Data associated with rational ecological chassis design to support Bifidobacterium adolescentis through food-derived microbial communities

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This dataset contains experimental and computational data used to investigate defined food-derived microbial communities designed around Bifidobacterium adolescentis ATCC 15703. It includes three BioLector XT screening runs with biomass, pH and dissolved-oxygen channels; a monoculture growth experiment comparing MRS and minimal MRS conditions with and without xylose; processed in vitro pairwise spent-media interaction results; dFBA-derived interaction results for 1,600 directed donor-recipient combinations; and strain, genome-accession and DefCom design metadata. Original Excel workbooks are preserved and scientifically useful sheets are also supplied as UTF-8 TSV files. The package includes a data dictionary, an unresolved-metadata register, provenance reports, a SHA-256 file manifest, and validation showing zero mismatches across 735,403 exported workbook cells. This work was supported by an internal grant from INRAE (French National Research Institute for Agriculture, Food and Environment) through the HOLOFLUX metaprogramme, as part of the MICROENGINE project. Analysis code: https://forge.inrae.fr/microengine/bifid-defcomExact code commit: https://forge.inrae.fr/microengine/bifid-defcom/-/commit/9919a45098c044e43f0eb5ab688c9ce5a99992d3

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