Phylogenetic trees for BZLF1, BLLF1, EBNA3A nucleotide sequences, and the whole-genome sequences showed a closer distance among LC1, LC3, and LC4, while LC2 was clustered into a different branch with HKNPC6 and -7, which were both isolated from advanced metastatic NPC cases, suggesting at least two parental lineages of EBV among the LC genomes may exist. The gene discussed is MAP1LC3A; the disease is nasopharyngeal carcinoma.