Next-generation physiology approaches to study microbiome function at single cell level

R Hatzenpichler, V Krukenberg, RL Spietz… - Nature Reviews …, 2020 - nature.com
The function of cells in their native habitat often cannot be reliably predicted from genomic
data or from physiology studies of isolates. Traditional experimental approaches to study the …

Growth rates of microbes in the oceans

DL Kirchman - Annual review of marine science, 2016 - annualreviews.org
A microbe's growth rate helps to set its ecological success and its contribution to food web
dynamics and biogeochemical processes. Growth rates at the community level are …

Visualizing in situ translational activity for identifying and sorting slow-growing archaeal− bacterial consortia

R Hatzenpichler, SA Connon… - Proceedings of the …, 2016 - National Acad Sciences
To understand the biogeochemical roles of microorganisms in the environment, it is
important to determine when and under which conditions they are metabolically active …

Correlative SIP-FISH-Raman-SEM-NanoSIMS links identity, morphology, biochemistry, and physiology of environmental microbes

GA Schaible, AJ Kohtz, J Cliff… - ISME …, 2022 - academic.oup.com
Microscopic and spectroscopic techniques are commonly applied to study microbial cells but
are typically used on separate samples, resulting in population-level datasets that are …

Expanding the diversity of bacterioplankton isolates and modeling isolation efficacy with large-scale dilution-to-extinction cultivation

MW Henson, VC Lanclos, DM Pitre… - Applied and …, 2020 - Am Soc Microbiol
Cultivated bacterioplankton representatives from diverse lineages and locations are
essential for microbiology, but the large majority of taxa either remain uncultivated or lack …

Broad distribution and high proportion of protein synthesis active marine bacteria revealed by click chemistry at the single cell level

TJ Samo, S Smriga, F Malfatti, BP Sherwood… - Frontiers in Marine …, 2014 - frontiersin.org
Marine bacterial and archaeal communities control global biogeochemical cycles through
nutrient acquisition processes that are ultimately dictated by the metabolic requirements of …

Using click chemistry to study microbial ecology and evolution

S van Kasteren, DE Rozen - ISME communications, 2023 - academic.oup.com
Technological advances have largely driven the revolution in our understanding of the
structure and function of microbial communities. Culturing, long the primary tool to probe …

Actively replicating gut bacteria identified by 5-ethynyl-2'-deoxyuridine (EdU) click chemistry and cell sorting

ET Beauchemin, C Hunter, CF Maurice - Gut Microbes, 2023 - Taylor & Francis
The composition of the intestinal bacterial community is well described, but recent research
suggests that the metabolism of these bacteria plays a larger role in health than which …

Visualization is crucial for understanding microbial processes in the ocean

M Sebastián, JM Gasol - Philosophical Transactions of …, 2019 - royalsocietypublishing.org
Recent developments in community and single-cell genomic approaches have provided an
unprecedented amount of information on the ecology of microbes in the aquatic …

Dynamics of actively dividing prokaryotes in the western Mediterranean Sea

C Mena, P Reglero, R Balbín, M Martín, R Santiago… - Scientific Reports, 2022 - nature.com
Microbial community metabolism and functionality play a key role modulating global
biogeochemical processes. However, the metabolic activities and contribution of actively …