<正>Objective:To characterize the genetic structure of various populations of Culex quinquefasciatus (Cx.quinquefasciatus) from India representing different geoclimatic locations.Methods:Inter simple sequence repeat(ISSR) markers were used.A set of 20 primers were screened with the laboratory populations of mosquito species.Finally the IS 40 primer was chosen based on the scorable banding pattern showing 100 percent polymorphism among the various populations.The statistical analysis was done using POPGENE 1.31 software.The consensus tree was generated based on UPGMA modified from NEIGHBOR procedure of PHYLIP Version 3.5.Results:The cluster analysis shows the main cluster which is divided into two sub cluster representing all the populations separated as per their phylogeographic and geoclimatic condition.Conclusions: The findings will be helpful in understanding the population variation under different ecological conditions and development of effective vector management strategies.