Proteus mirabilis employs a contact-dependent killing system against competing Enterobacteriaceae

• Published in: bioRxiv
• Main Authors: Kiani, Dara, Santus, William, Kiernan, Kaitlyn, Behnsen, Judith
• Format: Paper
• Language: English
• Published: Cold Spring Harbor Cold Spring Harbor Laboratory Press 20.03.2021
• Subjects: Cell culture; Competition; Enterobacteriaceae; Escherichia coli; Neonates; Osmolarity; Phenotypes; Probiotics; Proteus mirabilis; Quorum sensing; Secretion; Stationary phase
• DOI: 10.1101/2021.03.19.436238

ABSTRACT Many bacterial species encode systems for interference competition with other microorganisms. Some systems are effective without contact (e.g. through secretion of toxins), while other systems (e.g. Type VI secretion system (T6SS)) require direct contact between cells. Here, we provide the initial characterization of a novel contact-dependent competition system for Proteus mirabilis. In neonatal mice, a commensal P. mirabilis strain apparently eliminated commensal Escherichia coli. We replicated the phenotype in vitro and showed that P. mirabilis efficiently reduced viability of several Enterobacteriaceae species, but not Gram-positive species or yeast cells. Importantly, P. mirabilis strains isolated from humans also killed E. coli. Reduction of viability occurred from early stationary phase to 24h of culture and was observed in shaking liquid media as well as on solid media. Killing required contact, but was independent of T6SS, the only contact-dependent killing system described for P. mirabilis. Expression of the killing system was regulated by osmolarity and components secreted into the supernatant. Stationary phase P. mirabilis culture supernatant itself did not kill but was sufficient to induce killing in an exponentially growing co-culture. In contrast, killing was largely prevented in media with low osmolarity. In summary, we provide the initial characterization of a potentially novel interbacterial competition system encoded in P. mirabilis. IMPORTANCE The study of bacterial competition systems has received significant attention in recent years. These systems collectively shape the composition of complex ecosystems like the mammalian gut. They are also being explored as narrow-spectrum alternatives to specifically eliminate problematic pathogenic species. However, many competition systems that effectively work in vitro do not show strong phenotypes in the gut. Our study was informed by an observation in infant mice. Further in vitro studies confirmed that P. mirabilis was able to kill several Enterobacteriaceae species. This killing system is novel for P. mirabilis and might represent a new function of a known system or even a novel system, as the observed characteristics do not fit with described contact-dependent competition systems. Competition systems are frequently present in multiple Enterobacteriaceae species. If present or transferred into a probiotic, it might be used in the future to reduce blooms of pathogenic Enterobacteriaceae associated with disease. * ABBREVIATIONS SPF Specific pathogen free T3SS Type III secretion system T4SS Type IV secretion system T5SS Type V secretion system T6SS Type VI secretion system Cdz Contact-dependent inhibition by glycine zipper proteins CDI Contact-dependent inhibition MccPDI Microcin proximity-dependent inhibition QS Quorum sensing