probeBase: an online resource for rRNA-targeted oligonucleotide probes

By A. Loy, M. Horn, Michael Wagner. Nucleic Acids Res., 2003

456 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c989dd1b6198b9226b78d3636f4119a32570a353

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In Molecular Biology

1. W. D. de Vos
2. S. Salminen
3. M. Collado
4. M. Derrien
5. C. Dupraz
6. Michael Wagner
7. A. Decho
8. A. Arnscheidt

Citations in the corpus

• Microbial diversity in soil: ecological theories, the contribution of molecular techniques and the impact of transgenic plants and transgenic microorganisms (2004, unknown): “Suitable FISH probes can be found at the probeBase website (Loy et al. 2003; URL: http://www.microbial-ecology.net/pro- bebase/).”
• Development of the Human Infant Intestinal Microbiota (2007, methodology): “In some cases, we also tried to amplify the suspect sequence using a truncated (23-mer) version of the corresponding oligonucleotide probe from the microarray paired with a known group-specific PCR primer from ProbeBase [55].”
• daime, a novel image analysis program for microbial ecology and biofilm research. (2006, background): “Additional information on the probes can be accessed on probeBase (Loy et al., 2003).”
• probeBase—an online resource for rRNA-targeted oligonucleotide probes: new features 2007 (2006, background): “In order to release researchers from the necessity to tediously survey the literature for already published probes, probeBase, an internet database for rRNA-targeted oligonucleotides [NAR Molecular Biology Database Collection entry number 390 (6)], was established in 2002 to provide a freely accessi”
• Section 1 update: Simplified protocols for the preparation of genomic DNA from bacterial cultures (2004, methodology): “This method is often used in procedures for extracting nucleic acids directly from environmental samples, such as soil and sediment [22].”
• The Mucin Degrader Akkermansia muciniphila Is an Abundant Resident of the Human Intestinal Tract (2007, background): “The oligonucleotide probe sequence has been deposited in probeBase ( 11 ).”
• Startup of reactors for anoxic ammonium oxidation: experiences from the first full-scale anammox reactor in Rotterdam. (2007, background): “, 2000, 2003, 2005) are available at Probebase (Loy et al., 2003).”
• Sulfate reducing bacteria in microbial mats: Changing paradigms, new discoveries (2006, background): “The 16S rRNA probe SRB385 (CGGCGTCGCTGCGTCAGG) targets sulfate reducing bacteria of the y-proteobacteria and Gram-positive bacteria (Loy et al., 2003).”
• Characterization of microbial community in an aerobic moving bed biofilm reactor applied for simultaneous nitrification and denitrification (2010, background): “Details on the oligonucleotide probes are available at probeBase (Loy et al. 2003) and are listed in Table 1.”
• Candidatus "Scalindua brodae", sp. nov., Candidatus "Scalindua wagneri", sp. nov., two new species of anaerobic ammonium oxidizing bacteria. (2003, unknown): “net [15].”