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The use of rRNA gene sequence data in the classification and identification of prokaryotes

MPG-Autoren
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Gloeckner,  Frank-Oliver
Microbial Genomics Group, Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Max Planck Society;

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Ylimaz,  Pelin
Microbial Genomics Group, Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Max Planck Society;

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Zitation

Ludwig, W., Gloeckner, F.-O., & Ylimaz, P. (2011). The use of rRNA gene sequence data in the classification and identification of prokaryotes. Methods in Microbiology, 38, 349-384.


Zitierlink: https://hdl.handle.net/21.11116/0000-0001-C965-B
Zusammenfassung
Comparative rRNA gene sequence analysis currently represents the standard approach in microbial phylogeny, taxonomy and identification. Special database projects provide quality checked rRNA alignments as well as online facilities for data processing. With respect to taxonomy and identification, expert maintained type strain rRNA web resources have been established. Various software packages and tools are available for user controlled data handling, information retrieval, phylogeny reconstruction, and identification. Despite all these facilities, careful data analysis is needed to avoid misinterpretation resulting from improper data selection, limited information content, noise in the data, as well as shortcomings of procedures and software tools. Recommendations and references for appropriate data handling and interpretation are given in this chapter. The rRNA approach presumably will retain its standing as a phylogenetic and taxonomic backbone in the era of high throughput technologies and full genome sequencing. The rRNA based picture is globally supported by the (small) conserved core of microbial genomes.