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Inhibition of the master regulator of Listeria monocytogenes virulence enables bacterial clearance from spacious replication vacuoles in infected macrophages
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2022 (English)In: PLoS Pathogens, ISSN 1553-7366, E-ISSN 1553-7374, Vol. 18, no 1, article id e1010166Article in journal (Refereed) Published
Abstract [en]

A hallmark of Listeria (L.) monocytogenes pathogenesis is bacterial escape from maturing entry vacuoles, which is required for rapid bacterial replication in the host cell cytoplasm and cell-to-cell spread. The bacterial transcriptional activator PrfA controls expression of key virulence factors that enable exploitation of this intracellular niche. The transcriptional activity of PrfA within infected host cells is controlled by allosteric coactivation. Inhibitory occupation of the coactivator site has been shown to impair PrfA functions, but consequences of PrfA inhibition for L. monocytogenes infection and pathogenesis are unknown. Here we report the crystal structure of PrfA with a small molecule inhibitor occupying the coactivator site at 2.0 Å resolution. Using molecular imaging and infection studies in macrophages, we demonstrate that PrfA inhibition prevents the vacuolar escape of L. monocytogenes and enables extensive bacterial replication inside spacious vacuoles. In contrast to previously described spacious Listeria-containing vacuoles, which have been implicated in supporting chronic infection, PrfA inhibition facilitated progressive clearance of intracellular L. monocytogenes from spacious vacuoles through lysosomal degradation. Thus, inhibitory occupation of the PrfA coactivator site facilitates formation of a transient intravacuolar L. monocytogenes replication niche that licenses macrophages to effectively eliminate intracellular bacteria. Our findings encourage further exploration of PrfA as a potential target for antimicrobials and highlight that intra-vacuolar residence of L. monocytogenes in macrophages is not inevitably tied to bacterial persistence.

Place, publisher, year, edition, pages
Public Library Science , 2022. Vol. 18, no 1, article id e1010166
National Category
Cell and Molecular Biology
Identifiers
URN: urn:nbn:se:umu:diva-191906DOI: 10.1371/journal.ppat.1010166ISI: 000741048100001PubMedID: 35007292Scopus ID: 2-s2.0-85123302993OAI: oai:DiVA.org:umu-191906DiVA, id: diva2:1632564
Funder
Australian Research Council, CE140100011Australian Research Council, 1160570Swedish Research Council, FL180100109
Note

Originally included in thesis in manuscript form. 

Available from: 2022-01-27 Created: 2022-01-27 Last updated: 2022-02-03Bibliographically approved
In thesis
1. Disarming bacteria: a structure-based approach to design an anti-virulence drug against Listeria monocytogenes
Open this publication in new window or tab >>Disarming bacteria: a structure-based approach to design an anti-virulence drug against Listeria monocytogenes
2021 (English)Doctoral thesis, comprehensive summary (Other academic)
Alternative title[sv]
Avväpning av bakterier : ett strukturellt tillvägagångssätt för utvecklingen av ett anti-virulent läkemedel mot Listeria monocytogenes
Abstract [en]

Antibiotic resistances are one of the biggest threats to global health and if we don’t change our behavior and way of using antibiotics we will end up in a ‘post-antibiotic era’, in which common infections and minor injuries can once kill again and up to 10 million deaths per year may occur by 2050. Therefore, there is a high need for new anti-bacterial drugs, especially of alternatives to existing antibiotics with already described resistances. Classical antibiotics target the essential processes of survival and growth in bacteria and therefore put a high selective pressure on them to develop resistances. In contrast, the ability to infect or damage a host, the virulence, is less essential for bacteria. Thus, targeting the virulence is supposed to cause a lower selective pressure and this alternative mode-of-action could help to decelerate the development of antibiotic resistances.

The aims in this work were to proceed with the structure-based design of an anti-virulence drug against the food-borne pathogen Listeria monocytogenes, but also to deepen our understanding of the complex regulation system for the virulence of this bacterium. PrfA, the master regulator of virulence in Listeria monocytogenes, is a member of a large family of bacterial transcription factors, which are regulated by a conformational change and allosteric modulation by different regulator molecules. Furthermore, its critical role in virulence regulations makes is a suitable target for an anti-virulence drug. In this work new lead compounds based on the previously identified ring-fused 2-pyridone scaffold were designed, synthesized and analyzed by different biological, biophysical, computational and structural biology methods. Three new binding sites and binding modes of these compounds in PrfA were evaluated for their potential use in future designs and a compound with improved activity was identified. In a second study another structurally different lead compound was discovered to inhibit PrfA. Furthermore, the studies on proposed natural regulators of PrfA uncovered the underlying mechanism for the virulence regulation by the peptide signature of the environment and in a follow-up study the structural basis of the binding of inhibitory peptides to PrfA was further investigated. Finally, a structural review on all available structure of PrfA provided more insights into the allosteric regulation mechanism of PrfA activity.

This work will hopefully support in the successful development of an anti-virulence drug against Listeria monocytogenes and thus contribute to the reduction of the problem of antibiotic resistances.

Place, publisher, year, edition, pages
Umeå: Umeå University, 2021. p. 91
Keywords
antibiotic resistances, anti-virulence drug, Listeria monocytogenes, virulence regulation, PrfA, structure-based drug design, ring-fused 2-pyridones, allosteric regulation
National Category
Structural Biology Medicinal Chemistry Biochemistry and Molecular Biology
Research subject
Biochemistry; medicinal chemistry; molecular cell biology; Medical Biochemistry; Molecular Biology
Identifiers
urn:nbn:se:umu:diva-188507 (URN)978-91-7855-677-9 (ISBN)978-91-7855-676-2 (ISBN)
Public defence
2021-11-04, Glasburen, KBC + Zoom, Linnaeus väg 6, Umeå, 10:00 (English)
Opponent
Supervisors
Available from: 2021-10-14 Created: 2021-10-11 Last updated: 2022-01-28Bibliographically approved

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Oelker, MelanieJohansson, JörgenSauer-Eriksson, A. Elisabeth

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Mathmann, Carmen D.Rollo, Rachel F.Oelker, MelanieZamoshnikova, AlinaKummari, Lalith K.Irvine, Katharine M.Melo-Bolívar, JavierGross, AnnetteBrown, DarrenMak, Jeffrey Y. W.Hansford, Karl A.Cooper, Matthew A.Giri, RabinaSimpson, FionaBarnett, Timothy C.Johansson, JörgenDankers, WendyHarris, JamesWells, Timothy J.Kapetanovic, RonanSweet, Matthew J.Newton, Hayley J.Guérillot, Romain J. R.Hachani, AbderrahmanStinear, Timothy P.Chandran, YogeswariHartland, Elizabeth L.Kobe, BostjanSauer-Eriksson, A. ElisabethBegun, JakobBlumenthal, Antje
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