Abstract We investigated nasopharyngeal microbial community structure in COVID-19-positive and -negative patients. High-throughput 16S ribosomal RNA gene amplicon sequencing revealed significant differences between This proof-of-concept study demonstrates that: (1) microbiome communities can be assessed using collection samples already collected for SARS-CoV-2 testing (viral transport media) (2...

16S Ribosomal RNA Sequencing is used extensively in analzying bacterial phylogeny and taxonomy. This project attempts to streamline the 16S sequencing pipeline using local file databases to replace multiple flat sequence files used in the pipeline, to ease logistical burdens on the researcher and enable greater metadata analysis and accountability of

Fidelity during protein synthesis is maintained by the ribosomal decoding site which monitors base pairing between the mRNA codon and the tRNA anticodon. Binding of cognate tRNA induces conformational changes in ribosomal RNA (rRNA) at the decoding site that translate into a signal for the progression of translation. An internal loop containing adenine residues A1492 and A1493 in 16S rRNA of th...

SEQUENCE AND ITS ORIGIN: A 4.5 kb fragment of DNA derived from a library of BamHl fragments of Pseudomonas aeruginosa strain K (ATCC 25102) cloned into plasmid pUC9 was shown by hybridisation with P-labelled 16S and 23S ribosomal RNAs to represent part of a ribosomal RNA operon from that organism. The fragment has been sequenced by the chain termination method (1) after fragmentation and subclo...

Treatment of E. coli ribosomal subunits with 2-iminothiolane coupled with mild ultraviolet irradiation leads to the formation of a large number of RNA-protein cross-links. In the case of the 30S subunit, a number of sites on 16S RNA that are cross-linked to proteins S7 and S8 by this procedure have already been identified (see ref. 6). Here, by using new or modified techniques for the partial d...

Next generation sequencing is a powerful technology whose application in sequencing entire RNA populations (RNA-Seq) of food-borne pathogens will provide valuable insights. A problem unique to prokaryotic RNA-Seq is removal of ribosomal RNA. Unlike eukaryotic messenger RNA (mRNA), bacterial mRNA species are devoid of polyadenylation at the 3’-end and thus the approach of affinity enrichment of ...

Post-transcriptional RNA modifications that are introduced during the multistep ribosome biogenesis process are essential for protein synthesis. The current lack of a comprehensive method for a fast quantitative analysis of rRNA modifications significantly limits our understanding of how individual modification steps are coordinated during biogenesis inside the cell. Here, an LC-MS approach has...