Objective To study the correlation of the HBV genetype and genovariation with the syndrome type of liver stagnation and spleen deficiency of the chronic hepatitis B patients with HBeAg in negative.Methods Seventy-six chronic hepatitis B patients with HBeAg in negative and diagnosed as liver stagnation spleen deficiency syndrome in TCM were detected

their HBV genotype and genovariation in BCP and pre-C areas were compared with those of the patients diagnosed as damp-heat obstructing the middle jiao

at the same time

a correlation analysis was done with the syndrome score of liver stagnation spleen deficiency taken into consideration.Results The variation rate of the patients with liver stagnation spleen deficiency and those with damp-heat obstructing the middle jiao was statistically different（P<0.05）

the HBV genotype distribution of patients of both syndromes was statistically different（P<0.05）

the proportion of each genovariation type in the HBV genotype was also different（P<0.05）

and the comparison of syndrome scores of patients with liver stagnation spleen deficiency in all genotypes and genovariations also showed a difference in statistics（P<0.05）.Conclusion The C genotype and pre-C area genovariation are commonly seen in the chronic hepatitis B patients with HBeAg in negative in TCM liver stagnation spleen deficiency syndrome.Both the HBV genotype and genovariation are correlated with the types of TCM syndromes.