Key messageThe growth rates of current-year shoots, fruits and trunks in apple trees peak sequentially during the growing season. The period of most intense growth coincided with the lowest NSC reserves.Vegetative and reproductive growth and storage are major carbon sinks in fruit trees; however, little is known about their mutual seasonal coordination. In this study, we monitored growth dynamics of trunks, fruits and current-year shoots together with the concentration of non-structural carbohydrates (NSC) in trees subjected to defoliation, early season flower thinning, mid-season fruit thinning and their respective combinations across the season. We found that defoliation had a negative effect on both trunk radial growth and annual fruit yield. Flower and fruit thinning caused lower fruit number per tree, but the individual fruits were larger resulting in a similar annual fruit yield among the treatments. Shoot extension growth was not significantly affected by the defoliation and flower and fruit thinning treatments. The concentration of non-structural carbohydrates was also similar across treatments. Modelled daily growth rates of shoots, fruits and trunks peaked sequentially one after another throughout the growing season with a delay of 15 and 18 days, respectively. The period of most intense growth of tree’s organs corresponded well with the lowest NSC reserves and a temporary depletion of starch in 1-year-old branches. Taken together, our study illustrates a tight temporal coordination of major carbon sinks and improves our understanding of sink/source relations of commercially important apple trees.