Culturing the human microbiota and culturomics
The gut microbiota has an important role in the maintenance of human health and in disease
pathogenesis. This importance was realized through the advent of omics technologies and …
pathogenesis. This importance was realized through the advent of omics technologies and …
Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
Recent advances have made it possible to analyze high-throughput marker-gene
sequencing data without resorting to the customary construction of molecular operational …
sequencing data without resorting to the customary construction of molecular operational …
Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes
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 …
in the various fields of microbiology. The information held in genome sequences proved to …
Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher …
Species identification lies at the heart of biodiversity studies that has in recent years
favoured DNA-based approaches. Microbial Biological Resource Centres are a rich source …
favoured DNA-based approaches. Microbial Biological Resource Centres are a rich source …
Uncultivated microbes in need of their own taxonomy
KT Konstantinidis, R Rosselló-Móra… - The ISME journal, 2017 - academic.oup.com
The great majority of microbial species remains uncultured, severely limiting their taxonomic
characterization and thus communication among scientists. Although Candidatus was …
characterization and thus communication among scientists. Although Candidatus was …
A review of the global ecology, genomics, and biogeography of the toxic cyanobacterium, Microcystis spp.
This review summarizes the present state of knowledge regarding the toxic, bloom-forming
cyanobacterium, Microcystis, with a specific focus on its geographic distribution, toxins …
cyanobacterium, Microcystis, with a specific focus on its geographic distribution, toxins …
Characterization of the gut microbiome using 16S or shotgun metagenomics
The advent of next generation sequencing (NGS) has enabled investigations of the gut
microbiome with unprecedented resolution and throughput. This has stimulated the …
microbiome with unprecedented resolution and throughput. This has stimulated the …
A new perspective on microbes formerly known as nitrite-oxidizing bacteria
Nitrite-oxidizing bacteria (NOB) catalyze the second step of nitrification, nitrite oxidation to
nitrate, which is an important process of the biogeochemical nitrogen cycle. NOB were …
nitrate, which is an important process of the biogeochemical nitrogen cycle. NOB were …
A Genus Definition for Bacteria and Archaea Based on a Standard Genome Relatedness Index
Genus assignment is fundamental in the characterization of microbes, yet there is currently
no unambiguous way to demarcate genera solely using standard genomic relatedness …
no unambiguous way to demarcate genera solely using standard genomic relatedness …
High taxonomic variability despite stable functional structure across microbial communities
Understanding the processes that are driving variation of natural microbial communities
across space or time is a major challenge for ecologists. Environmental conditions strongly …
across space or time is a major challenge for ecologists. Environmental conditions strongly …