Subject competitions have become a meaningful way to cultivate the innovative thinking, operational ability, and teamwork spirit among college students. Our team members have discovered the necessity for improving the innovative thinking and independent research ability of undergraduates when guiding the research practice and subject competitions. By reforming the course content of microbiology and introducing subject competitions, we aim to improve students' innovative thinking, operational skills, and collaborative spirit, thereby promoting the competition through learning and the competition for learning. We have achieved specific results in cultivating students' comprehensive abilities, providing references for fostering top-notch talents with innovative thinking in agricultural microbiology.