Literature DB >> 7524021

The Ribosomal Database Project.

B L Maidak1, N Larsen, M J McCaughey, R Overbeek, G J Olsen, K Fogel, J Blandy, C R Woese.   

Abstract

The Ribosomal Database Project (RDP) is a curated database that offers ribosome-related data, analysis services, and associated computer programs. The offerings include phylogenetically ordered alignments of ribosomal RNA (rRNA) sequences, derived phylogenetic trees, rRNA secondary structure diagrams, and various software for handling, analyzing and displaying alignments and trees. The data are available via anonymous ftp (rdp.life.uiuc.edu), electronic mail (server/rdp.life.uiuc.edu) and gopher (rdpgopher.life.uiuc.edu). The electronic mail server also provides ribosomal probe checking, approximate phylogenetic placement of user-submitted sequences, screening for chimeric nature of newly sequenced rRNAs, and automated alignment.

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Year:  1994        PMID: 7524021      PMCID: PMC308308          DOI: 10.1093/nar/22.17.3485

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  5 in total

1.  fastDNAmL: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood.

Authors:  G J Olsen; H Matsuda; R Hagstrom; R Overbeek
Journal:  Comput Appl Biosci       Date:  1994-02

2.  The ribosomal database project.

Authors:  N Larsen; G J Olsen; B L Maidak; M J McCaughey; R Overbeek; T J Macke; T L Marsh; C R Woese
Journal:  Nucleic Acids Res       Date:  1993-07-01       Impact factor: 16.971

3.  GenBank.

Authors:  D Benson; D J Lipman; J Ostell
Journal:  Nucleic Acids Res       Date:  1993-07-01       Impact factor: 16.971

4.  The EMBL data library.

Authors:  C M Rice; R Fuchs; D G Higgins; P J Stoehr; G N Cameron
Journal:  Nucleic Acids Res       Date:  1993-07-01       Impact factor: 16.971

5.  Evolutionary trees from DNA sequences: a maximum likelihood approach.

Authors:  J Felsenstein
Journal:  J Mol Evol       Date:  1981       Impact factor: 2.395

  5 in total
  197 in total

1.  Comparative diversity of ammonia oxidizer 16S rRNA gene sequences in native, tilled, and successional soils.

Authors:  M A Bruns; J R Stephen; G A Kowalchuk; J I Prosser; E A Paul
Journal:  Appl Environ Microbiol       Date:  1999-07       Impact factor: 4.792

2.  Citromicrobium bathyomarinum, a novel aerobic bacterium isolated from deep-sea hydrothermal vent plume waters that contains photosynthetic pigment-protein complexes.

Authors:  V V Yurkov; S Krieger; E Stackebrandt; J T Beatty
Journal:  J Bacteriol       Date:  1999-08       Impact factor: 3.490

3.  A phylogenomic study of DNA repair genes, proteins, and processes.

Authors:  J A Eisen; P C Hanawalt
Journal:  Mutat Res       Date:  1999-12-07       Impact factor: 2.433

4.  Identification of nonpoint sources of fecal pollution in coastal waters by using host-specific 16S ribosomal DNA genetic markers from fecal anaerobes.

Authors:  A E Bernhard; K G Field
Journal:  Appl Environ Microbiol       Date:  2000-04       Impact factor: 4.792

5.  Characterization of a salt-tolerant family 42 beta-galactosidase from a psychrophilic antarctic Planococcus isolate.

Authors:  P P Sheridan; J E Brenchley
Journal:  Appl Environ Microbiol       Date:  2000-06       Impact factor: 4.792

6.  Culturable populations of Sporomusa spp. and Desulfovibrio spp. in the anoxic bulk soil of flooded rice microcosms.

Authors:  D Rosencrantz; F A Rainey; P H Janssen
Journal:  Appl Environ Microbiol       Date:  1999-08       Impact factor: 4.792

7.  Detection of unculturable bacteria in periodontal health and disease by PCR.

Authors:  R Harper-Owen; D Dymock; V Booth; A J Weightman; W G Wade
Journal:  J Clin Microbiol       Date:  1999-05       Impact factor: 5.948

8.  Effects of agronomic treatments on structure and function of ammonia-oxidizing communities.

Authors:  C J Phillips; D Harris; S L Dollhopf; K L Gross; J I Prosser; E A Paul
Journal:  Appl Environ Microbiol       Date:  2000-12       Impact factor: 4.792

9.  Expression of nifH genes in natural microbial assemblages in Lake George, New York, detected by reverse transcriptase PCR.

Authors:  S Zani; M T Mellon; J L Collier; J P Zehr
Journal:  Appl Environ Microbiol       Date:  2000-07       Impact factor: 4.792

Review 10.  Post-Viking microbiology: new approaches, new data, new insights.

Authors:  K H Nealson
Journal:  Orig Life Evol Biosph       Date:  1999-01       Impact factor: 1.950

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