-
1
-
-
0242384034
-
Review and re-analysis of domain-specific 16S primers
-
Baker, G. C., Smith, J. J. & Cowan, D. A. (2003). Review and re-analysis of domain-specific 16S primers. J Microbiol Methods 55, 541-555.
-
(2003)
J Microbiol Methods
, vol.55
, pp. 541-555
-
-
Baker, G.C.1
Smith, J.J.2
Cowan, D.A.3
-
2
-
-
84855367993
-
Tropodithietic acid production in Phaeobacter gallaeciensis is regulated by N-acyl homoserine lactone-mediated quorum sensing
-
Berger, M., Neumann, A., Schulz, S., Simon, M. & Brinkhoff, T. (2011). Tropodithietic acid production in Phaeobacter gallaeciensis is regulated by N-acyl homoserine lactone-mediated quorum sensing. J Bacteriol 193, 6576-6585.
-
(2011)
J Bacteriol
, vol.193
, pp. 6576-6585
-
-
Berger, M.1
Neumann, A.2
Schulz, S.3
Simon, M.4
Brinkhoff, T.5
-
3
-
-
84861146136
-
Genetic analysis of the upper phenylacetate catabolic pathway in the production of tropodithietic acid by Phaeobacter gallaeciensis
-
Berger, M., Brock, N. L., Liesegang, H., Dogs, M., Preuth, I., Simon, M., Dickschat, J. S. & Brinkhoff, T. (2012). Genetic analysis of the upper phenylacetate catabolic pathway in the production of tropodithietic acid by Phaeobacter gallaeciensis. Appl Environ Microbiol 78, 3539-3551.
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 3539-3551
-
-
Berger, M.1
Brock, N.L.2
Liesegang, H.3
Dogs, M.4
Preuth, I.5
Simon, M.6
Dickschat, J.S.7
Brinkhoff, T.8
-
4
-
-
57649123534
-
Global phenotypic characterization of bacteria
-
Bochner, B. R. (2009). Global phenotypic characterization of bacteria. FEMS Microbiol Rev 33, 191-205.
-
(2009)
FEMS Microbiol Rev
, vol.33
, pp. 191-205
-
-
Bochner, B.R.1
-
5
-
-
0034911878
-
Phenotype microarrays for high-throughput phenotypic testing and assay of gene function
-
Bochner, B. R., Gadzinski, P. & Panomitros, E. (2001). Phenotype microarrays for high-throughput phenotypic testing and assay of gene function. Genome Res 11, 1246-1255.
-
(2001)
Genome Res
, vol.11
, pp. 1246-1255
-
-
Bochner, B.R.1
Gadzinski, P.2
Panomitros, E.3
-
6
-
-
7644234811
-
Antibiotic production by a Roseobacter clade-affiliated species from the German Wadden Sea and its antagonistic effects on indigenous isolates
-
Brinkhoff, T., Bach, G., Heidorn, T., Liang, L., Schlingloff, A. & Simon, M. (2004). Antibiotic production by a Roseobacter clade-affiliated species from the German Wadden Sea and its antagonistic effects on indigenous isolates. Appl Environ Microbiol 70, 2560-2565.
-
(2004)
Appl Environ Microbiol
, vol.70
, pp. 2560-2565
-
-
Brinkhoff, T.1
Bach, G.2
Heidorn, T.3
Liang, L.4
Schlingloff, A.5
Simon, M.6
-
7
-
-
33846430909
-
Production of antibacterial compounds and biofilm formation by Roseobacter species are influenced by culture conditions
-
Bruhn, J. B., Gram, L. & Belas, R. (2007). Production of antibacterial compounds and biofilm formation by Roseobacter species are influenced by culture conditions. Appl Environ Microbiol 73, 442-450.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 442-450
-
-
Bruhn, J.B.1
Gram, L.2
Belas, R.3
-
8
-
-
0017758250
-
A rapid method for the base ratio determination of bacterial DNA
-
Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M. (1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461-466.
-
(1977)
Anal Biochem
, vol.81
, pp. 461-466
-
-
Cashion, P.1
Holder-Franklin, M.A.2
McCully, J.3
Franklin, M.4
-
9
-
-
79959366565
-
Draft genome of Phaeobacter gallaeciensis ANG1, a dominant member of the accessory nidamental gland of Euprymna scolopes
-
Collins, A. J. & Nyholm, S. V. (2011). Draft genome of Phaeobacter gallaeciensis ANG1, a dominant member of the accessory nidamental gland of Euprymna scolopes. J Bacteriol 193, 3397-3398.
-
(2011)
J Bacteriol
, vol.193
, pp. 3397-3398
-
-
Collins, A.J.1
Nyholm, S.V.2
-
10
-
-
0014713693
-
The quantitative measurement of DNA hybridization from renaturation rates
-
De Ley, J., Cattoir, H. & Reynaerts, A. (1970). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133-142.
-
(1970)
Eur J Biochem
, vol.12
, pp. 133-142
-
-
de Ley, J.1
Cattoir, H.2
Reynaerts, A.3
-
11
-
-
76649097665
-
Pathways and substrate specificity of DMSP catabolism in marine bacteria of the Roseobacter clade
-
Dickschat, J. S., Zell, C. & Brock, N. L. (2010). Pathways and substrate specificity of DMSP catabolism in marine bacteria of the Roseobacter clade. ChemBioChem 11, 417-425.
-
(2010)
ChemBioChem
, vol.11
, pp. 417-425
-
-
Dickschat, J.S.1
Zell, C.2
Brock, N.L.3
-
12
-
-
0000472542
-
Estimating phylogenetic trees from distance matrices
-
Farris, J. S. (1972). Estimating phylogenetic trees from distance matrices. Am Nat 106, 645-668.
-
(1972)
Am Nat
, vol.106
, pp. 645-668
-
-
Farris, J.S.1
-
13
-
-
0019797407
-
Evolutionary trees from DNA sequences: A maximum likelihood approach
-
Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
-
(1981)
J Mol Evol
, vol.17
, pp. 368-376
-
-
Felsenstein, J.1
-
14
-
-
82655180438
-
Genomes and virulence factors of novel bacterial pathogens causing bleaching disease in the marine red alga Delisea pulchra
-
Fernandes, N., Case, R. J., Longford, S. R., Seyedsayamdost, M. R., Steinberg, P. D., Kjelleberg, S. & Thomas, T. (2011). Genomes and virulence factors of novel bacterial pathogens causing bleaching disease in the marine red alga Delisea pulchra. PLoS ONE 6, e27387.
-
(2011)
PLoS ONE
, vol.e27387
, pp. 6
-
-
Fernandes, N.1
Case, R.J.2
Longford, S.R.3
Seyedsayamdost, M.R.4
Steinberg, P.D.5
Kjelleberg, S.6
Thomas, T.7
-
15
-
-
84959747425
-
Towards defining the course of evolution: Minimal change for a specified tree topology
-
Fitch, W. M. (1971). Towards defining the course of evolution: minimal change for a specified tree topology. Syst Zool 20, 406-416.
-
(1971)
Syst Zool
, vol.20
, pp. 406-416
-
-
Fitch, W.M.1
-
16
-
-
84883784311
-
Phaeobacter leonis sp. nov., an alphaproteobacterium from Mediterranean Sea sediments
-
Gaboyer, F., Tindall, B. J., Ciobanu, M.-C., Duthoit, F., Le Romancer, M. & Alain, K. (2013). Phaeobacter leonis sp. nov., an alphaproteobacterium from Mediterranean Sea sediments. Int J Syst Evol Microbiol 63, 3301-3306.
-
(2013)
Int J Syst Evol Microbiol
, vol.63
, pp. 3301-3306
-
-
Gaboyer, F.1
Tindall, B.J.2
Ciobanu, M.-C.3
Duthoit, F.4
Le Romancer, M.5
Alain, K.6
-
17
-
-
40549094625
-
Genetic dissection of tropodithietic acid biosynthesis by marine roseobacters
-
Geng, H., Bruhn, J. B., Nielsen, K. F., Gram, L. & Belas, R. (2008). Genetic dissection of tropodithietic acid biosynthesis by marine roseobacters. Appl Environ Microbiol 74, 1535-1545.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 1535-1545
-
-
Geng, H.1
Bruhn, J.B.2
Nielsen, K.F.3
Gram, L.4
Belas, R.5
-
18
-
-
0030054296
-
New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region
-
Gurtler, V. & Stanisich, V. A. (1996). New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region. Microbiology 142, 3-16.
-
(1996)
Microbiology
, vol.142
, pp. 3-16
-
-
Gurtler, V.1
Stanisich, V.A.2
-
19
-
-
0028261409
-
Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective
-
Gutell, R. R., Larsen, N. & Woese, C. R. (1994). Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective. Microbiol Rev 58, 10-26.
-
(1994)
Microbiol Rev
, vol.58
, pp. 10-26
-
-
Gutell, R.R.1
Larsen, N.2
Woese, C.R.3
-
20
-
-
36849014457
-
An empirical test of the midpoint rooting method
-
Hess, P. N. & De Moraes Russo, C. A. (2007). An empirical test of the midpoint rooting method. Biol J Linn Soc Lond 92, 669-674.
-
(2007)
Biol J Linn Soc Lond
, vol.92
, pp. 669-674
-
-
Hess, P.N.1
De Moraes, R.C.A.2
-
21
-
-
0020549589
-
Studies on the spectrophotometric determination of DNA hybridization from renaturation rates
-
Huß, V. A., Festl, H. & Schleifer, K. H. (1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184-192.
-
(1983)
Syst Appl Microbiol
, vol.4
, pp. 184-192
-
-
Huß, V.A.1
Festl, H.2
Schleifer, K.H.3
-
22
-
-
13744252890
-
MAFFT version 5: Improvement in accuracy of multiple sequence alignment
-
Katoh, K., Kuma, K., Toh, H. & Miyata, T. (2005). MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res 33, 511-518.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 511-518
-
-
Katoh, K.1
Kuma, K.2
Toh, H.3
Miyata, T.4
-
23
-
-
0001857117
-
16S/23S rRNA sequencing
-
Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley
-
Lane, D. J. (1991). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115-175. Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley.
-
(1991)
Nucleic Acid Techniques In Bacterial Systematics
, pp. 115-175
-
-
Lane, D.J.1
-
24
-
-
84861898310
-
IMG: The Integrated Microbial Genomes database and comparative analysis system
-
Markowitz, V. M., Chen, I.-M. A., Palaniappan, K., Chu, K., Szeto, E., Grechkin, Y., Ratner, A., Jacob, B., Huang, J. & other authors (2012). IMG: the Integrated Microbial Genomes database and comparative analysis system. Nucleic Acids Res 40 (Database issue), D115-D122.
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.Database issue
-
-
Markowitz, V.M.1
Chen, I.-M.A.2
Palaniappan, K.3
Chu, K.4
Szeto, E.5
Grechkin, Y.6
Ratner, A.7
Jacob, B.8
Huang, J.9
-
25
-
-
33745300025
-
Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., reclassification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola gen. nov., comb. nov., and emended descriptions of the genera Roseobacter, Ruegeria and Leisingera
-
Martens, T., Heidorn, T., Pukall, R., Simon, M., Tindall, B. J. & Brinkhoff, T. (2006). Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., reclassification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola gen. nov., comb. nov., and emended descriptions of the genera Roseobacter, Ruegeria and Leisingera. Int J Syst Evol Microbiol 56, 1293-1304.
-
(2006)
Int J Syst Evol Microbiol
, vol.56
, pp. 1293-1304
-
-
Martens, T.1
Heidorn, T.2
Pukall, R.3
Simon, M.4
Tindall, B.J.5
Brinkhoff, T.6
-
26
-
-
34447271979
-
Bacteria of the Roseobacter clade show potential for secondary metabolite production
-
Martens, T., Gram, L., Grossart, H.-P., Kessler, D., Muller, R., Simon, M., Wenzel, S. C. & Brinkhoff, T. (2007). Bacteria of the Roseobacter clade show potential for secondary metabolite production. Microb Ecol 54, 31-42.
-
(2007)
Microb Ecol
, vol.54
, pp. 31-42
-
-
Martens, T.1
Gram, L.2
Grossart, H.-P.3
Kessler, D.4
Muller, R.5
Simon, M.6
Wenzel, S.C.7
Brinkhoff, T.8
-
27
-
-
77950820827
-
How many bootstrap replicates are necessary?
-
Pattengale, N. D., Alipour, M., Bininda-Emonds, O. R. P., Moret, B. M. E. & Stamatakis, A. (2010). How many bootstrap replicates are necessary? J Comput Biol 17, 337-354.
-
(2010)
J Comput Biol
, vol.17
, pp. 337-354
-
-
Pattengale, N.D.1
Alipour, M.2
Bininda-Emonds, O.R.P.3
Moret, B.M.E.4
Stamatakis, A.5
-
28
-
-
79958220279
-
Phylogeny and compatibility: Plasmid classification in the genomics era
-
Petersen, J. (2011). Phylogeny and compatibility: plasmid classification in the genomics era. Arch Microbiol 193, 313-321.
-
(2011)
Arch Microbiol
, vol.193
, pp. 313-321
-
-
Petersen, J.1
-
29
-
-
84876672324
-
Extrachromosomal, extraordinary and essential - the plasmids of the Roseobacter clade
-
Petersen, J., Frank, O., Goker, M. & Pradella, S. (2013). Extrachromosomal, extraordinary and essential - the plasmids of the Roseobacter clade. Appl Microbiol Biotechnol 97, 2805-2815.
-
(2013)
Appl Microbiol Biotechnol
, vol.97
, pp. 2805-2815
-
-
Petersen, J.1
Frank, O.2
Goker, M.3
Pradella, S.4
-
30
-
-
76949087152
-
Genome organisation of the marine Roseobacter clade member Marinovum algicola
-
Pradella, S., Pauker, O. & Petersen, J. (2010). Genome organisation of the marine Roseobacter clade member Marinovum algicola. Arch Microbiol 192, 115-126.
-
(2010)
Arch Microbiol
, vol.192
, pp. 115-126
-
-
Pradella, S.1
Pauker, O.2
Petersen, J.3
-
31
-
-
0029799968
-
The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: Proposal of Nocardiopsaceae fam. nov
-
Rainey, F. A., Ward-Rainey, N., Kroppenstedt, R. M. & Stackebrandt, E. (1996). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov. Int J Syst Bacteriol 46, 1088-1092.
-
(1996)
Int J Syst Bacteriol
, vol.46
, pp. 1088-1092
-
-
Rainey, F.A.1
Ward-Rainey, N.2
Kroppenstedt, R.M.3
Stackebrandt, E.4
-
32
-
-
17444365494
-
Competitive interactions in mixed-species biofilms containing the marine bacterium Pseudoalteromonas tunicata
-
Rao, D., Webb, J. S. & Kjelleberg, S. (2005). Competitive interactions in mixed-species biofilms containing the marine bacterium Pseudoalteromonas tunicata. Appl Environ Microbiol 71, 1729-1736.
-
(2005)
Appl Environ Microbiol
, vol.71
, pp. 1729-1736
-
-
Rao, D.1
Webb, J.S.2
Kjelleberg, S.3
-
33
-
-
0343765506
-
Macrorestriction mapping an analysis of bacterial genomes
-
Edited by B. Birren & E. Lai. San Diego, CA: Academic Press
-
Romling, U., Fislage, R. & Tummler, B. (1996). Macrorestriction mapping an analysis of bacterial genomes. In Nonmammalian Genomic Analysis: A Practical Guide, pp. 165-195. Edited by B. Birren & E. Lai. San Diego, CA: Academic Press.
-
(1996)
Nonmammalian Genomic Analysis: A Practical Guide
, pp. 165-195
-
-
Romling, U.1
Fislage, R.2
Tummler, B.3
-
34
-
-
0031798779
-
Roseobacter gallaeciensis sp. nov., a new marine bacterium isolated from rearings and collectors of the scallop Pecten maximus
-
Ruiz-Ponte, C., Cilia, V., Lambert, C. & Nicolas, J. L. (1998). Roseobacter gallaeciensis sp. nov., a new marine bacterium isolated from rearings and collectors of the scallop Pecten maximus. Int J Syst Bacteriol 48, 537-542.
-
(1998)
Int J Syst Bacteriol
, vol.48
, pp. 537-542
-
-
Ruiz-Ponte, C.1
Cilia, V.2
Lambert, C.3
Nicolas, J.L.4
-
35
-
-
80755136928
-
Roseobacticides: Small molecule modulators of an algal-bacterial symbiosis
-
Seyedsayamdost, M. R., Carr, G., Kolter, R. & Clardy, J. (2011a). Roseobacticides: small molecule modulators of an algal-bacterial symbiosis. J Am Chem Soc 133, 18343-18349.
-
(2011)
J Am Chem Soc
, vol.133
, pp. 18343-18349
-
-
Seyedsayamdost, M.R.1
Carr, G.2
Kolter, R.3
Clardy, J.4
-
36
-
-
79953096570
-
The Jekyll-and-Hyde chemistry of Phaeobacter gallaeciensis
-
Seyedsayamdost, M. R., Case, R. J., Kolter, R. & Clardy, J. (2011b). The Jekyll-and-Hyde chemistry of Phaeobacter gallaeciensis. Nat Chem 3, 331-335.
-
(2011)
Nat Chem
, vol.3
, pp. 331-335
-
-
Seyedsayamdost, M.R.1
Case, R.J.2
Kolter, R.3
Clardy, J.4
-
37
-
-
0000612080
-
Phenotypic characterization
-
Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology
-
Smibert, R. M. & Krieg, N. R. (1981). Phenotypic characterization. In Manual of Methods for General Bacteriology, pp. 607-654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
-
(1981)
Manual of Methods For General Bacteriology
, pp. 607-654
-
-
Smibert, R.M.1
Krieg, N.R.2
-
38
-
-
50249100595
-
A rapid bootstrap algorithm for the RAxML Web servers
-
Stamatakis, A., Hoover, P. & Rougemont, J. (2008). A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol 57, 758-771.
-
(2008)
Syst Biol
, vol.57
, pp. 758-771
-
-
Stamatakis, A.1
Hoover, P.2
Rougemont, J.3
-
40
-
-
84871308793
-
Phaeobacter gallaeciensis genomes from globally opposite locations reveal high similarity of adaptation to surface life
-
Other others
-
Thole, S., Kalhoefer, D., Voget, S., Berger, M., Engelhardt, T., Liesegang, H., Wollherr, A., Kjelleberg, S., Daniel, R. & other authors (2012). Phaeobacter gallaeciensis genomes from globally opposite locations reveal high similarity of adaptation to surface life. ISME J 6, 2229-2244.
-
(2012)
ISME J
, vol.6
, pp. 2229-2244
-
-
Thole, S.1
Kalhoefer, D.2
Voget, S.3
Berger, M.4
Engelhardt, T.5
Liesegang, H.6
Wollherr, A.7
Kjelleberg, S.8
Daniel, R.9
-
41
-
-
47249128107
-
Wohlfahrtiimonas chitiniclastica gen. nov., sp. nov., a new gammaproteobacterium isolated from Wohlfahrtia magnifica (Diptera: Sarcophagidae)
-
Tóth, E. M., Schumann, P., Borsodi, A. K., Kéki, Z., Kovács, A. L. & Márialigeti, K. (2008). Wohlfahrtiimonas chitiniclastica gen. nov., sp. nov., a new gammaproteobacterium isolated from Wohlfahrtia magnifica (Diptera: Sarcophagidae). Int J Syst Evol Microbiol 58, 976-981.
-
(2008)
Int J Syst Evol Microbiol
, vol.58
, pp. 976-981
-
-
Tóth, E.M.1
Schumann, P.2
Borsodi, A.K.3
Kéki, Z.4
Kovács, A.L.5
Márialigeti, K.6
-
42
-
-
84859982600
-
Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics
-
Vaas, L. A. I., Sikorski, J., Michael, V., Goker, M. & Klenk, H.-P. (2012). Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics. PLoS ONE 7, e34846.
-
(2012)
PLoS ONE
, vol.e34846
, pp. 7
-
-
Vaas, L.A.I.1
Sikorski, J.2
Michael, V.3
Goker, M.4
Klenk, H.-P.5
-
43
-
-
0000770675
-
Report of the ad hoc committee on reconciliation of approaches to bacterial systematics
-
Other authors
-
Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C., Murray, R. G. E. & other authors (1987). Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463-464.
-
(1987)
Int J Syst Bacteriol
, vol.37
, pp. 463-464
-
-
Wayne, L.G.1
Brenner, D.J.2
Colwell, R.R.3
Grimont, P.A.D.4
Kandler, O.5
Krichevsky, M.I.6
Moore, L.H.7
Moore, W.E.C.8
Murray, R.G.E.9
-
44
-
-
68049109520
-
Growth phasedependent global protein and metabolite profiles of Phaeobacter gallaeciensis strain DSM 17395, a member of the marine Roseobacter clade
-
Zech, H., Thole, S., Schreiber, K., Kalhofer, D., Voget, S., Brinkhoff, T., Simon, M., Schomburg, D. & Rabus, R. (2009). Growth phasedependent global protein and metabolite profiles of Phaeobacter gallaeciensis strain DSM 17395, a member of the marine Roseobacter clade. Proteomics 9, 3677-3697.
-
(2009)
Proteomics
, vol.9
, pp. 3677-3697
-
-
Zech, H.1
Thole, S.2
Schreiber, K.3
Kalhofer, D.4
Voget, S.5
Brinkhoff, T.6
Simon, M.7
Schomburg, D.8
Rabus, R.9
-
45
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
Zuker, M. (2003). Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31, 3406-3415.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
|