)
Applied and Environmental Microbiology
, vol.68
, Issue.6
, pp. 3055-3066
-
-
Hill, J.E.1
Seipp, R.P.2
Betts, M.3
Hawkins, L.4
Van Kessel, A.G.5
Crosby, W.L.6
Hemmingsen, S.M.7
-
23
-
-
4444360858
-
CpnDB: A chaperonin sequence database
-
DOI 10.1101/gr.2649204
-
Hill, J. E., S. L. Penny, K. G. Crowell, S. H. Goh, and S. M. Hemmingsen. 2004. cpnDB: A chaperonin sequence database. Genome Res. 14(8): 1669-1675. (Pubitemid 39193418)
-
(2004)
Genome Research
, vol.14
, Issue.8
, pp. 1669-1675
-
-
Hill, J.E.1
Penny, S.L.2
Crowell, K.G.3
Goh, S.H.4
Hemmingsen, S.M.5
-
24
-
-
0037314132
-
Using ecological diversity measures with bacterial communities
-
DOI 10.1016/S0168-6496(02)00449-X, PII S016864960200449X
-
Hill, T. C. J., K. A. Walsh, J. A. Harris, and B. F. Moffett. 2003. Using ecological diversity measures with bacterial communities. FEMS Microbiol. Ecology 43(1): 1-11. (Pubitemid 36173508)
-
(2003)
FEMS Microbiology Ecology
, vol.43
, Issue.1
, pp. 1-11
-
-
Hill, T.C.J.1
Walsh, K.A.2
Harris, J.A.3
Moffett, B.F.4
-
25
-
-
84988146086
-
Effects of sampling technique on measurements of porewater constituents in salt marsh sediments
-
Howes, B. L. 1985. Effects of sampling technique on measurements of porewater constituents in salt marsh sediments. Limnol. and Oceanography 30(1): 221.
-
(1985)
Limnol. and Oceanography
, vol.30
, Issue.1
, pp. 221
-
-
Howes, B.L.1
-
26
-
-
0035487318
-
Counting the Uncountable: Statistical Approaches to Estimating Microbial Diversity
-
DOI 10.1128/AEM.67.10.4399-4406.2001
-
Hughes, J. B., J. J. Hellmann, T. H. Ricketts, and B. J. M. Bohannan. 2001. Counting the uncountable: Statistical approaches to estimating microbial diversity. Applied and Environ. Microbiol. 67(10): 4399-4406. (Pubitemid 33646064)
-
(2001)
Applied and Environmental Microbiology
, vol.67
, Issue.10
, pp. 4399-4406
-
-
Hughes, J.B.1
Hellmann, J.J.2
Ricketts, T.H.3
Bohannan, B.J.M.4
-
27
-
-
33847702910
-
MEGAN analysis of metagenomic data
-
DOI 10.1101/gr.5969107
-
Huson, D. H., A. F. Auch, J. Qi, and S. C. Schuster. 2007. MEGAN analysis of metagenomic data. Genome Res. 17(3): 377-386. (Pubitemid 46376747)
-
(2007)
Genome Research
, vol.17
, Issue.3
, pp. 377-386
-
-
Huson, D.H.1
Auch, A.F.2
Qi, J.3
Schuster, S.C.4
-
28
-
-
77952671760
-
Isolation, enumeration, and characterization of diazotrophic bacteria from paddy soil sample under long-term fertilizer management experiment
-
Islam, R., P. Trivedi, M. Madhaiyan, S. Seshadri, G. Lee, J. Yang, Y. Kim, M. Kim, G. Han, P. S. Chauhan, and T. Sa. 2010. Isolation, enumeration, and characterization of diazotrophic bacteria from paddy soil sample under long-term fertilizer management experiment. Biology and Fertility of Soils 46(3): 261-269.
-
(2010)
Biology and Fertility of Soils
, vol.46
, Issue.3
, pp. 261-269
-
-
Islam, R.1
Trivedi, P.2
Madhaiyan, M.3
Seshadri, S.4
Lee, G.5
Yang, J.6
Kim, Y.7
Kim, M.8
Han, G.9
Chauhan, P.S.10
Sa, T.11
-
29
-
-
0024220651
-
A simple, reliable, and inexpensive porewater sampler
-
Jahnke, R. A. 1988. A simple, reliable, and inexpensive porewater sampler. Limnol. and Oceanography 33(3): 483-487.
-
(1988)
Limnol. and Oceanography
, vol.33
, Issue.3
, pp. 483-487
-
-
Jahnke, R.A.1
-
30
-
-
27644557432
-
Anammox organisms: Enrichment, cultivation, and environmental analysis
-
DOI 10.1016/S0076-6879(05)97003-1, PII S0076687905970031, Environmental Microbiology
-
Jetten, M., M. Schmid, K. Van De Pas-Schoonen, J. S. Damsté, and M. Strous. 2005. Anammox organisms: Enrichment, cultivation, and environmental analysis. Methods in Enzymol. 397: 34-57. (Pubitemid 41562893)
-
(2005)
Methods in Enzymology
, vol.397
, pp. 34-57
-
-
Jetten, M.1
Schmid, M.2
Van De Pas-Schoonen, K.3
Damste, J.S.4
Strous, M.5
-
31
-
-
77953506415
-
Phosphorus-solubilizing bacteria: Occurrence, mechanisms, and their role in crop production
-
Khan, A. A., G. Jilani, M. S. Akhtar, S. M. S. Naqvi, and M. Rasheen. 2009. Phosphorus-solubilizing bacteria: Occurrence, mechanisms, and their role in crop production. J. Agric. Biol. Sci. 1(1): 48-58.
-
(2009)
J. Agric. Biol. Sci.
, vol.1
, Issue.1
, pp. 48-58
-
-
Khan, A.A.1
Jilani, G.2
Akhtar, M.S.3
Naqvi, S.M.S.4
Rasheen, M.5
-
32
-
-
0029786831
-
Nonradioactive method to study genetic profiles of natural bacterial communities by PCR-single-strand-conformation polymorphism
-
Lee, D., Y. Zo, and S. Kim. 1996. Nonradioactive method to study genetic profiles of natural bacterial communities by PCRsingle-strand-conformation polymorphism. Appl. Environ. Microbiol. 62(9): 3112-3120. (Pubitemid 26304088)
-
(1996)
Applied and Environmental Microbiology
, vol.62
, Issue.9
, pp. 3112-3120
-
-
Lee, D.-H.1
Zo, Y.-G.2
Kim, S.-J.3
-
33
-
-
78049384902
-
Pusillimonas soli sp. Nov., isolated from farm soil
-
Lee, M., S.-G. Woo, M. Chae, and L. N. Ten. 2010. Pusillimonas soli sp. nov., isolated from farm soil. Intl. J. Syst. Evol. Microbiol. 60(10): 2326-2330.
-
(2010)
Intl. J. Syst. Evol. Microbiol.
, vol.60
, Issue.10
, pp. 2326-2330
-
-
Lee, M.1
Woo, S.-G.2
Chae, M.3
Ten, L.N.4
-
34
-
-
70849101625
-
Electrochemical activation of nitrate reduction to nitrogen by Ochrobactrum sp. G3-1 using a noncompartmented electrochemical bioreactor
-
Lee, W. J., and D. H. Park. 2009. Electrochemical activation of nitrate reduction to nitrogen by Ochrobactrum sp. G3-1 using a noncompartmented electrochemical bioreactor. J. Microbiol. and Biotech. 19(8): 836-844.
-
(2009)
J. Microbiol. and Biotech.
, vol.19
, Issue.8
, pp. 836-844
-
-
Lee, W.J.1
Park, D.H.2
-
35
-
-
33745634395
-
Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
-
DOI 10.1093/bioinformatics/btl158
-
Li, W., and A. Godzik. 2006. Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics (Oxford) 22(13): 1658-1659. (Pubitemid 43985301)
-
(2006)
Bioinformatics
, vol.22
, Issue.13
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
36
-
-
44249127260
-
Recovery, purification, and cloning of high-molecular-weight DNA from soil microorganisms
-
DOI 10.1128/AEM.02630-07
-
Liles, M. R., L. L. Williamson, J. Rodbumrer, V. Torsvik, R. M. Goodman, and J. Handelsman. 2008. Recovery, purification, and cloning of high-molecular-weight DNA from soil microorganisms. Appl. Environ. Microbiol. 74(10): 3302-3305. (Pubitemid 351747040)
-
(2008)
Applied and Environmental Microbiology
, vol.74
, Issue.10
, pp. 3302-3305
-
-
Liles, M.R.1
Williamson, L.L.2
Rodbumrer, J.3
Torsvik, V.4
Goodman, R.M.5
Handelsman, J.6
-
37
-
-
84869994230
-
The chaperonin-60 universal target is a barcode for bacteria that enables de novo assembly of metagenomic sequence data
-
doi: 10.1371/journal.pone.0049755
-
Links, M. G., T. J. Dumonceaux, S. M. Hemmingsen, and J. E. Hill. 2012. The chaperonin-60 universal target is a barcode for bacteria that enables de novo assembly of metagenomic sequence data. PLoS ONE 7(11): e49755, doi: 10.1371/journal.pone.0049755.
-
(2012)
PLoS ONE
, vol.7
, Issue.11
-
-
Links, M.G.1
Dumonceaux, T.J.2
Hemmingsen, S.M.3
Hill, J.E.4
-
38
-
-
0027380839
-
Dissimilatory metal reduction
-
Lovley, D. R. 1993. Dissimilatory metal reduction. Ann. Rev. Microbiol. 47(1): 263-290. (Pubitemid 23302935)
-
(1993)
Annual Review of Microbiology
, vol.47
, pp. 263-290
-
-
Lovley, D.R.1
-
39
-
-
0024530378
-
Oxidation of aromatic contaminants coupled to microbial iron reduction
-
Lovley, D. R., M. J. Baedecker, D. J. Lonergan, I. M. Cozzarelli, E. J. P. Phillips, and D. I. Siegel. 1989. Oxidation of aromatic contaminants coupled to microbial iron reduction. Nature 339(6222): 297-300. (Pubitemid 19305164)
-
(1989)
Nature
, vol.339
, Issue.6222
, pp. 297-300
-
-
Lovley, D.R.1
Baedecker, M.J.2
Lonergan, D.J.3
Cozzarelli, I.M.4
Phillips, E.J.P.5
Siegel, D.I.6
-
41
-
-
0024484611
-
Subsurface transport of contaminants. Mobile colloids in the subsurface environment may alter the transport of contaminants
-
McCarthy, J. F., and J. M. Zachara. 1989. Subsurface transport of contaminants: Mobile colloids in the subsurface environment may alter the transport of contaminants. Environ. Sci. and Tech. 23(5): 496-502. (Pubitemid 19120733)
-
(1989)
Environmental Science and Technology
, vol.23
, Issue.5
, pp. 496-502
-
-
McCarthy, J.F.1
Zachara, J.M.2
-
42
-
-
67650763443
-
Visual and statistical comparison of metagenomes
-
Mitra, S., B. Klar, and D. H. Huson. 2009. Visual and statistical comparison of metagenomes. Bioinformatics 25(15): 1849-1855.
-
(2009)
Bioinformatics
, vol.25
, Issue.15
, pp. 1849-1855
-
-
Mitra, S.1
Klar, B.2
Huson, D.H.3
-
43
-
-
62549166179
-
Early colonization pattern of maize (Zea mays L. Poales, Poaceae) roots by Herbaspirillum seropedicae (Burkholderiales, Oxalobacteraceae)
-
Monteiro, R. A., M. A. Schmidt, V. A. de Baura, E. Balsanelli, R. Wassem, M. G. Yates, M. A. F. Randi, F. O. Pedrosa, and E. M. de Souza. 2008. Early colonization pattern of maize (Zea mays L. Poales, Poaceae) roots by Herbaspirillum seropedicae (Burkholderiales, Oxalobacteraceae). Genetics and Molecular Biol. 31(4): 932-937.
-
(2008)
Genetics and Molecular Biol.
, vol.31
, Issue.4
, pp. 932-937
-
-
Monteiro, R.A.1
Schmidt, M.A.2
De Baura, V.A.3
Balsanelli, E.4
Wassem, R.5
Yates, M.G.6
Randi, M.A.F.7
Pedrosa, F.O.8
De Souza, E.M.9
-
44
-
-
79951926011
-
Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils
-
doi: 10.1371/journal.pone.0017000
-
Nacke, H., A. Thürmer, A. Wollherr, C. Will, L. Hodac, N. Herold, I. Schöning, M. Schrumpf, and R. Daniel. 2011. Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS ONE 6(2): e17000, doi: 10.1371/journal.pone.0017000.
-
(2011)
PLoS ONE
, vol.6
, Issue.2
-
-
Nacke, H.1
Thürmer, A.2
Wollherr, A.3
Will, C.4
Hodac, L.5
Herold, N.6
Schöning, I.7
Schrumpf, M.8
Daniel, R.9
-
45
-
-
70350571658
-
The chemical and functional characterization of soil N and its biotic components
-
Nannipieri, P., and P. Eldor. 2009. The chemical and functional characterization of soil N and its biotic components. Soil Biol. and Biochem. 41(12): 2357-2369.
-
(2009)
Soil Biol. and Biochem.
, vol.41
, Issue.12
, pp. 2357-2369
-
-
Nannipieri, P.1
Eldor, P.2
-
46
-
-
22544468862
-
Geobacter bemidjiensis sp. nov. and Geobacter psychrophilus sp. nov., two novel Fe(III)-reducing subsurface isolates
-
DOI 10.1099/ijs.0.63417-0
-
Nevin, K. P., D. E. Holmes, T. L. Woodard, E. S. Hinlein, D. W. Ostendorf, and D. R. Lovley. 2005. Geobacter bemidjiensis sp. nov. and Geobacter psychrophilus sp. nov., two novel Fe(III)-reducing subsurface isolates. Intl. J. Syst. Evol. Microbiol. 55(4): 1667-1674. (Pubitemid 41015619)
-
(2005)
International Journal of Systematic and Evolutionary Microbiology
, vol.55
, Issue.4
, pp. 1667-1674
-
-
Nevin, K.P.1
Holmes, D.E.2
Woodard, T.L.3
Hinlein, E.S.4
Ostendorf, D.W.5
Lovley, D.R.6
-
47
-
-
44949239735
-
Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment
-
DOI 10.1128/AEM.02722-07
-
Norton, J. M., M. G. Klotz, L. Y. Stein, D. J. Arp, P. J. Bottomley, P. S. Chain, L. J. Hauser, M. L. Land, F. W. Larimer, M. W. Shin, and S. R. Starkenburg. 2008. Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Appl. Environ. Microbiol. 74(11): 3559-3572. (Pubitemid 351812811)
-
(2008)
Applied and Environmental Microbiology
, vol.74
, Issue.11
, pp. 3559-3572
-
-
Norton, J.M.1
Klotz, M.G.2
Stein, L.Y.3
Arp, D.J.4
Bottomley, P.J.5
Chain, P.S.G.6
Hauser, L.J.7
Land, M.L.8
Larimer, F.W.9
Shin, M.W.10
Starkenburg, S.R.11
-
48
-
-
33749382349
-
Molecular analysis of ammonia-oxidizing bacteria community in intermittent aeration sequencing batch reactors used for animal wastewater treatment
-
DOI 10.1111/j.1462-2920.2006.01078.x
-
Otawa, K., R. Asano, Y. Ohba, T. Sasaki, E. Kawamura, F. Koyama, S. Nakamura, and Y. Nakai. 2006. Molecular analysis of ammonia-oxidizing bacteria community in intermittent aeration sequencing batch reactors used for animal wastewater treatment. Environ. Microbiol. 8(11): 1985-1996. (Pubitemid 44506894)
-
(2006)
Environmental Microbiology
, vol.8
, Issue.11
, pp. 1985-1996
-
-
Otawa, K.1
Asano, R.2
Ohba, Y.3
Sasaki, T.4
Kawamura, E.5
Koyama, F.6
Nakamura, S.7
Nakai, Y.8
-
49
-
-
33947115487
-
Presence and activity of anammox and denitrification process in low ammonium-fed bioreactors
-
DOI 10.1016/j.biortech.2006.08.014, PII S0960852406004251
-
Pathak, B. K., F. Kazama, Y. Saiki, and T. Sumino. 2007. Presence and activity of anammox and denitrification process in low ammonium-fed bioreactors. Bioresource Tech. 98(11): 2201-2206. (Pubitemid 46400436)
-
(2007)
Bioresource Technology
, vol.98
, Issue.11
, pp. 2201-2206
-
-
Pathak, B.K.1
Kazama, F.2
Saiki, Y.3
Sumino, T.4
-
50
-
-
79851471462
-
Competitive reduction of pertechnetate (99TcO4-) by dissimilatory metal reducing bacteria and biogenic Fe(II)
-
Plymale, A. E., J. K. Fredrickson, J. M. Zachara, A. C. Dohnalkova, S. M. Heald, D. A. Moore, D. W. Kennedy, M. J. Marshall, C. Wang, C. T. Resch, and P. Nachimuthu. 2011. Competitive reduction of pertechnetate (99TcO4-) by dissimilatory metal reducing bacteria and biogenic Fe(II). Environ. Sci. and Tech. 45(3): 951-957.
-
(2011)
Environ. Sci. and Tech.
, vol.45
, Issue.3
, pp. 951-957
-
-
Plymale, A.E.1
Fredrickson, J.K.2
Zachara, J.M.3
Dohnalkova, A.C.4
Heald, S.M.5
Moore, D.A.6
Kennedy, D.W.7
Marshall, M.J.8
Wang, C.9
Resch, C.T.10
Nachimuthu, P.11
-
51
-
-
84871345908
-
-
MS thesis. Saskatoon, Saskatchewan, Canada: University of Saskatchewan, Department of Agricultural and Bioresources Engineering
-
Pratt, D. L. 2009. Environmental impact of livestock mortalities burial. MS thesis. Saskatoon, Saskatchewan, Canada: University of Saskatchewan, Department of Agricultural and Bioresources Engineering.
-
(2009)
Environmental Impact of Livestock Mortalities Burial
-
-
Pratt, D.L.1
-
52
-
-
84872572595
-
Leachate movement beneath two carcass burial sites
-
East Lansing, Mich.: Michigan State University, Department of Animal Science
-
Pratt, D. L., and T. A. Fonstad. 2012. Leachate movement beneath two carcass burial sites. In Proc. 4th Intl. Symposium on Animal By-Products. East Lansing, Mich.: Michigan State University, Department of Animal Science.
-
(2012)
Proc. 4th Intl. Symposium on Animal By-Products
-
-
Pratt, D.L.1
Fonstad, T.A.2
-
53
-
-
79551686938
-
Autotrophic nitrite removal in the cathode of microbial fuel cells
-
Puig, S., M. Serra, A. Vilar-Sanz, M. Cabré, L. Bañeras, J. Colprim, and M. D. Balaguer. 2011. Autotrophic nitrite removal in the cathode of microbial fuel cells. Bioresour. Tech. 102(6): 4462-4467.
-
(2011)
Bioresour. Tech
, vol.102
, Issue.6
, pp. 4462-4467
-
-
Puig, S.1
Serra, M.2
Vilar-Sanz, A.3
Cabré, M.4
Bañeras, L.5
Colprim, J.6
Balaguer, M.D.7
-
54
-
-
33846553147
-
Characterisation of microorganisms responsible for EBPR in a sequencing batch reactor by using the 16S rDNA-DGGE method
-
Ren, Y., C. Wei, and K. Xiao. 2007. Characterisation of microorganisms responsible for EBPR in a sequencing batch reactor by using the 16S rDNA-DGGE method. Water SA 33(1): 123-128. (Pubitemid 46154931)
-
(2007)
Water SA
, vol.33
, Issue.1
, pp. 123-128
-
-
Ren, Y.1
Wei, C.2
Xiao, K.3
-
55
-
-
79953019181
-
Visualization and direct counting of individual denitrifying bacterial cells in soil by nirK-targeted direct in situ PCR
-
Ryuda, N., T. Hashimoto, D. Ueno, K. Inoue, and T. Someya. 2011. Visualization and direct counting of individual denitrifying bacterial cells in soil by nirK-targeted direct in situ PCR. Microbes and Environ. 26(1): 74-80.
-
(2011)
Microbes and Environ.
, vol.26
, Issue.1
, pp. 74-80
-
-
Ryuda, N.1
Hashimoto, T.2
Ueno, D.3
Inoue, K.4
Someya, T.5
-
56
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou, N., and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biol. and Evolution 4(4): 406-425.
-
(1987)
Molecular Biol. and Evolution
, vol.4
, Issue.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
57
-
-
0141590419
-
Changing concepts in the systematics of bacterial nitrogen-fixing legume symbionts
-
DOI 10.2323/jgam.49.155
-
Sawada, H., L. D. Kuykendall, and J. M. Young. 2003. Changing concepts in the systematics of bacterial nitrogen-fixing legume symbionts. J. Gen. and Appl. Microbiol. 49(3): 155-179. (Pubitemid 37160911)
-
(2003)
Journal of General and Applied Microbiology
, vol.49
, Issue.3
, pp. 155-179
-
-
Sawada, H.1
Kuykendall, L.D.2
Young, J.M.3
-
58
-
-
65549089957
-
Pyrosequencing of the chaperonin-60 universal target as a tool for determining the composition of microbial communities
-
Schellenberg, J., M. G. Links, J. E. Hill, T. J. Dumonceaux, G. A. Peters, S. Tyler, T. B. Ball, A. Severini, and F. A. Plummer. 2009. Pyrosequencing of the chaperonin-60 universal target as a tool for determining the composition of microbial communities. Appl. Environ. Microbiol. 75(9): 2889-2898.
-
(2009)
Appl. Environ. Microbiol
, vol.75
, Issue.9
, pp. 2889-2898
-
-
Schellenberg, J.1
Links, M.G.2
Hill, J.E.3
Dumonceaux, T.J.4
Peters, G.A.5
Tyler, S.6
Ball, T.B.7
Severini, A.8
Plummer, F.A.9
-
59
-
-
79960068468
-
Pyrosequencing of chaperonin-60 (cpn60) amplicons as a means of determining microbial community composition
-
Schellenberg, J., M. G. Links, J. E. Hill, S. M. Hemmingsen, G. A. Peters, and T. J. Dumonceaux. 2011. Pyrosequencing of chaperonin-60 (cpn60) amplicons as a means of determining microbial community composition. Methods in Molecular Biol. 733: 153-148.
-
(2011)
Methods in Molecular Biol.
, vol.733
, pp. 153-148
-
-
Schellenberg, J.1
Links, M.G.2
Hill, J.E.3
Hemmingsen, S.M.4
Peters, G.A.5
Dumonceaux, T.J.6
-
60
-
-
72949107142
-
Introducing mothur: Opensource, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss, P. D., S. L. Westcott, T. Ryabin, J. R. Hall, M. Hartmann, E. B. Hollister, R. A. Lesniewski, B. B. Oakley, D. H. Parks, C. J. Robinson, J. W. Sahl, B. Stres, G. G. Thallinger, D. J. Van Horn, and C. F. Weber. 2009. Introducing mothur: Opensource, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environ. Microbiol. 75(23): 7537-7541.
-
(2009)
Applied and Environ. Microbiol.
, vol.75
, Issue.23
, pp. 7537-7541
-
-
Schloss, P.D.1
Westcott, S.L.2
Ryabin, T.3
Hall, J.R.4
Hartmann, M.5
Hollister, E.B.6
Lesniewski, R.A.7
Oakley, B.B.8
Parks, D.H.9
Robinson, C.J.10
Sahl, J.W.11
Stres, B.12
Thallinger, G.G.13
Van Horn, D.J.14
Weber, C.F.15
-
62
-
-
33344464667
-
Measurement of diversity
-
Simpson, E. H. 1949. Measurement of diversity. Nature 163(4148): 688.
-
(1949)
Nature
, vol.163
, Issue.4148
, pp. 688
-
-
Simpson, E.H.1
-
64
-
-
34547781750
-
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
-
DOI 10.1093/molbev/msm092
-
Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biol. and Evolution 24(8): 1596-1599. (Pubitemid 47236692)
-
(2007)
Molecular Biology and Evolution
, vol.24
, Issue.8
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
65
-
-
77957801148
-
Denitrification of groundwater with pyrite and Thiobacillus denitrificans
-
Torrentó, C., J. Cama, J. Urmeneta, N. Otero, and A. Soler. 2010. Denitrification of groundwater with pyrite and Thiobacillus denitrificans. Chem. Geol. 278(1-2): 80-91.
-
(2010)
Chem. Geol.
, vol.278
, Issue.1-2
, pp. 80-91
-
-
Torrentó, C.1
Cama, J.2
Urmeneta, J.3
Otero, N.4
Soler, A.5
-
66
-
-
54549098701
-
Pore water chemistry of a Paleogene continental mudrock in Spain and a Jurassic marine mudrock in Switzerland: Sampling methods and geochemical interpretation
-
Turrero, M. J. 2006. Pore water chemistry of a Paleogene continental mudrock in Spain and a Jurassic marine mudrock in Switzerland: Sampling methods and geochemical interpretation. J. Iberian Geology 32(2): 233-258.
-
(2006)
J. Iberian Geology
, vol.32
, Issue.2
, pp. 233-258
-
-
Turrero, M.J.1
-
67
-
-
34548293679
-
Naïve Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
DOI 10.1128/AEM.00062-07
-
Wang, Q., G. M. Garrity, J. M. Tiedje, and J. R. Cole. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied and Environ. Microbiol. 73(16): 5261-5267. (Pubitemid 47326658)
-
(2007)
Applied and Environmental Microbiology
, vol.73
, Issue.16
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
68
-
-
33644862875
-
Anaerobic nitratedependent iron(II) bio-oxidation by a novel lithoautotrophic betaproteobacterium, strain 2002
-
Weber, K. A., J. Pollock, K. A. Cole, S. M. O'Connor, L. A. Achenbach, and J. D. Coates. 2006. Anaerobic nitratedependent iron(II) bio-oxidation by a novel lithoautotrophic betaproteobacterium, strain 2002. Appl. Environ. Microbiol. 72(1): 686-694.
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, Issue.1
, pp. 686-694
-
-
Weber, K.A.1
Pollock, J.2
Cole, K.A.3
O'Connor, S.M.4
Achenbach, L.A.5
Coates, J.D.6
-
69
-
-
84355166737
-
Impact of training sets on classification of highthroughput bacterial 16s rRNA gene surveys
-
Werner, J. J., O. Koren, P. Hugenholtz, T. Z. DeSantis, W. A. Walters, J. G. Caporaso, L. T. Angenent, R. Knight, and R. E. Ley. 2012. Impact of training sets on classification of highthroughput bacterial 16s rRNA gene surveys. ISME J. 6(1): 94-103.
-
(2012)
ISME J.
, vol.6
, Issue.1
, pp. 94-103
-
-
Werner, J.J.1
Koren, O.2
Hugenholtz, P.3
Desantis, T.Z.4
Walters, W.A.5
Caporaso, J.G.6
Angenent, L.T.7
Knight, R.8
Ley, R.E.9
-
70
-
-
33749537045
-
The taxonomy of rhizobia: An overview
-
DOI 10.1007/s11104-006-9058-7
-
Willems, A. 2006. The taxonomy of rhizobia: An overview. Plant and Soil 287(1-2): 3-14. (Pubitemid 44526807)
-
(2006)
Plant and Soil
, vol.287
, Issue.1-2
, pp. 3-14
-
-
Willems, A.1
-
71
-
-
79959596861
-
Autotrophic growth of nitrifying community in an agricultural soil
-
Xia, W., C. Zhang, X. Zeng, Y. Feng, J. Weng, X. Lin, J. Zhu, Z. Xiong, J. Xu, Z. Cai, and Z. Jia. 2011. Autotrophic growth of nitrifying community in an agricultural soil. ISME J. 5(7): 1226-1236.
-
(2011)
ISME J.
, vol.5
, Issue.7
, pp. 1226-1236
-
-
Xia, W.1
Zhang, C.2
Zeng, X.3
Feng, Y.4
Weng, J.5
Lin, X.6
Zhu, J.7
Xiong, Z.8
Xu, J.9
Cai, Z.10
Jia, Z.11
-
72
-
-
0020286856
-
Survival and viability of nonculturable Escherichia coli and Vibrio cholerae in the estuarine and marine environment
-
Xu, H. S., N. Roberts, F. L. Singleton, R. W. Attwell, D. J. Grimes, and R. R. Colwell. 1982. Survival and viability of nonculturable Escherichia coli and Vibrio cholerae in the estuarine and marine environment. Microbial Ecol. 8(4): 313-323. (Pubitemid 13105941)
-
(1982)
Microbial Ecology
, vol.8
, Issue.4
, pp. 313-323
-
-
Xu, H.S.1
Roberts, N.2
Singleton, F.L.3
-
73
-
-
68849120354
-
Use of quantitative and conventional PCR to assess biodegradation of bovine and plant DNA during cattle mortality composting
-
Xu, W., T. Reuter, Y. Xu, T. W. Alexander, B. Gilroyed, L. Jin, K. Stanford, F. J. Larney, and T. A. McAllister. 2009. Use of quantitative and conventional PCR to assess biodegradation of bovine and plant DNA during cattle mortality composting. Environ. Sci. and Tech. 43(16): 6248-6255.
-
(2009)
Environ. Sci. and Tech.
, vol.43
, Issue.16
, pp. 6248-6255
-
-
Xu, W.1
Reuter, T.2
Xu, Y.3
Alexander, T.W.4
Gilroyed, B.5
Jin, L.6
Stanford, K.7
Larney, F.J.8
McAllister, T.A.9
-
74
-
-
1342304268
-
Characterization of Nitrous Oxide Reductase from a Methylotrophic Denitritrying Bacterium, Hyphomicrobium, denitrificans A3151
-
DOI 10.1093/jb/mvg211
-
Yamaguchi, K., A. Kawamura, H. Ogawa, and S. Suzuki. 2003. Characterization of nitrous oxide reductase from a methylotrophic denitritrying bacterium, Hyphomicrobium denitrificans A3151. J. Biochem. 134(6): 853-858. (Pubitemid 38248360)
-
(2003)
Journal of Biochemistry
, vol.134
, Issue.6
, pp. 853-858
-
-
Yamaguchi, K.1
Kawamura, A.2
Ogawa, H.3
Suzuki, S.4
-
75
-
-
0037180507
-
Cultivating the uncultured
-
DOI 10.1073/pnas.252630999
-
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. 99(24): 15681-15686. (Pubitemid 35403991)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.24
, pp. 15681-15686
-
-
Zengler, K.1
Toledo, G.2
Rappe, M.3
Elkins, J.4
Mathur, E.J.5
Short, J.M.6
Keller, M.7
-
76
-
-
0042812120
-
Gemmatimonas aurantiaca gen. nov., sp. nov., a Gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov
-
DOI 10.1099/ijs.0.02520-0
-
Zhang, H., Y. Sekiguchi, S. Hanada, P. Hugenholtz, H. Kim, Y. Kamagata, and K. Nakamura. 2003. Gemmatimonas aurantiaca gen. nov., sp. nov., a Gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov. Intl. J. Syst. Evol. Microbiol. 53(4): 1155-1163. (Pubitemid 36896531)
-
(2003)
International Journal of Systematic and Evolutionary Microbiology
, vol.53
, Issue.4
, pp. 1155-1163
-
-
Zhang, H.1
Sekiguchi, Y.2
Hanada, S.3
Hugenholtz, P.4
Kim, H.5
Kamagata, Y.6
Nakamura, K.7
|