Abstract: FGF5 is a member of the FGF superfamily. It is specifically expressed in hair follicles cells and functions as a negative regulator of follicle anage. This study was designed and aimed to identify the single nucleotide polymorphisms (SNPs) of FGF5 gene by PCR-SSCP (singlestrand conformation polymorphism) in various sheep breeds including Small Tail Han sheep, Hu sheep, Tibetan sheep, Chinese Merino sheep. The 3 pairs of primers for FGF5 gene were designed based on the human and mouse genomic sequence. Two SNPs were identified in the sheep FGF5 gene by PCR-SSCP and sequencing. They were in the exon 1 region in different sheep lines. The result of these analysis indicated that the polymorphisms are due to two single point mutation G to T and C to T at base position 122 and 385, respectively. Population genetic analysis indicated that genotype frequency of the P1 SNPs in Chinese Merino sheep were quite different from other tested sheep breed. Frequency of the BB genotype was much higher in Chinese Merino sheep while the AA genotype was much lower than other breed. The genotype frequency of P1 was significantly different in the tested sheep lines (P<0.01). All the population were in Hardy-Weinberg equilibrium state. For primer 2, frequency of the EE genotype in Tibetan sheep was higher than those in the other lines, Frequency of allele E in primer 2 (P2) in Tibetan sheep was higher than that of other breed. All the population were in Hardy-Weinberg equilibrium state except Chinese Merino sheep.