Odilorhabdins – A New Class Of Ribosome-targeting Antibiotics

An international team has reported the discovery of a new class of antibiotics. The antibiotic is unique and promising on two fronts: its unconventional source and its distinct way of killing bacteria, both of which suggest the compound may be effective at treating drug-resistant or hard-to-treat bacterial infections.

Called odilorhabdins, or ODLs, the antibiotics are produced by symbiotic bacteria found in soil-dwelling nematode worms that colonize insects for food. The bacteria help to kill the insect and, importantly, secrete the antibiotic to keep competing bacteria away.

Until now, these nematode-associated bacteria and the antibiotics they make have been largely understudied. The includes team researchers from the University of Illinois at Chicago and Nosopharm, a biotechnology company based in Lyon, France which first identified the antibiotic.

Odilorhabdins Vs. Ribosomes

To identify the antibiotic, the Nosopharm research team screened 80 cultured strains of the bacteria for antimicrobial activity. They then isolated the active compounds, studied their chemical structures and engineered more potent derivatives.

Alexander Mankin and Yury Polikanov, of the University of Illinois at Chicago (UIC), are corresponding authors on the study and led the research on the antibiotic’s mechanism of action. They found thatodilorhabdins act on the ribosome – the molecular machine of individual cells that makes the proteins it needs to function – of bacterial cells.

“Like many clinically useful antibiotics, ODLs work by targeting the ribosome,” said Polikanov, “but ODLs are unique because they bind to a place on the ribosome that has never been used by other known antibiotics.”

The UIC researchers, including graduate student Tanja Florin and postdoctoral research associate Malgorzata Dobosz-Bartoszek, also found that when bound to the ribosome, the antibiotic disrupts its ability to interpret and translate genetic code.

“When ODLs are introduced to the bacterial cells, they impact the reading ability of the ribosome and cause the ribosome to make mistakes when it creates new proteins. This miscoding corrupts the cell with flawed proteins and causes the bacterial cell to die,”

said Mankin, director of the Center for Biomolecular Sciences in the UIC College of Pharmacy.

Bactericidal Antibiotics

While many antibiotics can slow bacterial growth, Mankin says antibiotics that actually kill bacteria, called bactericidal antibiotics, are rare.

“The bactericidal mechanism of ODLs and the fact that they bind to a site on the ribosome not exploited by any known antibiotic are very strong indicators that ODLs have the potential to treat infections that are unresponsive to other antibiotics,”

said Mankin, who is also professor of medicinal chemistry and pharmacognosy.

According to the World Health Organization, antibiotic resistance is one of the biggest threats to global health today and a significant contributor to longer hospital stays, higher medical costs and increased mortality.

Nosopharm researchers tested the ODL compounds against bacterial pathogens, including many known to develop resistance.

“We found that the ODL compounds cured mice infected with several pathogenic bacteria and demonstrated activity against both Gram-negative and Gram-positive pathogens, notably including carbapenem-resistant Enterobacteriacae,”

said co-corresponding author Maxime Gualtieri, co-founder and chief scientific officer of Nosopharm.

Carbapenem-resistant Enterobacteriacae

Yury Polikanov and Alexander Mankin

Yury Polikanov and Alexander Mankin.
Credit: UIC/Jenny Fontaine

Carbapenem-resistant Enterobacteriacae (CRE), are a family of germs that have high levels of resistance to antibiotics. One study suggests that CRE, which are the common culprits in bloodstream and surgical site infections, contribute to death in up to 50 percent of patients who become infected.

The researchers say this study is a testament to the growing trend of international and cross-disciplinary collaboration, which is needed to combat the growing and global threat of antibiotic resistance.

“In this case, the combined expertise of the industry, which has the resources to develop new compounds, and the academia, which has the research and lab capabilities to understand how the compounds work, have enabled the development of this new class of antibiotics,”

Mankin said.

While ODLs have yet to be thoroughly investigated for their therapeutic potential, the researchers say that the study findings justify future research in this direction.

The study was funded by Nosopharm, along with financial support from OSEO and Region Languedoc-Roussillon, DGA, and from the Innovative Medicines Initiative Joint Undertaking.

Pantel, Lucile et al.
Odilorhabdins, Antibacterial Agents that Cause Miscoding by Binding at a New Ribosomal Site
Molecular Cell, Volume 70, Issue 1, 83 – 94.e7

Image: UIC/Yury Polikanov, et al. Odilorhabdins (yellow) bind to a site on the ribosome not used by other antibiotics. Location of this site is shown here relative to the sites of other known antibiotics, such as negamycin (green), tetracycline (dark blue), aminoglycoside antibiotic paromomycin (red) and streptomycin (light blue).