Chemical Strategies and Solutions for Bacteria and Cancer cell Resistance

New antibacterial compounds with limited resistance

One promising strategy to address the rapid evolution of bacterial resistance is the design of antimicrobial compounds that equipotently inhibit two bacterial targets. The rationale for this approach is that the development of resistance to multitargeting antibiotics (MTA) would require the simultaneous occurrence of multiple specific mutations at both targets, which is extremely rare. Therefore, multitargeting antibiotics should be less susceptible to resistance compared to monotargeting antibiotics.

The core focus of our research revolves around addressing the urgent need for effective antibacterial agents against ESKAPE pathogens. Our target product profile includes combating methicillin-resistant (MRSA), vancomycin-intermediate (VISA) Staphylococcus aureus, clinical isolates of Acinetobacter baumannii, and mycobacteria. To achieve this, we are working towards the development of inhibitors that demonstrate a balanced potency against bacterial DNA gyrase and topoisomerase IV. Specifically, we are targeting amino acid residues that are less susceptible to spontaneous mutations, as any mutations in these residues would impair the functionality of the target enzymes. Over the years, we have compiled an extensive library of potent inhibitors that effectively target both DNA gyrase subunit B and topoisomerase IV subunit E. These inhibitors exhibit a broad spectrum of antibacterial activity, proving effective against multidrug-resistant pathogens and demonstrating efficacy and safety in mouse infection models.

Figure. Presentation of exceptional potency of our compounds ULD1 and ULD2 against a broad panel of multidrug-resistant MRSA, VISA and VRSA Staphylococcus aureus clinical isolates.

Figure. Cumulative MIC distribution against 50 MDR A. baumannii of LMD238 (7f) and PSM79 (7m).

THE RESEARCH IS SUPPORTED BY:

IMI ENABLE project: European Gram-negative Antibacterial Engine; hit-to-lead optimisation of new dual DNA gyrase B and topoisomerase IV inhibitors (2019-2020)

ARIS (Slovenian Research and Innovation Agency)

KEY RECENT PAPERS:

ZIDAR, N. et al. Improved N-phenylpyrrolamide inhibitors of DNA gyrase as antibacterial agents for high-priority bacterial strains. European Journal of Medicinal Chemistry2024278, 116823, DOI: 10.1016/j.ejmech.2024.116823.

STERLE, M. et al. Development of narrow-spectrum topoisomerase-targeting antibacterials against mycobacteria. European Journal of Medicinal Chemistry2024276, 116693, DOI: 10.1016/j.ejmech.2024.116693.

DURCIK, M. et al. Benzothiazole DNA gyrase inhibitors and their conjugates with siderophore mimics: design, synthesis and evaluation. RSC Advances202414, 2905-2917, DOI: 10.1039/d3ra08337c.

COTMAN, AE et al. Discovery and Hit-to-Lead Optimization of Benzothiazole scaffold-based DNA gyrase inhibitors with potent activity against Acinetobacter baumannii and Pseudomonas aeruginosa. Journal of Medicinal Chemistry. 2023, 66, 1380-1425. DOI: 1021/acs.jmedchem.2c01597.

DURCIK, M et al. New dual inhibitors of bacterial topoisomerases with broad-spectrum antibacterial activity and in vivo efficacy against vancomycin – intermediate Staphylococcus aureus. Journal of Medicinal Chemistry. 2023, 66, 3968-3994. DOI: 1021/acs.jmedchem.2c01905.

PATENTS:

ZIDAR, Nace, TOMAŠIČ, Tihomir, ILAŠ, Janez, DURCIK, Martina, ZEGA, Anamarija, PETERLIN-MAŠIČ, Lucija, KIKELJ, Danijel. New N-phenylpyrrolamide inhibitors of DNA gyrase and topoisomerase IV with antibacterial activity: WO2022/129327 A1 23 06 2022. Munich: World Intellectual Property Organization, 2022. https://worldwide.espacenet.com/patent/search/family/079092947/publication/WO2022129327A1?q=pn%3DWO2022129327A1.

TOMAŠIČ, Tihomir, ZIDAR, Nace, DURCIK, Martina, ILAŠ, Janez, ZEGA, Anamarija, DURANTE CRUZ, Cristina, TAMMELA, Päivi, PÁL, Csaba, NYERGES JÓZSEF, Ákos, KIKELJ, Danijel, PETERLIN-MAŠIČ, Lucija. New class of DNA gyrase and/or topoisomerase IV inhibitors with activity against gram-positive and gram-negative bacteria : Patent application publication US 2021/0323957 A1, 2021-10-21. Alexandria: United States Patent and Trademark Office, 2021. https://worldwide.espacenet.com/patent/search/family/063998724/publication/US2021323957A1?q=pn%3.

TOMAŠIČ, Tihomir, ZIDAR, Nace, DURCIK, Martina, ILAŠ, Janez, ZEGA, Anamarija, DURANTE CRUZ, Cristina, TAMMELA, Päivi, PÁL, Csaba, NYERGES JÓZSEF, Ákos, KIKELJ, Danijel, PETERLIN-MAŠIČ, Lucija. New class of DNA gyrase and/or topoisomerase IV inhibitors with activity against gram-positive and gram-negative bacteria = Nouvelle classe d’inhibiteurs d’adn gyrase et/ou de topoisomérase iv ayant une activité contre des bactéries à gram positif et à gram négatif : publication number WO2020/048949 ; application number: PCT/EP2019/073412. Munich: European Patent Office, 2021. https://worldwide.espacenet.com/patent/search/family/063998724/publication/EP3847172A1?q=19769389.8.