[HTML][HTML] Towards monitoring of antimicrobial resistance in the environment: for what reasons, how to implement it, and what are the data needs?

J Bengtsson-Palme, A Abramova, TU Berendonk… - Environment …, 2023 - Elsevier
Antimicrobial resistance (AMR) is a global threat to human and animal health and well-
being. To understand AMR dynamics, it is important to monitor resistant bacteria and …

From microbiome composition to functional engineering, one step at a time

SD Burz, S Causevic, A Dal Co… - Microbiology and …, 2023 - Am Soc Microbiol
Communities of microorganisms (microbiota) are present in all habitats on Earth and are
relevant for agriculture, health, and climate. Deciphering the mechanisms that determine …

[HTML][HTML] A faecal microbiota signature with high specificity for pancreatic cancer

E Kartal, TSB Schmidt, E Molina-Montes… - Gut, 2022 - gut.bmj.com
Background Recent evidence suggests a role for the microbiome in pancreatic ductal
adenocarcinoma (PDAC) aetiology and progression. Objective To explore the faecal and …

Unraveling the functional dark matter through global metagenomics

GA Pavlopoulos, FA Baltoumas, S Liu, O Selvitopi… - Nature, 2023 - nature.com
Metagenomes encode an enormous diversity of proteins, reflecting a multiplicity of functions
and activities,. Exploration of this vast sequence space has been limited to a comparative …

Compendium of specialized metabolite biosynthetic diversity encoded in bacterial genomes

A Gavriilidou, SA Kautsar, N Zaburannyi, D Krug… - Nature …, 2022 - nature.com
Bacterial specialized metabolites are a proven source of antibiotics and cancer therapies,
but whether we have sampled all the secondary metabolite chemical diversity of cultivated …

Life history strategies of soil bacterial communities across global terrestrial biomes

G Piton, SD Allison, M Bahram, F Hildebrand… - Nature …, 2023 - nature.com
The life history strategies of soil microbes determine their metabolic potential and their
response to environmental changes. Yet these strategies remain poorly understood. Here …

Drivers and determinants of strain dynamics following fecal microbiota transplantation

TSB Schmidt, SS Li, OM Maistrenko, W Akanni… - Nature medicine, 2022 - nature.com
Fecal microbiota transplantation (FMT) is a therapeutic intervention for inflammatory
diseases of the gastrointestinal tract, but its clinical mode of action and subsequent …

A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments

S Pan, C Zhu, XM Zhao, LP Coelho - Nature communications, 2022 - nature.com
Metagenomic binning is the step in building metagenome-assembled genomes (MAGs)
when sequences predicted to originate from the same genome are automatically grouped …

<? mode longmeta?> SPIRE: a Searchable, Planetary-scale mIcrobiome REsource

TSB Schmidt, A Fullam, P Ferretti, A Orakov… - Nucleic Acids …, 2024 - academic.oup.com
Meta'omic data on microbial diversity and function accrue exponentially in public
repositories, but derived information is often siloed according to data type, study or sampled …

[HTML][HTML] Global marine microbial diversity and its potential in bioprospecting

J Chen, Y Jia, Y Sun, K Liu, C Zhou, C Liu, D Li, G Liu… - Nature, 2024 - nature.com
The past two decades has witnessed a remarkable increase in the number of microbial
genomes retrieved from marine systems,. However, it has remained challenging to translate …