The present study was undertaken with the primary objective, PCR amplification of DNA isolated from a Pectinolytic fungus Aspergillus foetidus, which was identified and characterized by IMTECH, Chandigarh as MTCC 10367. Genomic DNA was extracted by using phenol: chloroform method. The quality of DNA was assessed by UV spectrophotometry. PCR was carried out in a final reaction volume of 25 µl reaction mixture by using 18S rDNA fungal primers. Increase in the stringency during initial cycles of PCR reaction increased the sharpness and brightness of the bands. Approximately an amplified product of 350 bp size was obtained for Pectinase enzyme with the genomic DNA of Aspergillus foetidus MTCC 10367.