Aquaponics 101

Learn all about aquaponics & how to produce food for the table all year long in a small space.

Aquaponics 101

Another comprehensive guide by MFRE


Aquaponics simply put is a hybrid farming technique that blends aquaculture with hydroponics. Fish, plants, and bacterium live in a symbiotic ecosystem that is controlled quite closely by the human who created it. We first heard of the concept many years ago from a missionary in Africa, and knew right then & there that we would erect an aquaponics system of our own in the near future. It really is not the most practical way to raise fish or plants if land and water (ie. pond, lake) are readily available, but it is quite ideal for someone living in an apartment or a place without the availability of land or open water. An aquaponics system has the potential to produce a whole lot of food in an extremely small space. It is a very technical scientific venture that will teach you so incredibly much about the relationships that exist in ecosystems, including soil sciences (even though there is no soil involved!), natural biological water treatment and filtration, root structures, chemistry, microscopy, and so much more. We do this on the farm even though it is not necessary, but it is an excellent homeschool class and just plain fun. There is plenty of room for experimentation here, but that’s what it’s all about. Here is one variation of a system that works quite well and is relatively simple to build. It won’t cost you much to construct making it a great starting point.

aquaponics barrels with plants growing

Getting Started

Both the fish tank and the grow bed are fabricated from food grade plastic barrels. These are available used in many localities and come with a relatively cheap price tag.

drilling holes in aquaponics barrel

Cut the viewing window in the fish tank.

Start by marking an opening for a viewing window in the side of the barrel to view the fish from under the water level. The viewing window will be made from 1/4” polycarbonate sheet available at most hardware stores, and should be cut to size first and traced onto the barrel. Mark the opening 1 1/4” smaller than the polycarbonate on all sides. Drill large holes in the corners to facilitate insertion of a saw blade to make the cutout.

empty grow beds

Make the grow beds.

Cut the bottom out of a barrel for the grow bed. This will sit atop the fish tank.

bell siphon

Fabricate the bell siphon from pvc pipe.

Fabricate the bell siphon cover from 2” schedule 40 pvc, capped. The notches at the bottom are on both sides, and are 1 1/4” wide by 3/4” tall. The 3/4” height determines the time/depth in which the siphon that drains the grow bed will break (more on that later). There is no need to glue the cap. The four (total) holes are 5/16” and are drilled half way between the top of the notch and the bottom of the pipe to facilitate a faster drain time.

bell siphon shroud

Make the bell siphon shroud.

Fabricate the bell siphon shroud from 4” shedule 40 pvc. This will fit over the bell siphon cover. The bottom most edge of the cap (which is not glued) will sit above the top of the grow bed by at least one inch (the cap will need to be removed periodically). The holes are 5/16” and are drilled midway up the pipe all the way around. This will keep the grow bed medium out of the bell siphon yet allow water to pass through freely.

bell siphon components

Three parts complete the bell siphon assembly.

Above are the three parts of the bell siphon, which will stack on top of one another [from left to right: shroud, cover, bell siphon]. Both the shroud and the cover are simply set in place. The last part to fabricate is the bell siphon itself (far right in above picture). This part threads through a hole that is to be drilled in the bottom of the grow bed. The bell siphon is constructed from a section of 3/4” schedule 40 pvc with a male thread on the end (this goes through the bottom of the grow bed), and a 1 1/2” to 3/4” bushing topside. Both fittings need to be glued. Size the hole in the bottom of the grow bed so that the bell siphon’s threads screw into it. Screw a 3/4” threaded to 3/4” slip coupling on from the bottom of the grow bed to hold it in nice and strong.

assembling bell siphon

Slip the shroud over the bell siphon.

The bell siphon functions using the same principle as a toilet does when it is flushed. The pump runs constantly, filling the grow bed with water sourced from the fish tank. When the water level in the grow bed rises to the top of the bell siphon, it begins to roll over the bushing at the top, and down the 3/4” pipe draining rapidly back to the fish tank. As soon as water fills the 3/4” pipe, a siphon is created that quite expediently drains the grow bed (just like flushing a toilet). Since water can only enter the bell siphon via the notches cut into the bottom of the cover, it will drain until the water level reaches the uppermost part of the notches, and then the siphon will “break”, allowing the grow bed to begin filling again as the cycle repeats. The flow rate of the pump sets the time for draining and filling, and is a parameter that must be given some thought. This system works like a clock, filling & flushing the grow bed in a precisely timed manner.

empty aquaponics barrels

Install polycarbonate viewing window.

The polycarbonate viewing window is installed from the inside using #10 stainless steel machine screws, flat washers, and lock washers. 100% silicone caulk is applied liberally to the polycarbanate before it is mated to the barrel, and also as a bead around both the inside and outside edge of the viewing window after installation. The window must be sealed very well as it will be prone to leakage.

Use a 4” hole saw (or larger) to cut holes in 4 places evenly spaced around the upper most part of the barrel. Make certain that your hand and elbow can fit through! These are access holes.

pump hanging in barrel

Suspend pump in barrel.

Suspend a continuous duty submersible pump of around 2 gallons per minute (a pump designed for in floor hydronic radiant heating works quite well, and can be purchased at a relatively low cost) a few inches above the bottom of the fish tank (Pump at lower part of the above picture. The pump at the upper part of the tank is an auxilary circulation pump that is not necessary). Rout the output from the pump using vinyl tubing through one of the access holes and out of the fish tank. The input side of the pump should be routed down to the bottom of the tank, and a shroud should be fabricated so fish don’t get stuck by suction (it will happen).

cutting wine bottle

Cut the bottom off of a wine bottle.

Prepare a jig to cut a wine bottle as in the above picture using a cheap glass cutting tool available at most hardware stores (red tool in the picture). You need to make a score that is square to the bottom of the wine bottle by spinning the bottle on a flat surface by hand. Score the bottle to facilitate removal of the bottom.

heating water in kettle

Hot water facilitates cutting of the glass.

Boil a kettle of water, and fill a bucket with ice water. 

cut wine bottle

Be careful!

Carefully pour boiling water onto the score while turning the bottle. The goal is to heat the score, and not the rest of the bottle. Dip the bottom half of the bottle into the ice water, and if done correctly the bottom will fall off at the score. The cut surface can be sanded to a nice, neat finish that won’t cut you. We recommend not holding the sand paper in your hand to reduce the risk of cutting yourself. Rather, use a sanding block or rotary/orbital type sander. Get creative and protect your flesh from the cut edge in whatever way you can. If using a rotary/orbital sander, protect yourself from breathing glass particulates (dust mask or respirator) as well as accumulating glass particulates on your skin (might not feel so great later). Suitable gloves are a must throughout the entire process, safety glasses would be a wise precaution!

hydronic cyclonic vortex

Hydronic cyclonic vortex.

Cut a notch lengthwise in a cork (synthetic corks work best). The notch should take up about 1/3 of the corks circumference and be shaped like a birds mouth (the full length of the cork). Insert the cork and mount the bottle with the cork a couple inches above the top of the grow bed. Rout the vinyl tube from the output of the submersible pump into the bottle and install a plastic 90° elbow on the end. Angle the elbow to the inside wall of the bottle so as to create a whirlpool when the pump is pressurized. The whirlpool should be set to go counter clockwise in the northern hemisphere, and clockwise in the southern hemisphere. This setup is called a hydronic cyclonic vortex, and it’s purpose is to aerate the water. We have found the hydronic cyclonic vortex to do a significantly better job at this than a venturi, although venturi aeration is still a viable option and is relatively simple to fabricate. A major advantage to the hydronic cyclonic vortex is that it does not tax the pump in any way because it never has to build pressure to function.

making submersible led lights

Submersible lights attract insects for the fish to feed on.

A submersible led light will attract insects to the tank at night to feed the fish. One can be purchased, or one can be hacked using a resistor, an led diode, a glass or clear plastic cigar tube, and some epoxy. The resistor must be matched to the diode and the input voltage (if you possess the skills to build this light, the resistor calculation will not pose any issue).

completed submersible led lights

Fill glass tubes with epoxy resin.

Insert the resistor and led diode into the tube and fill it with epoxy.

fish swimming in tank

Time for fish!

Fill the fish tank with non-chlorinated water and stock with fish. Take a water sample at this time (one pint will be more than enough). This will be used to record a starting point for monitoring progress in the cycling process.

plants growing in grow bed

And plants!

Fill the grow bed with expanded clay pebbles that have been soaked in water for a few days. Wait to install any plants until the system has cycled (more on that later).

water testing equipment

Water testing equipment.

Aquaponics is all about water testing. The API test kit is a great buy, but others exist and certainly over time brands will change. The test kit contains chemicals for testing phosphate, PH, nitrite, and ammonia. It is a relatively simplistic chemistry set geared toward testing pond water. A digital PH meter is nice to have as well. 

digital meters

Digital meters may supplement chemistry, but cannot replace it!

Testing PH using chemistry is highly accurate, but the digital meter is quick and easy to use, and accurate so long as it remains calibrated. It’s a good idea to test the digital meter against chemistry once in a while, and the meter should come with a calibration tool and a chemical solution to use for the calibration process.

A digital TDS/EC meter is not exactly a necessary instrument in aquaponics as it is in hydroponics, but it can give valuable insight at times and adds an extra flare to the learning process.
TDS, or total disolved solids, is a measurement of impurities in the water. In an aquaponics system these impurities make up the nutrients available to the plants in your grow bed. The TDS measurement however, is not a very accurate reading due to organic compounds that escape the testing method, as well as the fact that there is no way of telling exactly which compounds are present when the water is tested. That being said, we still recommend the use of a TDS meter, as valuable insight can occur at times.

EC, or electrical conductivity, is mainly useful to determine salt levels in the water, and is also sometimes used to determine TDS (albeit crudely in our opinion). Salts are not generally all that present in an aquaponics system (they are more so in hydroponic systems), but salts are used to treat fish for diseases and such. Most freshwater fish can handle fairly high levels of salts without harming them, but most edible plants cannot. A high EC can sometimes be an indicator of an imbalance in the system, and therefore measurement of EC is useful at times. We recommend an EC meter as one can be had for a relatively cheap price and it will add to the learning experience overall.

thermometer

A thermometer is a necessity when testing water samples.

A thermometer is an absolute necessity. Although many PH, TDS, and EC meters have integral thermometers, it’s a good idea in any scientific experiment to have a trusty analog device as well for double checking. A combination of chemistry, digital technology, and analog metering hopefully insures a relatively high degree of accuracy.

glass measure

Use glass only, & incremental measurements are very helpful. 

Any clean glass vessel will do for water sampling, but one with measurements is nice, and a spout for pouring is an even better attribute. 

colormetric chart

Chemistry is necessary!

The water testing chemistry set or kit that you end up with will have instructions. The bottom line is that after following the instructions, the color of the fluid in the test tube is gauged against a chart and a reading is taken by eye. Be certain to take the reading in exemplary natural lighting and directly against a completely white background (this part is of utmost importance).

Cycling The System

Cycling is the process of attracting the necessary bacterium and allowing them to populate. This takes four to six weeks on average. Although there are methods of achieving this in a shorter time frame, the “all natural” long road is the one we prefer and it involves first stocking the fish tank with fish.

Take an initial water sample as soon as the fish tank has been filled. Create a log for daily measurement of temperature, PH, phosphate, nitrite, ammonia, TDS, and EC.

Stock the fish tank with fish. Bream, minnows, or goldfish are good to start with as these tend to tolerate the conditions that will be seen over the initial cycling process better than others. These initial inhabitants of the fish tank may or may not survive. For the system using 55 gallon barrels, stock with 10-12 fish.

The fish can be fed only a small amount daily. Most people feed a commercial fish food, but we prefer to forego that and feed insects instead. Turn the led light on at night and observe. Insects should enter the tank. If the fish feed heavily, turn the light off after a short period. If there does not seem to be much activity, just leave the light on all night. Once cycling is complete, the light can be activated by a timer or even a light sensor. The fish will survive with no food at all for a very long time, and that would actually be preferable to over feeding at this stage. Another easy feeding option is to catch a grasshopper in the garden, or find a worm under a log or rock. Get creative.

Test water daily! Record all results in your log. Watch for ammonia levels to rise.

Once ammonia (NH3) makes it’s initial appearance, the cycling process has begun. Ammonia will attract the first bacterium nitrosomonas. Nitrosomonas bacteria are quite efficient at converting ammonia into nitrite (NO2), however, they must have time to populate heavily if they are to keep up with ammonia production from the fish. Fish excrete ammonia from their gills during respiration, as well as from feces and urine. Respiration is where the vast majority of ammonia is excreted. Neither ammonia or nitrites are used by plants, and both are toxic to fish. That is why no plants have been installed at this point, and why the initial fish stocked in the tank may or may not survive. One interesting concept to note is that ammonia (NH3) changes to ammonium (NH4+) dependent on the waters PH and temperature. While ammonia is quite toxic to fish, ammonium is not (within reason). The higher the water temperature and PH, the more nitrogen is in the form of ammonia (toxic). Testing with the standard equipment will not reveal the different levels of ammonia versus ammonium, so attention must be given to monitoring water temperature and PH. Try to keep PH between 6.3-6.7 (give or take a few points) by performing a water exchange if necessary. PH will level out when cycling is complete and plants are installed.
 
If TDS or EC rises drastically, stop feeding the fish. Optimal range for TDS is 100-200 ppm. Optimal range for EC is 0.2-2.0 milisiemens. Eventually, once installed, the plants will keep both levels in check and that is a huge part of the equation (which is missing at this point). Plant densities (amount of plants in the grow bed), as well as stage of development and variety will have an effect on both TDS and EC.

Ammonia levels will rise to a level dangerous to the fish fairly soon after it makes its first appearance. Levels should ideally stay well below 2ppm, however, ammonia levels will likely rise close to maximum during the initial cycling of the system, prior to nitrosomona population. If ammonia levels surpass 10ppm, perform a water exchange. Remove five gallons of water from the system, and replace it with and equal amount of fresh water.

Watch closely for nitrite levels to rise. Once nitrite makes its first appearance, the second bacterium nitrospira is attracted to the system. Nitrospira provide conversion of nitrite to nitrate (NO3), a form of nitrogen usable by plants. Nitrite levels should ideally stay below 1ppm once cycling is complete, but once again, the maximum level (10ppm) may be reached during the cycling process. If this occurs, perform a water exchange. Remove five gallons of water from the system, and replace it with an equal amount of fresh water. When both ammonia and nitrite levels have risen, and then dropped below 0.5ppm, the system is considered fully cycled and is ready for installation of plants.

Plant installation is relatively straight forward. Plants that have been started in vermiculite are quite easy to prepare for planting in the grow media, while plants started in soil require careful rinsing of the roots to remove the soil (care must be taken to avoid damaging the roots). We want to avoid contaminating the system with particulates. Soaking the soil and roots for 30 minutes or so prior to rinsing will help to loosen soil. Most any vegetable (or other plant) will thrive in a properly managed aquaponics system. Transplants can be used, as well as direct seeding in the grow bed media. 

Maintaining The System

Equipment maintenance is relatively straight forward. The pump input tube is close to the bottom of the tank, and therefore will keep particulates re-dispersed to the grow bed within a reasonable level. The system is self sustaining when functioning properly. 

The viewing window will need to be wiped clean of algae periodically. 

The pump won’t last forever, so it is important to check that it is still functioning on a daily basis. The input tube may become clogged, in which case manual clearing may be necessary. If the pumps output diminishes, the first step should be to simply turn the pump off allowing water to drain back into the fish tank, and then turn it back on again. Many times this will clear the lines. The next step should be to turn the pump off, and blow into the output tube with your mouth in an attempt to back flush the plumbing.

The bell siphon can become clogged if grow media enters the shroud. This can happen if the shroud lifts off the bottom of the grow bed for one reason or another. This most commonly occurs when removing the cap from the shroud for inspection and is operator error. Try hard not to lift the shroud when removing the cap because when media enters the shroud, often times the entire grow bed must be emptied to fix the problem. There is room for improvement on the design to compensate for this issue, so see if you can think of something without drilling holes in the grow bed, as we have yet to dream up the remedy other than being careful not to let the problem occur. Whatever design revision is made, it needs to not be permanent because eventually the shroud will need to be removed for one reason or another. 

Troubleshooting

    • Plants are showing signs of being fed on by insects or birds:
This is much simpler to deal with in the aquaponics system than it is with garden or field crops due to size. Drape a piece of tule or netting over the grow bed. Stab a stick or something similar into the middle of the media if necessary to support the tule or netting, creating a teepee of material. If aphids or mealybugs are infesting your plants, carefully remove the plants without shaking the insects off, and burn them elsewhere. Re-plant in a few days. Insecticides (even so called organic pesticides) are commonly used on crops, but why waste the time and effort only to contaminate the system and yourself. You can purchase food at the grocery store if you want to be exposed to that, and for a lot less effort. 
   

• Plants are dying, defoliating, or yellowing of leaves:
Ensure that the system is functioning properly mechanically (ie. water is reaching the grow bed, and the bell siphon is draining the grow bed at appropriate intervals). Check your logs for spikes or changes in the various levels you are testing for. PH needs to be within an acceptable range. Plants prefer a PH somewhere between 6-6.5. Over 7, and plants may suffer from toxicity of the nutrients supplied by the fish, as well as presence of various minerals, metals, etc. Fish, as well as the bacterium responsible for converting nitrogen in the system prefer a more alkaline environment (a PH of 8 or even slightly higher). In aquaponics, we are attempting to create a happy medium that will support fish, bacterium, and plants all within the confines of the same closed ecosystem. Ideally the aquaponics system should maintain a PH of 6.5-7. Adjust PH by means of water exchange (5 gallons at a time). Many aquaponics “farmers” adjust PH by means of hydrated lime or sulfur, but we prefer the water exchange method as it cost nothing, and avoids drastic change in PH, which has the potential to harm or even kill all inhabitants of the system. If none of the fore mentioned test reveal a likely cause, testing for minerals in the system may be necessary. Iron is of most concern, as plants tend to suffer from iron deficiency more often than other mineral deficiencies in our experience. Once again, a water exchange is a course of action that has the potential to remedy the problem, but iron as well as virtually any other mineral can be added to the system if one has the inclination to do so.

Mississippi Foundation for Renewable Energy & BackwoodsEnergy.org will not be held responsible for any mishaps incurred as a result of YOUR application of any instruction provided in this document. We strive to provide accurate, helpful information through our tutorials, ebooks, & printed documents, but cannot account for the way said information is applied. Please follow all standard safety precautions & be responsible. All information conveyed in any of our publications is to be applied “AT YOUR OWN RISK & DISCRETION”. Please be careful.

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