Prediction of yearly atmospheric pollen counts is a very important component in the prevention of allergenic symptoms. We investigated the relationship between atomspheric pollen counts and the formation of male flowers of Cryptomeria japonica D. Don (C. japonica). An atmospheric pollen survey of C. japonica was conducted from 1983 to 1996 using a Durham's sampler. A regression analysis was performed between the total pollen count and July temperature in previous years. The atmospheric pollen counts of C. japonica had a high positive correlation with the mean temperature in July of the previous year. However, the predicted using average mean July temperature records of the previous year were insufficient, especially in years following high pollen count. In experimental conditions, using 60 C. japonica trees in pots, the formation of male flowers was shown to increase with a rise in incubation temperature. In a forest of C. japonica, our results showed that the length and weight of new needle growth from old needles, which produced many flowers in the previous year, were shorter and lighter, respectively. These aerobiological and plant physiological studies provide evidence that a smaller number of pollen counts are a common result in a year following one in which many male flowers are produced, even if the mean July temperature of that year was high.