Past and future species definitions for Bacteria and Archaea

R Rosselló-Móra, R Amann - Systematic and applied microbiology, 2015 - Elsevier
Species is the basic unit of biological diversity. However, among the different microbiological
disciplines there is an important degree of disagreement as to what this unit may be. In this …

Integrating genomics into the taxonomy and systematics of the Bacteria and Archaea

J Chun, FA Rainey - International journal of systematic …, 2014 - microbiologyresearch.org
The polyphasic approach used today in the taxonomy and systematics of the Bacteria and
Archaea includes the use of phenotypic, chemotaxonomic and genotypic data. The use of …

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 …

The dormant blood microbiome in chronic, inflammatory diseases

M Potgieter, J Bester, DB Kell… - FEMS microbiology …, 2015 - academic.oup.com
Blood in healthy organisms is seen as a 'sterile'environment: it lacks proliferating microbes.
Dormant or not-immediately-culturable forms are not absent, however, as intracellular …

Sequence-based classification and identification of Fungi

D Hibbett, K Abarenkov, U Kõljalg, M Öpik, B Chai… - Mycologia, 2016 - Taylor & Francis
Fungal taxonomy and ecology have been revolutionized by the application of molecular
methods and both have increasing connections to genomics and functional biology …

Roles of intestinal bacteroides in human health and diseases

C Wang, J Zhao, H Zhang, YK Lee, Q Zhai… - Critical reviews in food …, 2021 - Taylor & Francis
Bacteroides, an abundant genus in the intestines of mammals, has been recently
considered as the next generation probiotics (NGP) candidate due to its potential role in …

Over 2.5 million COI sequences in GenBank and growing

TM Porter, M Hajibabaei - PloS one, 2018 - journals.plos.org
The increasing popularity of cytochrome c oxidase subunit 1 (COI) DNA metabarcoding
warrants a careful look at the underlying reference databases used to make high-throughput …

Evidence for the existence of two new members of the family Chlamydiaceae and proposal of Chlamydia avium sp. nov. and Chlamydia gallinacea sp. nov.

K Sachse, K Laroucau, K Riege, S Wehner… - Systematic and applied …, 2014 - Elsevier
The family Chlamydiaceae with the recombined single genus Chlamydia currently
comprises nine species, all of which are obligate intracellular organisms distinguished by a …

Type material in the NCBI Taxonomy Database

S Federhen - Nucleic Acids Research, 2015 - academic.oup.com
Type material is the taxonomic device that ties formal names to the physical specimens that
serve as exemplars for the species. For the prokaryotes these are strains submitted to the …

Revised phylogeny of Bacteroidetes and proposal of sixteen new taxa and two new combinations including Rhodothermaeota phyl. nov.

R Munoz, R Rosselló-Móra, R Amann - Systematic and applied …, 2016 - Elsevier
Members of the phylum Bacteroidetes, which was originally defined as a monophyletic
branch encompassing the genera Cytophaga, Flavobacterium and Bacteroides (CFB), are …