Nucleic Acids Research, 2000, Vol. 28, No. 1 173-174
© 2000 Oxford University Press
The RDP (Ribosomal Database Project) continues
Center for Microbial Ecology, 540 Plant and Soil Sciences Building, Michigan State University, East Lansing, MI 48824-1325, USA, 1Department of Microbiology, Michigan State University, 294 Giltner Hall, East Lansing, MI 48824-1101, USA, 2Department of Microbiology, University of Illinois, B-103 C&LSL Building, 601 South Goodwin Avenue, Urbana, IL 61801-3714, USA and 3Department of Computer Science and Engineering, 2148 Engineering Building, Michigan State University, East Lansing, MI 48824-1226, USA
The Ribosomal Database Project (RDP-II), previously described by Maidak et al., continued during the past year to add new rRNA sequences to the aligned data and to improve the analysis commands. Release 7.1 (September 17, 1999) included more than 10 700 small subunit rRNA sequences. More than 850 type strain sequences were identified and added to the prokaryotic alignment, bringing the total number of type sequences to 3324 representing 2460 different species. Availability of an RDP-II mirror site in Japan is also near completion. RDP-II provides aligned and annotated rRNA sequences, derived phylogenetic trees and taxonomic hierarchies, and analysis services through its WWW server (http://rdp.cme.msu.edu/ ). Analysis services include rRNA probe checking, approximate phylogenetic placement of user sequences, screening user sequences for possible chimeric rRNA sequences, automated alignment, production of similarity matrices and services to plan and analyze terminal restriction fragment length polymorphism (T-RFLP) experiments.
* To whom correspondence should be addressed. Tel: +1 517 432 4998; Fax: +1 517 353 8957; Email: curator@cme.msu.edu
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