University at Buffalo - The State University of New York
Skip to Content
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. - PubMed - NCBI
Format

Send to

Choose Destination
See comment in PubMed Commons below
Appl Environ Microbiol. 2006 Jul;72(7):5069-72.

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB.

Author information

1
Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Mail Stop 70A-3317, Berkeley, CA 94720, USA.

Abstract

A 16S rRNA gene database (http://greengenes.lbl.gov) addresses limitations of public repositories by providing chimera screening, standard alignment, and taxonomic classification using multiple published taxonomies. It was found that there is incongruent taxonomic nomenclature among curators even at the phylum level. Putative chimeras were identified in 3% of environmental sequences and in 0.2% of records derived from isolates. Environmental sequences were classified into 100 phylum-level lineages in the Archaea and Bacteria.

PMID:
16820507
PMCID:
PMC1489311
DOI:
10.1128/AEM.03006-05
[Indexed for MEDLINE]
Free PMC Article
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for HighWire Icon for PubMed Central
    Loading ...
    Support Center