Taxonomy, physiology, and natural products of Actinobacteria

EA Barka, P Vatsa, L Sanchez… - Microbiology and …, 2016 - journals.asm.org
Actinobacteria are Gram-positive bacteria with high G+ C DNA content that constitute one of
the largest bacterial phyla, and they are ubiquitously distributed in both aquatic and …

Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

R Riesco, ME Trujillo - International Journal of Systematic …, 2024 - microbiologyresearch.org
The field of microbial taxonomy is dynamic, aiming to provide a stable and contemporary
classification system for prokaryotes. Traditionally, reliance on phenotypic characteristics …

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 …

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 …

[HTML][HTML] 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 …

Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

M García-López, JP Meier-Kolthoff, BJ Tindall… - Frontiers in …, 2019 - frontiersin.org
Although considerable progress has been made in recent years regarding the classification
of bacteria assigned to the phylum Bacteroidetes, there remains a need to further clarify …

VICTOR: genome-based phylogeny and classification of prokaryotic viruses

JP Meier-Kolthoff, M Göker - Bioinformatics, 2017 - academic.oup.com
Motivation Bacterial and archaeal viruses are crucial for global biogeochemical cycles and
might well be game-changing therapeutic agents in the fight against multi-resistant …

The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota

I Lagkouvardos, R Pukall, B Abt, BU Foesel… - Nature …, 2016 - nature.com
Intestinal bacteria influence mammalian physiology, but many types of bacteria are still
uncharacterized. Moreover, reference strains of mouse gut bacteria are not easily available …

Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy

JP Meier-Kolthoff, RL Hahnke, J Petersen… - Standards in genomic …, 2014 - Springer
Although Escherichia coli is the most widely studied bacterial model organism and often
considered to be the model bacterium per se, its type strain was until now forgotten from …