Gut microbial metabolites as multi-kingdom intermediates

KA Krautkramer, J Fan, F Bäckhed - Nature Reviews Microbiology, 2021 - nature.com
The gut microbiota contributes to host physiology through the production of a myriad of
metabolites. These metabolites exert their effects within the host as signalling molecules and …

Best practices in metabarcoding of fungi: from experimental design to results

L Tedersoo, M Bahram, L Zinger, RH Nilsson… - Molecular …, 2022 - Wiley Online Library
The development of high‐throughput sequencing (HTS) technologies has greatly improved
our capacity to identify fungi and unveil their ecological roles across a variety of ecosystems …

Perspectives and benefits of high-throughput long-read sequencing in microbial ecology

L Tedersoo, M Albertsen, S Anslan… - Applied and …, 2021 - Am Soc Microbiol
Short-read, high-throughput sequencing (HTS) methods have yielded numerous important
insights into microbial ecology and function. Yet, in many instances short-read HTS …

Synthetic ecology of the human gut microbiota

G Vrancken, AC Gregory, GRB Huys, K Faust… - Nature Reviews …, 2019 - nature.com
Despite recent advances in sequencing and culturing, a deep knowledge of the wiring and
functioning of the human gut ecosystem and its microbiota as a community is still missing. A …

Inter-species metabolic interactions in an in-vitro minimal human gut microbiome of core bacteria

SA Shetty, B Kuipers, S Atashgahi, S Aalvink… - npj Biofilms and …, 2022 - nature.com
Abstract Knowledge of the functional roles and interspecies interactions are crucial for
improving our understanding of the human intestinal microbiome in health and disease …

Host-microbe coevolution: applying evidence from model systems to complex marine invertebrate holobionts

PA O'Brien, NS Webster, DJ Miller, DG Bourne - MBio, 2019 - Am Soc Microbiol
Marine invertebrates often host diverse microbial communities, making it difficult to identify
important symbionts and to understand how these communities are structured. This …

[HTML][HTML] In situ identification of environmental microorganisms with Raman spectroscopy

D Cui, L Kong, Y Wang, Y Zhu, C Zhang - Environmental Science and …, 2022 - Elsevier
Microorganisms in natural environments are crucial in maintaining the material and energy
cycle and the ecological balance of the environment. However, it is challenging to delineate …

Optofluidic Raman-activated cell sorting for targeted genome retrieval or cultivation of microbial cells with specific functions

KS Lee, FC Pereira, M Palatinszky, L Behrendt… - Nature …, 2021 - nature.com
Stable isotope labeling of microbial taxa of interest and their sorting provide an efficient and
direct way to answer the question “who does what?” in complex microbial communities …

Imaging commensal microbiota and pathogenic bacteria in the gut

L Lin, Y Du, J Song, W Wang… - Accounts of Chemical …, 2021 - ACS Publications
Conspectus As a newly discovered organ, gut microbiota has been extensively studied in
the last two decades, with their highly diverse and fundamental roles in the physiology of …

Imaging isotopically labeled bacteria at the single-cell level using high-resolution optical infrared photothermal spectroscopy

C Lima, H Muhamadali, Y Xu, M Kansiz… - Analytical …, 2021 - ACS Publications
We report that the cellular uptake of stable isotope-labeled compounds by bacteria can be
probed at the single-cell level using infrared spectroscopy, and this monitors the chemical …