Stearoyl-coenzyme A desaturase 1 (SCD1) catalyzes the conversion of stearate (18:0) to oleate (18:1n-9) and of palmitate (16:0) to palmitoleate (16:1), which are key steps in triglyceride synthesis in the fatty acid metabolic network. This study investigated the role of SCD1 in fatty acid metabolism in HepG2 cells using SCD1 inhibitors and stable isotope tracers. HepG2 cells were cultured with [U-13 C]stearate, [U-13 C]palmitate, or [1,2-13 C]acetate and (1) DMSO, (2) compound CGX0168 or CGX0290, or (3) trans-10,cis-12 conjugated linoleic acid (CLA).13 C incorporation into fatty acids was determined by GC-MS and desaturation indices calculated from the respective ion chromatograms. FAS, SCD1, peroxisome proliferator-activated receptor a, and peroxisome proliferator-activated receptor g mRNA levels were assessed by semiquantitative RT-PCR. The addition of CGX0168 and CGX0290 decreased the stearate and palmitate desaturation indices in HepG2 cells. CLA led to a decrease in the desaturation of stearate only, but not palmitate. Comparison of desaturation indices based on isotope enrichment ratios differed, depending on the origin of saturated fatty acid. SCD1 gene expression was not affected in any group. In conclusion, the differential effects of SCD1 inhibitors and CLA on SCD1 activity combined with the dependence of desaturation indices on the source of saturated fatty acid strongly support the compartmentalization of desaturation systems. The effects of SCD1 inhibition on fatty acid composition in HepG2 cells occurred through changes in the dynamics of the fatty acid metabolic network and not through transcriptional regulatory mechanisms. The enzyme stearoyl-coenzyme A desaturase (SCD) is important in the conversion of saturated fatty acids to monounsaturated fatty acids (MUFAs). The isoform SCD1 catalyzes the desaturation of palmitate (16:0) to palmitoleate (16:1n-9) and of stearate (18:0) to oleate (18:1n-9). Palmitoleate and oleate are the main MUFAs that constitute membrane phospholipids, triglycerides, wax esters, and cholesteryl esters. Because an inappropriate ratio of MUFA to saturated fatty acid can affect membrane lipid fluidity and lipoprotein metabolism, the effects of SCD have been implicated not only in obesity but also in diabetes, atherosclerosis, and cancer (1-5).Mouse models of SCD1 deficiency have demonstrated effects on body weight and lipid metabolism. Asebia mice have a naturally occurring homozygous mutation in SCD1 (6). These mice lack sebaceous glands and have alopecia and dry skin. In addition, they are lean and have impaired hepatic ability to synthesize cholesteryl esters and triglycerides (7). Ntambi and colleagues (8) created a knockout mouse for SCD1. These mice have decreased adiposity, increased insulin sensitivity, and are resistant to diet-induced weight gain. These properties of the SCD1 2/2 mouse have generated much interest in SCD as a potential target for obesity prevention in humans.In the mouse and rat, inhibition of SCD1 using antisense oligonucleotides has been...