The impairment of liver function by low environmentally relevant doses of glyphosate-based herbicides (GBH) is still a debatable and unresolved matter. Previously we have shown that rats administeres for 2 years with 0.1ppb of a Roundup GBH formulation showed signs of enhance liver injury as indicated by anatomorphological, blood/urine biochemical changes and transcriptome profiling. Here we present a multiomic study combining metabolome and proteome liver analyses to obtain further insight into the Roundup-induced pathology. Proteins significantly disutrbed (214 out of 1906 detected, q < 0.05) were involved in organonitrogen metabolism and fatty acid B-oxidation. Proteome disturbances reflected peroxisomal proliferation, steatosis and necrosis.