Biological concepts

Natural Nitrogen: How Soil Microbes Help Reduce Nitrogen Inputs

This is the season to work with nature to provide critical nutrients — economically.

What it covers
How soil microbes procure nitrogen and other nutrients for crops, the four types of microbial nitrogen fixation, the nitrogen-fixing diversity in MetaGrow inoculants, and the conditions that cause N-fixing microbes to fail.
Why it matters
Reducing inputs is critical for profitable farming, especially as synthetic inputs keep getting more expensive. Imbalanced fertilization, such as excess nitrogen, is often a root cause of crop problems.
Who it’s for
Farms already using regenerative practices, growers who have taken initial steps to improve soil health, and growers who have seen success in other fields and are ready to start.

Working with nature to cut nitrogen

People who have been adopting regenerative processes for a few years have already cut nitrogen inputs by 20% or more. This is possible with a deliberate focus on improving soil life, organic matter and nutritional balance.

These farms have the foundation to manage a further reduction, and many will apply little or no nitrogen this year. Those who have taken initial steps to improve soil health can get more bold. And people who have seen successes in other fields should be inclined to start the process.

Less nitrogen can mean less pest and disease pressure

Farming with less nitrogen and balanced P, K and other nutrients also can reduce pest and disease pressure. We now know that most of these challenges are due to inappropriate inputs that create the conditions for insects and fungi to attack the crop.

Progressive agronomists and farmers recognize that imbalanced fertilization (for example, excess nitrogen) is often the root cause of most crop problems. Regenerative farming practices address these root causes.

The natural system manages to stay in balance. Healthy soil biology provided with nutrients — in the right form, ratios, timing and amounts — provides sufficient plant nutrition for healthy, profitable crops.

The critical role of soil microbes

Root nodules formed by rhizobia bacteria along a plant root in dark soil
Dense and vigorous rhizobia grown with MetaGrow.

SGS MetaGrow microbial inoculants provide exceptional population counts of exceptional microbial diversity. Our approach is to flood the zone with multiple species serving each functional niche, believing that nature can sort out which species and combinations can be effective in any scenario.

Microbes procure nitrogen and other nutrients for the plants, whose roots are feeding and signaling the microbes to serve their needs. This cycle starts with the plant’s photosynthesis of carbohydrates, 30% to 60% of which are translocated as root exudates to attract and feed microbes. The microbe workforce grows and adapts to conditions, and supplies what the plants need in each growth stage.

Plant NutritionPlant Directed and Microbe Delivered

How microbes fix nitrogen

Plants and microbes have an intricate relationship. To obtain nitrogen (and other nutrients), plants exchange carbon through root exudates to microbes, which in turn provide nitrogen fixed from the air.

There are four types of microbial nitrogen fixation

  • N-fixing fungiFungi colonized inside the roots (endophytes).
  • RhizobiaBacterial species in legume root nodules.
  • Free-living N-fixing bacteriaCertain species of the genus Azotobacter, Azospirillum, Herbaspirillum, Burkholderia, Bacillus, Frankia and Paenibacillus.
  • Phyllosphere N-fixing microbesMicrobes that live in plant leaf tissues.

Diversity in MetaGrow inoculants

MetaGrow inoculants are produced to achieve maximum diversity of species, along with abundant metabolites produced by the microbes performing their roles in an active and live culture.

600–800Named species in MetaGrow products, plus thousands more as yet unnamed
100–250Fungal species, depending on the product
Up to 7Biodiversity score, depending on the product

Other inoculants are generally mixtures of lab-grown, inactive microbes which are intended to become active once in the soil. These products have much less diversity. For example, a metagenomic analysis of one leading product (Guardian, also sold as Dominate) revealed just 244 species, including 38 fungi, and a biodiversity score of 0.6. Of the 18 species claimed on the label, only 2 were actually present.

Microscope view of a rounded microbial structure holding several spherical bodies
A surprising microbial structure.

Nitrogen-fixing diversity by product

Nitrogen fixation is one of many critical functions, and MetaGrow inoculants contain remarkable microbial diversity and populations to perform it. This table shows the microbe counts from metagenomic analysis.

MetaGrow nitrogen-fixation diversity from metagenomic analysis
ProductFree-living N-fixation speciesRhizobia N-fixation speciesTotal N-fixation microbe population
MetaGrow™ 5X+6151 × 10⁸
MetaGrow™ C7213 × 10⁸
MetaGrow™ G4134 × 10⁸
MetaGrow™ F5164 × 10⁹
MetaGrow™ Decomposer6162 × 10⁹

The diversity of species provides many pathways to provide nitrogen for the crop. We expect that some species will thrive in a given soil condition, and others will thrive in a different situation.

Species that provide other nutrients

MetaGrow’s broad-spectrum inoculants also provide many species that supply other nutrients to plants:

  • Phosphorus solubilization
  • Potassium solubilization
  • Cation chelation — siderophores chelate K, Ca, Mg, Mn, Cu, Fe and Zn

Guidance for successful microbial application

Inoculants are most successful when applied as components of an integrated biological program. Include carbon sources (humic acid, fulvic acid, fish, molasses) and other microbe foods, like MetaGrow™ MFOOD.

Why N-fixing microbes sometimes fail to provide for the crop

  • Tight or compacted soil, where gas exchange is lacking (air is 78% nitrogen)
  • Low soil organic matter (low C:N ratio)
  • Missing or limited nutrient and enzyme cofactors, such as iron and molybdenum
  • Species capable of fixing nitrogen are not epigenetically activated, and the low C:N ratio environment does not trigger it
  • Excess nitrogen fertilizer shuts down the N-fixing microbes

Key takeaways

  • Farms with a few years of regenerative practice have already cut nitrogen inputs by 20% or more, and many can manage a further reduction.
  • Imbalanced fertilization, such as excess nitrogen, is often the root cause of pest and disease problems.
  • Plants trade carbon from photosynthesis for nitrogen and other nutrients delivered by microbes — plant directed, microbe delivered.
  • Microbial nitrogen fixation happens through endophytic fungi, rhizobia, free-living bacteria and phyllosphere microbes.
  • N-fixing microbes work best in an integrated biological program with carbon sources and microbe food, and can be shut down by compaction, low organic matter, missing cofactors or excess nitrogen fertilizer.
Original SGS resource

Natural Nitrogen

This page is adapted from the SGS PDF “Natural Nitrogen” (© 2026), which remains the technical reference. The 2-page original is available to download, print and share.

Download the Original PDF (PDF, opens in a new tab)

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