Objective: To examine specific molecular mechanisms involved in modulating hepatic lipogenesis and mitochondria biogenesis signals by Lithospermum erythrorhizon (gromwell) root extract. Methods: Stable cell lines with luciferase reporter constructs were generated to examine sterol regulatory element binding protein 1c (SREBP1c) and peroxisome proliferator-activated receptor gamma, coactivator 1 (PGC1) a promoter activity and estrogen-related receptor (ERR) a response element activity. Gene expression of SREBP1c, stearoyl coenzyme A desaturase 1, and PGC1a was measured by using reverse transcription polymerase chain reaction. Lipogenesis was measured in human hepatoma cells with Nile red staining and flow cytometry. Phosphorylation of AMP-activated protein kinase (AMPK) a was determined by using ELISA and Western blot. Results: Gromwell root extract and its naphthoquinones dose-dependently repressed high glucose and liver X receptor a induction of SREBP1c promoter activity and gene expression. Hepatic lipogenesis was repressed, and PGC1a promoter and gene expression and ERRa response element activity were increased by gromwell root extract. Gromwell root extract, shikonin, and a-methyl-n-butyrylshikonin increased AMPKa phosphorylation, and inhibition of AMPK blunted the repression in SREBP1c promoter activity by gromwell root extract and its naphthoquinones. Conclusions: Data suggest that gromwell root extract and its naphthoquinones repress lipogenesis by increasing the phosphorylated state of AMPKa and stimulating mitochondrial biogenesis signals.