The best way to lower nutrients in a reef tank is by utilizing a method called nutrient export. This process involves using specialized equipment, such as protein skimmers, media reactors and external filtration systems to remove organic waste from the water. Protein skimmers work by collecting organic matter into foam which is then removed from the tank, while media reactors can be used to break down nitrates and phosphates before they enter the system. In addition, external filtration systems help keep dissolved organics out of the aquarium environment. All of these methods help improve water quality and reduce nutrient levels in your reef tank over time. It is important to regularly monitor your nutrient levels during this process so you can adjust accordingly if necessary. Regular maintenance tasks should also be performed on all equipment being used for this purpose in order to ensure optimal performance and efficiency at removing unwanted compounds from the water column.