A Caenorhabditis elegans based system for high-throughput functional phenotyping of human gut microbiota
Ambat, A.; Thayyil Valappil, V.; Ghimire, S.; Harnvoravongchai, P.; Mishra, S.; Vijayan Pillai, V.; Kashyap, P.; Scaria, J.
Show abstract
The conventional bottom-up approach to probing the human gut microbiomes link with hosts in germ-free models is hampered by considerable costs and time. To address this, our study introduces the nematode Caenorhabditis elegans as an innovative high-throughput model for exploring the gut microbiomes impact on functional phenotypes. Traditionally, C. elegans studies have used continuous feeding for bacterial administration, a method that is unsuitable for anaerobes. For the first time, we have standardized a protocol for colonizing C. elegans with human gut anaerobes. By screening a microbial culturomics library representing 70% of the gut microbiomes functional capacity, we showed successful colonization for 46% of the library. Functional phenotyping revealed that 5 of 10 strains, previously identified in vitro as inhibiting C. difficile, also inhibited in vivo. Validation of a selected strain in a germ-free mouse model confirmed colonization resistance and an immune response consistent with findings in C. elegans, underscoring the models translational potential.
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