Should I Sterilize Compost Before Use?

Gardeners across the internet have shared strange methods for sterilizing soil, from baking it in the oven to steaming it in a pressure cooker to even microwaving their compost. If you’ve had problems with plant diseases, you may think this sounds like a quick-fix cure. Sterile means pathogen-free, right? Well, things are a bit more complicated than that. 

If you’re wondering whether you should sterilize compost, here is the real science of sterilizing or pasteurizing and why we don’t recommend it. Nature has far better tricks for keeping seedlings healthy.

The Short Answer

Heat-sterilizing compost is not recommended for home gardens. It is far better to make or source quality aged compost and blend your own seed-starting mix each time you start new seeds. Sterilizing not only kills the important soil microbes that help plants grow, but research shows that overheating soil can cause phytotoxicity that prevents germination and kills young plants.

Quality compost is already exposed to high temperatures resulting from the aerobic decomposition processes of bacteria and fungi as they break down organic material like food scraps, manure, and leaves. The only reasons for concern about sterility are if you know the batch is contaminated by raw manure or a nearby plant disease (such as mildew-infected leaves that fell near the storage area). 

Sterilized soil blends are often used in the nursery industry to prevent seedling diseases in a commercial setting with thousands of greenhouse plants. While sanitation is important for plant propagation at any scale, sterilizing could do more harm than good. Compost is full of beneficial microbes that help plants thrive and even protect them from diseases. You can think of them as an external underground immune system and digestive system, similar to the beneficial bacteria in your gut. 

Nature does not operate in a sterile environment. Save yourself from the kitchen mess and instead focus on honing your compost skills.

Here are two much simpler preventative measures to keep plant diseases out of your greenhouse or seed-starting area:

The Long Answer

Compost is one of the most important garden amendments. From worms to spiders to microscopic bacteria, quality compost should be teeming with life. It enriches the soil with a loamy texture, improved drainage, better water-holding capacity, and billions of beneficial microorganisms that help plants grow. 

Symbiotic soil bacteria, fungi, and other microbes are integral to fueling nutrient cycling so plants can uptake minerals. These invisible organisms also act like an underground immune system, protecting plants from harmful pathogens. Let’s dig deeper into the science of compost dynamics in soil and why sterilizing it could do more harm than good. Plus, we’ll cover the rare occasions when sterilization may be necessary.

High-Temperature Composting is Better Than Sterilization

There is no need to stick your compost in a kitchen oven or microwave if it reached sufficient temperatures during production. High-temperature composting uses the natural processes of decomposer microorganisms to break down organic materials, which generates heat. Any compost producer already monitored the temperatures of their pile to ensure they rose to a sufficient temperature to kill off any pathogens. If you make it at home, you can use a thermometer probe to check the temperatures periodically. 

When a compost pile reaches certain temperatures, it naturally kills off harmful organisms, so you don’t have to sterilize it. According to Cornell University:

• Temperatures above 130°F (54°C) kill the majority of harmful fungi and bacteria but spare beneficial microbes. This temperature also kills weed seeds.
• In many state regulations, a pile must remain at 130°F for three days to kill pathogens and meet legal requirements for sale.
• Temperatures above 140°F (60°C) kill tougher weed seeds and viruses.
• At temperatures over 160°F (71°C), the compost fully sterilizes itself and even kills beneficial microorganisms.
• Ideally, composters do not allow the pile to get over 140°F. If it gets close to this temperature, cool it by flipping and turning it. 

Composting works by combining biodegradable materials like food scraps, leaves, straw, manure, and grass clippings in a specific ratio, maintaining proper airflow and moisture as microbes get to work. In the process, they release heat, which accelerates the breakdown. 

The pile rapidly warms to 90-100°F (32-38°C). At peak composting, the pile should be 130°F (54°C) for several days. This is when harmful pathogens (for example, E. coli from animal manure) are killed. Any seed-harming organisms are killed at these temperatures as well. 

Only Sterilize if You Know It is Contaminated

The only time home sterilization of compost makes sense is if you know it has been contaminated with raw waste or a plant pathogen like Pythium, which can cause damping off disease in seedlings. Raw manure is usually the culprit of contamination, but raw meat, fish, rotting eggs, or diseased plant materials from the garden could also contaminate it. 

As you can tell, this could be a messy process. Keep in mind that sterilized soil will not provide the majority of benefits that compost usually does. It will only function as an inert, lifeless medium for germinating seeds, similar to vermiculite or sand, but with more water-holding capacity.

Sterilization Kills the Good Guys, Too

One of the most important benefits of using compost in the garden is its ability to inoculate your soil and your plants with healthy microbes. Sterilization with heat or chemicals basically kills all the helpful inoculants that could have helped your plants. Sterilizing doesn’t only kill the “bad guys’,” it can knock out the “good guy” microbes, too. Those beneficial organisms actually protect your plants from “bad guy” disease-causing organisms. 

Beneficial Microbes Protect Plants from Attack

Imagine beneficial microbes as an army protecting your plants’ tissues from invasion. In a healthy ecosystem, this microbial army would cover all the surfaces of the roots, stems, and leaves. They are like a living protective barrier enshrining your plants. 

Let’s say a powdery mildew fungal spore flies in on the wind. If that spore lands on a plant growing in healthy compost-rich soil with a strong microbial army, the “good guys” can quickly devour it or outcompete it. But if the mildew spore lands at the base of a plant growing in sterile, lifeless soil, it is more likely to settle in and replicate, causing an infection. It’s easy for invaders to take hold of the plant when there is no army to protect it. This is why sterilization could actually do more harm than good.

Research shows that when a plant is under stress or attack, it recruits protective microbes to improve its immunity and fight against the pathogen. In other words, tremendous microbial battles are happening in our plants and soil at all times. If you want your garden crops to win against destructive plant diseases, don’t sterilize your soil or your compost! You need the “good guy” army on your team.

Understanding the Soil Microbiome

Let’s dig a little deeper into the amazing world of the soil microbiome and why un-sterilized, natural compost is an important way to enhance the beneficial microbial communities. A microbiome is a collective community of all microorganisms, including bacteria, fungi, viruses, and protozoa, that live on and inside an organism. Every natural part of the Earth has its own microbiome. In humans, we are most familiar with the gut microbiome, which makes digestion of food possible. 

But there are tons of other microbial communities in our bodies as well, from our lung microbiome to our skin microbiome to your eyelash microbiome (yes, microbes live there, and many of them protect your eyeballs!) Clearly, the types of microbes living in your gut are far different from those living on your eyelashes. In the same way, a plant’s leaf microbiome is far different from the root microbiome (sometimes called the rhizosphere or root zone). 

Modern society places a lot of emphasis on pathogenic microorganisms like E. coli in food or Phytophthora in plants. It is true that these “bad guy” microbes can do a lot of harm. However, the vast majority of bacteria and fungi are beneficial and often essential for life on Earth. 

If you want to reap these rewards and more to create a self-sustaining garden ecosystem, it is important to nurture the soil microbiome rather than destroy it! Add unsterilized healthy compost, practice reduced tillage techniques, and avoid synthetic chemicals that may kill off beneficial organisms.