Abstract This paper presents the development and implementation of a sensor network based on the Internet of Things (IoT) to monitor key groundwater quality parameters with the goal of minimizing potential risks in the protection of biodiversity. These parameters include the water level, water temperature, pH, conductivity, and dissolved oxygen. The system prioritizes scalability, ease of use, real-time data acquisition and minimal power consumption, resulting in efficient and dependable water quality monitoring with the convenience of remote applications. The continuous measurement system was set up to be a single source of information for monitoring groundwater quality in protected wetland areas across international borders, including Tompojevacki Ritovi (Municipality of Tompojevci, Croatia) and Lake Zobnatica (Municipality of Backa Topola, Serbia). The findings of two years of Wireless Sensor Network (WSN) monitoring were compared to standard laboratory methods to demonstrate the accuracy and precision of WSN readings. Appropriate calibration and installation of the WSN give a larger volume of data and thus grow the database, allowing for a more accurate identification of water contamination and a quick response in the event of pollution. Smart IoT-based sensors help to protect water quality and, as a result, the well-being of ecosystems and human communities, which is especially important in protected areas like wetlands.