Objectives Tissue and Cell Culture of aquatic plants is a course that combines theory and application in the major of aquatic science and technology. The training in scientific studies was integrated into the teaching of this course to better improve the effect of teaching. Methods Firstly, issues for scientific studies were introduced to address the phenomenon of frequent pollution during the tissue culture process of aquatic plants. The corresponding experimental scheme plans for the prevention and control of pollution and operating procedures were designed. The detailed explanations and experimental demonstrations were conducted. Then students were arranged to conduct experiments in groups and analyze the subsequent experimental observations and data. Finally, the problem of polluted tissue culture was effectively solved. Results The interest of students in learning was increased. The hands-on practical abilities of students were enhanced, and the effect of teaching in classroom was greatly improved. Conclusions Integrating the training in scientific studies into the teaching of course not only exercised the ability of practice and applying theory, and exploring scientific studies of students, but also enabled them to put their learning into practice. It will lay the foundation for students to engage in the propagation and production of aquatic plants and related scientific studies in the future.