Yes, you can use a microchip.  Our division called Alliance ID provides the officially approved products you need. Call us if you have questions: 800-434-2843.

Read what the USDA-APHIS has to say:  “The National Scrapie Eradication Program, coordinated by the U.S. Department of Agriculture’s (USDA) Animal and Plant Health Inspection Service (APHIS), has reduced the prevalence of scrapie in adult sheep sampled at slaughter by over 99 percent. However, the cooperation of sheep and goat producers is needed to find and eliminate the last few cases in the United States.
Official Identification
Official identification devices, including eartags and injectable transponders, must be approved by APHIS as being sufficiently tamper-resistant for the intended use, have good retention, and provide a unique identification number for each animal.”

Please see this LINK for detailed info.
Approved chip for goats and sheep is HERE.

840 chip used for USDA AIN