The microbial dimension of submarine groundwater discharge: current challenges and future directions

C Ruiz-González, V Rodellas… - FEMS Microbiology …, 2021 - academic.oup.com
Despite the relevance of submarine groundwater discharge (SGD) for ocean
biogeochemistry, the microbial dimension of SGD remains poorly understood. SGD can …

Species-and site-specific genome editing in complex bacterial communities

BE Rubin, S Diamond, BF Cress, A Crits-Christoph… - Nature …, 2022 - nature.com
Understanding microbial gene functions relies on the application of experimental genetics in
cultured microorganisms. However, the vast majority of bacteria and archaea remain …

Omnipose: a high-precision morphology-independent solution for bacterial cell segmentation

KJ Cutler, C Stringer, TW Lo, L Rappez, N Stroustrup… - Nature …, 2022 - nature.com
Advances in microscopy hold great promise for allowing quantitative and precise
measurement of morphological and molecular phenomena at the single-cell level in …

Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities

DM Bickhart, M Kolmogorov, E Tseng, DM Portik… - Nature …, 2022 - nature.com
Microbial communities might include distinct lineages of closely related organisms that
complicate metagenomic assembly and prevent the generation of complete metagenome …

Microbial ecology of the deep terrestrial subsurface

RC Beaver, JD Neufeld - The ISME Journal, 2024 - academic.oup.com
The terrestrial subsurface hosts microbial communities that, collectively, are predicted to
comprise as many microbial cells as global surface soils. Although initially thought to be …

Nitrogen cycling and microbial cooperation in the terrestrial subsurface

OE Mosley, E Gios, M Close, L Weaver… - The ISME …, 2022 - academic.oup.com
The nitrogen cycle plays a major role in aquatic nitrogen transformations, including in the
terrestrial subsurface. However, the variety of transformations remains understudied. To …

A genome catalogue of lake bacterial diversity and its drivers at continental scale

RE Garner, SA Kraemer, VE Onana, M Fradette… - Nature …, 2023 - nature.com
Lakes are heterogeneous ecosystems inhabited by a rich microbiome whose genomic
diversity is poorly defined. We present a continental-scale study of metagenomes …

Type IV pili trigger episymbiotic association of Saccharibacteria with its bacterial host

B **e, J Wang, Y Nie, J Tian, Z Wang… - Proceedings of the …, 2022 - National Acad Sciences
Recent characterization of the obligate episymbiont Saccharibacteria (TM7) belonging to the
candidate phyla radiation (CPR) has expanded the extent of microbial diversity. However …

Acquisition of the arginine deiminase system benefits epiparasitic Saccharibacteria and their host bacteria in a mammalian niche environment

J Tian, DR Utter, L Cen, PT Dong… - Proceedings of the …, 2022 - National Acad Sciences
Saccharibacteria are a group of widespread and genetically diverse ultrasmall bacteria with
highly reduced genomes that belong to the Candidate Phyla Radiation. Comparative …

Symbiosis between Candidatus Patescibacteria and Archaea Discovered in Wastewater-Treating Bioreactors

K Kuroda, K Yamamoto, R Nakai, Y Hirakata, K Kubota… - MBio, 2022 - Am Soc Microbiol
Each prokaryotic domain, Bacteria and Archaea, contains a large and diverse group of
organisms characterized by their ultrasmall cell size and symbiotic lifestyles (potentially …