Microbial communities form rich extracellular metabolomes that foster metabolic interactions and promote drug tolerance

JSL Yu, C Correia-Melo, F Zorrilla… - Nature …, 2022 - nature.com
Microbial communities are composed of cells of varying metabolic capacity, and regularly
include auxotrophs that lack essential metabolic pathways. Through analysis of auxotrophs …

Mapping human microbiome drug metabolism by gut bacteria and their genes

M Zimmermann, M Zimmermann-Kogadeeva… - Nature, 2019 - nature.com
Individuals vary widely in their responses to medicinal drugs, which can be dangerous and
expensive owing to treatment delays and adverse effects. Although increasing evidence …

Bacterial unculturability and the formation of intercellular metabolic networks

S Pande, C Kost - Trends in microbiology, 2017 - cell.com
The majority of known bacterial species cannot be cultivated under laboratory conditions.
Here we argue that the adaptive emergence of obligate metabolic interactions in natural …

Experimental evolution of metabolic dependency in bacteria

G D'Souza, C Kost - PLoS genetics, 2016 - journals.plos.org
Bacteria frequently lose biosynthetic genes, thus making them dependent on an
environmental uptake of the corresponding metabolite. Despite the ubiquity of this 'genome …

Personalized mapping of drug metabolism by the human gut microbiome

B Javdan, JG Lopez, P Chankhamjon, YCJ Lee, R Hull… - Cell, 2020 - cell.com
The human gut microbiome harbors hundreds of bacterial species with diverse biochemical
capabilities. Dozens of drugs have been shown to be metabolized by single isolates from …

Bioaccumulation of therapeutic drugs by human gut bacteria

M Klünemann, S Andrejev, S Blasche, A Mateus… - Nature, 2021 - nature.com
Bacteria in the gut can modulate the availability and efficacy of therapeutic drugs. However,
the systematic mapping of the interactions between drugs and bacteria has only started …

Metabolic dissimilarity determines the establishment of cross-feeding interactions in bacteria

S Giri, L Oña, S Waschina, S Shitut, G Yousif, C Kaleta… - Current Biology, 2021 - cell.com
The exchange of metabolites among different bacterial genotypes profoundly impacts the
structure and function of microbial communities. However, the factors governing the …

Less is more: selective advantages can explain the prevalent loss of biosynthetic genes in bacteria

G D'Souza, S Waschina, S Pande, K Bohl, C Kaleta… - …, 2014 - academic.oup.com
Bacteria that have adapted to nutrient-rich, stable environments are typically characterized
by reduced genomes. The loss of biosynthetic genes frequently renders these lineages …

Metabolic heterogeneity and cross-feeding within isogenic yeast populations captured by DILAC

S Kamrad, C Correia-Melo, L Szyrwiel, SK Aulakh… - Nature …, 2023 - nature.com
Genetically identical cells are known to differ in many physiological parameters such as
growth rate and drug tolerance. Metabolic specialization is believed to be a cause of such …

The social network of microorganisms—how auxotrophies shape complex communities

K Zengler, LS Zaramela - Nature Reviews Microbiology, 2018 - nature.com
Microorganisms engage in complex interactions with other organisms and their
environment. Recent studies have shown that these interactions are not limited to the …