The RDP (Ribosomal Database Project) continues

By B. Maidak, James R. Cole, T. Lilburn, C. Parker, P. Saxman, Jason M. Stredwick, George M. Garrity, Bing Li, G. Olsen, Sakti K. Pramanik and 2 more. Nucleic Acids Res., 2000

676 citations recorded by the source corpus.

Subfields: Ecology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/2c0ed016d2bc69854523aab6bcf86342692e31e2

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Citations in the corpus

Ammonia-oxidizing bacteria: a model for molecular microbial ecology. (2001, background): “This initial characterization has endured relatively well as database entries have accrued, although the current Ribosomal Database Project classification recognizes four lineages within the genus Nitrosomonas (113) and does not subdivide the genus Nitrosospira.”
Biochemical Characterization of a β-Galactosidase with a Low Temperature Optimum Obtained from an Antarctic Arthrobacter Isolate (2003, methodology): “The SB isolate double-stranded 16S rRNA gene sequence was compared with those from the Ribosomal Database Project (http://rdp.cme.msu.edu/html) and the National Center for Biotechnology Information (NCBI) database (http://www.ncbi.nlm .nih.gov) ( 21 , 22) and aligned using the Clustal W program foun”
Production of indole-3-acetic acid, aromatic amino acid aminotransferase activities and plant growth promotion by Pantoea agglomerans rhizosphere isolates (2007, methodology): “Each 16S gene sequence was queried for similarities with BLAST (Altschul et al. 1990) and with the Ribosomal Database Project (RDP) Similarity Rank and Chimera Check programs (Maidak et al. 1997, 2000).”
Molecular Analysis of Bacterial Species Associated with Childhood Caries (2002, neutral): “For identification of closest relatives, sequences of the unrecognized inserts were compared to the 16S rRNA gene sequences of over 4,000 bacteria in our database and the 16,000 sequences in the Ribosomal Database Project (18, 19) and GenBank.”
Discovering common stem-loop motifs in unaligned RNA sequences. (2001, background): “edu) (33,34), but structural alignments do not seem to be available.”
Estimated Minimal Divergence Times of the Major Bacterial and Archaeal Phyla (2003, methodology): “…of Energy Grant to J.E.B. P.P.S. has also been supported by an Alfred P. Sloan Foundation Fellowship in Molecular Evolution from the National Science Foundation and partial funding from the Penn State Astrobiology Center and NSF/IGERT for Biogeochemical Research Initiative for Education (BRIE).”
Molecular Phylogenetic Analysis of a Bacterial Community in an Oligotrophic Cave Environment (2004, methodology): “Compiled sequences were aligned using the ARB Software Package 〈http://mpi-bremen.de/molecol/arb〉, with additional sequences from the Ribosomal Database Project (Maidak et al. 2000).”
Application of Denaturing Gradient Gel Electrophoresis (DGGE) To Study the Diversity of Marine Picoeukaryotic Assemblages and Comparison of DGGE with Other Molecular Techniques (2001, background): “Project (28) and the pattern-searching algorithm PatScan (10).”
Bacterial Diversity in Human Subgingival Plaque (2001, methodology): “Chimeric sequences were identified by using the Chimera Check program in RDP, by treeing analysis, or by base signature analysis.”