Sinorhizobium meliloti BR-bodies promote fitness during host colonization

ABSTRACT

Biomolecular condensates are non-membrane-bound assemblies of proteins and nucleic acids that facilitate specific cellular processes. Like eukaryotic P-bodies, the recently discovered bacterial ribonucleoprotein bodies (BR-bodies) organize the mRNA decay machinery in α-proteobacteria; however, the similarities in molecular and cellular functions across species have been poorly explored. Here, we examine the functions of BR-bodies in the nitrogen-fixing endosymbiont Sinorhizobium meliloti, which colonizes the roots of compatible legume plants. Similar to Caulobacter crescentus, assembly of BR-bodies into visible foci in S. meliloti cells requires the C-terminal intrinsically disordered region (IDR) of RNase E in vivo and in vitro, and foci fusion is readily observed in vivo, suggesting that they are liquid-like condensates that form via mRNA sequestration. Using Rif-seq to measure mRNA lifetimes, we found a global slowdown in mRNA decay in a mutant deficient in BR-bodies, indicating that compartmentalization of the degradation machinery promotes efficient mRNA turnover across α-proteobacteria. Although BR-bodies are constitutively present during exponential growth, the abundance of BR-bodies increases upon cell stress, whereby they promote resistance to environmental stresses. Finally, we show that BR-bodies enhance competitive fitness during Medicago truncatula root colonization and appear to be required for effective symbiosis, as mutants without BR-bodies failed to promote robust plant growth on nitrogen-free medium. These results suggest that BR-bodies provide a fitness advantage for bacteria during host colonization, perhaps by enabling better resistance against the host immune response.IMPORTANCEAlthough eukaryotes often organize their biochemical pathways in membrane-bound organelles, bacteria generally lack such subcellular structures. Instead, membraneless compartments called biomolecular condensates have recently been found in bacteria to organize and enhance biochemical activities. Bacterial ribonucleoprotein bodies (BR-bodies), as one of the most characterized bacterial biomolecular condensates identified to date, assemble the mRNA decay machinery via the intrinsically disordered regions (IDRs) of proteins. However, the implications of such assemblies are unclear. Using a plant-associated symbiont, we show that the absence of BR-bodies results in slower mRNA decay, sensitivity to environmental stresses, and ineffective symbiosis, suggesting that BR-bodies play critical roles in regulating biochemical pathways and promoting fitness during host colonization.