Microbial diversity in extreme environments

WS Shu, LN Huang - Nature Reviews Microbiology, 2022 - nature.com
A wide array of microorganisms, including many novel, phylogenetically deeply rooted taxa,
survive and thrive in extreme environments. These unique and reduced-complexity …

Innovations to culturing the uncultured microbial majority

WH Lewis, G Tahon, P Geesink, DZ Sousa… - Nature Reviews …, 2021 - nature.com
Despite the surge of microbial genome data, experimental testing is important to confirm
inferences about the cell biology, ecological roles and evolution of microorganisms. As the …

A standardized archaeal taxonomy for the Genome Taxonomy Database

C Rinke, M Chuvochina, AJ Mussig, PA Chaumeil… - Nature …, 2021 - nature.com
The accrual of genomic data from both cultured and uncultured microorganisms provides
new opportunities to develop systematic taxonomies based on evolutionary relationships …

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

L Eme, D Tamarit, EF Caceres, CW Stairs, V De Anda… - Nature, 2023 - nature.com
In the ongoing debates about eukaryogenesis—the series of evolutionary events leading to
the emergence of the eukaryotic cell from prokaryotic ancestors—members of the Asgard …

Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants

KS Makarova, YI Wolf, J Iranzo, SA Shmakov… - Nature Reviews …, 2020 - nature.com
The number and diversity of known CRISPR–Cas systems have substantially increased in
recent years. Here, we provide an updated evolutionary classification of CRISPR–Cas …

The transporter classification database (TCDB): 2021 update

MH Saier Jr, VS Reddy… - Nucleic acids …, 2021 - academic.oup.com
Abstract The Transporter Classification Database (TCDB; tcdb. org) is a freely accessible
reference resource, which provides functional, structural, mechanistic, medical and …

Isolation of an archaeon at the prokaryote–eukaryote interface

H Imachi, MK Nobu, N Nakahara, Y Morono… - Nature, 2020 - nature.com
The origin of eukaryotes remains unclear,,–. Current data suggest that eukaryotes may have
emerged from an archaeal lineage known as 'Asgard'archaea,. Despite the eukaryote-like …

Expanded diversity of Asgard archaea and their relationships with eukaryotes

Y Liu, KS Makarova, WC Huang, YI Wolf… - Nature, 2021 - nature.com
Asgard is a recently discovered superphylum of archaea that appears to include the closest
archaeal relatives of eukaryotes,,,–. Debate continues as to whether the archaeal ancestor …

Diversity, ecology and evolution of Archaea

BJ Baker, V De Anda, KW Seitz, N Dombrowski… - Nature …, 2020 - nature.com
Compared to bacteria, our knowledge of archaeal biology is limited. Historically,
microbiologists have mostly relied on culturing and single-gene diversity surveys to …

The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database

ND Rawlings, AJ Barrett, PD Thomas… - Nucleic acids …, 2018 - academic.oup.com
Abstract The MEROPS database (http://www. ebi. ac. uk/merops/) is an integrated source of
information about peptidases, their substrates and inhibitors. The hierarchical classification …