The invention discloses a soilless culture method utilizing an organic fertilizer. The method comprises the steps of base material preparation and disinfection, filling of the base materials in cultivate furrows, pre-planting preparation, planting, post-planting management and the like. According to the planting step, 5 g to 7 g of root strengthening agents for every plant and fine sand are evenly stirred to be applied to roots. The soilless culture method is applied to tomato planting and comprises the steps of bean pulp fertilizer preparation, root strengthening agent preparation, culture medium processing, seedling planting, post-planting management and two crop rotations every year. According to the method, operation is convenient, quantitative fertilization is achieved, no roots are injured, few diseases exist, no pesticide is needed, the product nitrate content is greatly lowered, the requirement for organic agricultural products can be met, the yield is high, the quality is good, the product has the unique flavor and taste, and meanwhile the technical problem that organic fertilizers and organic matter are difficult to decompose when used in gravel is solved.