What is a Media Based Aquaponics System? | Go Green Aquaponics

What Is A Media Based Aquaponics System?

Aquaponics is getting more and more popular because of its ability to cultivate crops and raise fish together in a recirculating environment. One aquaponics growing method popular with small-scale home growers is the media-based aquaponics method.

The media based method system designs are simple, space-efficient, and have a low initial cost, making them a popular choice for do-it-yourselves and aquaponics beginners. This article discusses everything you need to know about media based aquaponics systems to help you determine if this method is the right for you. 


Media Based Aquaponics System

How Does a Media Based Aquaponics System Work?

The media based, also called flood and drain, consists of a grow bed filled with grow media (expanded clay pebbles, gravel, lava rock) into which the vegetables are planted. The water from the fish tank is pumped into the grow beds so that plants can access the nutrients produced by the fish.

The plant roots which are grown in the grow bed have direct access to the water and feed on the nutrients to thrive. The roots also filter and clean the water before returning to the fish tank for the fish to live. 

Some media based aquaponics systems are run by flooding and draining the grow beds, using a bell siphon to drain the water when it reaches a saturation point. Once the water reaches a certain level on the grow bed, the bell siphon will drain the water from the grow bed. This is a continuous regular cycle that provides all the necessary nutrients for the plants to grow without fertilizers. Other grow-bed irrigation methods use a constant water flow, either entering one side of the bed and exiting the other or distributed through a drip irrigation array.

Advantages And Disadvantages Of Media-Based System


  • Relatively simple and inexpensive
  • Suitable for all kinds of plants, from leafy greens to larger fruiting plants
  • Minimal cleaning is required.
  • The media based setup can be customized to suit your needs
  • Allows the use of recycled materials.
  • Suitable for hobby applications, home gardens, and as part of the commercial farm. 
  • The media bed performs three filtering functions:
    • Mechanical filtration (solids removal)
    • Mineralization (solids breakdown)
    • Biofiltration 


  • A good-quality medium can be relatively expensive.
  • The pore spaces in the medium may get clogged over time, causing poor anaerobic conditions for your plants.
  • It can require cleaning of the grow bed.
  • This style system is not usually suitable for commercial purposes due to lower productivity and difficulty in a large-scale implementation.
  • The media beds are heavy and need a robust and rigid structure.

Components of a Media Based Aquaponics System

These are the essential criteria for the materials that will be used in the media-based system. 

  • Grow media must have a large surface area for bacterial growth.
  • Materials must be neutral pH and inert (non-toxic).
  • Must have good drainage properties.
  • Easy to work with.
  •  Durable and cost-effective.
  • Lightweight
AquaBundance Modular 200 Gallon Fish Tank

1. Fish Tank

Fish tanks are a critical component of aquaponics. Your fish will live in the fish tank, and they require specific conditions to thrive and survive. Therefore, the fish tank should be chosen wisely. There are essential aspects that need to be considered in determining your fish tank.

  • Shape

The Tank shapes affect water circulation, and it's risky to have a tank with poor circulation. Although any tank's shape will work, round tanks with flat bottoms are recommended for aquaponics. A round-shaped tank allows water to circulate uniformly and transports solid wastes toward the tank's center. Artistically shaped tanks with many curves and bends can create dead spots in the water with no circulation. These areas gather waste and create dangerous anoxic conditions for the fish.

  • Material

The material should be either a robust and inert plastic or fiberglass because of its durability and long life span. Plastic and fiberglass are easy to install for plumbing and are relatively light. Metal is not advisable because of rust. If you're using a plastic container, make sure that they are food-grade and UV-resistant because direct sunlight can destroy the plastic. 

  • Color

White or other light-colored fish tanks are advisable because they allow easy viewing of the fish inside the tanks. White tanks also reflect the sunlight and keep the water cool. 

AquaBundance 300 Gallon Grow Bed

2. Grow Bed

One of the most critical components in the media bed system is the grow bed. The grow bed is where you grow your plants, so make sure your grow bed is:

  • made of food-grade materials that will not leak unwanted chemicals into the water or affect the water pH. 
  • Strong enough to hold the water and growing media.
  • Able to withstand different weather conditions.
  • It can be connected to other components easily through simple plumbing parts.
  • It can be placed near the other components.


The standard shape for a media bed is a rectangle. Large grow beds can be used, but they require support to hold their weight. However, the grow beds should not be so wide that the farmer/ operator cannot reach across, at least halfway.

Depth and Size 

A media based grow bed needs to have the correct depth and size related to the fish volume and provide adequate filtration for the nutrient-rich water. The grow bed depth is necessary because it determines what types of vegetables can be grown. Grow beds should be about 12 inches in depth to optimize plant growth and cultivate beneficial ecosystems in the bed. 

When selecting your grow bed, the rule of thumb is to use a 1:1 ratio of your grow bed to the fish tank in small systems. This means that the grow bed volume should equal the fish tank volume. This is not a hard rule, but a good rule to follow when starting.


Grow Media in Aquaponics

3. Grow Media

Many materials can be used as grow media in a media based system. However, the media must be organic and have an adequate surface area to allow bacteria to grow and water flow to the plants' roots. The medium must have a neutral pH so that the water quality will not be affected. It is also good to wash the media thoroughly before placing it into your grow bed to ensure that any dangerous particles that might harm the fish are removed.

Grow Media Options

  • Gravel

It is the least expensive and most readily available grow medium ¾" gravel is best for supporting taller plants, and it doesn't get clogged like smaller pea gravel. A drawback of using gravel is that it is heavy and does not hold water efficiently, so it can sometimes be more challenging to colonize the needed bacteria in your system.

  • Clay pebbles

LECA (Lightweight Expanded Clay Aggregate) are balls of clay processed at a very high temperature to form a highly effective growing medium. Clay pebbles are lightweight enough to move around when planting easily and heavy enough to provide adequate support for small to medium plants. They are also non-degradable, non-toxic, and pH neutral. Clay pebbles are more expensive compared to the other mediums, but because it is reusable, lightweight, and pH neutral, clay pebbles are an investment that will last for many years.

  • Lava Rock

The naturally created lava rock cools rapidly, which gives no time for the air to escape, effectively trapping it. This trapped air creates a highly porous surface, increasing the area of the rock and creating plenty of openings for the nitrifying bacteria to live. Lava rock is light and has a neutral pH so that it won't affect the balance of your system. Lava rock can be sharp, though, so you will want to use it with caution.

AquaParts 12in Bell Siphon with Media Guard

4. Bell Siphon

A bell siphon is an essential component of a media based aquaponics system. It is responsible for regulating the entire system's water flow and efficiently helping move the water from the media bed into the fish tank.


Water Pump in Aquaponics

5. Water Pump

Having the right and efficient water pump will ensure that the water is continuously pushed throughout your aquaponics system to provide the nutrients to the fish and the plants. If your water pump is not reliable enough to distribute the water in the system, the consequences could be a failure in maintaining your aquaponics system.  

The Three Zones Of Media-Based Aquaponics System

There are three grow bed zones in the media based aquaponics system, and each zone has different functions in the system.

  • Zone 1

The Surface or Dry Zone. This area is within the grow bed's first 1- 2" (5cm). This area is called the dry zone and functions as a light barrier, preventing the light from hitting the water directly, leading to algae growth. The beneficial bacteria are sensitive to direct sunlight, and this zone also helps minimize evaporation from the beds by covering the wet zone from the direct light.

  • Zone 2

The root zone. This is where the plant roots grow and where all plant activity occurs. Zone 2 is around the 4 - 6" (10-15cm) area of the grow bed and is the area that is regularly flooded and drained. 

For the flood and drain cycle, the incoming water helps spread moisture, nutrients, and incoming solid fish waste particles into the area. When it's time for the flood and drain cycle, the drain parts allow the water to drain away completely. This draining allows for the efficient delivery of the oxygen-rich air into the plant's root area.

If not using a flood and drain technique, this zone is where the water flows through the medium. In this zone, the worms break down and minimize solid waste, releasing nutrients throughout the system.

  • Zone 3

The solid collection and mineralization zone.This is the last zone in the last 2" (5cm) of the grow bed that remains permanently wet. In this zone, the small solid wastes accumulate, so the most active organisms in mineralization are located here. These organisms break down the waste into smaller fractions and molecules that the plants can absorb through mineralization. 

Plants in Aquaponics System

The Best Plants To Grow In Media Based Aquaponics System

Vegetables have different nutrient demands. In aquaponics, plants are categorized based on their nutrient demand. 

  1. Low-nutrient-demand plants include leafy greens and herbs like chard, lettuce, basil, mint, chives, parsley, coriander, watercress, and legumes such as peas and beans.
  2. Medium-nutrient demand plants are cabbage, kale, cauliflower, broccoli, onions, carrots, and taro.
  3. High-nutrient-demand plants, also called nutrient hungry plants, are tomatoes, eggplants, cucumbers, strawberries, and peppers.

Your choice of plants will depend on the style of your grow bed. Our article "What Are The Best Plants For Aquaponics" discusses what plants grow best in an aquaponics system. In media based aquaponics, it is possible to grow leafy greens, herbs, and fruiting vegetables at the same time, as long as the grow beds are at the correct depth.

A media based can also benefit from mixed planting with better space management because shade-tolerant species can grow underneath taller plants. Large bulb and root crops, such as ginger, carrots, and turnips, are best grown in a media based aquaponics system because the grow bed and grow media provide an excellent growing environment and adequate plant support.

Other Methods of Aquaponics Systems

The two other methods of aquaponic systems are Raft Systems and Nutrient Film Technique (NFT).

Raft System 

The raft system also is known as Deep Water Culture or Floating System. Plants are grown on rafts (polystyrene or foam boards) that float on top of the water in the raft tank. The nutrient-filled water flows continuously from the fish tank through the filtration process, then to the raft tank where the plants are grown, and then back to the fish tank. Most often, the raft tank is separate from the fish tank. Plants grow very fast in a raft system and can be an easy aquaponics system for the beginner aquaponics gardener to set up and maintain. 

Since the development of the raft systems (DWC) by Dr. Rakocy at the University of the Virgin Islands, many commercial aquaponics farms have utilized this system because it allows the plants to grow faster and yield more crops. The Raft system is best suited for the mass production of certain vegetables and leafy greens. 

Nutrient Film Technique (NFT) System

The Nutrient Film Technique (NFT) is an aquaponics method in which the plants are grown in a long narrow channel. In NFT, a thin film of water flows continuously down each channel, providing the plant roots water, nutrients, and oxygen. When the water reaches the end of the channel, it is pumped back to the fish tank.

The NFT uses both water and pumps to deliver nutrients to the plants, and the system requires a separate filter to clear the water of solids and biological waste before it's returned to the fish tank. NFT is commonly used in the commercial aquaponic system but can also be used in a hobby system as long as it is filtered before being used in NFT channels.  


Your choice of aquaponics system depends on you and what you want. We hope this article helps you make more informed about the media-based aquaponics system and decide which system is right for you. If you want to learn more, subscribe to our mailing list to be notified about our next article.



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