-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
2
-
-
0034542622
-
Coding in the noncoding DNA strand: A novel mechanism of gene evolution?
-
Boldogkoi, Z. 2000. Coding in the noncoding DNA strand: a novel mechanism of gene evolution? J. Mol. Evol. 51:600-606.
-
(2000)
J. Mol. Evol.
, vol.51
, pp. 600-606
-
-
Boldogkoi, Z.1
-
3
-
-
0036371637
-
The single flavoprotein, AppA, from Rhodobacter sphaeroides integrates both redox and light signals
-
Braatsch, S., M. Gomelsky, S. Kuphal, and G. Klug. 2002. The single flavoprotein, AppA, from Rhodobacter sphaeroides integrates both redox and light signals. Mol. Microbiol. 45:827-836.
-
(2002)
Mol. Microbiol.
, vol.45
, pp. 827-836
-
-
Braatsch, S.1
Gomelsky, M.2
Kuphal, S.3
Klug, G.4
-
4
-
-
0024485485
-
Expression of the Rhodobacter sphaeroides cytochrome c2 structural gene
-
Brandner, J. P., A. G. McEwan, S. Kaplan, and T. J. Donohue. 1989. Expression of the Rhodobacter sphaeroides cytochrome c2 structural gene. J. Bacteriol. 171:360-368.
-
(1989)
J. Bacteriol.
, vol.171
, pp. 360-368
-
-
Brandner, J.P.1
McEwan, A.G.2
Kaplan, S.3
Donohue, T.J.4
-
5
-
-
0035205302
-
Correlation between Bacillus subtilis scoC phenotype and gene expression determined using microarrays for transcriptome analysis
-
Caldwell, R., R. Sapolsky, W. Weyler, R. R. Maile, S. C. Causey, and E. Ferrari. 2001. Correlation between Bacillus subtilis scoC phenotype and gene expression determined using microarrays for transcriptome analysis. J. Bacteriol. 183:7329-7340.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 7329-7340
-
-
Caldwell, R.1
Sapolsky, R.2
Weyler, W.3
Maile, R.R.4
Causey, S.C.5
Ferrari, E.6
-
7
-
-
0024095184
-
In vivo analysis of puf operon expression in Rhodobacter sphaeroides after deletion of a putative intercistronic transcription terminator
-
DeHoff, B. S., J. K. Lee, T. J. Donohue, R. I. Gumport, and S. Kaplan. 1988. In vivo analysis of puf operon expression in Rhodobacter sphaeroides after deletion of a putative intercistronic transcription terminator. J. Bacteriol. 170:4681-4692.
-
(1988)
J. Bacteriol.
, vol.170
, pp. 4681-4692
-
-
DeHoff, B.S.1
Lee, J.K.2
Donohue, T.J.3
Gumport, R.I.4
Kaplan, S.5
-
9
-
-
0028209053
-
A novel cytochrome c oxidase from Rhodobacter sphaeroides that lacks CuA
-
Garcia-Horsman, J. A., E. Berry, J. P. Shapleigh, J. O. Alben, and R. B. Gennis. 1994. A novel cytochrome c oxidase from Rhodobacter sphaeroides that lacks CuA. Biochemistry 33:3113-3119.
-
(1994)
Biochemistry
, vol.33
, pp. 3113-3119
-
-
Garcia-Horsman, J.A.1
Berry, E.2
Shapleigh, J.P.3
Alben, J.O.4
Gennis, R.B.5
-
10
-
-
0029812318
-
The molecular regulation of the reductive pentose phosphate pathway in proteobacteria and cyanobacteria
-
Gibson, J. L., and F. R. Tabita. 1996. The molecular regulation of the reductive pentose phosphate pathway in proteobacteria and cyanobacteria. Arch. Microbiol. 166:141-150.
-
(1996)
Arch. Microbiol.
, vol.166
, pp. 141-150
-
-
Gibson, J.L.1
Tabita, F.R.2
-
11
-
-
0037291329
-
Identification and in vivo characterization of PpaA, a regulator of photosystem formation in Rhodobacter sphaeroides
-
Gomelsky, L., J. Sram, O. V. Moskvin, I. M. Horne, H. N. Dodd, J. M. Pemberton, A. G. MeEwan, S. Kaplan, and M. Gomelsky. 2003. Identification and in vivo characterization of PpaA, a regulator of photosystem formation in Rhodobacter sphaeroides. Microbiology 149:377-388.
-
(2003)
Microbiology
, vol.149
, pp. 377-388
-
-
Gomelsky, L.1
Sram, J.2
Moskvin, O.V.3
Horne, I.M.4
Dodd, H.N.5
Pemberton, J.M.6
MeEwan, A.G.7
Kaplan, S.8
Gomelsky, M.9
-
12
-
-
0036804709
-
BLUF: A novel FAD-binding domain involved in sensory transduction in microorganisms
-
Gomelsky, M., and G. Klug. 2002. BLUF: a novel FAD-binding domain involved in sensory transduction in microorganisms. Trends Biochem. Sci. 27:497-500.
-
(2002)
Trends Biochem. Sci.
, vol.27
, pp. 497-500
-
-
Gomelsky, M.1
Klug, G.2
-
13
-
-
0031026315
-
Molecular genetic evidence suggesting interactions between AppA and PpsR in regulation of photosynthesis gene expression in Rhodobacter sphaeroides 2.4.1
-
Gomelsky, M., and S. Kaplan. 1997. Molecular genetic evidence suggesting interactions between AppA and PpsR in regulation of photosynthesis gene expression in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 179:128-134.
-
(1997)
J. Bacteriol.
, vol.179
, pp. 128-134
-
-
Gomelsky, M.1
Kaplan, S.2
-
14
-
-
0028233723
-
The Q gene of Rhodobacter sphaeroides: Its role in puf operon expression and spectral complex assembly
-
Gong, L., J. K. Lee, and S. Kaplan. 1994. The Q gene of Rhodobacter sphaeroides: its role in puf operon expression and spectral complex assembly. J. Bacteriol. 176:2946-2961.
-
(1994)
J. Bacteriol.
, vol.176
, pp. 2946-2961
-
-
Gong, L.1
Lee, J.K.2
Kaplan, S.3
-
15
-
-
0035180811
-
1-Deoxy-D-xylulose 5-phosphate synthase, the gene product of open reading frame (ORF) 2816 and ORF 2895 in Rhodobacter capsulatus
-
Hahn, F. M., L. M. Eubanks, C. A. Testa, B. S. Blagg, J. A. Baker, and C. D. Poulter. 2001. 1-Deoxy-D-xylulose 5-phosphate synthase, the gene product of open reading frame (ORF) 2816 and ORF 2895 in Rhodobacter capsulatus. J. Bacteriol. 183:1-11.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 1-11
-
-
Hahn, F.M.1
Eubanks, L.M.2
Testa, C.A.3
Blagg, B.S.4
Baker, J.A.5
Poulter, C.D.6
-
16
-
-
0025278580
-
Roles of CfxA, CfxB, and external electron acceptors in regulation of ribulose 1,5-bisphosphate carboxylase/oxygenase expression in Rhodobacter sphaeroides
-
Hallenbeck, P. L., R. Lerchen, P. Hessler, and S. Kaplan. 1990. Roles of CfxA, CfxB, and external electron acceptors in regulation of ribulose 1,5-bisphosphate carboxylase/oxygenase expression in Rhodobacter sphaeroides. J. Bacteriol. 172:1736-1748.
-
(1990)
J. Bacteriol.
, vol.172
, pp. 1736-1748
-
-
Hallenbeck, P.L.1
Lerchen, R.2
Hessler, P.3
Kaplan, S.4
-
17
-
-
0036135679
-
Link between the membrane-bound pyridine nucleotide transhydrogenase and glutathione-dependent processes in Rhodobacter sphaeroides
-
Hickman, J. W., R. D. Barber, E. P. Skaar, and T. J. Donohue. 2002. Link between the membrane-bound pyridine nucleotide transhydrogenase and glutathione-dependent processes in Rhodobacter sphaeroides. J. Bacteriol. 184:400-409.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 400-409
-
-
Hickman, J.W.1
Barber, R.D.2
Skaar, E.P.3
Donohue, T.J.4
-
18
-
-
0037177855
-
Transcript abundance in yeast varies over six orders of magnitude
-
Holland, M. J. 2002. Transcript abundance in yeast varies over six orders of magnitude. J. Biol. Chem. 277:14363-14366.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 14363-14366
-
-
Holland, M.J.1
-
19
-
-
12344280017
-
Summaries of Affymetrix GeneChip probe level data
-
Irizarry, R. A., B. M. Bolstad, F. Collin, L. M. Cope, B. Hobbs, and T. P. Speed. 2003. Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res. 31:e15.
-
(2003)
Nucleic Acids Res.
, vol.31
-
-
Irizarry, R.A.1
Bolstad, B.M.2
Collin, F.3
Cope, L.M.4
Hobbs, B.5
Speed, T.P.6
-
20
-
-
0033982936
-
KEGG: Kyoto encyclopedia of genes and genomes
-
Kanehisa, M., and S. Goto. 2000. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28:27-30.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
21
-
-
0036224939
-
Over 1000 genes are involved in the DNA damage response of Escherichia coli
-
Khil, P. P., and R. D. Camerini-Otero. 2002. Over 1000 genes are involved in the DNA damage response of Escherichia coli. Mol. Microbiol. 44:89-105.
-
(2002)
Mol. Microbiol.
, vol.44
, pp. 89-105
-
-
Khil, P.P.1
Camerini-Otero, R.D.2
-
22
-
-
0035205381
-
RNA expression analysis using an antisense Bacillus subtilis genome array
-
Lee, J.-M., S. Zhang, S. Saha, S. Santa Anna, C. Jiang, and J. Perkins. 2001. RNA expression analysis using an antisense Bacillus subtilis genome array. J. Bacteriol. 183:7371-7380.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 7371-7380
-
-
Lee, J.-M.1
Zhang, S.2
Saha, S.3
Santa Anna, S.4
Jiang, C.5
Perkins, J.6
-
23
-
-
18244372493
-
The home stretch, a preliminary analysis of the nearly completed genome of Rhodobacter sphaeroides 2.4.1
-
Mackenzie, C., M. Choudhary, F. W. Larimer, P. F. Predki, S. Stilwagen, J. P. Armitage, R. D. Barber, T. J. Donohue, J. P. Hosler, J. Newman, J. P. Shapleigh, R. E. Sockett, J. Zeilstra-Ryalls, and S. Kaplan. 2001. The home stretch, a preliminary analysis of the nearly completed genome of Rhodobacter sphaeroides 2.4.1. Photosynthesis Res. 70:19-41.
-
(2001)
Photosynthesis Res.
, vol.70
, pp. 19-41
-
-
Mackenzie, C.1
Choudhary, M.2
Larimer, F.W.3
Predki, P.F.4
Stilwagen, S.5
Armitage, J.P.6
Barber, R.D.7
Donohue, T.J.8
Hosler, J.P.9
Newman, J.10
Shapleigh, J.P.11
Sockett, R.E.12
Zeilstra-Ryalls, J.13
Kaplan, S.14
-
24
-
-
0004136246
-
-
Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
-
Maniatis, T., E. F. Fritsch, and J. Sambrook. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
-
(1989)
Molecular Cloning: A Laboratory Manual, 2nd Ed.
-
-
Maniatis, T.1
Fritsch, E.F.2
Sambrook, J.3
-
25
-
-
0037031561
-
AppA is a blue light photoreceptor that antirepresses photosynthesis gene expression in Rhodobacter sphaeroides
-
Masuda, S., and C. Bauer. 2002. AppA is a blue light photoreceptor that antirepresses photosynthesis gene expression in Rhodobacter sphaeroides. Cell 110:613-623.
-
(2002)
Cell
, vol.110
, pp. 613-623
-
-
Masuda, S.1
Bauer, C.2
-
26
-
-
0028556393
-
Photosynthetic electron transport and anaerobic metabolism in purple non-sulfur phototrophic bacteria
-
McEwan, A. G. 1994. Photosynthetic electron transport and anaerobic metabolism in purple non-sulfur phototrophic bacteria. Antonie Leeuwenhoek 66:151-164.
-
(1994)
Antonie Leeuwenhoek
, vol.66
, pp. 151-164
-
-
McEwan, A.G.1
-
28
-
-
0027168245
-
Expression of the Rhodobacter sphaeroides hemA and hemT genes, encoding two 5-aminolevulinic acid synthase isozymes
-
Neidle, E. L., and S. Kaplan. 1993. Expression of the Rhodobacter sphaeroides hemA and hemT genes, encoding two 5-aminolevulinic acid synthase isozymes. J. Bacteriol. 175:2292-2303.
-
(1993)
J. Bacteriol.
, vol.175
, pp. 2292-2303
-
-
Neidle, E.L.1
Kaplan, S.2
-
29
-
-
0035982906
-
Gene-Chip® expression analysis of the iron starvation response in Pseudomonas aeruginosa: Identification of novel pyoverdine biosynthesis genes
-
Ochsner, U. A., P. J. Wilderman, A. I. Vasil, and M. L. Vasil. 2002. Gene-Chip® expression analysis of the iron starvation response in Pseudomonas aeruginosa: identification of novel pyoverdine biosynthesis genes. Mol. Microbiol. 45:1277-1287.
-
(2002)
Mol. Microbiol.
, vol.45
, pp. 1277-1287
-
-
Ochsner, U.A.1
Wilderman, P.J.2
Vasil, A.I.3
Vasil, M.L.4
-
30
-
-
0033514508
-
3 terminal oxidase of Rhodobacter sphaeroides 2.4.1: Structural and functional implications for the regulation of spectral complex formation
-
3 terminal oxidase of Rhodobacter sphaeroides 2.4.1: structural and functional implications for the regulation of spectral complex formation. Biochemistry 38:2688-2696.
-
(1999)
Biochemistry
, vol.38
, pp. 2688-2696
-
-
Oh, J.I.1
Kaplan, S.2
-
31
-
-
0035107555
-
Generalized approach to regulation and integration of gene expression
-
Oh, J. I., and S. Kaplan. 2001. Generalized approach to regulation and integration of gene expression. Mol. Microbiol. 39:1116-1123.
-
(2001)
Mol. Microbiol.
, vol.39
, pp. 1116-1123
-
-
Oh, J.I.1
Kaplan, S.2
-
32
-
-
0036777450
-
Interdependent expression of the ccoNOQP-rdxBHIS loci in Rhodobacter sphaeroides 2.4.1
-
Roh, J. H., and S. Kaplan. 2002. Interdependent expression of the ccoNOQP-rdxBHIS loci in Rhodobacter sphaeroides 2.4.1. J. Bacteriol. 184:5330-5338.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 5330-5338
-
-
Roh, J.H.1
Kaplan, S.2
-
33
-
-
0035891661
-
Prokaryotic RNA preparation methods useful for high density array analysis: Comparison of two approaches
-
Rosenow, C., R. M. Saxena, M. Durst, and T. R. Gingeras. 2001. Prokaryotic RNA preparation methods useful for high density array analysis: comparison of two approaches. Nucleic Acids Res. 29:E112.
-
(2001)
Nucleic Acids Res.
, vol.29
-
-
Rosenow, C.1
Saxena, R.M.2
Durst, M.3
Gingeras, T.R.4
-
34
-
-
0033635022
-
Artemis: Sequence visualization and annotation
-
Rutherford, K., J. Parkhill, J. Crook, T. Horsnell, P. Rice, M.-A. Rajandream, and B. Barrell. 2000. Artemis: sequence visualization and annotation. Bioinformatics 16:944-945.
-
(2000)
Bioinformatics
, vol.16
, pp. 944-945
-
-
Rutherford, K.1
Parkhill, J.2
Crook, J.3
Horsnell, T.4
Rice, P.5
Rajandream, M.-A.6
Barrell, B.7
-
35
-
-
0033957469
-
SMART: A web-based tool for the study of genetically mobile domains
-
Schultz, J., R. R. Copley, T. Doerks, C. P. Ponting, and P. Bork. 2000. SMART: a web-based tool for the study of genetically mobile domains. Nucleic Acids Res. 28:231-234.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 231-234
-
-
Schultz, J.1
Copley, R.R.2
Doerks, T.3
Ponting, C.P.4
Bork, P.5
-
36
-
-
0035162592
-
The COG database: New developments in phylogenetic classification of proteins from complete genomes
-
Tatusov, R. L., D. A. Natale, I. V. Garkavtsev, T. A. Tatusova, U. T. Shankavaram, B. S. Rao, B. Kiryutin, M. Y. Galperin, N. D. Fedorova, and E. V. Koonin. 2001. The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res. 29:22-28.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 22-28
-
-
Tatusov, R.L.1
Natale, D.A.2
Garkavtsev, I.V.3
Tatusova, T.A.4
Shankavaram, U.T.5
Rao, B.S.6
Kiryutin, B.7
Galperin, M.Y.8
Fedorova, N.D.9
Koonin, E.V.10
-
37
-
-
0037095769
-
Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays
-
Yuen, T., E. Wurmbach, R. L. Pfeffer, B. J. Ebersole, and S. C. Sealfon. 2002. Accuracy and calibration of commercial oligonucleotide and custom cDNA microarrays. Nucleic Acids Res. 30:E48.
-
(2002)
Nucleic Acids Res.
, vol.30
-
-
Yuen, T.1
Wurmbach, E.2
Pfeffer, R.L.3
Ebersole, B.J.4
Sealfon, S.C.5
-
38
-
-
0032469905
-
Control of photosystem formation in Rhodobacter sphaeroides
-
Zeilstra-Ryalls, J., M. Gomelsky, J. Eraso, A. Yeliseev, J. O'Gara, and S. Kaplan. 1998. Control of photosystem formation in Rhodobacter sphaeroides. J. Bacteriol. 180:2801-2809.
-
(1998)
J. Bacteriol.
, vol.180
, pp. 2801-2809
-
-
Zeilstra-Ryalls, J.1
Gomelsky, M.2
Eraso, J.3
Yeliseev, A.4
O'Gara, J.5
Kaplan, S.6
-
39
-
-
0141994968
-
A second and unusual pucBA operon of Rhodobacter sphaeroides 2.4.1: Genetics and function of the encoded polypeptides
-
Zeng, X., M. Choudbary, and S. Kaplan. 2003. A second and unusual pucBA operon of Rhodobacter sphaeroides 2.4.1: genetics and function of the encoded polypeptides. J. Bacteriol. 185:6171-6184.
-
(2003)
J. Bacteriol.
, vol.185
, pp. 6171-6184
-
-
Zeng, X.1
Choudbary, M.2
Kaplan, S.3
-
40
-
-
0021813055
-
Effects of light, oxygen, and substrates on steady-state levels of mRNA coding for ribulose-1,5-bisphosphate carboxylase and light-harvesting and reaction center polypeptides in Rhodopseudomonas sphaeroides
-
Zhu, Y. S., and S. Kaplan. 1985. Effects of light, oxygen, and substrates on steady-state levels of mRNA coding for ribulose-1,5-bisphosphate carboxylase and light-harvesting and reaction center polypeptides in Rhodopseudomonas sphaeroides. J. Bacteriol. 162:925-932.
-
(1985)
J. Bacteriol.
, vol.162
, pp. 925-932
-
-
Zhu, Y.S.1
Kaplan, S.2
|