[HTML][HTML] Bacteroides and related species: The keystone taxa of the human gut microbiota

JH Shin, G Tillotson, TN MacKenzie, CA Warren… - Anaerobe, 2024 - Elsevier
Microbial communities play a significant role in maintaining ecosystems in a healthy
homeostasis. Presently, in the human gastrointestinal tract, there are certain taxonomic …

Parabacteroides distasonis: intriguing aerotolerant gut anaerobe with emerging antimicrobial resistance and pathogenic and probiotic roles in human health

JC Ezeji, DK Sarikonda, A Hopperton, HL Erkkila… - Gut …, 2021 - Taylor & Francis
Parabacteroides distasonis is the type strain for the genus Parabacteroides, a group of gram-
negative anaerobic bacteria that commonly colonize the gastrointestinal tract of numerous …

TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes

JP Meier-Kolthoff, JS Carbasse… - Nucleic acids …, 2022 - academic.oup.com
Microbial systematics is heavily influenced by genome-based methods and challenged by
an ever increasing number of taxon names and associated sequences in public data …

Valid publication of the names of forty-two phyla of prokaryotes

A Oren, GM Garrity - International Journal of Systematic …, 2021 - microbiologyresearch.org
After the International Committee on Systematics of Prokaryotes (ICSP) had voted to include
the rank of phylum in the rules of the International Code of Nomenclature of Prokaryotes …

TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy

JP Meier-Kolthoff, M Göker - Nature communications, 2019 - nature.com
Microbial taxonomy is increasingly influenced by genome-based computational methods.
Yet such analyses can be complex and require expert knowledge. Here we introduce TYGS …

Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria

A Hördt, MG López, JP Meier-Kolthoff… - Frontiers in …, 2020 - frontiersin.org
The class Alphaproteobacteria is comprised of a diverse assemblage of Gram-negative
bacteria that includes organisms of varying morphologies, physiologies and habitat …

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

DH Parks, M Chuvochina, DW Waite, C Rinke… - Nature …, 2018 - nature.com
Taxonomy is an organizing principle of biology and is ideally based on evolutionary
relationships among organisms. Development of a robust bacterial taxonomy has been …

Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

J Chun, A Oren, A Ventosa… - … of systematic and …, 2018 - microbiologyresearch.org
Advancement of DNA sequencing technology allows the routine use of genome sequences
in the various fields of microbiology. The information held in genome sequences proved to …

Genome-Based Taxonomic Classification of the Phylum Actinobacteria

I Nouioui, L Carro, M García-López… - Frontiers in …, 2018 - frontiersin.org
The application of phylogenetic taxonomic procedures led to improvements in the
classification of bacteria assigned to the phylum Actinobacteria but even so there remains a …

Bacteroidetes use thousands of enzyme combinations to break down glycans

P Lapébie, V Lombard, E Drula, N Terrapon… - Nature …, 2019 - nature.com
Unlike proteins, glycan chains are not directly encoded by DNA, but by the specificity of the
enzymes that assemble them. Theoretical calculations have proposed an astronomical …