Lyme disease in humans
Lyme disease (Lyme borreliosis) is a tick-borne, zoonosis of adults and children caused by
genospecies of the Borrelia burgdorferi sensu lato complex. The ailment, widespread …
genospecies of the Borrelia burgdorferi sensu lato complex. The ailment, widespread …
Genomics of Actinobacteria: Tracing the Evolutionary History of an Ancient Phylum
Actinobacteria constitute one of the largest phyla among Bacteria and represent gram-
positive bacteria with a high G+ C content in their DNA. This bacterial group includes …
positive bacteria with a high G+ C content in their DNA. This bacterial group includes …
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 …
Modeling site heterogeneity with posterior mean site frequency profiles accelerates accurate phylogenomic estimation
Proteins have distinct structural and functional constraints at different sites that lead to site-
specific preferences for particular amino acid residues as the sequences evolve …
specific preferences for particular amino acid residues as the sequences evolve …
BMGE (Block Map** and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments
A Criscuolo, S Gribaldo - BMC evolutionary biology, 2010 - Springer
Background The quality of multiple sequence alignments plays an important role in the
accuracy of phylogenetic inference. It has been shown that removing ambiguously aligned …
accuracy of phylogenetic inference. It has been shown that removing ambiguously aligned …
Relaxed phylogenetics and dating with confidence
In phylogenetics, the unrooted model of phylogeny and the strict molecular clock model are
two extremes of a continuum. Despite their dominance in phylogenetic inference, it is …
two extremes of a continuum. Despite their dominance in phylogenetic inference, it is …
Towards a genome-based taxonomy for prokaryotes
The ranks higher than the species in the prokaryotic taxonomy are primarily designated
based on phylogenetic analysis of the 16S rRNA gene sequences, but no definite standards …
based on phylogenetic analysis of the 16S rRNA gene sequences, but no definite standards …
The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria
Cyanobacteria were responsible for the oxygenation of the ancient atmosphere; however,
the evolution of this phylum is enigmatic, as relatives have not been characterized. Here we …
the evolution of this phylum is enigmatic, as relatives have not been characterized. Here we …
Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
The archaeal domain is currently divided into two major phyla, the Euryarchaeota and
Crenarchaeota. During the past few years, diverse groups of uncultivated mesophilic …
Crenarchaeota. During the past few years, diverse groups of uncultivated mesophilic …
Bacterial genome instability
E Darmon, DRF Leach - Microbiology and Molecular Biology …, 2014 - Am Soc Microbiol
Bacterial genomes are remarkably stable from one generation to the next but are plastic on
an evolutionary time scale, substantially shaped by horizontal gene transfer, genome …
an evolutionary time scale, substantially shaped by horizontal gene transfer, genome …