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Lifestyles in transition: evolution and natural history of the genus Lactobacillus
Lactobacillus species are found in nutrient-rich habitats associated with food, feed, plants,
animals and humans. Due to their economic importance, the metabolism, genetics and …
animals and humans. Due to their economic importance, the metabolism, genetics and …
Past, present and future of the boundaries of the Pseudomonas genus: proposal of Stutzerimonas gen. nov
Pseudomonas is one the best studied bacterial genera, and it is the genus with the highest
number of species among the gram-negative bacteria. Pseudomonas spp. are widely …
number of species among the gram-negative bacteria. Pseudomonas spp. are widely …
Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes
The field of microbial taxonomy is dynamic, aiming to provide a stable and contemporary
classification system for prokaryotes. Traditionally, reliance on phenotypic characteristics …
classification system for prokaryotes. Traditionally, reliance on phenotypic characteristics …
Introducing EzAAI: a pipeline for high throughput calculations of prokaryotic average amino acid identity
The average amino acid identity (AAI) is an index of pairwise genomic relatedness, and
multiple studies have proposed its application in prokaryotic taxonomy and related …
multiple studies have proposed its application in prokaryotic taxonomy and related …
Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?
True fungi (Fungi) and fungus-like organisms (eg Mycetozoa, Oomycota) constitute the
second largest group of organisms based on global richness estimates, with around 3 …
second largest group of organisms based on global richness estimates, with around 3 …
A new genomic blueprint of the human gut microbiota
The composition of the human gut microbiota is linked to health and disease, but knowledge
of individual microbial species is needed to decipher their biological roles. Despite …
of individual microbial species is needed to decipher their biological roles. Despite …
Non-syntrophic methanogenic hydrocarbon degradation by an archaeal species
The methanogenic degradation of oil hydrocarbons can proceed through syntrophic
partnerships of hydrocarbon-degrading bacteria and methanogenic archaea,–. However …
partnerships of hydrocarbon-degrading bacteria and methanogenic archaea,–. However …
Revisiting the taxonomy and evolution of pathogenicity of the genus Leptospira through the prism of genomics
The causative agents of leptospirosis are responsible for an emerging zoonotic disease
worldwide. One of the major routes of transmission for leptospirosis is the natural …
worldwide. One of the major routes of transmission for leptospirosis is the natural …
1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses
Reference genomes are essential for metagenomic analyses and functional characterization
of the human gut microbiota. We present the Culturable Genome Reference (CGR), a …
of the human gut microbiota. We present the Culturable Genome Reference (CGR), a …
Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family
Background Bacteria within family S24-7 (phylum Bacteroidetes) are dominant in the mouse
gut microbiota and detected in the intestine of other animals. Because they had not been …
gut microbiota and detected in the intestine of other animals. Because they had not been …