Resolve S. copri at clade and strain levels using qPCR panels, amplicon profiling, and high-coverage whole-genome sequencing. We map four major clades (the S. copri complex), annotate polysaccharide utilization loci (PULs), and track immunomodulatory and lipid-biosynthesis gene sets—establishing a definitive baseline before function testing and downstream engineering.
We quantify S. copri growth and metabolite outputs across curated polysaccharides (e.g., arabinoxylan, β-glucan, pectin). Readouts include consumption kinetics, end-products (succinate/propionate/acetate), and CAZyme expression, clarifying how S. copri leverages plant fibers and under which substrates it confers favorable metabolic signatures.
Using epithelial, immune, and hepatic cell models, we profile S. copri strains or metabolites for effects on glucose-relevant pathways, barrier integrity, and lipid handling. We connect phenotypes to molecular mechanisms (e.g., PUL expression, SCFA routing) to prioritize S. copri assets with research-ready, mechanism-anchored dossiers.
Use primary intestinal epithelium, organoids, and gut-on-chip platforms to profile S. copri impacts on barrier permeability, mucus interactions, and mucosal signaling along gut–liver/brain axes. We integrate LPS pattern-sensing assays (TLR2/TLR4) and sphingolipid analytics to contextualize innate immune activation and cross-kingdom lipid exchange.
Characterize how S. copri cells, outer-membrane vesicles, and metabolites affect human monocytes, dendritic cells, and T-cell polarization. Readouts include Th17/Th1 skewing, antigen presentation markers, and cytokine panels, aligning ex vivo data with strain-level genotypes associated with inflammatory or tolerant states.
Generate consistent RUO lots of S. copri at lab scale under strict anaerobiosis. We optimize media, pH, redox, and gas composition; monitor growth kinetics and metabolite profiles; and harvest biomass or clarified supernatants for downstream assays. Chain-of-identity, in-process analytics, and stability holds ensure reproducible performance across batches and study sites with documented QC release criteria.
Design qPCR/ddPCR primer–probe sets targeting S. copri clades and functional loci (e.g., xylan PULs, BCAA modules, sphingolipid enzymes) to quantify abundance in complex matrices and differentiate functionally distinct S. copri subtypes in longitudinal samples and intervention studies.
Advance next-generation S. copri candidates by refining colonization stability, substrate usage, and metabolite profiles under fiber-rich conditions. We prioritize variants with desirable SCFA signatures and minimized pro-inflammatory cues, and we optimize formulation attributes compatible with strict anaerobes for preclinical research.
