Farmers across America are discovering something amazing beneath their feet. The secret to better crops and healthier land isn’t always found in a bottle or bag. It lives naturally in the soil, waiting to be awakened through smart and intentional farming practices. Soil microbial communities play a large role in soil metabolic activity and drive critical ecosystem services like decomposition and nutrient cycling.
Bacteria, fungi, and other microscopic creatures transform dead plant material into food that crops can use. Regenerative agriculture & microbes work together like partners in a successful business. When farmers treat soil as a living system rather than just dirt, these microorganisms multiply and strengthen.
How Traditional Farming Hurts Soil Life
Conventional farming methods can accidentally damage the very organisms that make soil productive and alive. Heavy tilling breaks apart fungal networks that connect plant roots. Chemical fertilizers flood the system with quick nutrients but starve the microbes that naturally produce those same nutrients.
Soil health drops when microbial diversity and abundance decreases. Farms become dependent on more chemicals to achieve the same results. It’s like trying to run a factory with fewer workers each year while expecting the same output.
Different microbes handle different jobs in the soil. Some break down tough plant materials. Others protect crop roots from diseases. Many form partnerships with plants, trading nutrients for sugars. This complexity creates a stable system that keeps working even when conditions change.
Healthy microbial communities also help crops handle stress better. During droughts, diverse soil life improves water retention. When diseases threaten, beneficial microbes compete with harmful ones, protecting plant roots naturally.
Farmers don’t need complicated systems to start improving their soil life. Cover crops provide food for microbes when cash crops aren’t growing. These plants keep living roots in the ground, which helps more microbes stay fed year-round instead of going dormant.
Crop rotation brings diversity that supports more types of beneficial organisms. Different plants feed different microbes, and varying root depths access nutrients from multiple soil layers. This natural variety strengthens the entire system.
The benefits of regenerative farming show up quickly in soil tests and gradually in farm economics. Crops access nutrients more efficiently when healthy microbial populations cycle them naturally. This means farmers are able to spend less on fertilizers while maintaining or improving yields.
Weed and pest pressure often decreases, too. A diverse microbial community supports beneficial insects and creates conditions where crops outcompete weeds naturally. This reduces herbicide needs and the labor involved in weed management.
Fungal to bacterial ratio serves as an important indicator of soil condition. Healthy agricultural soils need both types of microbes, but many farms have shifted too far toward bacteria-dominated systems. Restoring fungal populations helps lock carbon in the soil and improves overall stability, as fungi connect different plants and transport nutrients across distances that roots alone could never reach.
The science behind soil biology keeps advancing, giving farmers better tools and understanding. New microbial products target specific crop needs or soil conditions. Education and support networks help farmers adopt these methods successfully. Universities, extension services, and farmer groups share practical knowledge gained from real-world experience. This collective learning accelerates the regenerative movement.
Most people never think about the dirt beneath their feet. They see it as something that makes their shoes messy or their hands dirty. But soil is actually alive with billions of tiny creatures that keep our entire planet running.
Soil health = planet health is not just a catchy phrase. It represents a real connection between what happens underground and the air we breathe, the food we eat, and the water we drink.
What Do Soil Microbes Actually Do?
These tiny organisms perform jobs that keep our planet functioning. Without them, life as we know it would stop. Soil microorganisms break down dead plants and animals. They turn this material into nutrients that new plants can use. This recycling process has continued for millions of years.
They also help plants grow stronger. Some microbes form partnerships with plant roots. They bring water and nutrients to the plant. In return, the plant gives them sugars. This teamwork benefits both sides.
The Carbon Connection
Climate change worries many people today. Soil microbes play a huge role in this challenge. They help store carbon underground instead of letting it float into the atmosphere as carbon dioxide. Soil biology acts like a carbon sponge. When microbes are healthy and numerous, they lock carbon into the soil. This process removes greenhouse gases from the air naturally.
Damaged soil with low microbial biomass and activity cannot store carbon effectively. The carbon escapes back into the air, exacerbating climate issues. Protecting soil life helps fight climate change.
Why Soil Health Matters for Food?
Farmers face increasing pressure to grow more food for our growing population, while facing the need to use fewer chemicals and resources to have more sustainable growing practices. Plants growing in soil rich with microbes need less fertilizer. The microbes provide nutrients naturally and help soil hold water better, reducing the need for irrigation.
Living soil creates stronger plants that resist pests and diseases. This means farmers can use fewer pesticides and the food can become healthier, while the environment stays cleaner.
Testing Makes the Difference
You cannot improve what you cannot measure. This applies to soil health, too. Farmers and gardeners need ways to check if their soil management practices actually work.
Testing methods, such as the microBIOMETER®, measure soil microbial biomass directly. These types of tests show how much life exists in the soil. The microBIOMETER® also estimates the balance between different types of microbes. The fungal-to-bacterial ratio tells us about soil conditions. Different plants and ecosystems prefer different ratios. Vegetables like more bacteria, while trees prefer more fungi. Understanding these preferences helps growers manage their land better.
The Bigger Picture
When we improve soil health in one place, the benefits spread. Healthy soil reduces erosion, stores carbon, and supports both aboveground and belowground biodiversity.
Soil health = planet health because everything connects. The microbes in your garden affect the air quality in your neighborhood.
Soil looks simple. But a small clump contains an entire world teeming with life. Understanding microbial life in soil changes how people think about growing plants.
Microbial biomass carbon varies around a median of 206 micrograms per gram of soil.
The Invisible Workers Underground
Soil microorganisms, including bacteria, fungi, and archaea, drive essential soil functions such as nutrient cycling, organic matter decomposition, and disease suppression.
Bacteria often represent the most numerous group. They break down dead plant material and transform nutrients into forms plants can use. Some bacteria fix nitrogen from the air, turning it into fertilizer that plants need for growth.
Fungi contribute heavily to soil structure and the break down organic matter, significantly contributing to the conversion of carbon to stable organic matter. This makes fungi extremely efficient at building long-term soil health.
How Do Bacteria Help Plants Grow?
Bacteria do several important jobs in soil. As they decompose organic matter like leaf litter or dead roots, nutrients locked inside dead material are released and become available for plants to use.
Nitrogen-fixing bacteria work with plants in special partnerships. Bacteria like Rhizobium form symbiotic relationships that fix nitrogen, converting atmospheric nitrogen gas into usable ammonia that plants absorb through their roots. This free fertilizer helps plants grow strong without chemical additions.
Some bacteria dissolve minerals in soil. Bacteria such as Micrococcus, Enterobacter, and Pseudomonas play crucial roles in phosphorus solubilization, making phosphorus available for plant uptake. Plants need phosphorus for root development.
Understanding Fungi’s Critical Role
Fungi look different from bacteria; not only are they larger, but they have slightly different pigments. Fungal biomass is necessary for healthy soil—their size and structure give them special abilities.
Fungi break down tough plant materials like wood and tree bark. They produce special enzymes that dissolve lignin, the substance that makes wood hard. This decomposition creates rich, dark soil called humus that holds moisture and nutrients.
How Farming Practices Affect Soil Microbes
Fungi and bacteria keep each other in check through symbiotic relationships. Different plants prefer different ratios of fungi to bacteria. Annual crops may prefer lower fungal-to-bacteria ratios, while perennials prefer higher ratios. Forests have the highest ratios because trees depend heavily on fungal networks for nutrients.
According to a study by Lori et. al. in 2017, organic farming systems show 32 to 84 percent greater microbial biomass compared to conventional systems. Adding compost, manure, and cover crops feeds soil microbes and helps grow their populations.
Chemical fertilizers and pesticides harm soil microbial communities. Fungicides kill both harmful and helpful fungi. Without beneficial fungi, plants struggle to access nutrients and water. This forces farmers to add more chemicals, creating a cycle that damages soil health.
Understanding Soil as a Living System
Soil microbial biomass represents the foundation of productive agriculture and healthy gardens. When people protect and feed these microscopic workers, they foster plant-soil interactions and receive a stronger and healthier soil community.
Learning about soil microbes transforms how people garden and farm. Every decision—from whether to till, what to plant, and how to fertilize—affects billions of organisms working underground. Making choices that support microbial communities creates healthier soil, stronger plants, and better harvests that last for generations. Use the microBIOMETER® soil test to estimate your soil microbial biomass and ensure you have the healthiest soil possible.
Remember when you needed expensive equipment just to know what’s happening in your soil? Well now that same device you use to scroll social media and read the news can analyze soil health with lab-quality precision.
The Science Behind Your Pocket Soil Lab
Your smartphone possesses something laboratories have relied on for decades: sophisticated optical sensors and powerful processing capabilities. Modern smartphones can detect color variations, light intensity, and chemical reactions through their cameras and built-in sensors. When paired with the right testing reagents and apps, these everyday devices transform into legitimate soil analysis tools.
The principle is surprisingly straightforward. Soil samples react with specific chemical reagents, producing color changes that correspond to different nutrient levels, pH values, or biological activity. Your phone’s camera captures these color variations, while specialized algorithms interpret the data and provide instant results.
What Your Mobile Soil Lab Can Actually Measure
You might wonder what kind of soil data you can realistically expect from smartphone-based testing. The capabilities are more extensive than you’d think:
Real-Time Results That Actually Matter
The game-changer isn’t just the technology—it’s the speed. Traditional soil testing means collecting samples, shipping them to a lab, and waiting days or weeks for results. And by then, growing conditions and microbial communities may have changed completely. Smartphone-based soil lab technology delivers results in minutes, not days. This real-time capability transforms how you can manage your soil health. And the microBIOMETER® can help you do just that.
Notice your tomatoes looking yellow in mid-July? Test the soil immediately and adjust your fertilization strategy that same afternoon. Planning fall amendments for your lawn in Texas? Test multiple spots across your property in a single morning and create a targeted improvement plan.
Getting Started: Your First Mobile Soil Analysis
Setting up your smartphone as a soil lab is simpler than you might expect. The microBIOMETER® includes testing reagents, measuring tools, and a smartphone app that guide you through the entire process step by step. You’ll collect a representative soil sample, mix it with the provided reagents, and use your smartphone’s camera to capture the resulting color changes. The app then analyzes the images and provides detailed reports about your soil’s condition. The testing process is quick and you can see results in 20 minutes.
The Technology Revolution Happening Now
All-in-one smartphone-based devices are becoming preferable for agricultural soil analysis, enabling users to complete self-assessments about soil quality and receive performance reports with actionable insights.
The implications extend far beyond individual gardeners. Extension services at universities across the United States are incorporating smartphone soil testing into their educational programs. Community gardens in both rural and urban areas are using these tools to optimize their growing strategies and share soil health data among members.
Urban gardening isn’t just about growing tomatoes in a small closet. It’s about understanding the complexity of soil microbes in unconventional spaces and utilizing new methods that make city gardening not only possible, but also incredibly rewarding.
Plants with healthy microbial communities in their root zones tend to grow more vigorously and are better equipped to withstand stressors such as drought, pests, and diseases. In urban environments where plants face challenges like air pollution, heat islands, and limited space, this microbial support system becomes even more crucial.
Urban soil faces unique challenges that rural farmland doesn’t necessarily encounter on a daily basis. You’re dealing with:
Start with Quality Organic Matter
Your soil microbes are essentially composting machines, but they need fuel. Add compost, aged manure, or leaf mold regularly. These organic materials provide the carbon and nutrients that feed your microbial community. In cities like Portland and Seattle, many neighborhoods now offer community composting programs—take advantage of them!
Test and Track Your Progress
Understanding your soil’s microbial health doesn’t have to be guesswork. Modern soil testing technology allows you to monitor microbial biomass and the fungal-to-bacterial ratio right from your balcony or rooftop garden. This data helps you understand whether your soil management practices are actually working.
Minimize Chemical Disruption
Synthetic pesticides and fertilizers can disrupt your carefully cultivated microbial community. Instead, focus on building soil biology through organic amendments and natural pest management strategies. Beneficial soil microbes perform fundamental functions such as nutrient cycling, breaking down crop residues, and stimulating plant growth.
A recent study reported by the NIH reveals an intriguing connection between gardening and human health that goes beyond fresh vegetables and exercise. It found that frequent exposure to environmental microbiota, especially through skin to soil contact, diversifies commensal microbiota, enhances immune modulation, and ultimately lowers the risk of immune-mediated diseases.
As more Americans embrace urban gardening & soil health practices, we’re seeing innovations that make microbial monitoring and management more accessible than ever. Whether you’re growing herbs on a fire escape in Brooklyn or maintaining raised beds in a Phoenix community garden, understanding and nurturing your soil’s microbial community will help you grow healthier plants while potentially benefiting your own well-being.
Imagine this: The earthy scent of microbes breaking down leaves in the soil fills the air. Your harvest is complete, the season is winding down, and you’re likely looking forward to a well‑deserved break. But before you prepare for winter, seize the opportunity to assess the health of the microbes in your soil. It will pay off next spring! Testing microbial biomass carbon (MBC) and fungal-to-bacterial (F: B) ratios during autumn sets the stage for healthier, more resilient soils next spring. This proactive step is in your hands, and it’s a crucial one.
Here’s why autumn is the sweet spot for measuring soil biology:
1. Post-harvest tests show the real impact of your management
Sampling during autumn captures the “end-of-season report card” for your soil. It reflects how crops and cover crop management shaped microbial life through the growing season. Studies by Cornell University show post-harvest data shows differences between treatments, with diverse cover rotations supporting higher microbial activity compared to standard fallow fields. In other words, autumn tests provide a clear picture of how your decisions paid off biologically.
2. Results guide action plans for the winter
Nebraska Extension notes that low MBC signals low biological activity and carbon availability—exactly the type of challenge that can be addressed when you act ahead of spring. Autumn is your window to respond before soils go quiet in winter. If MBC trends low, you can jumpstart recovery with practices like:
3. Amendments need time to work
If you know your soil is acidic and requires lime, autumn or manure additions, autumn is the best time to make applications and alterations to the microbial ecosystem. Amending now gives the soil several quiet winter months to equilibrate, ensuring pH is in the right range for nutrient availability and microbial activity by the time you plant again.
4. Fall testing builds valuable trend data year over year
Soil health is about direction, not just snapshots. Measuring MBC and F: B ratios every autumn lets you to track whether regenerative practices are truly building biology year after year. That trendline is powerful for farmers, researchers, and anyone looking to prove results.
Final Takeaway: Think of fall microbial testing during autumn as giving your soil a health check before it goes to sleep. You’ll capture a clear understanding of how the season’s management impacts microbes and receive the insights you need to act. When spring rolls around, and microbial life ramps up, you’ll be ready with soils that are biologically prepared for partnering with plants in helping them grow.
Prolific Earth Sciences is excited to announce the release of microBIOMETER® PRO. This extensive update has been three years in the making and features improved precision, increased consistency between phones, advanced nutrient metrics and sample geolocating. Please update your microBIOMETER® Reader app to 3.8.6 to access the PRO version.
What’s NEW!
• Test card. We redesigned the test card to reduce variance in results between phone models and better adjust for different lighting.
• Results. The results are now expressed as microbial biomass instead of microbial carbon.
• Moisture: We have changed the moisture assumption in our algorithm from 40% to 20% which is more in line with average soils. We also added a feature to allow users to adjust the moisture assumption to reflect soils with moisture contents closer to 10% or 30%. Moisture assumption for compost testing remains at 40%
• Geolocation: This new feature allows users to save the location where their sample was collected and perform the test at a later time while keeping the recorded sample location.
• Advanced Nutrient Metrics: As an understanding of how microbes contribute to nutrient availability increases, we have added calculated metrics to help users understand how their soil microbes are contributing to nitrogen and carbon stores in the soil. These are results extrapolated from microBIOMETER® results and the calculation and assumptions are detailed in the app informational pop-ups and our website FAQs.
• Soil and Compost: The PRO version will test both soil and compost, however, will no longer support direct testing of compost tea or extract.
With the exception of the test cards, all the supplies as well as the instructions will remain the same whether using the Classic or PRO version. The updated app will prompt you to choose a version so you can still use the classic test cards. We will also be selling Classic cards in refills for the foreseeable future. However, all new Starter Kit purchases will now be the PRO version only and contain the new test cards. For customers with ongoing trials, you may want to continue with the Classic test cards to track changes based on historical benchmarked tests.
In the updated app, we have made significant changes to units, underlying assumptions, and calculations. Therefore, we encourage users to continue with one version within a study or experiment since comparing the absolute values of the two is difficult. We have always encouraged using microBIOMETER® as a benchmark test and to focus on the changes over time. We will continue to supply the microBIOMETER® Classic test cards so that ongoing studies and trials can continue. However, we strongly recommend using the PRO version for all new testing and studies.
We would like to thank all of our customers that have given us feedback over the years. Your comments, both good and bad, have helped us improve the microBIOMETER®. Please keep sharing! And as always, we appreciate your continued support.
The Paddock Project, a working market garden providing fresh, seasonal produce to locals and visitors in Mullumbimby, is currently in the process of converting to fully certified organic status, marking an exciting step forward in their commitment to regenerative agriculture. The Paddock is committed to enhancing farming practices using chemical free, syntropic farming principles to guarantee quality produce from their paddock to your plate.
While recently undertaking their very first organic audit—thanks to a generous Grow the Growers grant from Santos Organics—they had the opportunity to test their soil using microBIOMETER® which was recommended to them by their assessor. The microBIOMETER® test provided instant insight into the health of their soil. After seven years of regenerative farming practice, using syntropic “chop and drop” methods, planting trees, and adding natural nutrients, they were thrilled to learn that their soil showed exceptionally high levels of fungal and microbial activity. It was real, measurable proof that their soil stewardship was working and their efforts to nurture and care for the soil were paying off.
So far, the Paddock Project has used microBIOMETER® on their syntropic food forests, however, they are already planning their next round of testing. They hope to implement regular quarterly testing moving forward to track the health of their soil seasonally and adjust inputs accordingly to continue improving soil biodiversity and plant health.
They’re also proud to report that the amount of carbon sequestered in their soil is off the charts further reflecting the positive impact of their practices. Every decision they make is driven by a vision for a healthier, more resilient future.
“What stood out to us immediately was how easy it was to use microBIOMETER®—no need to send samples to a lab or wait weeks for results. In just minutes, we had clear, quantifiable data right from the paddock. The speed and simplicity of the test made it ideal for our busy, hands-on farm environment. microBIOMETER® is an empowering tool for any grower or land steward who wants to make decisions based on real-time soil biology—not guesswork. It’s also incredibly satisfying to see proof that what you’re doing is making a difference. For The Paddock team, microBIOMETER® has become more than just a testing tool—it’s a celebration of how far our soil has come.”
Please visit The Paddock Project on Instagram learn more about the work they are doing.
Can Grow Crop Solutions, a company focused on providing market-leading fluid solutions and service, has been incorporating microBIOMTER® into their business with positive results. Shawn Brenneman, Director of Commercial Growth & Strategy at Can Grow, shared a bit about their company and the testing they are performing.
Vibrant, diversified soil biology is essential in growing crops for maximum yield and quality, Can Grow works with farmers on getting the most out of their cropping systems. They do this through increasing nutrient use efficiency, reducing crop stress, and helping soil/biological systems function at higher levels. Utilizing microBIOMETER® allows their customers to have a greater understanding of how soil type and management practices impact soil biology and advise them on potential solutions to improve performance.
The microBIOMETER® helps Can Grow and their customers determine a baseline of organisms within an entire field or production area that may be high or low yielding. It allows the company to track the improvements their solutions make on the balance and diversity of micro-organisms in the soil. Microbial systems are often hard for growers to understand because they can’t be seen. microBIOMETER® creates a clear picture by quantifying which solutions work in supporting soil health and which ones do not.
In a bio-fertility trial, ReNew (bacteria/fungi team from Biodyne USA) was applied in furrow with water to corn, Can Grow then evaluated the microbial diversity in the root system of the microbial treated area vs. the non-treated area. The untreated soil had a F: B ratio of fungi 4% and bacteria 96%. This level was much lower than what they wanted for yield optimization. However, it was consistent with what they generally see in tilled, high crop protection use fields. The ReNew treated area had a F:B ratio of fungi 29% and bacteria 71% showing the biology was colonizing the root zone area and providing fertility benefits to the crop.
About Can Grow: The company is much more than a fluid fertilizer company. They have a long, successful history of innovating, adapting and manufacturing fluid solutions to maximize plant potential and soil performance. As a manufacturer, they have the technology and knowledge to innovate and adapt proven fluid solutions to meet changing needs in any market. They assist their clients in addressing factors beyond their control, such as changing environmental conditions, through foliar combinations for application throughout the season.
Find out more at: www.cangrow.com
Amanda Foxon-Hill, a chemist by trade, is working with Mid Lachlan Landcare in the region of NSW, Australia. Mid Lachlan Landcare is a community organization committed to the regeneration of land. Their work includes Regenerative Agriculture, Box Gum Woodland Conservation, Superb Parrot Habitat, Community Gardens, Education & more. Cowra is the main town in their Landcare region which consists of various soil profiles. It is rich in farming land with cropping and grazing.
Amanda designed and performed a soil research project funded by the BCT (Biodiversity Conservation Trust). She took soil samples from farms, conservations and public land across the region to map their soil microbiome. Her goal was to see if she could establish a ’normal’ or ’typical’ range of microbes for each type of landscape and soil.
Amanda looked at grazed vs ungrazed land, mono-cropping vs mixed pasture etc. but that was really secondary to the soil geology and microbe link as there was a short window to complete this round of tests and farm management decisions such as what crop to grow, for instance, requires testing over multiple time points.
As part of the project, Amanda trialed microBIOMETER®. Microbes are essential for soil fertility and almost all plants work cooperatively with microbes to access the nutrients they need to thrive. The relationship between plants and microbes is dynamic; changing with the season, how the land is managed, plant species and life-stage, climate and the soil structure and composition.
“Overall, we feel this project has successfully delivered insights into how the Mid Lachlan region’s soils microbiome functions with respect to landscape features and management decisions although it’s clear there’s still a lot more work to do. Also, after putting the microBIOMETER® through its paces we believe it’s a useful tool for those looking to gain a deeper understanding of their soil. Our advice would be to use the microBIOMETER® or similar microbiology assessment tool/ protocol alongside your existing soil testing tools, at regular intervals to monitor the effect management decisions have on the soil microbiota over time.”
