Mihaela Pruteanu

Institute of Molecular Biology

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Peer Bork

European Molecular Biology Laboratory

Kiran Raosaheb Patil

University of Cambridge

Athanasios Typas

European Molecular Biology Laboratory

Regine Hengge

Cluster of Excellence "Matters of Activity. Image Space Material"

Georg Zeller

European Molecular Biology Laboratory

Michael Kuhn

European Molecular Biology Laboratory

Fergus Shanahan

University College Cork

Exene Erin Anderson

New York University

Lisa Maier

National Jewish Health

Tania A. Baker

Massachusetts Institute of Technology

Cooperative Institutions

European Molecular Biology Laboratory

Freie Universität Berlin

University College Cork

Technical University of Munich

Humboldt-Universität zu Berlin

APC Microbiome Institute

Heidelberg University

Teagasc - The Irish Agriculture and Food Development Authority

Czech Academy of Sciences, Institute of Microbiology

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Mathematical Model of rpoS Regulation in E. coli

T. Backfisch Mihaela Pruteanu Regine Hengge E. D. Gilles

rpoS

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Citations (1)

Data for "Unravelling the collateral damage of antibiotics on gut bacteria"

Zenodo (CERN European Organization for Nuclear Research) (2020)

Lisa Maier Camille Goemans Jakob Wirbel Michael Kuhn Claudia Eberl

This dataset encompasses all data needed to reproduce the analyses presented in the paper "Unravelling the collateral damage of antibiotics on gut bacteria", available here: https://doi.org/10.1038/s41586-021-03986-2 You can also check the GitLab repository: https://git.embl.de/maier/abxbug/

Collateral damage

10.5281/zenodo.3527540

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T1807 Bacterial Proteolytic Profile in Inflammatory Bowel Diseases

Gastroenterology (2010)

Mihaela Pruteanu Niall P. Hyland David K. Clarke Barry Kiely Fergus Shanahan

Helicobacter

10.1016/s0016-5085(10)62685-6

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Common plant flavonoids prevent the assembly of amyloid curli fibres and can interfere with bacterial biofilm formation

Environmental Microbiology (2020)

Mihaela Pruteanu José I. Hernández Lobato Thomas Stach Regine Hengge

Summary Like all macroorganisms, plants have to control bacterial biofilm formation on their surfaces. On the other hand, biofilms are highly tolerant against antimicrobial agents and other stresses. Consequently, biofilms are also involved in human chronic infectious diseases, which generates a strong demand for anti‐biofilm agents. Therefore, we systematically explored major plant flavonoids as putative anti‐biofilm agents using different types of biofilms produced by Gram‐negative and Gram‐positive bacteria. In Escherichia coli macrocolony biofilms, the flavone luteolin and the flavonols myricetin, morin and quercetin were found to strongly reduce the extracellular matrix. These agents directly inhibit the assembly of amyloid curli fibres by driving CsgA subunits into an off‐pathway leading to SDS‐insoluble oligomers. In addition, they can interfere with cellulose production by still unknown mechanisms. Submerged biofilm formation, however, is hardly affected. Moreover, the same flavonoids tend to stimulate macrocolony and submerged biofilm formation by Pseudomonas aeruginosa . For Bacillus subtilis , the flavonone naringenin and the chalcone phloretin were found to inhibit growth. Thus, plant flavonoids are not general anti‐biofilm compounds but show species‐specific effects. However, based on their strong and direct anti‐amyloidogenic activities, distinct plant flavonoids may provide an attractive strategy to specifically combat amyloid‐based biofilms of some relevant pathogens.

Myricetin

Xanthomonas citri

Extracellular polymeric substance

10.1111/1462-2920.15216

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Citations (38)

Digestion of epithelial tight junction proteins by the commensalClostridium perfringens

AJP Gastrointestinal and Liver Physiology (2013)

Mihaela Pruteanu Fergus Shanahan

The enteric microbiota contributes to the pathogenesis of inflammatory bowel disease, but the pathways involved and bacterial participants may vary in different hosts. We previously reported that some components of the human commensal microbiota, particularly Clostridium perfringens (C. perfringens), have the proteolytic capacity for host matrix degradation and reduce transepithelial resistance. Here, we examined the C. perfringens-derived proteolytic activity against epithelial tight junction proteins using human intestinal epithelial cell lines. We showed that the protein levels of E-cadherin, occludin, and junctional adhesion molecule 1 decrease in colonic cells treated with C. perfringens culture supernatant. E-cadherin ectodomain shedding in C. perfringens-stimulated intestinal epithelial cells was detected with antibodies against the extracellular domain of E-cadherin, and we demonstrate that this process occurs in a time- and dose-dependent manner. In addition, we showed that the filtered sterile culture supernatant of C. perfringens has no cytotoxic activity on the human intestinal cells at the concentrations used in this study. The direct cleavage of E-cadherin by the proteases from the C. perfringens culture supernatant was confirmed by C. perfringens supernatant-induced in vitro degradation of the human recombinant E-cadherin. We conclude that C. perfringens culture supernatant mediates digestion of epithelial cell junctional proteins, which is likely to enable access to the extracellular matrix components by the paracellular pathway.

Clostridium perfringens

Ectodomain

Occludin

Caco-2

Paracellular transport

Adherens junction

10.1152/ajpgi.00316.2012

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Citations (22)

Tu1848 Digestion of Epithelial Tight Junction Proteins by the Commensal Clostridium Perfringens

Gastroenterology (2012)

Mihaela Pruteanu Fergus Shanahan

Clostridium perfringens

Occludin

Ectodomain

Caco-2

Adherens junction

10.1016/s0016-5085(12)63335-6

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Prevalence and characterization of Clostridium perfringens from the faecal microbiota of elderly Irish subjects

Journal of Medical Microbiology (2012)

B. Lakshminarayanan Hugh M. B. Harris Mairéad Coakley Órla O’Sullivan Catherine Stanton

The aim of this study was to investigate the diversity and composition of the intestinal microbiota of elderly subjects using a combination of culture-dependent techniques and 16S rRNA gene amplicon sequencing. The study was performed as part of the ELDERMET project, in which 368 faecal samples were assessed for viable numbers of Bifidobacterium spp., Lactobacillus spp. and Enterobacteriaceae on selective agar. However, the Bifidobacterium selective medium used also supported the growth of Clostridium perfringens, which appeared as distinct colonies and were subsequently characterized phenotypically and genotypically. All the isolates were confirmed as toxin biotype A producers. In addition, three isolates tested also had the genetic determinants for the β2 toxin. Of the 368 faecal samples assessed, C. perfringens was detected in 28 samples (7.6%). Moreover, C. perfringens was observed in samples from subjects in all the residence locations assessed but was most prevalent in subjects from long-stay residential care, with 71.4% of the samples (63.2% of the subjects) being from this residence location, and with a shedding level in excess of 10(6) c.f.u. (g faeces)(-1). Microbiota profiling revealed some significant compositional changes across both the family and genus taxonomic levels between the C. perfringens-positive and -negative datasets. Levels of culturable Bifidobacterium spp. and Lactobacillus spp. were significantly (P<0.05) lower in the C. perfringens-positive samples. Sequence-based methods also confirmed a significant difference in the Bifidobacterium spp. level (P<0.05) between both datasets. Taken together, these data suggest that a high viable count [>10(6) c.f.u. (g faeces)(-1)] of C. perfringens in stool samples may be indicative of a less healthy microbiota in the intestine of elderly people in long-stay residential care.

Clostridium perfringens

Clostridiales

10.1099/jmm.0.052258-0

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Citations (46)

Extensive impact of non-antibiotic drugs on human gut bacteria

Nature (2018)

Lisa Maier Mihaela Pruteanu Michael Kuhn Georg Zeller Anja Telzerow

Repurposing

Drug repositioning

10.1038/nature25979

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Citations (1,591)

Controlled degradation by ClpXP protease tunes the levels of the excision repair protein UvrA to the extent of DNA damage

Molecular Microbiology (2008)

Mihaela Pruteanu Tania A. Baker

UV irradiation damages DNA and activates expression of genes encoding proteins helpful for survival under DNA stress. These proteins are often deleterious in the absence of DNA damage. Here, we investigate mechanisms used to regulate the levels of DNA-repair proteins during recovery by studying control of the nucleotide excision repair (NER) protein UvrA. We show that UvrA is induced after UV irradiation and reaches maximum levels between approximately 20 and 120 min post UV. During post-UV recovery, UvrA levels decrease principally as a result of ClpXP-dependent protein degradation. The rate of UvrA degradation depends on the amount of unrepaired pyrimidine dimers present; this degradation rate is initially slow shortly after UV, but increases as damage is repaired. This increase in UvrA degradation as repair progresses is also influenced by protein-protein interactions. Genetic and in vitro experiments support the conclusion that UvrA-UvrB interactions antagonize degradation. In contrast, Mfd appears to act as an enhancer of UvrA turnover. Thus, our results reveal that a complex network of interactions contribute to tuning the level of UvrA in the cell in response to the extent of DNA damage and nicely mirror findings with excision repair proteins from eukaryotes, which are controlled by proteolysis in a similar manner.

Pyrimidine dimer

Proteolysis

Protein Degradation

10.1111/j.1365-2958.2008.06574.x

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Citations (36)

Proteolysis in the SOS response and metal homeostasis in Escherichia coli

Research in Microbiology (2009)

Mihaela Pruteanu Tania A. Baker

Proteolysis

Homeostasis

Proteome

10.1016/j.resmic.2009.08.012

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Citations (27)