Introduction to Nutrient Cycles

What you need to know (from the AQA specification)

Nutrients are recycled within natural ecosystems, exemplified by the nitrogen cycle and the phosphorus cycle.

Energy travels in an ecosystem in one direction. It goes from the sun and is transferred down the different trophic levels as we saw in Energy and Ecosystems

Unlike the one directional flow of energy through an ecosystem, nutrients are recycled. The nitrogen and phosphorus cycles are examples of nutrient cycles.

Human activity can interfere with this recycling of nutrients, disrupting the natural cycling of these nutrients. We look at this later with fertilisers & eutrophication.

Nitrogen Cycle

What you need to know (from the AQA specification)

Microorganisms play a vital role in recycling chemical elements such as phosphorus and nitrogen.

  • The role of saprobionts in decomposition.
  • The role of mycorrhizae in facilitating the uptake of water and inorganic ions by plants.
  • The role of bacteria in the nitrogen cycle in sufficient detail to illustrate the processes of saprobiotic nutrition, ammonification, nitrification, nitrogen fixation and denitrification.

(The names of individual species of bacteria are not required).

All living organisms need a source of nitrogen in order to synthesise nitrogen-containing compounds, such as DNA, RNA, proteins and chlorophyll.

The atmosphere contains 78% nitrogen, but it’s in a chemically inert (unreactive) form that is unavailable to plants or animals to use. They need bacteria to convert it into nitrogen-containing compounds first.

The nitrogen cycle is the continuous recycling of nitrogen between the atmosphere, soil and living organisms.

There are 4 main phases:

  • Ammonification
  • Nitrification
  • Nitrogen fixation
  • Denitrification

The nitrogen cycle: nitrogen fixation, ammonification by saprobionts, nitrification by nitrifying bacteria and denitrification by denitrifying bacteria

Nitrogen fixation

  • Is the process of converting nitrogen gas (which is unusable for plants) into ammonia (NH₃), which forms ammonium ions (NH₄⁺)
  • It is mainly carried out by microorganisms, although it can occur from lightning or in industrial processes
  • Nitrogen-fixing bacteria are found in plants’ root nodules. They form a mutualistic relationship with plants. The bacteria provide the plant with nitrogen compounds, and the plant provides the bacteria with carbohydrates (required for respiration)
  • Nitrogen-fixing bacteria can also be found ‘free living’ in the soil. These do not require a host plant to fix nitrogen

Nitrogen cycle highlighting nitrogen fixation by bacteria in root nodules and free-living bacteria in soil

Ammonification

  • The nitrogen-containing compounds (e.g. proteins, amino acids, DNA and urea) from dead organisms & animal waste are turned into ammonia by saprobiotic microorganisms
  • This ammonia then forms ammonium ions

Nitrogen cycle highlighting ammonification: saprobionts turn nitrogen compounds from dead plants and animals into ammonium

What makes decomposition and nutrient recycling faster?

  • Warm temperature: closer to the optimum for the enzymes of saprobionts and nitrifying bacteria
  • Water: needed for hydrolysis and other enzyme-controlled reactions
  • Oxygen: needed for aerobic respiration by saprobionts and for nitrification

Nitrification

  • This involves the conversion of ammonium ions into nitrate ions

  • This is a two-stage oxidation reaction, which releases energy

    1. Nitrifying bacteria carry out the oxidation of ammonium ions (NH₄⁺) to nitrite ions (NO₂⁻)

    2. Nitrifying bacteria carry out the further oxidation of nitrites (NO₂⁻) to nitrates (NO₃⁻)

  • Nitrifying bacteria require oxygen to carry out these reactions.

  • These nitrates can then be used by the plants. They can assimilate the nitrates by absorbing them and converting them into organic nitrogen compounds like amino acids and proteins.

Nitrogen cycle highlighting nitrification: nitrifying bacteria convert ammonium to nitrites, then nitrites to nitrates

Denitrification

  • The nitrates in the soil are converted into nitrogen gas by denitrifying bacteria
  • These denitrifying bacteria work in anaerobic (low oxygen) conditions, often when the soil becomes waterlogged.

Nitrogen cycle highlighting denitrification: denitrifying bacteria convert nitrates back to atmospheric nitrogen

Tip

It’s important to understand the different conditions both bacteria work in: nitrifying bacteria = aerobic and denitrifying bacteria = anaerobic

Phosphorus Cycle

Phosphorus is required for ATP, phospholipids and nucleic acids (DNA and RNA).

Unlike the nitrogen cycle, phosphorus doesn’t enter the atmosphere. Rocks and sediments are the largest reservoir of phosphorus, usually in the form of phosphate ions.

The phosphorus cycle: weathering of rocks, absorption by plants, consumers ingesting producers, decomposition and sedimentation

  • Weathering & erosion - Phosphate ions become dissolved and available for absorption by plants which they can incorporate into their biomass

  • Absorption (Mycorrhizae) - Fungi that form a mutualistic relationship with plant roots. The fungi have hyphae that can increase the surface area of the plant’s roots for the absorption of water and minerals (ions). The fungi (in return as it’s a mutualistic relationship) get glucose and other organic compounds from the plant, which they can use in respiration

  • Consumers ingest producers - Phosphate ions are transferred to consumers as they ingest the plants

  • Decomposition - Decomposers (saprobionts) break down dead animals and plants, releasing phosphate ions into the soil. These microorganisms also release phosphate from animal wastes.

  • Sedimentation - When these organisms die, their remains sink and accumulate as sediments on the ocean floor. Over millions of years, these sediments form sedimentary rock.

Microorganisms’ Role

MicroorganismCycle (Stage)Role
Saprobiotic microorganismsNitrogen (Ammonification) & PhosphorusDecomposers. Use enzymes to decompose dead organisms and waste, releasing ammonia (ammonification) and phosphate ions (use extracellular digestion)
Nitrogen-fixing bacteriaNitrogen (Nitrogen-fixation)Convert atmospheric nitrogen gas into nitrogen compounds usable by plants
Nitrifying bacteriaNitrogen (Nitrification)Oxidise ammonium ions to nitrites, then nitrites to nitrates
Denitrifying bacteriaNitrogen (Denitrification)Convert nitrates back into nitrogen gas (in anaerobic conditions)
Mycorrhizae (fungi)PhosphorusIncrease surface area of plant roots for absorption of water and phosphate ions

Fertilisers & Eutrophication

What you need to know (from the AQA specification)

The use of natural and artificial fertilisers to replace the nitrates and phosphates lost by harvesting plants and removing livestock.

The environmental issues arising from the use of fertilisers including leaching and eutrophication.

When crops are harvested they are removed from the soil. This means that the minerals (nitrates and phosphates) the crops absorbed from the soil are also removed. They are not recycled back into the soil by decomposers as part of the nitrogen and phosphorus cycle. The same happens when livestock are removed from the land. The minerals in their bodies, which came from the plants they ate, are lost too.

Why could this be an issue?

Soil needs minerals in order for new crops to grow.

  • Phosphates are important for ATP production
  • Nitrates are important for plant growth (synthesising amino acids & proteins)

Farmers use fertilisers to replace these lost nutrients.

  • Natural fertilisers - organic matter such as manure or compost. These release minerals slowly as they are decomposed by saprobiotic microorganisms
  • Artificial fertilisers - manufactured chemicals containing specific ratios of minerals (e.g. NPK fertilisers). These dissolve quickly and are immediately available to plants

Leaching

  • When excess fertiliser (particularly nitrates) dissolves in rainwater and is washed through the soil into waterways such as rivers and lakes
  • Nitrates are very soluble, making them especially prone to leaching (more than phosphate ions)

Eutrophication

Eutrophication is the process by which excess minerals (from leached fertilisers) cause environmental damage.

Eutrophication in five steps: fertilisers leach into lakes, algal bloom blocks light, plants die, saprobionts decompose them using oxygen, fish die

  1. Fertilisers leach into rivers/lakes, increasing the concentration of nitrates and phosphates in these rivers/lakes

  2. This causes rapid growth of algae on the water surface (algal bloom). The algal bloom blocks light from reaching aquatic plants below the surface

  3. These plants die as they can no longer photosynthesise

  4. Saprobiotic microorganisms decompose the dead plant matter. These decomposers use oxygen for aerobic respiration

  5. This causes the oxygen concentration in the water to decrease. Organisms that rely on aerobic respiration (e.g. fish) die due to lack of oxygen

How this topic is tested

This analysis is based on past paper data from 2017 to 2025. It is intended for interest only and is not predictive of what will appear in future papers.

  • Tested in 8 of 9 years (2017–2025): 26 question parts worth 62 marks.
  • 8th most-examined topic overall by marks, 2nd in Unit 5.

Marks by year

2017
8 marks
2018
9 marks
2019
7 marks
2020
8 marks
2021
6 marks
2022
7 marks
2023
11 marks
2024
0 marks
2025
6 marks

Most-tested spec points

  • The Nitrogen Cycle: tested in 10 parts (24 marks)
  • Role of Microorganisms in Recycling: tested in 8 parts (19 marks)
  • Fertilisers & Environmental Issues: tested in 7 parts (19 marks)

Also links to: Factors Affecting Rate of Reaction, Biomass & Its Measurement.

Maths and practical skills

  • Percentages, ratios and fractions (MS 0.3): e.g. 2023 P2 Q3.1
  • Units and standard form (MS 0.1, 0.2): e.g. 2023 P2 Q3.1
  • Colorimeter or potometer measurements (AT b): e.g. 2019 P3 Q2.2
  • Standard deviation and range (MS 1.10): e.g. 2023 P2 Q3.2
  • Logarithms and log scales (MS 2.5): e.g. 2018 P3 Q6.4
  • Moving between graphs, numbers and equations (MS 3.1): e.g. 2017 P3 Q3.2
  • Rate from a straight-line graph (MS 3.5): e.g. 2018 P3 Q6.2
  • Plotting graphs (PS 3.1): e.g. 2017 P3 Q3.3

Tips from examiner reports

What students commonly get wrong
  • Name the nitrogen-containing compoundWatch out: saprobionts break down proteins, amino acids, DNA or urea into ammonia (ammonium ions). Name the compound, not just "nitrogen compounds" or "dead matter". 2025 P2 Q10.3 · 2019 P3 Q2.1
  • Nitrification: ammonium, then nitrite, then nitrateWatch out: nitrifying bacteria oxidise ammonium to nitrite, then nitrite to nitrate. Get the order right, and don't call it reduction. 2025 P2 Q10.3
  • Nitrifying isn't nitrogen-fixingWatch out: nitrogen-fixing bacteria turn N2 gas into ammonia. Nitrifying bacteria turn ammonium into nitrates. Don't confuse either with ammonification, where saprobionts turn dead matter and waste into ammonium. 2025 P2 Q10.3 · 2019 P3 Q2.1
  • Saprobionts are aerobic; denitrification makes N2Watch out: most saprobionts respire aerobically. Denitrification turns nitrate into nitrogen gas, not ammonia. 2021 P3 Q4.2
  • Eutrophication: photosynthesis, saprobionts, respirationWatch out: say plants die because they can't photosynthesise. Say saprobionts (not just "bacteria" or "decomposers") use oxygen in respiration, so fish can't respire. The nutrients and decomposition products aren't toxic. 2021 P2 Q10.3

Practise with the exam questions below ↓

Exam Question Practice

Roles of bacteria in recycling nitrogen

Read the following passage.

Passage for Question 10

Use the information in the passage and your own knowledge to answer the following questions.

The recycling of nitrogen-containing compounds from dead organic matter sustains the growth of plants (lines 5–7).

Describe the roles of bacteria in this recycling.

(4 marks)

Hint

Start with the nitrogen-containing compounds in dead organic matter. Which bacteria turn them into ammonia, and which turn ammonia into the form plants absorb?

Mark Scheme
  1. Protein/amino acids/DNA into ammonium /ammonia (1 mark)
  2. (By) saprobionts (1 mark)
  3. Ammonium/ammonia into nitrite and (then) into nitrate (1 mark)
  4. (By) nitrifying bacteria/microorganisms (1 mark)
Comments from mark scheme

1. Accept any named nitrogen containing compound e.g. urea
2. Accept saprophytes or saprotrophs
1 and 3. Accept marks for conversion even if incorrect type of bacteria named as being involved
2 and 4. Reject marks for type of bacteria if linked to incorrect process e.g. nitrite converted to nitrate by saprobionts
2 and 4. Accept correctly named species
Ignore nitrogen fixation and denitrification and bacteria involved.

Tips from examiner reports

Tips from the examiner report

  • Name a nitrogen-containing compound in the dead organic matter (e.g. proteins, amino acids, DNA or urea) and say saprobionts convert it into ammonia (ammonium)
  • Get the order right: nitrifying bacteria convert ammonia into nitrite and then into nitrate, not nitrate then nitrite
  • Nitrification is an oxidation, not a reduction
  • Don’t confuse nitrifying bacteria with nitrogen-fixing bacteria; nitrogen fixation and denitrification aren’t needed here

What earned marks

  • Stating that saprobionts decompose dead organic matter
Abiotic factors and nutrient recycling

Read the following passage.

Passage for Question 10

Use the information in the passage and your own knowledge to answer the following questions.

Nutrient recycling occurs rapidly on the ground of tropical rainforests (lines 4–5).

Explain how two abiotic factors in these rainforests enable the rapid rate of recycling.

1 = ________
2 = ________

(2 marks)

Hint

The passage describes moist, warm conditions. For each abiotic factor, explain what it does for the enzymes and microorganisms involved in decomposition.

Mark Scheme

Max 2 marks

  1. (High/optimum) temperature for enzymes/respiration/nitrification/ammonification (1 mark)
  2. Water/moisture for metabolic/enzyme reactions
    OR Water for hydrolysis (1 mark)
  3. (Optimum) pH for enzymes/respiration/nitrification/ammonification (1 mark)
  4. (High) oxygen (concentration) for respiration/nitrification /nitrifying bacteria/ saprobionts (1 mark)
Comments from mark scheme

2. Reject ‘water for photosynthesis’
4. Accept: saprophytes or saprotrophs for saprobionts

Tips from examiner reports

Tips from the examiner report

  • Give two abiotic (non-living) factors, such as temperature, water, pH or oxygen; don’t include a biotic factor
  • Explain each one precisely: a high temperature increases enzyme activity (or respiration, nitrification) rather than just “faster decomposition”
  • Link water to hydrolysis or enzyme reactions, not to denitrification, photosynthesis or the weathering of rocks
Nitrogen cycle in waterlogged soil

Freshwater marshes have one of the highest rates of gross primary production (GPP) and net primary production (NPP) of all ecosystems.

Carbon use efficiency (CUE) is the ratio of NPP:GPP. Freshwater marshes have a high CUE.

Freshwater marsh soils are normally waterlogged. This creates anaerobic conditions.

Use your knowledge of the nitrogen cycle to suggest why these soils contain relatively high concentrations of ammonium compounds and low concentrations of nitrite ions and nitrate ions.

(2 marks)

Hint

Which bacteria turn ammonium into nitrite and nitrate, and what do they need? Which bacteria thrive without oxygen, and what do they do to nitrate?

Mark Scheme

Max 2 marks

  1. Less nitrification
    OR Fewer/less active nitrifying bacteria
    OR Nitrification/nitrifying bacteria require oxygen/aerobic conditions (1 mark)
  2. (Less) oxidation/conversion of ammonium (ions) to nitrite (ions) and to nitrate (ions) (1 mark)
  3. More denitrification
    OR More/more active denitrifying bacteria
    OR Denitrification/denitrifying bacteria do not require oxygen
    OR Denitrification/denitrifying bacteria require anaerobic conditions (1 mark)
  4. (So more) nitrate (ions) reduced/converted to nitrogen (gas) (1 mark)
Comments from mark scheme

2. Order must be nitrite then nitrate
2. Accept ammonia for ammonium ions
2. Accept correct chemical formulae for ions, eg there will be little oxidation/conversion of NH₄⁺ → NO₂⁻ → NO₃⁻
2. Ignore ‘breakdown’ for oxidation/conversion
4. Accept correct chemical formulae eg So more NO₃⁻ reduced/converted to N₂

Tips from examiner reports

Tips from the examiner report

  • Nitrifying bacteria need oxygen, so in anaerobic soil less ammonium is oxidised to nitrite and then nitrate
  • Denitrifying bacteria work in anaerobic conditions, converting nitrate to nitrogen gas (not ammonia)
  • Saprobionts aren’t anaerobic here; use the right part of the nitrogen cycle
Why the soil was sterilised

Water shortage can inhibit crop production. Scientists investigated the effect of the mycorrhizal species Glomus intraradices on the growth of tomato plants under conditions of water shortage and no water shortage.

  • The scientists planted tomato seeds into a large number of pots containing sterilised soil.
  • They added a culture of G. intraradices to 50% of the pots and 50% were left untreated.
  • After the seeds had developed into seedlings (young plants), the seedlings from the untreated and treated pots were planted into four separate large greenhouses (glasshouses).
  • A very limited supply of water (water shortage) was provided to two of the greenhouses. A sufficient supply of water (no water shortage) was provided to the other two greenhouses.
  • After 60 days, the scientists determined the mean mass of tomatoes (kg m⁻²) from each greenhouse.

Greenhouse P – untreated seedlings with water shortage
Greenhouse Q – treated seedlings with water shortage
Greenhouse R – untreated seedlings with no water shortage
Greenhouse S – treated seedlings with no water shortage

Treated seedlings are plants grown with G. intraradices.

The tomato seeds were planted into sterilised soil.

Suggest two reasons why the soil was sterilised.

1 = ________
2 = ________

(2 marks)

Hint

Why sterilise soil before an experiment? What unwanted organisms or factors could affect results?

Mark Scheme

Max 2 marks

  1. Kill/remove/no (other) mycorrhizae/fungi (1 mark)
  2. Kill/remove/no nitrogen-fixing /nitrifying/denitrifying/saprobiotic bacteria (1 mark)
  3. Kill/remove/no pathogens (1 mark)
  4. Kill/remove/no pests (1 mark)
  5. Kill/remove/no competitors (1 mark)
  6. Kill/remove/no seeds/spores (1 mark)
  7. Is a (controlled) variable (1 mark)
Comments from mark scheme

1 to 6. Accept in context of organisms being present if soil not sterilised.
2. Accept saprophytes and saprobionts.
3. Accept removes disease-causing bacteria/viruses /microorganisms.
3. Removes ‘harmful bacteria’ is not enough.
4. Accept named pests.
6. Accept weeds or (other) plants.

Tips from examiner reports

Tips from the examiner report

  • Name the organisms removed: other mycorrhizae or fungi, pathogens, pests, competitors, seeds, or specific bacteria such as nitrogen-fixing bacteria
  • “Harmful bacteria” on its own is too vague
  • Sterilising doesn’t remove nutrients or standardise pH, and it removes pests, not pesticides
Eutrophication and fish deaths

Read the following passage.

Lake Malawi in East Africa has more species of fish than any other lake in the
world. Many of these species have evolved from a common ancestor. Lake
Malawi is one of the largest lakes in the world and was formed several million
years ago. Since then, the water level has fluctuated greatly. As a result,
what is now a large lake was at one time many smaller, separate lakes. (5)

The country of Malawi has a total area of 118 000 km². The actual land area is
only 94 080 km², because approximately one-fifth of the country is Lake
Malawi.

In December 1990, forests covered 41.4% of the actual land area of Malawi.
In December 2016, forests covered 26.4% of the actual land area of Malawi. (10)

Deforestation and farming along the shores of Lake Malawi have caused
increased soil erosion and loss of nutrients into the lake. This has resulted in
a decrease in some fish populations. The mark-release-recapture method can
be used to estimate the size of a fish population. However, this method can
produce unreliable results in very large lakes. (15)

(Numbers in brackets are line numbers.)

Use the information in the passage and your own knowledge to answer the following questions.

Loss of nutrients into Lake Malawi has resulted in a decrease in some fish populations (lines 12–13).

Explain why.

(4 marks)

Hint

Where do the nutrients end up: in the lake or out of it? What grows when a lake gets extra nutrients, and how does that eventually affect the oxygen fish need?

Mark Scheme
  1. (Growth/increase of) algae/surface plants/algal bloom blocks light (1 mark)
  2. Reduced/no photosynthesis so (submerged) plants die (1 mark)
  3. Saprobiotic (microorganisms) aerobically respire
    OR Saprobiotic (microorganisms) use oxygen in respiration (1 mark)
  4. Less oxygen for fish to respire (1 mark)
Comments from mark scheme

3. Accept: Saprobiont/saprophyte/saprotroph
3. Neutral: decomposer

Tips from examiner reports

Tips from the examiner report

  • Read the question: nutrients are lost into the lake from eroded soil, so the lake gains nutrients (eutrophication); half of students explained a loss of nutrients from the lake and scored nothing
  • Algae grow and block light, so submerged plants can’t photosynthesise and die
  • Saprobionts (not just “decomposers”) use oxygen in respiration, leaving less oxygen for fish to respire