Final answer:
The PCSK9 protease gene is associated with protection from coronary artery disease and high cholesterol, as variations in this gene can result in lower levels of LDL cholesterol.
Step-by-step explanation:
The variation in the gene associated with protection from coronary artery disease and high cholesterol levels in general populations is in the PCSK9 protease (Option B). This gene plays a critical role in the regulation of cholesterol levels by degrading the LDL receptor, which is responsible for removing LDL-cholesterol from the bloodstream. Certain mutations in PCSK9 can lead to lower levels of LDL cholesterol and consequently a lower risk of coronary artery disease.