Objective To find out and clone the genes that can influence different willis circle in Meriones unguiculatus, the genomic library has been made. Methods 96 clean Meriones unguiculatus were dissected according to observe the differences of willis circle, and the mixed DNA was extracted from different blood vessels. The genomic library construction has been done by using pCC1FOS vector, following by CopyControl Fosmid Lib manual. The copy numbers, recombined segment size and recombination fraction of the library were measured. Results Genomic library of different Willis circle in Meriones unguiculatus was successfully made. The capacity of the library was 1700 copies. The segment size was 36kb, and the recombination fraction was 93%. Conclusion The library was the good beginning for the following steps which were gene cloning and genescreen.