Results 1 to 10 of about 128,934 (210)
Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons [PDF]
Journal of Visualized Experiments, 2014 One of the major questions in microbial ecology is "who is there?" This question can be answered using various tools, but one of the long-lasting gold standards is to sequence 16S ribosomal RNA (rRNA) gene amplicons generated by domain-level PCR reactions amplifying from genomic DNA.
Sanschagrin, Sylvie, Yergeau, Étienne
openaire +3 more sources
Systematic identification of gene families for use as markers for phylogenetic and phylogeny- driven ecological studies of bacteria and archaea and their major subgroups [PDF]
, 2013 With the astonishing rate that the genomic and metagenomic sequence data sets are accumulating, there are many reasons to constrain the data analyses.
Eisen, Jonathan A. +2 more
core +15 more sources
Computer modeling 16 S ribosomal RNA [PDF]
Journal of Molecular Biology, 1991 A three-dimensional structure for 16 S RNA has been produced with a computer protocol that is not dependent on human intervention. This protocol improves upon traditional modeling techniques by using distance geometry to fold the molecule in an objective and reproducible fashion.
J M, Hubbard, J E, Hearst
openaire +2 more sources
Mutations in 16S ribosomal RNA disrupt antibiotic-RNA interactions. [PDF]
The EMBO Journal, 1989 Two of six mutations at a base-paired site in Escherichia coli 16S rRNA confer resistance to nine different aminoglycoside antibiotics in vivo. Chemical probing of mutant and wild-type ribosomes in the presence of paromomycin indicates that interactions between the antibiotic and 16S rRNA in mutant ribosomes are disrupted.
E A, De Stasio +3 more
openaire +2 more sources
Location of Ribosomal Protein Binding Sites on 16S Ribosomal RNA [PDF]
Proceedings of the National Academy of Sciences, 1972 The distribution of ribosomal protein binding sites on the 16S ribosomal RNA molecule has been analyzed by limited ribonuclease hydrolysis of RNA-protein complexes, as well as by the interaction of individual proteins with RNA fragments purified from partial enzymatic digests. Of the six 30S subunit proteins known to interact directly with
R A, Zimmermann +4 more
openaire +2 more sources
Functional Modification of 16S Ribosomal RNA by Kethoxal [PDF]
Proceedings of the National Academy of Sciences, 1972 Kethoxal reacts with 30S ribosomal subunits to give totally inactive particles, as measured by in vitro protein synthesis. It is postulated that functional modification occurs at the binding site for transfer RNA since ( a ) loss of specific binding of transfer RNA, but not binding of ...
H F, Noller, J B, Chaires
openaire +2 more sources
A model for the study of ligand binding to the ribosomal RNA helix h44. [PDF]
, 2010 Oligonucleotide models of ribosomal RNA domains are powerful tools to study the binding and molecular recognition of antibiotics that interfere with bacterial translation.
Dibrov, Sergey M +2 more
core +3 more sources
Taxonomy of anaerobic digestion microbiome reveals biases associated with the applied high throughput sequencing strategies [PDF]
, 2018 In the past few years, many studies investigated the anaerobic digestion microbiome by means of 16S rRNA amplicon sequencing. Results obtained from these studies were compared to each other without taking into consideration the followed procedure for ...
Angelidaki, Irini +4 more
core +3 more sources
Action spectra for UV-light induced RNA–RNA crosslinking in 16S ribosomal RNA in the ribosome [PDF]
Photochemical & Photobiological Sciences, 2003 UV irradiation induces intramolecular crosslinks in ribosomal RNA in the ribosome. These crosslinks occur between nucleotides distant in primary sequence and they are specific, limited in number and have crosslinking efficiencies sufficient to allow their use in monitoring conformational changes.
Oksana V, Zhirnov, Paul, Wollenzien
openaire +2 more sources
Aptazyme-Mediated Regulation of 16S Ribosomal RNA
Chemistry & Biology, 2010 Developing artificial genetic switches in order to control gene expression via an external stimulus is an important aim in chemical and synthetic biology. Here, we expand the application range of RNA switches to the regulation of 16S rRNA function in Escherichia coli.
Wieland, Markus +3 more
openaire +3 more sources