Highlight
• Co-inoculation of W. paramesenteroides and L. plantarum could obtain the best soy sauce flavor.
• Co-inoculation increased 1.47-, 1.29-, and 1.21-fold in organic acids, volatiles, and amino acids, respectively
• Co-inoculation demonstrated a superior 2-methoxy-4-vinylphenol production capacity
• Different inoculation methods showed diverse successional structures of soy sauce flavor metabolites during fermentation.
• Co-inoculation reduced biogenic amines in soy sauce by 42.26%.

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