Background: COVID-19 pandemic has had negative impacts on health systems of most countries. Methods: we conducted a descriptive and analytical cross-sectional study in a peripheral health center in southern Benin. The morbidity indicators and the functioning of the services were collected and analyzed 10 months before COVID and 10 months during COVID by a linear regression model. Results: The onset of the COVID pandemic led to a non-significant drop in the number of consultations among children aged 12 to 35 months [-8,100; 0.297], and borderline negative effects on malaria [-44.20; 0.098], and significant for acute respiratory infections [-34.200; 0.039] and diarrheal diseases [-4.100; 0.036]. Conclusion: Even in a rural outlying health center, the outbreak of the COVID-19 pandemic had an impact on the health system. This repercussion led to a drop in consultations on morbidity indicators such as malaria, acute respiratory infections and diarrheal diseases. This reflects both the fear of the populations to come to the health center in during pandemic period but also the reduction in the functioning of the center due to the outbreak. Strengthening measures are needed to ensure quality care for the population, Such as the increase in the number of health care workers, the increase in the security and protection arrangements for health workers and users of health centers.

Background: Response measures to the COVID-19 epidemic such as containment or sanitary cordon have had an impact on the health system. Methods: In an intra-cordon health center in Cotonou Benin, data on morbidity, health services and care indicators were collected and compared 10 months before COVID and 10 months during. A linear regression model was made. Results: During COVID, a significant increase in the number of women attending prenatal consultations was observed [77.30; 0.001] and significant decrease in the average number of malaria cases [-22.20; 0.008]. And non-significant negative effects on acute respiratory infections, sexually transmitted infections and diarrheal diseases identified. Conclusion:The establishment of a cordon sanitaire to contain the spread of COVID has had an impact on the functioning of the health system. This has led to a restriction of population movements, which has also affected health workers. The observed effects do not necessarily mean fewer diseases. Health centers were perceived by the public as places where the risk of contamination was higher, which led to their fear of traveling unless necessary. Strengthening strategies had to be put in place to maintain the accessibility of care to the population.