The current status on the taxonomy of Pseudomonas revisited: an update

A Peix, MH Ramírez-Bahena, E Velázquez - Infection, Genetics and …, 2018 - Elsevier
The genus Pseudomonas described in 1894 is one of the most diverse and ubiquitous
bacterial genera which encompass species isolated worldwide. In the last years more than …

Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v. 9

S Mukherjee, D Stamatis, CT Li… - Nucleic acids …, 2023 - academic.oup.com
Abstract The Genomes OnLine Database (GOLD)(https://gold. jgi. doe. gov/) at the
Department of Energy Joint Genome Institute (DOE-JGI) continues to maintain its role as one …

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

DH Parks, C Rinke, M Chuvochina, PA Chaumeil… - Nature …, 2017 - nature.com
Challenges in cultivating microorganisms have limited the phylogenetic diversity of currently
available microbial genomes. This is being addressed by advances in sequencing …

A new genomics-driven taxonomy of bacteria and archaea: are we there yet?

GM Garrity - Journal of clinical microbiology, 2016 - Am Soc Microbiol
Taxonomy is often criticized for being too conservative and too slow and having limited
relevance because it has not taken into consideration the latest methods and findings. Yet …

Genomes OnLine database (GOLD) v. 7: updates and new features

S Mukherjee, D Stamatis, J Bertsch… - Nucleic acids …, 2019 - academic.oup.com
Abstract The Genomes Online Database (GOLD)(https://gold. jgi. doe. gov) is an open online
resource, which maintains an up-to-date catalog of genome and metagenome projects in the …

Update on the classification of higher ranks in the phylum Actinobacteria

N Salam, JY Jiao, XT Zhang… - International journal of …, 2020 - microbiologyresearch.org
Genome analysis is one of the main criteria for description of new taxa. Availability of
genome sequences for all the actinobacteria with a valid nomenclature will, however …

Phylogenomic Analysis of the Gammaproteobacterial Methanotrophs (Order Methylococcales) Calls for the Reclassification of Members at the Genus and Species …

FD Orata, JP Meier-Kolthoff, D Sauvageau… - Frontiers in …, 2018 - frontiersin.org
The order Methylococcales constitutes the methanotrophs–bacteria that can metabolize
methane, a potent greenhouse gas, as their sole source of energy. These bacteria are …

Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential

L Carro, I Nouioui, V Sangal, JP Meier-Kolthoff… - Scientific reports, 2018 - nature.com
There is a need to clarify relationships within the actinobacterial genus Micromonospora, the
type genus of the family Micromonosporaceae, given its biotechnological and ecological …

Genome-informed Bradyrhizobium taxonomy: where to from here?

JR Avontuur, M Palmer, CW Beukes, WY Chan… - Systematic and applied …, 2019 - Elsevier
Bradyrhizobium is thought to be the largest and most diverse rhizobial genus, but this is not
reflected in the number of described species. Although it was one of the first rhizobial genera …

Verrucomicrobial methanotrophs grow on diverse C3 compounds and use a homolog of particulate methane monooxygenase to oxidize acetone

SI Awala, JH Gwak, YM Kim, SJ Kim… - The ISME …, 2021 - academic.oup.com
Short-chain alkanes (SCA; C2-C4) emitted from geological sources contribute to
photochemical pollution and ozone production in the atmosphere. Microorganisms that …