High or low correlation between co-occuring gene clusters and 16S rRNA gene phylogeny
Ribosomal RNA (rRNA) genes are universal for all living organisms. Yet, the
correspondence between genome composition and rRNA phylogeny remains poorly known …
correspondence between genome composition and rRNA phylogeny remains poorly known …
Diversity of 16S rRNA genes within individual prokaryotic genomes
AY Pei, WE Oberdorf, CW Nossa… - Applied and …, 2010 - Am Soc Microbiol
Analysis of intragenomic variation of 16S rRNA genes is a unique approach to examining
the concept of ribosomal constraints on rRNA genes; the degree of variation is an important …
the concept of ribosomal constraints on rRNA genes; the degree of variation is an important …
The variability of the 16S rRNA gene in bacterial genomes and its consequences for bacterial community analyses
T Větrovský, P Baldrian - PloS one, 2013 - journals.plos.org
16S ribosomal RNA currently represents the most important target of study in bacterial
ecology. Its use for the description of bacterial diversity is, however, limited by the presence …
ecology. Its use for the description of bacterial diversity is, however, limited by the presence …
[HTML][HTML] Benchmarking of 16S rRNA gene databases using known strain sequences
Abstract 16S rRNA gene analysis is the most convenient and robust method for microbiome
studies. Inaccurate taxonomic assignment of bacterial strains could have deleterious effects …
studies. Inaccurate taxonomic assignment of bacterial strains could have deleterious effects …
Marker genes that are less conserved in their sequences are useful for predicting genome-wide similarity levels between closely related prokaryotic strains
Background The 16s rRNA gene is so far the most widely used marker for taxonomical
classification and separation of prokaryotes. Since it is universally conserved among …
classification and separation of prokaryotes. Since it is universally conserved among …
Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies
HB Hassler, B Probert, C Moore, E Lawson… - Microbiome, 2022 - Springer
Abstract Background The 16S rRNA gene is used extensively in bacterial phylogenetics, in
species delineation, and now widely in microbiome studies. However, the gene suffers from …
species delineation, and now widely in microbiome studies. However, the gene suffers from …
Alignment and clustering of phylogenetic markers-implications for microbial diversity studies
Background Molecular studies of microbial diversity have provided many insights into the
bacterial communities inhabiting the human body and the environment. A common first step …
bacterial communities inhabiting the human body and the environment. A common first step …
Concatenated 16S rRNA sequence analysis improves bacterial taxonomy
B Paul - F1000Research, 2023 - pmc.ncbi.nlm.nih.gov
Background: Microscopic, biochemical, molecular, and computer-based approaches are
extensively used to identify and classify bacterial populations. Advances in DNA sequencing …
extensively used to identify and classify bacterial populations. Advances in DNA sequencing …
Ribosomal MLST nucleotide identity (rMLST-NI), a rapid bacterial species identification method: application to Klebsiella and Raoultella genomic species validation
JE Bray, A Correia, M Varga, KA Jolley… - Microbial …, 2022 - microbiologyresearch.org
Bacterial genomics is making an increasing contribution to the fields of medicine and public
health microbiology. Consequently, accurate species identification of bacterial genomes is …
health microbiology. Consequently, accurate species identification of bacterial genomes is …
Ribosomal multilocus sequence typing: universal characterization of bacteria from domain to strain
No single genealogical reconstruction or typing method currently encompasses all levels of
bacterial diversity, from domain to strain. We propose ribosomal multilocus sequence typing …
bacterial diversity, from domain to strain. We propose ribosomal multilocus sequence typing …