-
1
-
-
3242884054
-
Fine-scale phylogenetic architecture of a complex bacterial community
-
Acinas, S. G., V. Klepac-Ceraj, D. E. Hunt, C. Pharino, I. Ceraj, D. L. Distel, and M. F. Polz. 2004. Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430:551-554.
-
(2004)
Nature
, vol.430
, pp. 551-554
-
-
Acinas, S.G.1
Klepac-Ceraj, V.2
Hunt, D.E.3
Pharino, C.4
Ceraj, I.5
Distel, D.L.6
Polz, M.F.7
-
2
-
-
0025294528
-
Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations
-
Amann, R. I., B. J. Binder, R. J. Oison, S. W. Chisholm, R. Devereux, and D. A. Stahl. 1990. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl. Environ. Microbiol. 56:1919-1925.
-
(1990)
Appl. Environ. Microbiol
, vol.56
, pp. 1919-1925
-
-
Amann, R.I.1
Binder, B.J.2
Oison, R.J.3
Chisholm, S.W.4
Devereux, R.5
Stahl, D.A.6
-
3
-
-
0034665853
-
Bacterial rhodopsin: Evidence for a new type of photo-trophy in the sea
-
Beja, O., L. Aravind, E. V. Koonin, M. T. Suzuki, A. Hadd, L. P. Nguyen, S. Jovanovich, C. M. Gates, R. A. Feldman, J. L. Spudich, E. N. Spudich, and E. F. DeLong. 2000. Bacterial rhodopsin: evidence for a new type of photo-trophy in the sea. Science 289:1902-1906.
-
(2000)
Science
, vol.289
, pp. 1902-1906
-
-
Beja, O.1
Aravind, L.2
Koonin, E.V.3
Suzuki, M.T.4
Hadd, A.5
Nguyen, L.P.6
Jovanovich, S.7
Gates, C.M.8
Feldman, R.A.9
Spudich, J.L.10
Spudich, E.N.11
DeLong, E.F.12
-
4
-
-
0034554741
-
Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage
-
Beja, O., M. T. Suzuki, E. V. Koonin, L. Aravind, A. Hadd, L. P. Nguyen, R. Villacorta, M. Amjadi, C. Garrigues, S. B. Jovanovich, R. A. Feldman, and E. F. DeLong. 2000. Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage. Environ. Microbiol. 2:516-529.
-
(2000)
Environ. Microbiol
, vol.2
, pp. 516-529
-
-
Beja, O.1
Suzuki, M.T.2
Koonin, E.V.3
Aravind, L.4
Hadd, A.5
Nguyen, L.P.6
Villacorta, R.7
Amjadi, M.8
Garrigues, C.9
Jovanovich, S.B.10
Feldman, R.A.11
DeLong, E.F.12
-
5
-
-
0001463548
-
Nonparametric estimation of the number of classes in a population
-
Chao, A. 1984. Nonparametric estimation of the number of classes in a population. Scand. J. Stat. 11:265-270.
-
(1984)
Scand. J. Stat
, vol.11
, pp. 265-270
-
-
Chao, A.1
-
6
-
-
0344172842
-
The domain-specific probe EUB338 is insufficient for the detection of all bacteria: Development and evaluation of a more comprehensive probe set
-
Daims, H., A. Brühl, R. Amann, K. H. Schleifer, and M. Wagner. 1999. The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Syst. Appl. Microbiol. 22:434-444.
-
(1999)
Syst. Appl. Microbiol
, vol.22
, pp. 434-444
-
-
Daims, H.1
Brühl, A.2
Amann, R.3
Schleifer, K.H.4
Wagner, M.5
-
7
-
-
19144362371
-
Microbial community genomics in the ocean
-
DeLong, E. E. 2005. Microbial community genomics in the ocean. Nat. Rev. Microbiol. 3:459-469.
-
(2005)
Nat. Rev. Microbiol
, vol.3
, pp. 459-469
-
-
DeLong, E.E.1
-
8
-
-
31544483932
-
Community genomics among stratified microbial assemblages in the ocean's interior
-
DeLong, E. F., C. M. Preston, T. Mincer, V. Rich, S. J. Hallam, N. U. Frigaard, A. Martinez, M. B. Sullivan, R. Edwards, B. R. Brito, S. W. Chisholm, and D. M. Karl. 2006. Community genomics among stratified microbial assemblages in the ocean's interior. Science 311:496-503.
-
(2006)
Science
, vol.311
, pp. 496-503
-
-
DeLong, E.F.1
Preston, C.M.2
Mincer, T.3
Rich, V.4
Hallam, S.J.5
Frigaard, N.U.6
Martinez, A.7
Sullivan, M.B.8
Edwards, R.9
Brito, B.R.10
Chisholm, S.W.11
Karl, D.M.12
-
9
-
-
33747827586
-
NAST: A multiple sequence alignment server for comparative analysis of 16S rRNA genes
-
DeSantis, T. Z., P. Hugenholtz, K. Keller, E. L. Brodie, N. Larsen, Y. M. Piceno, R. Phan, and G. L. Andersen. 2006. NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. Nucleic Acids Res. 34:W394-W399.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
DeSantis, T.Z.1
Hugenholtz, P.2
Keller, K.3
Brodie, E.L.4
Larsen, N.5
Piceno, Y.M.6
Phan, R.7
Andersen, G.L.8
-
10
-
-
33746061683
-
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
-
DeSantis, T. Z., P. Hugenholtz, N. Larsen, M. Rojas, E. L. Brodie, K. Keller, T. Huber, D. Dalevi, P. Hu, and G. L. Andersen. 2006. Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl. Environ. Microbiol. 72:5069-5072.
-
(2006)
Appl. Environ. Microbiol
, vol.72
, pp. 5069-5072
-
-
DeSantis, T.Z.1
Hugenholtz, P.2
Larsen, N.3
Rojas, M.4
Brodie, E.L.5
Keller, K.6
Huber, T.7
Dalevi, D.8
Hu, P.9
Andersen, G.L.10
-
11
-
-
0041386044
-
Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome
-
Dufresne, A., M. Salanoubat, F. Partensky, F. Artiguenave, I. M. Axmann, V. Barbe, S. Duprat, M. Y. Galperin, E. V. Koonin, F. Le Gall, K. S. Makarova, M. Ostrowski, S. Oztas, C. Robert, I. B. Rogozin, D. J. Scanlan, N. T. de Marsac, J. Weissenbach, P. Wincker, Y. I. Wolf, and W. R. Hess. 2003. Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc. Natl. Acad. Sci. USA 100: 10020-10025.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 10020-10025
-
-
Dufresne, A.1
Salanoubat, M.2
Partensky, F.3
Artiguenave, F.4
Axmann, I.M.5
Barbe, V.6
Duprat, S.7
Galperin, M.Y.8
Koonin, E.V.9
Le Gall, F.10
Makarova, K.S.11
Ostrowski, M.12
Oztas, S.13
Robert, C.14
Rogozin, I.B.15
Scanlan, D.J.16
de Marsac, N.T.17
Weissenbach, J.18
Wincker, P.19
Wolf, Y.I.20
Hess, W.R.21
more..
-
12
-
-
0031027068
-
Diversity and depth-specific distribution of SAR11 cluster rRNA genes from marine planktonic bacteria
-
Field, K. G., D. Gordon, T. Wright, M. Rappe, E. Urbach, K. Vergin, and S. J. Giovannoni. 1997. Diversity and depth-specific distribution of SAR11 cluster rRNA genes from marine planktonic bacteria. Appl. Environ. Microbiol. 63:63-70.
-
(1997)
Appl. Environ. Microbiol
, vol.63
, pp. 63-70
-
-
Field, K.G.1
Gordon, D.2
Wright, T.3
Rappe, M.4
Urbach, E.5
Vergin, K.6
Giovannoni, S.J.7
-
13
-
-
0037455787
-
Estimating marine species richness: An evaluation of six extrapolative techniques
-
Foggo, A., M. J. Attrill, M. T. Frost, and A. A. Rowden. 2003. Estimating marine species richness: an evaluation of six extrapolative techniques. Mar. Ecol. Prog. Ser. 248:15-26.
-
(2003)
Mar. Ecol. Prog. Ser
, vol.248
, pp. 15-26
-
-
Foggo, A.1
Attrill, M.J.2
Frost, M.T.3
Rowden, A.A.4
-
14
-
-
0032482354
-
Marine ecology-microbial microdi-versity
-
Fuhrman, J. A., and L. Campbell. 1998. Marine ecology-microbial microdi-versity. Nature 393:410-411.
-
(1998)
Nature
, vol.393
, pp. 410-411
-
-
Fuhrman, J.A.1
Campbell, L.2
-
15
-
-
19544377552
-
Taxonomic outline of the prokaryotes
-
2nd ed. Springer-Verlag, New York, NY
-
Garrity, G. M., J. A. Bell, and T. G. Lilburn. 2004. Taxonomic outline of the prokaryotes. Bergey's manual of systematic bacteriology, 2nd ed. Springer-Verlag, New York, NY.
-
(2004)
Bergey's manual of systematic bacteriology
-
-
Garrity, G.M.1
Bell, J.A.2
Lilburn, T.G.3
-
16
-
-
0000262823
-
Evolution, diversity, and molecular ecology of marine prokaryotes
-
D. L. Kirchman ed, Wiley-Liss, New York, NY
-
Giovannoni, S., and M. Rappè. 2000. Evolution, diversity, and molecular ecology of marine prokaryotes, p. 47-84. In D. L. Kirchman (ed.). Microbial ecology of the oceans. Wiley-Liss, New York, NY.
-
(2000)
Microbial ecology of the oceans
, pp. 47-84
-
-
Giovannoni, S.1
Rappè, M.2
-
17
-
-
25144486755
-
Molecular diversity and ecology of microbial plankton
-
Giovannoni, S. J., and U. Stingl. 2005. Molecular diversity and ecology of microbial plankton. Nature 437:343-348.
-
(2005)
Nature
, vol.437
, pp. 343-348
-
-
Giovannoni, S.J.1
Stingl, U.2
-
18
-
-
23844446418
-
Genome streamlining in a cosmopolitan oceanic bacterium
-
Giovannoni, S. J., H. J. Tripp, S. Givan, M. Podar, K. L. Vergin, D. Baptista, L. Bibbs, J. Eads, T. H. Richardson, M. Noordewier, M. S. Rappe, J. M. Short, J. C. Carrington, and E. J. Mathur. 2005. Genome streamlining in a cosmopolitan oceanic bacterium. Science 309:1242-1245.
-
(2005)
Science
, vol.309
, pp. 1242-1245
-
-
Giovannoni, S.J.1
Tripp, H.J.2
Givan, S.3
Podar, M.4
Vergin, K.L.5
Baptista, D.6
Bibbs, L.7
Eads, J.8
Richardson, T.H.9
Noordewier, M.10
Rappe, M.S.11
Short, J.M.12
Carrington, J.C.13
Mathur, E.J.14
-
19
-
-
63849261574
-
-
Hall, T. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41:95-98.
-
Hall, T. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41:95-98.
-
-
-
-
20
-
-
4444370893
-
Reverse methanogenesis: Testing the hypothesis with environmental genomics
-
Hallam, S. J., N. Putnam, C. M. Preston, J. C. Detter, D. Rokhsar, P. M. Richardson, and E. F. DeLong. 2004. Reverse methanogenesis: testing the hypothesis with environmental genomics. Science 305:1457-1462.
-
(2004)
Science
, vol.305
, pp. 1457-1462
-
-
Hallam, S.J.1
Putnam, N.2
Preston, C.M.3
Detter, J.C.4
Rokhsar, D.5
Richardson, P.M.6
DeLong, E.F.7
-
21
-
-
34547265714
-
Marine natural products. Key advances to the practical application of this resource in drug development
-
Hamann, M. T., R. Hill, and S. Roggo. 2007. Marine natural products. Key advances to the practical application of this resource in drug development. Chimia 61:313-321.
-
(2007)
Chimia
, vol.61
, pp. 313-321
-
-
Hamann, M.T.1
Hill, R.2
Roggo, S.3
-
22
-
-
33750457352
-
Bacterial taxa that limit sulfur flux from the ocean
-
Howard, E. C, J. R. Henriksen, A. Buchan, C. R. Reisch, H. Buergmann, R. Welsh, W. Y. Ye, J. M. Gonzalez, K. Mace, S. B. Joye, R. P. Kiene, W. B. Whitman, and M. A. Moran. 2006. Bacterial taxa that limit sulfur flux from the ocean. Science 314:649-652.
-
(2006)
Science
, vol.314
, pp. 649-652
-
-
Howard, E.C.1
Henriksen, J.R.2
Buchan, A.3
Reisch, C.R.4
Buergmann, H.5
Welsh, R.6
Ye, W.Y.7
Gonzalez, J.M.8
Mace, K.9
Joye, S.B.10
Kiene, R.P.11
Whitman, W.B.12
Moran, M.A.13
-
23
-
-
48749128146
-
Abundant and diverse bacteria involved in DMSP degradation in marine surface waters
-
Howard, E. C, S. Sun, E. J. Biers, and M. A. Moran. 2008. Abundant and diverse bacteria involved in DMSP degradation in marine surface waters. Environ. Microbiol. 10:2397-2410.
-
(2008)
Environ. Microbiol
, vol.10
, pp. 2397-2410
-
-
Howard, E.C.1
Sun, S.2
Biers, E.J.3
Moran, M.A.4
-
24
-
-
35148888609
-
Microbial population structures in the deep marine biosphere
-
Huber, J. A., D. Mark Welch, H. G. Morrison, S. M. Huse, P. R. Neal, D. A. Butterfteld, and M. L. Sogin. 2007. Microbial population structures in the deep marine biosphere. Science 318:97-100.
-
(2007)
Science
, vol.318
, pp. 97-100
-
-
Huber, J.A.1
Mark Welch, D.2
Morrison, H.G.3
Huse, S.M.4
Neal, P.R.5
Butterfteld, D.A.6
Sogin, M.L.7
-
25
-
-
0035487318
-
Counting the uncountable: Statistical approaches to estimating microbial diversity
-
Hughes, J. B., J. J. Hellmann, T. H. Ricketts, and B. J. M. Bohannan. 2001. Counting the uncountable: statistical approaches to estimating microbial diversity. Appl. Environ. Microbiol. 67:4399-4406.
-
(2001)
Appl. Environ. Microbiol
, vol.67
, pp. 4399-4406
-
-
Hughes, J.B.1
Hellmann, J.J.2
Ricketts, T.H.3
Bohannan, B.J.M.4
-
26
-
-
33947226782
-
Structural and functional diversity of the microbial kinome
-
Kannan, N., S. S. Taylor, Y. F. Zhai, J. C. Venter, and G. Manning. 2007. Structural and functional diversity of the microbial kinome. PLoS Biol. 5:467-478.
-
(2007)
PLoS Biol
, vol.5
, pp. 467-478
-
-
Kannan, N.1
Taylor, S.S.2
Zhai, Y.F.3
Venter, J.C.4
Manning, G.5
-
27
-
-
12344309156
-
-
Kemp, P. F., and J. Y. Aller. 2004. Estimating prokaryotic diversity: when are 16S rDNA libraries large enough? Limnol. Oceanogr. Methods 2:114-125.
-
Kemp, P. F., and J. Y. Aller. 2004. Estimating prokaryotic diversity: when are 16S rDNA libraries large enough? Limnol. Oceanogr. Methods 2:114-125.
-
-
-
-
28
-
-
0034074410
-
rRNA operon copy number reflects ecological strategies of bacteria
-
Klappenbach, J. A., J. M. Dunbar, and T. M. Schmidt. 2000. rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66:1328-1333.
-
(2000)
Appl. Environ. Microbiol
, vol.66
, pp. 1328-1333
-
-
Klappenbach, J.A.1
Dunbar, J.M.2
Schmidt, T.M.3
-
29
-
-
0035173421
-
RRNDB: The ribosomal RNA operon copy number database
-
Klappenbach, J. A., P. R. Saxman, J. R. Cole, and T. M. Schmidt. 2001. RRNDB: the ribosomal RNA operon copy number database. Nucleic Acids Res. 29:181-184.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 181-184
-
-
Klappenbach, J.A.1
Saxman, P.R.2
Cole, J.R.3
Schmidt, T.M.4
-
30
-
-
0025245767
-
Organization of the bacterial chromosome
-
Krawiec, S., and M. Riley. 1990. Organization of the bacterial chromosome. Microbiol. Rev. 54:502-539.
-
(1990)
Microbiol. Rev
, vol.54
, pp. 502-539
-
-
Krawiec, S.1
Riley, M.2
-
31
-
-
0032482462
-
Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes
-
Moore, L. R., G. Rocap, and S. Wr. Chisholm. 1998. Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes. Nature 393:464-467.
-
(1998)
Nature
, vol.393
, pp. 464-467
-
-
Moore, L.R.1
Rocap, G.2
Chisholm, S.W.3
-
32
-
-
34547150003
-
Ecological genomics of marine roseobacters
-
Moran, M. A., R. Belas, M. A. Schell, J. M. Gonzalez, F. Sun, S, Sun, B. J. Binder, J. Edmonds, W. Ye, B. Orcutt, E. C. Howard, C. Meile, W. Palefsky, A. Goesmann, Q. Ren, I. Paulsen, L. E. Ulrich, L. S. Thompson, E. Saunders, and A. Buchan. 2007. Ecological genomics of marine roseobacters. Appl. Environ. Microbiol. 73:4559-4569.
-
(2007)
Appl. Environ. Microbiol
, vol.73
, pp. 4559-4569
-
-
Moran, M.A.1
Belas, R.2
Schell, M.A.3
Gonzalez, J.M.4
Sun, F.5
Sun, S.6
Binder, B.J.7
Edmonds, J.8
Ye, W.9
Orcutt, B.10
Howard, E.C.11
Meile, C.12
Palefsky, W.13
Goesmann, A.14
Ren, Q.15
Paulsen, I.16
Ulrich, L.E.17
Thompson, L.S.18
Saunders, E.19
Buchan, A.20
more..
-
33
-
-
19944408938
-
-
Moran, M. A., A. Buchan, J. M. Gonzalez, J. F. Heidelberg, W. B. Whitman, R. P. Kiene, J. R. Henriksen, G. M. King, R. Belas, C. Fuqua, L. Brinkac, M. Lewis, S. Johri, B. Weaver, G. Pai, J. A. Eisen, E. Rahe, W. M. Sheldon, W. Y. Ye, T. R. Miller, J. Carlton, D. A. Rasko, I. T. Paulsen, Q. H. Ren, S. C. Daugherty, R. T. Deboy, R. J. Dodson, A. S. Durkin, R. Madupu, W. C. Nelson, S. A. Sullivan, M. J. Rosovitz, D. H. Haft, J. Selengut, and N. Ward. 2004. Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment. Nature 432:910-913.
-
Moran, M. A., A. Buchan, J. M. Gonzalez, J. F. Heidelberg, W. B. Whitman, R. P. Kiene, J. R. Henriksen, G. M. King, R. Belas, C. Fuqua, L. Brinkac, M. Lewis, S. Johri, B. Weaver, G. Pai, J. A. Eisen, E. Rahe, W. M. Sheldon, W. Y. Ye, T. R. Miller, J. Carlton, D. A. Rasko, I. T. Paulsen, Q. H. Ren, S. C. Daugherty, R. T. Deboy, R. J. Dodson, A. S. Durkin, R. Madupu, W. C. Nelson, S. A. Sullivan, M. J. Rosovitz, D. H. Haft, J. Selengut, and N. Ward. 2004. Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment. Nature 432:910-913.
-
-
-
-
34
-
-
38949113807
-
Bacterial carbon processing by generalist species in the coastal ocean
-
Mou, X. Z., S. L. Sun, R. A. Edwards, R. E. Hodson, and M. A. Moran. 2008. Bacterial carbon processing by generalist species in the coastal ocean. Nature 451:708-711.
-
(2008)
Nature
, vol.451
, pp. 708-711
-
-
Mou, X.Z.1
Sun, S.L.2
Edwards, R.A.3
Hodson, R.E.4
Moran, M.A.5
-
35
-
-
46249101254
-
Picoeukary-otic sequences in the Sargasso Sea metagenome
-
Piganeau, G., Y. Desdevises, E. Derelle, and H. Moreau. 2008. Picoeukary-otic sequences in the Sargasso Sea metagenome. Genome Biol. 9:11.
-
(2008)
Genome Biol
, vol.9
, pp. 11
-
-
Piganeau, G.1
Desdevises, Y.2
Derelle, E.3
Moreau, H.4
-
36
-
-
33846914243
-
Global patterns of diversity and community structure in marine bacterioplankton
-
Pommier, T., B. Canback, L. Riemann, K. H. Bostrom, K. Simu, P. Lund-berg, A. Tunlid, and A. Hagstrom. 2007. Global patterns of diversity and community structure in marine bacterioplankton. Mol. Ecol. 16:867-880.
-
(2007)
Mol. Ecol
, vol.16
, pp. 867-880
-
-
Pommier, T.1
Canback, B.2
Riemann, L.3
Bostrom, K.H.4
Simu, K.5
Lund-berg, P.6
Tunlid, A.7
Hagstrom, A.8
-
37
-
-
35748976529
-
Get the most out of your metagenome: Computational analysis of environmental sequence data
-
Raes, J., K. U. Foerstner, and P. Bors. 2007. Get the most out of your metagenome: computational analysis of environmental sequence data. Curr. Opin. Microbiol. 10:490-498.
-
(2007)
Curr. Opin. Microbiol
, vol.10
, pp. 490-498
-
-
Raes, J.1
Foerstner, K.U.2
Bors, P.3
-
38
-
-
33847280283
-
Prediction of effective genome size in metagenomic samples
-
Raes, J., J. O. Korbel, M. J. Lercher, C. von Mering, and P. Bork, 2007. Prediction of effective genome size in metagenomic samples. Genome Biol. 8:11.
-
(2007)
Genome Biol
, vol.8
, pp. 11
-
-
Raes, J.1
Korbel, J.O.2
Lercher, M.J.3
von Mering, C.4
Bork, P.5
-
39
-
-
0031395502
-
Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatte ras. North Carolina
-
Rappè, M. S., P. F. Kemp, and S. J Giovannoni. 1997. Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatte ras. North Carolina. Limnol. Oceanogr. 42:811-826.
-
(1997)
Limnol. Oceanogr
, vol.42
, pp. 811-826
-
-
Rappè, M.S.1
Kemp, P.F.2
Giovannoni, S.J.3
-
40
-
-
0042878464
-
Genome divergence in too Prochlorococcus ecotypes reflects oceanic niche differentiation
-
Rocap, G, F. W, Larimer, J, Lamerdin, S. Malfatti, P. Chain, N. A. Ahlgren, A. Arellano, M. Coleman, L. Häuser, W. R. Hess, Z. L Johnson, M. Land, D. Lindell, A. F. Post, W. Regala, M. Shah, S. L. Shaw, C. Steglich, M. B. Sullivan, C. S. Ting, A. Tolonen, E. A. Webb, E. R. Zinser, and S. W. Chisholm. 2003. Genome divergence in too Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424:1042-1047.
-
(2003)
Nature
, vol.424
, pp. 1042-1047
-
-
Rocap, G.F.W.1
Larimer, J.2
Lamerdin3
Malfatti, S.4
Chain, P.5
Ahlgren, N.A.6
Arellano, A.7
Coleman, M.8
Häuser, L.9
Hess, W.R.10
Johnson, Z.L.11
Land, M.12
Lindell, D.13
Post, A.F.14
Regala, W.15
Shah, M.16
Shaw, S.L.17
Steglich, C.18
Sullivan, M.B.19
Ting, C.S.20
Tolonen, A.21
Webb, E.A.22
Zinser, E.R.23
Chisholm, S.W.24
more..
-
41
-
-
33947238287
-
-
Rusch, D, B, A. L. Halpern, G, Sutton, K. B. Heidelberg, S. Williamson, S. Yooseph, D. Y. Wu, J. A. Eisen, J. M. Hoffman, K. Remington, K. Beeson, B. Tran, H. Smith, H. Baden-Tillson, C. Stewart, J. Thorpe, J. Freeman, C. Andrews-Pfannkoch, J. E. Venter, K. Li, S. Kravitz, J. F. Heidelberg, T. Utterback, Y. H. Rogers, L. I. Falcon, V. Souza, G. Bonilla-Rosso, L. E. Eguiarte, D. M. Karl, S. Sathyendranath, T. Platt, E. Bermingham, V. Gallardo, G. Tamayo-Castillo, M. R. Ferrari, R. L, Strausberg, K, Nealson, R. Friedman, M. Frazier, and J. C. Venter. 2007. The Sorcerer 11 Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol. 5:398-4131.
-
Rusch, D, B, A. L. Halpern, G, Sutton, K. B. Heidelberg, S. Williamson, S. Yooseph, D. Y. Wu, J. A. Eisen, J. M. Hoffman, K. Remington, K. Beeson, B. Tran, H. Smith, H. Baden-Tillson, C. Stewart, J. Thorpe, J. Freeman, C. Andrews-Pfannkoch, J. E. Venter, K. Li, S. Kravitz, J. F. Heidelberg, T. Utterback, Y. H. Rogers, L. I. Falcon, V. Souza, G. Bonilla-Rosso, L. E. Eguiarte, D. M. Karl, S. Sathyendranath, T. Platt, E. Bermingham, V. Gallardo, G. Tamayo-Castillo, M. R. Ferrari, R. L, Strausberg, K, Nealson, R. Friedman, M. Frazier, and J. C. Venter. 2007. The Sorcerer 11 Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol. 5:398-4131.
-
-
-
-
42
-
-
4344584482
-
Different SAR86 subgroups harbour divergent proteorhodopsins
-
Sabehi, G., O. Beja, M. T. Suzuki, C. M. Preston, and E. F. DeLong. 2004. Different SAR86 subgroups harbour divergent proteorhodopsins. Environ. Microbiol. 6:903-910.
-
(2004)
Environ. Microbiol
, vol.6
, pp. 903-910
-
-
Sabehi, G.1
Beja, O.2
Suzuki, M.T.3
Preston, C.M.4
DeLong, E.F.5
-
43
-
-
15444362001
-
Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness
-
Schloss, P. D., and J, Handelsman. 2005. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Environ. Microbiol. 71:1501-1506.
-
(2005)
Appl. Environ. Microbiol
, vol.71
, pp. 1501-1506
-
-
Schloss, P.D.1
Handelsman, J.2
-
44
-
-
33947215475
-
CAMERA: A community resource for metagenomics
-
Seshadri, R., S. A. Kravitz, L. Smarr, P. Gilna, and M. Frazier. 2007. CAMERA: a community resource for metagenomics. PLoS Biol. 5:394-397.
-
(2007)
PLoS Biol
, vol.5
, pp. 394-397
-
-
Seshadri, R.1
Kravitz, S.A.2
Smarr, L.3
Gilna, P.4
Frazier, M.5
-
45
-
-
48749125472
-
It's all relative: Ranking the diversity of aquatic bacterial communities
-
Shaw, A. K., A. L. Halpern, K. Beeson, B. Tran, J. C. Venter, and J. B. H. Martiny. 2008. It's all relative: ranking the diversity of aquatic bacterial communities. Environ. Microbiol. 10:2200-2210.
-
(2008)
Environ. Microbiol
, vol.10
, pp. 2200-2210
-
-
Shaw, A.K.1
Halpern, A.L.2
Beeson, K.3
Tran, B.4
Venter, J.C.5
Martiny, J.B.H.6
-
46
-
-
0035463837
-
Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples
-
Singleton, D. R., M. A. Furlong, S. L. Rathbun, and W. B. Whitman. 2001. Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples. Appl. Environ. Microbiol. 67:4374-4376.
-
(2001)
Appl. Environ. Microbiol
, vol.67
, pp. 4374-4376
-
-
Singleton, D.R.1
Furlong, M.A.2
Rathbun, S.L.3
Whitman, W.B.4
-
47
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith, T, F., and M, S. Waterman, 1981. Identification of common molecular subsequences. J. Mol. Biol. 147:195-197.
-
(1981)
J. Mol. Biol
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
48
-
-
0028028182
-
A place for DNA-DNA reassociation and 16S ribosomal-RNA sequence analysis in the present species definition in bacteriology
-
Stackebrandt, E., and B. M. Goebel. 1994. A place for DNA-DNA reassociation and 16S ribosomal-RNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44:846-849.
-
(1994)
Int. J. Syst. Bacteriol
, vol.44
, pp. 846-849
-
-
Stackebrandt, E.1
Goebel, B.M.2
-
49
-
-
0032726707
-
A small and compact genome in the marine cyanobacterium Prochlorococcus marinus CCMP 1375: Lack of an intron in the gene for tRNA(Leu)(UAA) and a single copy of the rRNA Operon
-
Strehl, B., J. Holtzendorff, F. Partensky, and W. R. Hess. 1999. A small and compact genome in the marine cyanobacterium Prochlorococcus marinus CCMP 1375: lack of an intron in the gene for tRNA(Leu)(UAA) and a single copy of the rRNA Operon. FEMS Microbiol. Lett. 181:261-266.
-
(1999)
FEMS Microbiol. Lett
, vol.181
, pp. 261-266
-
-
Strehl, B.1
Holtzendorff, J.2
Partensky, F.3
Hess, W.R.4
-
50
-
-
20244376755
-
Comparative metagenomics of microbial communities
-
Tringe, S. G., C. von Mering, A. Kobayashi, A. A. Salamov, K, Chen, H. W. Chang, M. Podar, J. M. Short, E. J. Mathur, J. C. Detter, P. Bork, P. Hugenholtz, and E. M. Rubin. 2005. Comparative metagenomics of microbial communities. Science 308:554-557.
-
(2005)
Science
, vol.308
, pp. 554-557
-
-
Tringe, S.G.1
von Mering, C.2
Kobayashi, A.3
Salamov, A.A.4
Chen, K.5
Chang, H.W.6
Podar, M.7
Short, J.M.8
Mathur, E.J.9
Detter, J.C.10
Bork, P.11
Hugenholtz, P.12
Rubin, E.M.13
-
51
-
-
1942537639
-
Genome update: AT content in sequenced prokaryotic genomes
-
Ussery, D. W., and P. F. Hallin. 2004. Genome update: AT content in sequenced prokaryotic genomes. Microbiology 150:749-752.
-
(2004)
Microbiology
, vol.150
, pp. 749-752
-
-
Ussery, D.W.1
Hallin, P.F.2
-
52
-
-
11144354360
-
-
Venter, J. C, K. Remington, J. F. Heidelberg, A. L. Halpern, D. Rusch, J. A. Eisen, D. Y. Wu, I. Paulsen, K. E. Nelson, W, Nelson, D. E. Fouts, S. Levy, A. H. Knap, M. W. Lomas, K. Nealson, O. White, J. Peterson, J. Hoffman, R. Parsons, H. Baden-Tillson, C. Pfannkoch, Y. H. Rogers, and H. O. Smith. 2004. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304:66-74.
-
Venter, J. C, K. Remington, J. F. Heidelberg, A. L. Halpern, D. Rusch, J. A. Eisen, D. Y. Wu, I. Paulsen, K. E. Nelson, W, Nelson, D. E. Fouts, S. Levy, A. H. Knap, M. W. Lomas, K. Nealson, O. White, J. Peterson, J. Hoffman, R. Parsons, H. Baden-Tillson, C. Pfannkoch, Y. H. Rogers, and H. O. Smith. 2004. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304:66-74.
-
-
-
-
53
-
-
34548406920
-
High intraspecific recombination rate in a native population of Candidatus Pelagibacter ubique (SAR11)
-
Vergin, K. L., H J. Tripp, L. J. Wilhelm, D. R. Denver, M. S. Rappe, and S. J. Giovannoni. 2007. High intraspecific recombination rate in a native population of Candidatus Pelagibacter ubique (SAR11). Environ. Microbiol. 9:2430-2440.
-
(2007)
Environ. Microbiol
, vol.9
, pp. 2430-2440
-
-
Vergin, K.L.1
Tripp, H.J.2
Wilhelm, L.J.3
Denver, D.R.4
Rappe, M.S.5
Giovannoni, S.J.6
-
54
-
-
0345195995
-
Determination of microbial diversity in environmental samples: Pitfalls of PCR-based rRNA analysis
-
von Wintzingerode, F., U. B. Gobel, and E. Stackebrandt. 1997. Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis. FEMS Microbiol. Rev. 21:213-229.
-
(1997)
FEMS Microbiol. Rev
, vol.21
, pp. 213-229
-
-
von Wintzingerode, F.1
Gobel, U.B.2
Stackebrandt, E.3
-
55
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
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. Appl. Environ. Microbiol. 73:5261-5267.
-
(2007)
Appl. Environ. Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
56
-
-
33646876182
-
Average gene length is highly conserved in prokaryotes and eukaryotes and diverges only between the two kingdoms
-
Xu, L., H. Chen, X. H. Hu, R. M. Zhang, Z. Zhang, and Z. W. Luo. 2006. Average gene length is highly conserved in prokaryotes and eukaryotes and diverges only between the two kingdoms. Mol. Biol. Evol. 23:1107-1108.
-
(2006)
Mol. Biol. Evol
, vol.23
, pp. 1107-1108
-
-
Xu, L.1
Chen, H.2
Hu, X.H.3
Zhang, R.M.4
Zhang, Z.5
Luo, Z.W.6
-
57
-
-
33947235074
-
-
Yooseph, S., G. Sutton, D. B. Rusch, A. L. Halpern, S. J. Williamson, K. Remington, J. A. Eisen, K. B. Heidelberg, G. Manning, W. Z. Li, L. Jarosze-wski, P. Cieplak, C. S. Miller, H Y. Li, S. T. Mashiyama, M. P. Joachimiak, C. van Belle, J. M. Chandonia, D. A. Soergel, Y. F. Zhai, K. Natarajan, S. Lee, B. J, Raphael, V. Bafha, R, Friedman, S. E. Brenner, A. Godzik, D. Eisenberg, J. E. Dixon, S. S. Taylor, R. L. Strausberg, M. Frazier, and J. C. Venter. 2007. The Sorcerer 11 Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol. 5:432-466.
-
Yooseph, S., G. Sutton, D. B. Rusch, A. L. Halpern, S. J. Williamson, K. Remington, J. A. Eisen, K. B. Heidelberg, G. Manning, W. Z. Li, L. Jarosze-wski, P. Cieplak, C. S. Miller, H Y. Li, S. T. Mashiyama, M. P. Joachimiak, C. van Belle, J. M. Chandonia, D. A. Soergel, Y. F. Zhai, K. Natarajan, S. Lee, B. J, Raphael, V. Bafha, R, Friedman, S. E. Brenner, A. Godzik, D. Eisenberg, J. E. Dixon, S. S. Taylor, R. L. Strausberg, M. Frazier, and J. C. Venter. 2007. The Sorcerer 11 Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol. 5:432-466.
-
-
-
-
58
-
-
34248573531
-
Assessing diversity and biogeography of aerobic anoxygenic phototrophic bacteria in surface waters of the Atlantic and Pacific oceans using the Global Ocean Sampling expedition metagenomes
-
Yutin, N., M. T. Suzuki, H Teeling, M. Weber, J. C. Venter, D. B. Rusch, and O. Béjà. 2007. Assessing diversity and biogeography of aerobic anoxygenic phototrophic bacteria in surface waters of the Atlantic and Pacific oceans using the Global Ocean Sampling expedition metagenomes. Environ. Microbiol. 9:1464-1475.
-
(2007)
Environ. Microbiol
, vol.9
, pp. 1464-1475
-
-
Yutin, N.1
Suzuki, M.T.2
Teeling, H.3
Weber, M.4
Venter, J.C.5
Rusch, D.B.6
Béjà, O.7
|