One of the primary uses of cover crops is to increase soil fertility. These types of cover crops are referred to as "
green manure". They are used to manage a range of soil
macronutrients and
micronutrients. Of the various nutrients, the impact that cover crops have on nitrogen management has received the most attention from researchers and farmers because nitrogen is often the most limiting nutrient in crop production. Often, green manure crops are grown for a specific period, and then
plowed under before reaching full maturity to improve soil fertility and quality. The stalks left block the soil from being eroded. Green manure crops are commonly
leguminous, meaning they are part of the pea family,
Fabaceae. This family is unique in that all of the species in it set pods, such as bean, lentil,
lupins and
alfalfa. Leguminous cover crops are typically high in nitrogen and can often provide the required quantity of nitrogen for crop production. In conventional farming, this nitrogen is typically applied in chemical fertilizer form. In organic farming, nitrogen inputs may take the form of
organic fertilizers,
compost, cover crop seed, and
fixation by
legume cover crops. This quality of cover crops is called fertilizer replacement value. Another quality unique to leguminous cover crops is that they form
symbiotic relationships with the
rhizobial bacteria that reside in legume root nodules. Lupins is nodulated by the soil microorganism
Bradyrhizobium sp. (Lupinus). Bradyrhizobia are encountered as microsymbionts in other leguminous crops (
Argyrolobium,
Lotus,
Ornithopus,
Acacia,
Lupinus) of Mediterranean origin. These bacteria convert biologically unavailable atmospheric nitrogen gas () to biologically available ammonium () through the process of biological
nitrogen fixation. In general, cover crops increase soil microbial activity, which has a positive effect on nitrogen availability in the soil, nitrogen uptake in target crops, and crop yields. Some scientists believe that widespread biological nitrogen fixation, achieved mainly through the use of cover crops, is the only alternative to industrial nitrogen fixation in the effort to maintain or increase future food production levels. Industrial nitrogen fixation has been criticized as an unsustainable source of nitrogen for food production due to its reliance on fossil fuel energy and the environmental impacts associated with chemical nitrogen fertilizer use in agriculture. Such widespread environmental impacts include nitrogen fertilizer losses into waterways, which can lead to
eutrophication (nutrient loading) and ensuing hypoxia (oxygen depletion) of large bodies of water. An example of this is in the Mississippi Valley Basin, where years of fertilizer nitrogen loading into the watershed from agricultural production have resulted in an annual summer hypoxic
"dead zone" off the Gulf of Mexico that reached an area of over in 2017. The ecological complexity of marine life in this zone has been diminishing as a consequence. As well as bringing nitrogen into agroecosystems through biological nitrogen fixation, types of cover crops known as "
catch crops" are used to retain and recycle soil nitrogen already present. The catch crops take up surplus nitrogen remaining from fertilization of the previous crop, preventing it from being lost through
leaching, or gaseous
denitrification or
volatilization. Catch crops are typically fast-growing annual cereal species adapted to scavenge available nitrogen efficiently from the soil. The nitrogen fixed in catch crop biomass is released back into the soil once the cash crop is incorporated as a green manure or otherwise begins to decompose. An example of green manure use comes from Nigeria, where the cover crop
Mucuna pruriens (velvet bean) has been found to increase the availability of phosphorus in soil after a farmer applies rock phosphate. ==Soil quality management==