In recent years, there is rising conversation about animal welfare with increasing concern about animals. However, disease control is still not being carried out effectively. It is hard to discuss the specific plan of the domestic animal shelter and pet shop due to limited information about their present condition. Thus, we analyzed existing data and suggested a new disease control system. Disease management reports of pet shops and animal shelters investigated by local government and animal protection organizations were the main reference of this study. As the euthanasia rate of shelters has recently decreased, animals stay in shelters for extended periods. As a result, mortality rate from disease has increased. Also, many animals in pet shops die due to health problems. In animal shelters, there is always a certain proportion of individuals with disease, and many shelters do not treat them or vaccinate animals before infection. In pet shops, information such as each individual’s health condition and vaccination records is not properly disclosed, and contagious pathogens are detected in hygiene tests. In order to improve the condition, each animals’ information should be dealt with using a system based on ICT technology. Also, it is necessary to perform antibody tests and infectious disease kit tests provided by local governments, set up breeding environment manuals, and supervise the management of local governments.