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Volumn 3, Issue 6, 2009, Pages 726-737

Actinorhodopsin genes discovered in diverse freshwater habitats and among cultivated freshwater Actinobacteria

Author keywords

Actinobacteria; Actinorhodopsin; Erie; Freshwater; Rhodopsins; Superior

Indexed keywords

ACTINOBACTERIA; MICROBACTERIACEAE;

EID: 67549134809     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2009.13     Document Type: Article
Times cited : (101)

References (36)
  • 1
    • 33646571506 scopus 로고    scopus 로고
    • Diversity and seasonal dynamics of Actinobacteria populations in four lakes in northeastern Germany
    • Allgaier M, Grossart HP. (2006). Diversity and seasonal dynamics of Actinobacteria populations in four lakes in northeastern Germany. Appl Environ Microbiol 72: 3489-3497.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 3489-3497
    • Allgaier, M.1    Grossart, H.P.2
  • 2
    • 44849083699 scopus 로고    scopus 로고
    • Widespread distribution of proteorhodopsins in freshwater and brackish ecosystems
    • Atamna-Ismaeel N, Sabehi G, Sharon I, Witzel KP, Labrenz M, Jürgens K et al. (2008). Widespread distribution of proteorhodopsins in freshwater and brackish ecosystems. ISME J 2: 656-662.
    • (2008) ISME J , vol.2 , pp. 656-662
    • Atamna-Ismaeel, N.1    Sabehi, G.2    Sharon, I.3    Witzel, K.P.4    Labrenz, M.5    Jürgens, K.6
  • 3
    • 0034665853 scopus 로고    scopus 로고
    • Bacterial rhodopsin: Evidence for a new type of phototrophy in the sea
    • Beja O, Aravind L, Koonin EV, Suzuki MT, Hadd A, Nguyen LP et al. (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
  • 4
    • 33747334086 scopus 로고    scopus 로고
    • The genome of the square archaeon Haloquadratum walsbyi: Life at the limits of water activity
    • Bolhuis H, Palm P, Wende A, Falb M, Rampp M, Rodriguez-Valera F et al. (2006). The genome of the square archaeon Haloquadratum walsbyi: life at the limits of water activity. BMC Genomics 7: 169.
    • (2006) BMC Genomics , vol.7 , pp. 169
    • Bolhuis, H.1    Palm, P.2    Wende, A.3    Falb, M.4    Rampp, M.5    Rodriguez-Valera, F.6
  • 6
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • Eddy SR. (1998). Profile hidden Markov models. Bioinfor-matics 14: 755-763.
    • (1998) Bioinfor-matics , vol.14 , pp. 755-763
    • Eddy, S.R.1
  • 8
    • 0033754255 scopus 로고    scopus 로고
    • Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria
    • Glockner FO, Zaichikov E, Belkova N, Denissova L, Pernthaler J, Pernthaler A et al. (2000). Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria. Appl Environ Microbiol 66: 5053-5065.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 5053-5065
    • Glockner, F.O.1    Zaichikov, E.2    Belkova, N.3    Denissova, L.4    Pernthaler, J.5    Pernthaler, A.6
  • 11
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S, Gascuel O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52: 696-704.
    • (2003) Syst Biol , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 12
    • 23144433822 scopus 로고    scopus 로고
    • PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference
    • Guindon S, Lethiec F, Duroux P, Gascuel O. (2005). PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res 33: W557-W559.
    • (2005) Nucleic Acids Res , vol.33
    • Guindon, S.1    Lethiec, F.2    Duroux, P.3    Gascuel, O.4
  • 13
    • 60549112907 scopus 로고    scopus 로고
    • Description of seven Candidatus species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria
    • Hahn MW. (2009). Description of seven Candidatus species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria. Int J Syst Evol Microbiol 59: 112-121.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 112-121
    • Hahn, M.W.1
  • 14
    • 0345269205 scopus 로고    scopus 로고
    • Hahn MW, Lünsdorf H, Wu Q, Schauer M, Höfle MG, Boenigk J et al. (2003). Isolation of novel ultramicro-bacteria classified as Actinobacteria from five freshwater habitats in Europe and Asia. Appl Environ Microbiol 69: 1442-1451.
    • Hahn MW, Lünsdorf H, Wu Q, Schauer M, Höfle MG, Boenigk J et al. (2003). Isolation of novel ultramicro-bacteria classified as Actinobacteria from five freshwater habitats in Europe and Asia. Appl Environ Microbiol 69: 1442-1451.
  • 15
    • 13544252535 scopus 로고    scopus 로고
    • Ecotypes of planktonic Actinobacteria with identical 16S rRNA genes adapted to thermal niches in temperate, subtropical, and tropical freshwater habitats
    • Hahn MW, Pöckl M. (2005). Ecotypes of planktonic Actinobacteria with identical 16S rRNA genes adapted to thermal niches in temperate, subtropical, and tropical freshwater habitats. Appl Environ Microbiol 71: 766-773.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 766-773
    • Hahn, M.W.1    Pöckl, M.2
  • 16
    • 2342608928 scopus 로고    scopus 로고
    • The filtration- acclimatization method for isolation of an important fraction of the not readily cultivable bacteria
    • Hahn MW, Stadler P, Wu QL, Pöckl M. (2004). The filtration- acclimatization method for isolation of an important fraction of the not readily cultivable bacteria. J Microbiol Methods 57: 379-390.
    • (2004) J Microbiol Methods , vol.57 , pp. 379-390
    • Hahn, M.W.1    Stadler, P.2    Wu, Q.L.3    Pöckl, M.4
  • 17
    • 67649493212 scopus 로고    scopus 로고
    • Iron speciation in western Lake Superior measured using combined physical, chemical and biological assessment
    • in press
    • Hassler CS, Havens SM, Bullerjahn GS, McKay RML, Twiss MR. (2009). Iron speciation in western Lake Superior measured using combined physical, chemical and biological assessment. Limnol Oceanogr (in press).
    • (2009) Limnol Oceanogr
    • Hassler, C.S.1    Havens, S.M.2    Bullerjahn, G.S.3    McKay, R.M.L.4    Twiss, M.R.5
  • 19
    • 45449116493 scopus 로고    scopus 로고
    • An assessment of actino-bacterial diversity in the marine environment
    • Jensen PR, Lauro FM. (2008). An assessment of actino-bacterial diversity in the marine environment. Antonie Van Leeuwenhoek 94: 51-62.
    • (2008) Antonie Van Leeuwenhoek , vol.94 , pp. 51-62
    • Jensen, P.R.1    Lauro, F.M.2
  • 20
    • 67649492601 scopus 로고    scopus 로고
    • Candidatus Planktophila limnetica', an Acti-nobacterium representing one of the most numerically important taxa in freshwater bacterioplankton
    • in press
    • Jezbera J, Sharma AK, Brandt U, Doolittle WF, Hahn MW. (2009). 'Candidatus Planktophila limnetica', an Acti-nobacterium representing one of the most numerically important taxa in freshwater bacterioplankton. Int J Syst Evol Microbiol (in press).
    • (2009) Int J Syst Evol Microbiol
    • Jezbera, J.1    Sharma, A.K.2    Brandt, U.3    Doolittle, W.F.4    Hahn, M.W.5
  • 21
    • 0034079802 scopus 로고    scopus 로고
    • Characterization of novel sequences from distantly related taxa by walking PCR
    • Katz LA, Curtis EA, Pfunder M, Landweber LF. (2000). Characterization of novel sequences from distantly related taxa by walking PCR. Mol Phylogenet Evol 14: 318-321.
    • (2000) Mol Phylogenet Evol , vol.14 , pp. 318-321
    • Katz, L.A.1    Curtis, E.A.2    Pfunder, M.3    Landweber, L.F.4
  • 23
    • 34248151050 scopus 로고    scopus 로고
    • Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host
    • Martinez A, Bradley AS, Waldbauer JR, Summons RE, DeLong EF. (2007). Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host. Proc Natl Acad Sci USA 104: 5590-5595.
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 5590-5595
    • Martinez, A.1    Bradley, A.S.2    Waldbauer, J.R.3    Summons, R.E.4    DeLong, E.F.5
  • 25
    • 33947238287 scopus 로고    scopus 로고
    • The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific
    • Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, Yooseph S et al. (2007). The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific. PLoS Biol 5: e77.
    • (2007) PLoS Biol , vol.5
    • Rusch, D.B.1    Halpern, A.L.2    Sutton, G.3    Heidelberg, K.B.4    Williamson, S.5    Yooseph, S.6
  • 26
    • 23944505538 scopus 로고    scopus 로고
    • New insights into metabolic properties of marine bacteria encoding proteorhodopsins
    • Sabehi G, Loy A, Jung KH, Partha R, Spudich JL, Isaacson T et al. (2005). New insights into metabolic properties of marine bacteria encoding proteorhodopsins. PLoS Biol 3: e273.
    • (2005) PLoS Biol , vol.3
    • Sabehi, G.1    Loy, A.2    Jung, K.H.3    Partha, R.4    Spudich, J.L.5    Isaacson, T.6
  • 28
    • 40949103188 scopus 로고    scopus 로고
    • Actinorhodopsins: Proteorhodopsin-like gene sequences found predominantly in non-marine environments
    • Sharma AK, Zhaxybayeva O, Papke RT, Doolittle WF. (2008). Actinorhodopsins: proteorhodopsin-like gene sequences found predominantly in non-marine environments. Environ Microbiol 10: 1039-1056.
    • (2008) Environ Microbiol , vol.10 , pp. 1039-1056
    • Sharma, A.K.1    Zhaxybayeva, O.2    Papke, R.T.3    Doolittle, W.F.4
  • 29
    • 34547781750 scopus 로고    scopus 로고
    • Tamura K, Dudley J, Nei M, Kumar S, 2007, MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599
    • Tamura K, Dudley J, Nei M, Kumar S. (2007). MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599.
  • 32
    • 1342289956 scopus 로고    scopus 로고
    • Actinobacter-ial 16S rRNA genes from freshwater habitats cluster in four distinct lineages
    • Warnecke F, Amann R, Pernthaler J. (2004). Actinobacter-ial 16S rRNA genes from freshwater habitats cluster in four distinct lineages. Environ Microbiol 6: 242-253.
    • (2004) Environ Microbiol , vol.6 , pp. 242-253
    • Warnecke, F.1    Amann, R.2    Pernthaler, J.3
  • 33
    • 25144475117 scopus 로고    scopus 로고
    • Abundances, identity, and growth state of actinobacteria in mountain lakes of different UV transparency
    • Warnecke F, Sommaruga R, Sekar R, Hofer JS, Pernthaler J. (2005). Abundances, identity, and growth state of actinobacteria in mountain lakes of different UV transparency. Appl Environ Microbiol 71: 5551-5559.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 5551-5559
    • Warnecke, F.1    Sommaruga, R.2    Sekar, R.3    Hofer, J.S.4    Pernthaler, J.5
  • 34
    • 0035031966 scopus 로고    scopus 로고
    • A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
    • Whelan S, Goldman N. (2001). A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 18: 691-699.
    • (2001) Mol Biol Evol , vol.18 , pp. 691-699
    • Whelan, S.1    Goldman, N.2
  • 35
    • 33845960557 scopus 로고    scopus 로고
    • Seasonal hypoxia and the genetic diversity of prokaryote populations in the central basin hypolimnion of Lake Erie: Evidence for abundant picocyanobacteria and photosynthesis
    • Wilhelm SW, Bullerjahn GS, Rinta-Kanto JM, Eldridge ML, Bourbonniere RA. (2006). Seasonal hypoxia and the genetic diversity of prokaryote populations in the central basin hypolimnion of Lake Erie: evidence for abundant picocyanobacteria and photosynthesis. J Great Lakes Res 32: 657-671.
    • (2006) J Great Lakes Res , vol.32 , pp. 657-671
    • Wilhelm, S.W.1    Bullerjahn, G.S.2    Rinta-Kanto, J.M.3    Eldridge, M.L.4    Bourbonniere, R.A.5
  • 36
    • 0027132974 scopus 로고
    • Maximum-likelihood estimation of phy-logeny from DNA sequences when substitution rates differ over sites
    • Yang Z. (1993). Maximum-likelihood estimation of phy-logeny from DNA sequences when substitution rates differ over sites. Mol Biol Evol 10: 1396-1401.
    • (1993) Mol Biol Evol , vol.10 , pp. 1396-1401
    • Yang, Z.1


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