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2014 | 63 | 2 |
Tytuł artykułu

Definitive assignment by multigenome analysis of the gammaproteobacterial genus Thermithiobacillus to the class Acidithiobacillia

Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
The class Acidithiobacillia was established using multiprotein phylogenetic analysis of all the available genomes of the genus Acidithiobacillus (comprising Family I, the Acidithiobacillaceae, of the Acidithiobacillales, the order created for Bergey’s Manual of Systematic Bacteriology), and for representative genomes of all available bacterial orders. The Acidithiobacillales contain a second family, the Thermithiobacillaceae, represented by Thermithiobacillus tepidarius, and created on the basis of nearest neighbour 16S ribosomal RNA gene sequence similarities. This could not be included in the original multiprotein analysis as no genome sequence for Thermithiobacillus was available. The publication of the genome sequence of Thermithiobacillus tepidarius in 2013 has enabled phylogenetic assessment of this organism by comparative multigenome analysis. This shows definitively that Thermithiobacillus is a member of the class Acidithiobacillia, distinct from the Acidithiobacillus genus, and confirms it to represent a second family within the Acidithiobacillia.
Słowa kluczowe
EN
Wydawca
-
Rocznik
Tom
63
Numer
2
Opis fizyczny
p.245-247,fig.,ref.
Twórcy
autor
  • Sandia National Laboratories, Systems Biology Department, Livermore, CA 94551, USA
  • Sandia National Laboratories, Systems Biology Department, Livermore, CA 94551, USA
autor
  • School of Life Sciences, University of Warwick, Coventry CV4 7AL, U.K.
Bibliografia
  • Boden R., D. Cleland, P.N. Green, Y. Katayama, Y. Uchino, J.C. Murrell and D.P. Kelly. 2012. Phylogenetic assessment of culture collection strains of Thiobacillus thioparus, and definitive 16S rRNA gene sequences for T. thioparus, T. denitrificans, and Halothiobacillus neapolitanus. Arch. Microbiol. 194: 187–195.
  • Chang S.Y., J.S. Yoon, Y.K. Shin, Y-H. Park, J.Y. Park, S.S. Yang, M-J. Koh, S.M. Yoon, J.S. Lee, I.H. Lee and S.Y. Kim. 1997. Isolation, characterization, and phylogenetic position of a new sulfur-oxidizing bacterium. J. Microbiol. (Korea) 35: 165–171.
  • Finn R.D., J. Clements and S.R. Eddy. 2011. HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 39: W29–37.
  • Garrity G.M., J.A. Bell and T. Lilburn. 2005. Order II. Acidithiobacillales ord. nov. p. 60. In: Bergey’s Manual of Systematic Bacteriology, vol. 2B, 2nd edition. Brenner, D.J., N.R. Krieg, J.T. Staley and G.M. Garrity (eds). New York, Springer.
  • Kelly D.P. and A.P. Wood. 2000. Reclassification of some species of Thiobacillus to the newly designated genera Acidithiobacillus gen. nov., Halothiobacillus gen. nov. and Thermithiobacillus gen. nov. Int. J. Syst. Evol. Microbiol. 50: 511–516.
  • Kelly D.P. and A.P. Wood (2005) Genus I. Thermithiobacillus Kelly and Wood. pp. 62–63. In: Bergey’s Manual of Systematic Bacteriology, vol. 2B, 2nd edition. Brenner D.J., N.R. Krieg, J.T. Staley and G.M. Garrity (eds). New York, Springer.
  • Kelly D.P. and A.P. Wood (2014a) The family Thermithiobacillaceae. In: The Prokaryotes, vol. 9, 4th edition. Stackebrandt E., E. Rosenberg, E. Delong, S. Lory and F. Thompson (eds). New York and Heidelberg, Springer (in press).
  • Kelly D.P. and A.P. Wood (2014b) The family Acidithiobacillaceae. In: The Prokaryotes, vol. 9, 4th edition. Stackebrandt, E., E. Rosenberg, E. Delong, S. Lory and F. Thompson (eds). New York and Heidelberg, Springer (in press).
  • Kelly D.P., A.P. Wood and E. Stackebrandt. 2005. Genus II. Thiobacillus Beijerinck 1904. pp. 764–769. In: Bergey’s Manual of Systematic Bacteriology, vol. 2C, 2nd edition. Brenner, D.J., N.R. Krieg, J.T. Staley and G.M. Garrity (eds). New York, Springer.
  • Lane D.J., A.P. Harrison, D. Stahl, B. Pace, S.J. Giovannoni,G.J. Olsen and N.R. Pace. 1992. Evolutionary relationships among sulfur- and iron-oxidizing eubacteria. J. Bacteriol. 174: 269–278.
  • Williams K.P. and D.P. Kelly. 2013. Proposal for a new class within the phylum Proteobacteria, Acidithiobacillia classis nov., with the type order Acidithiobacillales, and emended description of the class Gammaproteobacteria. Int. J. Syst. Evol. Microbiol. 63: 2901–2906.
  • Williams K.P., J.J. Gillespie, B.W. Sobral, E.K. Nordberg,E.E. Snyder, J.M. Shallom and A.W. Dickerman. 2010. Phylogeny of Gammaproteobacteria. J. Bacteriol. 192: 2305–2314.
  • Wood A.P. and D.P. Kelly. 1985. Physiological characteristics of a new thermophilic obligately chemolithotrophic Thiobacillus species, Thiobacillus tepidarius. Int. J. Syst. Bacteriol. 35: 434–437.
  • Wood A.P. and D.P. Kelly. 1986. Chemolithotrophic metabolism of the newly-isolated moderately thermophilic, obligately autotrophic Thiobacillus tepidarius. Arch. Microbiol. 144: 71–77.
  • Yutin N., P. Puigbò, E.V. Koonin and Y.I. Wolf. 2012. Phylogenomics of prokaryotic ribosomal proteins. PLoS ONE 7(5) e36972. (doi:10.1371/journal.pone.0036972).
Typ dokumentu
Bibliografia
Identyfikatory
Identyfikator YADDA
bwmeta1.element.agro-2d0dc380-c1da-487a-843b-ff996fe853c9
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