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Identification using RNA sequencing

Partial 16S rRNA gene sequence analysis is a useful tool for preliminary identification of a strain. 
Complete 16S rRNA gene sequencing is used for a more detailed discrimination of isolates against validly described type strains.
Complete 16S rRNA gene sequence analysis including phylogenetic analysis should be part of the description of the type strain of a new species (Stackebrandt et al., 2002) and is offered on request only.

Required material: A living culture (agar plate or slant) is preferred. Lyophilized material might as well be sent.

Download the service order form here.

Dr. Cathrin Spröer

Senior scientist

References

  1. Stackebrandt, E., Frederiksen, W., Garrity, G. M., Grimont, P., Kampfer, P., Maiden, M., Nesme, X., Rossello-Mora, R., Swings, J., Truper, H. G., Vauterin, L., Ward, A. C. & Whitman, W. B. (2002). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52, 1043-1047.
  2. 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. Sys. Bacteriol. 46, 1088-1092.
  3. Maidak, B. L., Cole, J.R., Parker, C.T.Jr., Garrity, G.M., Larsen, N., Li, B., Lilburn, T.G., McCaughey, M.J., Olsen, G.J., Overbeek, R., Pramanik, S., Schmidt, T.M., Tiedje, J.M. & Woese, C.R. (1999). A new version of the RDP (Ribosomal Database Project). Nucl. Acids Res. 27, 171-173.
  4. Pruesse, E., Quast, C., Knittel, K., Fuchs, B., Ludwig, W., Peplies, J. & Glöckner, F.O. (2007). SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucl. Acids Res. 35, 7188-7196.
  5. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
  6. Jukes, T. H. & Cantor C. R. (1969). Evolution of protein molecules. In Mammalian protein metabolism, pp. 21-132. Edited by H. N. Munro. New York: Academic press