Manure Management 2.0: Turning Lagoon Waste Into Organic Fertilizer

January 24, 2026

For years, manure lagoons have been treated as a necessary compromise in livestock farming rather than an opportunity. They were designed primarily for containment, allowing farms to store large volumes of animal waste while maintaining basic regulatory requirements.

However, as agriculture faces growing pressure to reduce environmental impact and improve resource efficiency, this traditional approach is no longer enough. Today, manure management is undergoing a major shift, transforming lagoon waste into a reliable source of organic fertilizer and redefining how farms think about nutrient value.

The Limitations of Traditional Lagoon Systems

Conventional manure lagoons were never intended to preserve nutrients at their highest value. Over time, nitrogen is lost to the atmosphere through volatilization, while phosphorus and solids settle unevenly at the bottom of the lagoon. This creates inconsistency in nutrient content, making land application less precise and often less effective for crop uptake.

Lagoons also introduce broader environmental and operational concerns. Odor emissions can strain relationships with surrounding communities, while uncontrolled methane release contributes to greenhouse gas emissions. There’s also the ongoing risk of leaks, runoff or overflows during extreme weather events, all of which can threaten nearby waterways. These challenges highlight why storage-only systems are no longer sufficient for modern, sustainability-focused agriculture.

Shifting From Storage to Nutrient Recovery

Manure management 2.0 begins with a change in mindset. Instead of viewing manure as waste that must be stored and spread, it’s treated as a nutrient-rich input that can be refined and optimized. This shift allows farms to better match nutrient application with crop demand, soil conditions and regulatory requirements.

By stabilizing nutrients earlier in the process, farms reduce emissions and gain greater control over fertilizer timing and rates. Nutrient recovery also helps reduce nutrient overload in sensitive areas, making manure management more predictable, measurable and economically valuable. What was once a liability becomes a strategic resource.

Core Technologies Powering Manure Management 2.0

Several technologies play a central role in turning lagoon waste into high-value organic fertilizer. Each one addresses a specific challenge while contributing to overall system efficiency and nutrient retention.

  • Solid-liquid separation: Removes large organic particles before storage, reducing sludge buildup and improving lagoon performance
  • Anaerobic digestion: Stabilizes organic matter, reduces pathogens and produces biogas that can be used for renewable energy
  • Nutrient concentration systems: Captures nitrogen and phosphorus into transportable forms that are easier to store and apply
  • Advanced filtration and treatment: Improves consistency, reduces salinity and creates standardized fertilizer products suitable for wider distribution

When combined, these technologies allow farms to design manure systems that are tailored to their size, crop needs and environmental goals.

Solid-Liquid Separation as a Foundation

Solid-liquid separation is often the first and most critical step in upgrading manure management systems. By removing solids early, farms reduce the volume of material entering the lagoon and improve overall storage efficiency. This also helps prevent uneven nutrient distribution and minimizes the frequency of lagoon clean-outs.

The separated solids contain high levels of organic matter and phosphorus, making them ideal for composting or direct soil amendment. Meanwhile, the liquid fraction becomes more uniform and easier to manage, which improves the effectiveness of downstream treatment and fertilizer application. This foundational step creates flexibility while setting the stage for higher-value nutrient recovery.

Producing Consistent, High-Quality Organic Fertilizer

Modern manure processing is designed to produce fertilizers that farmers can rely on. Stabilization and treatment help nutrient ratios become more predictable and easier to match with crop needs. Pathogens, weed seeds and odors are significantly reduced, improving safety and ease of handling.

Organic fertilizers derived from lagoon waste also deliver long-term benefits. They enhance soil structure, improve water retention and support microbial activity that drives nutrient cycling. Over time, these improvements increase soil resilience and reduce dependence on synthetic fertilizers.

Environmental and Economic Benefits

Poor nutrient management has downstream consequences for entire ecosystems. It’s reported that nearly 70,000 bodies of water across the U.S. fail to meet water quality standards, often due to excess nutrients, sediment and runoff. Advanced manure management systems help address these risks at the source, reducing the likelihood that agricultural waste contributes to polluted lakes and waterways.

The environmental benefits of manure management are immediate and long-term. Greenhouse gases are the primary driver of climate change. Agriculture plays a measurable role in their release, particularly through methane discharge. Capturing methane lowers greenhouse gas emissions, while improved nutrient utilization reduces runoff and protects water quality. These systems help farms meet stricter environmental regulations without sacrificing productivity.

Economically, the advantages are equally compelling. Farms can reduce fertilizer expenses, generate renewable energy and create marketable fertilizer products. In some regions, carbon credits and sustainability incentives further enhance returns, turning responsible manure management into a competitive advantage rather than a cost.

The Future of Manure Management

Manure management represents the future of livestock agriculture. As technologies become more accessible and scalable, even small and midsized farms will be able to implement nutrient recovery systems. Precision application tools and digital monitoring will continue to improve efficiency and accountability.

Closing the Loop

Manure management represents a fundamental shift in how agriculture views and handles livestock waste. By moving beyond simple storage and embracing nutrient recovery, farms can turn lagoon waste into a reliable source of organic fertilizer that supports soil health, crop productivity and environmental protection. This approach allows producers to capture more value from existing resources while reducing emissions, runoff risks and long-term operational challenges.