-
1
-
-
25444463058
-
Xanthorhodopsin: a proton pump with a light-harvesting carotenoid antenna
-
Balashov, S.P., Imasheva, E.S., Boichenko, V.A., Anton, J., Wang, J.M., and Lanyi, J.K. (2005) Xanthorhodopsin: a proton pump with a light-harvesting carotenoid antenna. Science 309: 2061-2064.
-
(2005)
Science
, vol.309
, pp. 2061-2064
-
-
Balashov, S.P.1
Imasheva, E.S.2
Boichenko, V.A.3
Anton, J.4
Wang, J.M.5
Lanyi, J.K.6
-
2
-
-
0023673296
-
Measurement of live bacteria by nomarski interference microscopy and stereologic methods as tested with macroscopic rod-shaped models
-
Baldwin, W.W., and Bankston, P.W. (1988) Measurement of live bacteria by nomarski interference microscopy and stereologic methods as tested with macroscopic rod-shaped models. Appl Environ Microbiol 54: 105-109.
-
(1988)
Appl Environ Microbiol
, vol.54
, pp. 105-109
-
-
Baldwin, W.W.1
Bankston, P.W.2
-
3
-
-
0015114810
-
Extracellular enzymic activity of poultry spoilage bacteria
-
Barnes, E.M., and Melton, W. (1971) Extracellular enzymic activity of poultry spoilage bacteria. J Appl Bacteriol 34: 599-609.
-
(1971)
J Appl Bacteriol
, vol.34
, pp. 599-609
-
-
Barnes, E.M.1
Melton, W.2
-
4
-
-
0034665853
-
Bacterial rhodopsin: evidence for a new type of phototrophy in the sea
-
Beja, O., Aravind, L., Koonin, E.V., Suzuki, M.T., Hadd, A., Nguyen, L.P., etal. (2000) Bacterial rhodopsin: evidence for a new type of phototrophy 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
-
5
-
-
0035859080
-
Proteorhodopsin phototrophy in the ocean
-
Beja, O., Spudich, E.N., Spudich, J.L., Leclerc, M., and DeLong, E.F. (2001) Proteorhodopsin phototrophy in the ocean. Nature 411: 786-789.
-
(2001)
Nature
, vol.411
, pp. 786-789
-
-
Beja, O.1
Spudich, E.N.2
Spudich, J.L.3
Leclerc, M.4
DeLong, E.F.5
-
6
-
-
38149122101
-
Abundant proteorhodopsin genes in the north Atlantic ocean
-
Campbell, B.J., Waidner, L.A., Cottrell, M.T., and Kirchman, D.L. (2008) Abundant proteorhodopsin genes in the north Atlantic ocean. Environ Microbiol 10: 99-109.
-
(2008)
Environ Microbiol
, vol.10
, pp. 99-109
-
-
Campbell, B.J.1
Waidner, L.A.2
Cottrell, M.T.3
Kirchman, D.L.4
-
7
-
-
0000461280
-
Confidence-limits on phylogenies - an approach using the bootstrap
-
Felsenstein, J. (1985) Confidence-limits on phylogenies - an approach using the bootstrap. Evolution 39: 783-791.
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
8
-
-
0036382848
-
Proteorhodopsin is a light-driven proton pump with variable vectoriality
-
Friedrich, T., Geibel, S., Kalmbach, R., Chizhov, I., Ataka, K., Heberle, J., etal. (2002) Proteorhodopsin is a light-driven proton pump with variable vectoriality. J Mol Biol 321: 821-838.
-
(2002)
J Mol Biol
, vol.321
, pp. 821-838
-
-
Friedrich, T.1
Geibel, S.2
Kalmbach, R.3
Chizhov, I.4
Ataka, K.5
Heberle, J.6
-
9
-
-
32844465575
-
Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea
-
Frigaard, N.U., Martinez, A., Mincer, T.J., and DeLong, E.F. (2006) Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea. Nature 439: 847-850.
-
(2006)
Nature
, vol.439
, pp. 847-850
-
-
Frigaard, N.U.1
Martinez, A.2
Mincer, T.J.3
DeLong, E.F.4
-
10
-
-
27744438187
-
Proteorhodopsin in the ubiquitous marine bacterium SAR11
-
Giovannoni, S.J., Bibbs, L., Cho, J.C., Stapels, M.D., Desiderio, R., Vergin, K.L., etal. (2005) Proteorhodopsin in the ubiquitous marine bacterium SAR11. Nature 438: 82-85.
-
(2005)
Nature
, vol.438
, pp. 82-85
-
-
Giovannoni, S.J.1
Bibbs, L.2
Cho, J.C.3
Stapels, M.D.4
Desiderio, R.5
Vergin, K.L.6
-
11
-
-
33846238031
-
Light stimulates growth of proteorhodopsin-containing marine Flavobacteria
-
Gomez-Consarnau, L., Gonzalez, J.M., Coll-Llado, M., Gourdon, P., Pascher, T., Neutze, R., etal. (2007) Light stimulates growth of proteorhodopsin-containing marine Flavobacteria. Nature 445: 210-213.
-
(2007)
Nature
, vol.445
, pp. 210-213
-
-
Gomez-Consarnau, L.1
Gonzalez, J.M.2
Coll-Llado, M.3
Gourdon, P.4
Pascher, T.5
Neutze, R.6
-
12
-
-
77951706049
-
Proteorhodopsin phototrophy promotes survival of marine bacteria during starvation
-
Gomez-Consarnau, L., Akram, N., Lindell, K., Pedersen, A., Neutze, R., Milton, D.L., etal. (2010) Proteorhodopsin phototrophy promotes survival of marine bacteria during starvation. PLoS Biol 8: e1000358.
-
(2010)
PLoS Biol
, vol.8
-
-
Gomez-Consarnau, L.1
Akram, N.2
Lindell, K.3
Pedersen, A.4
Neutze, R.5
Milton, D.L.6
-
13
-
-
47249148362
-
Genome analysis of the proteorhodopsin-containing marine bacterium Polaribacter sp. MED152 (Flavobacteria)
-
Gonzalez, J.M., Fernandez-Gomez, B., Fernandez-Guerra, A., Gomez-Consarnau, L., Sanchez, O., Coll-Llado, M., etal. (2008) Genome analysis of the proteorhodopsin-containing marine bacterium Polaribacter sp. MED152 (Flavobacteria). Proc Natl Acad Sci USA 105: 8724-8729.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 8724-8729
-
-
Gonzalez, J.M.1
Fernandez-Gomez, B.2
Fernandez-Guerra, A.3
Gomez-Consarnau, L.4
Sanchez, O.5
Coll-Llado, M.6
-
14
-
-
0000603808
-
Adenosine triphosphate content of marine bacteria
-
Hamilton, R.D., and Holm-Hansen, O. (1967) Adenosine triphosphate content of marine bacteria. Limnol Oceanogr 12: 319-324.
-
(1967)
Limnol Oceanogr
, vol.12
, pp. 319-324
-
-
Hamilton, R.D.1
Holm-Hansen, O.2
-
15
-
-
72749109806
-
Reconstitution of Gloeobacter violaceus Rhodopsin with a light-harvesting carotenoid antenna
-
Imasheva, E.S., Balashov, S.P., Choi, A.R., Jung, K.H., and Lanyi, J.K. (2009) Reconstitution of Gloeobacter violaceus Rhodopsin with a light-harvesting carotenoid antenna. Biochemistry 48: 10948-10955.
-
(2009)
Biochemistry
, vol.48
, pp. 10948-10955
-
-
Imasheva, E.S.1
Balashov, S.P.2
Choi, A.R.3
Jung, K.H.4
Lanyi, J.K.5
-
16
-
-
70450206030
-
Engineering an inward proton transport from a bacterial sensor rhodopsin
-
Kawanabe, A., Furutani, Y., Jung, K.H., and Kandori, H. (2009) Engineering an inward proton transport from a bacterial sensor rhodopsin. J Am Chem Soc 131: 16439-16444.
-
(2009)
J Am Chem Soc
, vol.131
, pp. 16439-16444
-
-
Kawanabe, A.1
Furutani, Y.2
Jung, K.H.3
Kandori, H.4
-
17
-
-
80052964043
-
Light-induced transcriptional responses associated with proteorhodopsin-enhanced growth in a marine flavobacterium
-
Kimura, H., Young, C.R., Martinez, A., and Delong, E.F. (2011) Light-induced transcriptional responses associated with proteorhodopsin-enhanced growth in a marine flavobacterium. ISME J 5: 1641-1651.
-
(2011)
ISME J
, vol.5
, pp. 1641-1651
-
-
Kimura, H.1
Young, C.R.2
Martinez, A.3
Delong, E.F.4
-
18
-
-
0019296687
-
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide-sequences
-
Kimura, M. (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide-sequences. J Mol Evol 16: 111-120.
-
(1980)
J Mol Evol
, vol.16
, pp. 111-120
-
-
Kimura, M.1
-
19
-
-
0001857117
-
16S/23S rRNA sequencing
-
Stackebrandt, E., and Goodfellow, M. (eds). New York, USA: John Wiley and Sons.
-
Lane, D.J. (1991) 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics. Stackebrandt, E., and Goodfellow, M. (eds). New York, USA: John Wiley and Sons, pp. 115-147.
-
(1991)
Nucleic Acid Techniques in Bacterial Systematics
, pp. 115-147
-
-
Lane, D.J.1
-
20
-
-
0038391981
-
Diversification and spectral tuning in marine proteorhodopsins
-
Man, D.L., Wang, W.W., Sabehi, G., Aravind, L., Post, A.F., Massana, R., etal. (2003) Diversification and spectral tuning in marine proteorhodopsins. EMBO J 22: 1725-1731.
-
(2003)
EMBO J
, vol.22
, pp. 1725-1731
-
-
Man, D.L.1
Wang, W.W.2
Sabehi, G.3
Aravind, L.4
Post, A.F.5
Massana, R.6
-
21
-
-
0024024413
-
Aspartic-acid substitutions affect proton translocation by bacteriorhodopsin
-
Mogi, T., Stern, L.J., Marti, T., Chao, B.H., and Khorana, H.G. (1988) Aspartic-acid substitutions affect proton translocation by bacteriorhodopsin. Proc Natl Acad Sci USA 85: 4148-4152.
-
(1988)
Proc Natl Acad Sci USA
, vol.85
, pp. 4148-4152
-
-
Mogi, T.1
Stern, L.J.2
Marti, T.3
Chao, B.H.4
Khorana, H.G.5
-
24
-
-
35848943488
-
Mechanism of spectral tuning in green-absorbing proteorhodopsin
-
Rangarajan, R., Galan, J.F., Whited, G., and Birge, R.R. (2007) Mechanism of spectral tuning in green-absorbing proteorhodopsin. Biochemistry 46: 12679-12686.
-
(2007)
Biochemistry
, vol.46
, pp. 12679-12686
-
-
Rangarajan, R.1
Galan, J.F.2
Whited, G.3
Birge, R.R.4
-
25
-
-
77952279613
-
Constitutive expression of the proteorhodopsin gene by a Flavobacterium strain representative of the proteorhodopsin-producing microbial community in the north sea
-
Riedel, T., Tomasch, J., Buchholz, I., Jacobs, J., Kollenberg, M., Gerdts, G., etal. (2010) Constitutive expression of the proteorhodopsin gene by a Flavobacterium strain representative of the proteorhodopsin-producing microbial community in the north sea. Appl Environ Microbiol 76: 3187-3197.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 3187-3197
-
-
Riedel, T.1
Tomasch, J.2
Buchholz, I.3
Jacobs, J.4
Kollenberg, M.5
Gerdts, G.6
-
26
-
-
33947238287
-
The sorcerer II global ocean sampling expedition: northwest Atlantic through eastern tropical pacific
-
Rusch, D.B., Halpern, A.L., Sutton, G., Heidelberg, K.B., Williamson, S., Yooseph, S., etal. (2007) The sorcerer II global ocean sampling expedition: northwest Atlantic through eastern tropical pacific. PLoS Biol 5: 398-431.
-
(2007)
PLoS Biol
, vol.5
, pp. 398-431
-
-
Rusch, D.B.1
Halpern, A.L.2
Sutton, G.3
Heidelberg, K.B.4
Williamson, S.5
Yooseph, S.6
-
28
-
-
79955856835
-
Energy starved Candidatus Pelagibacter ubique substitutes light-mediated ATP production for endogenous carbon respiration
-
Steindler, L., Schwalbach, M.S., Smith, D.P., Chan, F., and Giovannoni, S.J. (2011) Energy starved Candidatus Pelagibacter ubique substitutes light-mediated ATP production for endogenous carbon respiration. PLoS ONE 6: e19725.
-
(2011)
PLoS ONE
, vol.6
-
-
Steindler, L.1
Schwalbach, M.S.2
Smith, D.P.3
Chan, F.4
Giovannoni, S.J.5
-
29
-
-
34247488726
-
The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin
-
Stingl, U., Desiderio, R.A., Cho, J.C., Vergin, K.L., and Giovannoni, S.J. (2007) The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin. Appl Environ Microbiol 73: 2290-2296.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 2290-2296
-
-
Stingl, U.1
Desiderio, R.A.2
Cho, J.C.3
Vergin, K.L.4
Giovannoni, S.J.5
-
30
-
-
67149100875
-
Geographic and phylogenetic variation in bacterial biovolume as revealed by protein and nucleic acid staining
-
Straza, T.R.A., Cottrell, M.T., Ducklow, H.W., and Kirchman, D.L. (2009) Geographic and phylogenetic variation in bacterial biovolume as revealed by protein and nucleic acid staining. Appl Environ Microbiol 75: 4028-4034.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 4028-4034
-
-
Straza, T.R.A.1
Cottrell, M.T.2
Ducklow, H.W.3
Kirchman, D.L.4
-
31
-
-
34547781750
-
MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0
-
Tamura, K., Dudley, J., Nei, M., and Kumar, S. (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
32
-
-
0027968068
-
Clustal W : improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson, J.D., Higgins, D.G., and Gibson, T.J. (1994) Clustal W : improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
33
-
-
58149375701
-
Genetic diversity and abundance of Flavobacterial proteorhodopsin in China seas
-
Zhao, M.R., Chen, F., and Jiao, N.Z. (2009) Genetic diversity and abundance of Flavobacterial proteorhodopsin in China seas. Appl Environ Microbiol 75: 529-533.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 529-533
-
-
Zhao, M.R.1
Chen, F.2
Jiao, N.Z.3
-
34
-
-
0001895697
-
Evolutionary divergence and convergence in proteins
-
Bryson, V., and Vogel, H.J. (eds). New York, USA: Academic Press.
-
Zuckerkandl, E., and Pauling, L. (1965) Evolutionary divergence and convergence in proteins. In Evolving Genes and Proteins. Bryson, V., and Vogel, H.J. (eds). New York, USA: Academic Press, pp. 97-166.
-
(1965)
Evolving Genes and Proteins
, pp. 97-166
-
-
Zuckerkandl, E.1
Pauling, L.2
|