Results 11 to 20 of about 80,061 (261)

Efficient Detection of Pathogenic Leptospires Using 16S Ribosomal RNA [PDF]

PLOS ONE, 2015
Pathogenic Leptospira species cause a prevalent yet neglected zoonotic disease with mild to life-threatening complications in a variety of susceptible animals and humans. Diagnosis of leptospirosis, which primarily relies on antiquated serotyping methods, is particularly challenging due to presentation of non-specific symptoms shared by other febrile ...
Brian T Backstedt, Ozlem Buyuktanir, Janet Lindow, Elsio A Wunder, Mitermayer G Reis, Sahar Usmani-Brown, Michel Ledizet, Albert Ko, Utpal Pal   +8 more
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Updating the 97% identity threshold for 16S ribosomal RNA OTUs [PDF]

Bioinformatics, 2017
Abstract The 16S ribosomal RNA (rRNA) gene is widely used to survey microbial communities. Sequences are often clustered into Operational Taxonomic Units (OTUs) as proxies for species. The canonical clustering threshold is 97% identity, which was proposed in 1994 when few 16S rRNA sequences were available, motivating a reassessment on ...
Robert C. Edgar
openaire   +4 more sources

Microvariation artifacts introduced by PCR and cloning of closely related 16S rRNA gene sequences [PDF]

, 2001
A defined template mixture of seven closely related 16S-rDNA clones was used in a PCR-cloning experiment to assess and track sources of artifactual sequence variation in 16S rDNA clone libraries. At least 14% of the recovered clones contained aberrations.
Speksnijder, Arjen, Jong, S., de, Kowalchuk, G.A., Stephen, J.R., De Jong, S., Speksnijder, A.G.C.L., Jong, S. de, Kline, E., Laanbroek, H.J.   +8 more
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Species identification and profiling of complex microbial communities using shotgun Illumina sequencing of 16S rRNA amplicon sequences. [PDF]

, 2013
The high throughput and cost-effectiveness afforded by short-read sequencing technologies, in principle, enable researchers to perform 16S rRNA profiling of complex microbial communities at unprecedented depth and resolution. Existing Illumina sequencing
Niranjan Nagarajan, Eliza Xin Pei Ho, Andreas Wilm (7951), Hibberd, Martin Lloyd, Louie Low (400408), Nagarajan, Niranjan, Eliza Xin Pei Ho (400407), Ong, Swee Hoe, Christophe Lay (400406), Martin Lloyd Hibberd (259920), Low, Louie, Kukkillaya, Vinutha Uppoor, Andreas Wilm, Martin Lloyd Hibberd, Lay, Christophe, Niranjan Nagarajan (131213), Wilm, Andreas, Ho, Eliza Xin Pei, Vinutha Uppoor Kukkillaya (400405), Swee Hoe Ong, Louie Low, Swee Hoe Ong (400404), Vinutha Uppoor Kukkillaya, Christophe Lay   +23 more
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Yeast Rrp8p, a novel methyltransferase responsible for m1A 645 base modification of 25S rRNA [PDF]

, 2012
Ribosomal RNA undergoes various modifications to optimize ribosomal structure and expand the topological potential of RNA. The most common nucleotide modifications in ribosomal RNA (rRNA) are pseudouridylations and 2'-O methylations (Nm), performed by H ...
Sharma, Sunny, Watzinger, Peter, Lamberth, Stefanie, Entian, Karl-Dieter, Kötter, Peter, Peifer, Christian   +5 more
core   +1 more source

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy [PDF]

, 2012
The interrogation of genetic markers in environmental meta-barcoding studies is currently seriously hindered by the lack of taxonomically curated reference data sets for the targeted genes.
Probert, Ian, Dolan, John R., Kooistra, Wiebe H.C.F., Guillou, Laure, Vaulot, Daniel, Campo, Javier, Del, Morard, Raphael, Bass, David, Logares, Ramiro, Montresor, Marina, del Campo, Javier, Lara, Enrique, Berney, Cédric, Zimmermann, Pascal, Burgaud, Gaétan, Pawlowski, Jan, Campo, Javier,, Bachar, Dipankar, Boutte, Christophe, Bittner, Lucie, Christen, Richard, Mahe, Frédéric, Dunthorn, Micah, Kooistra, Wiebe H. C. F., ,, Siano, Raffaele, Stoeck, Thorsten, Le Bescot, Noan, Audic, Stéphane, Decelle, Johan, Not, Fabrice, Massana, Ramon, de Vargas, Colomban, Sauvadet, Anne-Laure, Edvardsen, Bente, Holzmann, Maria   +35 more
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Analysis of the bacterial communities in the rhizosphere of Chrysanthemum via denaturing gradient gel electrophoresis of PCR- amplified 16S rRNA as well as DNA fragments coding for 16S rRNA [PDF]

, 2001
The effect of developing chrysanthemum roots on the presence and activity of bacterial populations in the rhizosphere was examined by using culture-independent methods.
Anneke Keijzer, Van Elsas, J.D., Duineveld, B.M., Kowalchuk, G.A., Van Veen, J.A., George A. Kowalchuk, Jan Dirk van Elsas, Keijzer, A., Veen, J.A., van, Bernadette M. Duineveld, Elsas, J.D., van, Johannes A. van Veen   +11 more
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The 16S ribosomal RNA mutation database (16SMDB) [PDF]

Nucleic Acids Research, 1994
The 16S ribosomal RNA mutation database (16SMDB) provides a list of mutated positions in 16S ribosomal RNA from Escherichia coli and the identity of each alteration. Information provided for each mutation includes: (i) a brief description of the phenotype(s) associated with each mutation; (ii) whether a mutant phenotype has been detected by in vivo or ...
openaire   +4 more sources

Metaxa : a software tool for automated detection and discrimination among ribosomal small subunit (12S/16S/18S) sequences of archaea, bacteria, eukaryotes, mitochondria, and chloroplasts in metagenomes and environmental sequencing datasets [PDF]

, 2011
Peer ...
Belle Damodara Shenoy, Hartmann, Martin, Alm Rosenblad, Magnus, Kessy Abarenkov, Nilsson, R. Henrik,, Wang, Zheng, Zheng, Wang, Alm Rosenblad, Magnus,, Eriksson, Martin, Petri, Anna,, Rosenblad, Magnus Alm, Grelet, Gwen-Aelle, Abarenkov, Kessy, Johan Bengtsson, Eriksson, K. Martin, Shenoy, Belle Damodara, Zheng Wang, Nilsson, R. Henrik, Gwen-Aëlle Grelet, Anna Petri, Martin Hartmann, Bengtsson, Johan, Bengtsson-Palme, Johan,, Eriksson, Karl Martin,, K. Martin Eriksson, Magnus Alm Rosenblad, R. Henrik Nilsson, Eriksson, Martin,, Petri, Anna, Bengtsson, Johan,, Hartmann, Martin,, Grelet, Gwen-A\ueblle   +31 more
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A comprehensive comparison of comparative RNA structure prediction approaches [PDF]

, 2004
Gardner PP, Giegerich R. A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics. 2004;5(1): 140.Background: An increasing number of researchers have released novel RNA structure analysis and prediction ...
Giegerich, R., Gardner, Paul P., Gardner, P. P., Paul P Gardner, Robert Giegerich, Giegerich, Robert, Giegerich Robert, Gardner Paul P   +7 more
core   +2 more sources