Biogeochemical Cycles: Carbon, Nitrogen and Water Cycles
Exam notes on biogeochemical cycles: gaseous and sedimentary types, the carbon cycle, the nitrogen cycle step by step with its bacteria, and the water cycle.
By GK24 Editorial Team· Published · 5 min read

A biogeochemical cycle is the path an element takes as it moves from the non-living world into living bodies and back again. The name itself gives the three stages: bio for the organisms, geo for the rock, soil, air and water, and chemical for the changes the element passes through on the way. Matter on earth is fixed in quantity, so nothing can be used once and thrown away; the same carbon atom that is in a leaf today may have been in the air last year and in a limestone bed a million years before that. Energy flows through an ecosystem in one direction and is lost as heat, but nutrients circulate, and that difference is the first thing examiners test in this chapter.
Gaseous and sedimentary cycles
Cycles are of two kinds, by where the element is mainly stored. In a gaseous cycle the reservoir is the atmosphere or the hydrosphere, and the element moves quickly; carbon, nitrogen, oxygen and water follow gaseous cycles. In a sedimentary cycle the reservoir is the crust of the earth, and the element is released only by the slow weathering of rock; phosphorus, sulphur and calcium follow sedimentary cycles. The phosphorus cycle has no gaseous phase at all, which is the most frequently asked single fact here. Each cycle also has a reservoir pool, which is large and slow, and an exchange or cycling pool, which is small and fast.
| Cycle | Type | Main reservoir |
|---|---|---|
| Carbon | Gaseous | Atmosphere and oceans; sedimentary rock over long periods |
| Nitrogen | Gaseous | Atmosphere, about 78 per cent nitrogen |
| Water | Gaseous | Oceans, about 97 per cent of all water |
| Phosphorus | Sedimentary | Rocks, chiefly apatite; no gaseous phase |
| Sulphur | Sedimentary with a gaseous component | Rocks and sediments |
The carbon cycle
Carbon dioxide makes up only about four hundredths of one per cent of the atmosphere by volume, yet all life is built on it. Green plants and algae fix it by photosynthesis into carbohydrate, using sunlight; the equation is six molecules of carbon dioxide and six of water giving one of glucose and six of oxygen. The fixed carbon passes along the food chain to herbivores and carnivores, and every one of them returns some of it to the air by respiration. When plants and animals die, decomposers break their tissues down, releasing carbon dioxide and leaving behind humus, a dark, formless material that resists further microbial attack and decays only very slowly; humus is the long term store of carbon in soil. In water, dissolved carbon dioxide becomes carbonate and bicarbonate and is laid down as the shells of marine organisms, which become limestone. Where organic matter was buried without decay it became coal, petroleum and natural gas. Burning those fuels and clearing forests returns in decades the carbon that took millions of years to lock away, and this is why atmospheric carbon dioxide is rising; the continuous record kept at Mauna Loa since 1958, the Keeling curve, is the standard evidence for it.
The nitrogen cycle
Nitrogen is about seventy-eight per cent of the atmosphere, but the triple bond in the nitrogen molecule makes it useless to plants and animals as a gas. Five steps bring it into life and send it back.
- Nitrogen fixation turns nitrogen gas into ammonia. Biological fixation is done by Rhizobium in the root nodules of legumes, by free living Azotobacter and Clostridium, by cyanobacteria such as Nostoc and Anabaena, and by Frankia in the roots of some non-legumes; the enzyme nitrogenase does the work and is protected from oxygen inside a nodule by leghaemoglobin. Lightning fixes a smaller share by making oxides of nitrogen in the air, and industry fixes a very large share by the Haber process.
- Nitrification is oxidation in two stages: Nitrosomonas and Nitrococcus turn ammonia into nitrite, and Nitrobacter turns nitrite into nitrate. These bacteria are chemoautotrophs.
- Assimilation is the uptake of nitrate, and to a smaller extent ammonium, by plant roots and its use in making amino acids, proteins and nucleic acids.
- Ammonification is the release of ammonia from the proteins of dead bodies and from urea and uric acid, done by decomposing bacteria and fungi.
- Denitrification returns nitrogen to the air; Pseudomonas and Thiobacillus reduce nitrate to nitrogen gas in waterlogged, oxygen-poor soils.
Human interference here is as heavy as in the carbon cycle. Chemical fertiliser and legume cultivation together now fix more nitrogen than all natural processes, and the surplus runs off into lakes and coastal waters, where it causes eutrophication, while nitrous oxide released from soils is a powerful greenhouse gas and oxides of nitrogen from engines give acid rain.
The water cycle
The hydrological cycle is driven by solar energy, which evaporates water, and by gravity, which brings it down and moves it back to the sea. Water leaves the surface by evaporation from oceans, lakes and soil and by transpiration from the leaves of plants, the two together being called evapotranspiration. It condenses around dust particles to form cloud, falls as rain, snow or hail, and then either runs off over the surface, infiltrates and percolates to the water table, or is taken up by roots. About ninety-seven per cent of the world’s water is salt water in the oceans; of the small freshwater remainder, the greater part is frozen in glaciers and polar ice and most of the rest is groundwater, leaving only a thin slice in lakes, rivers, soil moisture and the atmosphere. Because the atmosphere holds so little at any moment, the same water must turn over many times a year, and that rapid turnover is what makes rainfall possible.
What the three cycles have in common
In every cycle there is a reservoir, a process of fixation that brings the element into living matter, a food chain along which it travels, a process of decomposition that frees it again, and a return path to the reservoir. Decomposers are therefore as necessary as producers: without them nutrients would stay locked in dead bodies and the cycles would stop. Human activity has broken into all three cycles in the same way, by moving matter faster than the natural return path can carry it, and the results are a warmer atmosphere, dead zones in coastal seas and falling water tables.
Exam Point of View
Five question types repeat. First, classify a cycle as gaseous or sedimentary, with the phosphorus cycle and its missing gaseous phase as the favourite. Second, match a bacterium to its step: Rhizobium with fixation, Nitrosomonas with nitrite, Nitrobacter with nitrate, Pseudomonas with denitrification; swapping Nitrosomonas and Nitrobacter is the standard trap. Third, the composition of air, where 78, 21 and about 0.04 per cent must be attached correctly to nitrogen, oxygen and carbon dioxide. Fourth, the terms of the water cycle, where transpiration must be told from evaporation and percolation from infiltration and runoff, and the share of water in the oceans, ice and groundwater is asked. Fifth, the consequences of human interference: rising carbon dioxide, eutrophication from fertiliser runoff, nitrous oxide as a greenhouse gas and oxides of nitrogen in acid rain.
Important Facts
| Gaseous cycles | Carbon, nitrogen, oxygen and water; reservoir in atmosphere or hydrosphere |
|---|---|
| Sedimentary cycles | Phosphorus, sulphur and calcium; reservoir in the crust |
| Cycle with no gaseous phase | Phosphorus cycle |
| Nitrogen in air | About 78 per cent by volume |
| Carbon dioxide in air | About 0.04 per cent by volume |
| Symbiotic nitrogen fixer | Rhizobium, in the root nodules of legumes |
| Free living nitrogen fixers | Azotobacter, Clostridium; cyanobacteria Nostoc and Anabaena |
| Nitrogen fixing enzyme | Nitrogenase; leghaemoglobin protects it from oxygen in the nodule |
| Nitrification bacteria | Nitrosomonas and Nitrococcus (to nitrite), Nitrobacter (to nitrate) |
| Denitrifying bacteria | Pseudomonas and Thiobacillus |
| Form absorbed by plants | Nitrate, and to a smaller extent ammonium |
| Industrial nitrogen fixation | Haber process |
| Water in the oceans | About 97 per cent of all water on earth |
| Largest freshwater store | Glaciers and polar ice, followed by groundwater |
| Keeling curve | Continuous record of atmospheric carbon dioxide at Mauna Loa since 1958 |
Practice MCQs on this topic
Identify a dark-coloured amorphous substance that is highly resistant to microbial action and undergoes decomposition at an extremely slow rate.
- A.Chitin
- B.Humus
- C.Carotenoids
- D.Colloids
Show answer
Correct answer: B. Humus
Explanation
The correct answer is B, humus. Humus is the dark, formless material left in soil after decomposers have broken down dead leaves, roots and animal remains; it resists further microbial attack and decays only very slowly, which makes it the long term store of carbon and nutrients in soil and a key step in every biogeochemical cycle. Option A is wrong because chitin is a structural polysaccharide found in the exoskeleton of insects and in fungal walls; it is tough but is a definite compound of living bodies, not an amorphous soil residue. Option C is wrong because carotenoids are orange and yellow plant pigments that help in photosynthesis. Option D is wrong because colloid describes a state of dispersion, not a substance, and humus itself behaves as a soil colloid.
Which of the following biogeochemical cycles has no gaseous phase?
- A.Carbon cycle
- B.Nitrogen cycle
- C.Phosphorus cycle
- D.Oxygen cycle
Show answer
Correct answer: C. Phosphorus cycle
Explanation
The correct answer is C, the phosphorus cycle. Phosphorus has no stable gaseous compound in nature, so its reservoir is rock, chiefly the mineral apatite; it enters the soil only through slow weathering, passes through plants and animals, and returns to sediments, which makes it a purely sedimentary cycle and the slowest of the common cycles. Options A, B and D are wrong because carbon, nitrogen and oxygen all have large atmospheric reservoirs and move as gases, carbon dioxide, nitrogen and oxygen respectively, which is why they are called gaseous cycles. Sulphur is a mixed case, mainly sedimentary but with sulphur dioxide and hydrogen sulphide in the air. Remember the pairing: phosphorus and calcium sedimentary, carbon and nitrogen gaseous. Each cycle also has a large slow reservoir pool and a small fast exchange pool.
Rhizobium fixes atmospheric nitrogen in the root nodules of
- A.Leguminous plants
- B.Cereals such as wheat and rice
- C.Conifers
- D.Mosses
Show answer
Correct answer: A. Leguminous plants
Explanation
The correct answer is A, leguminous plants. Rhizobium is a bacterium that lives in a symbiotic relationship with legumes such as gram, pea, bean, groundnut and arhar, forming nodules on their roots in which it converts nitrogen gas into ammonia using the enzyme nitrogenase; this is why legumes are grown in rotation to restore soil nitrogen. Option B is wrong because cereals form no such nodules and depend on soil nitrate or on fertiliser. Option C is wrong because conifers are not nodulated by Rhizobium, though some non-legumes such as Alnus host a different bacterium, Frankia. Option D is wrong because mosses have no true roots and so no root nodules at all; some do associate loosely with cyanobacteria. Inside the nodule the pink pigment leghaemoglobin keeps oxygen away from nitrogenase, the enzyme that does the fixing.
The conversion of ammonia into nitrite in the soil is carried out by
- A.Nitrobacter
- B.Nitrosomonas
- C.Pseudomonas
- D.Rhizobium
Show answer
Correct answer: B. Nitrosomonas
Explanation
The correct answer is B, Nitrosomonas. Nitrification happens in two stages, and the first is the oxidation of ammonia to nitrite by chemoautotrophic bacteria of the genera Nitrosomonas and Nitrococcus. Option A is wrong because Nitrobacter performs the second stage, oxidising nitrite further to nitrate, the form in which plants mainly absorb nitrogen; questions often swap the two, so the order Nitrosomonas then Nitrobacter is worth memorising. Option C is wrong because Pseudomonas is a denitrifying bacterium that reduces nitrate back to nitrogen gas and so works in the opposite direction. Option D is wrong because Rhizobium fixes atmospheric nitrogen into ammonia inside root nodules, a step that comes before nitrification begins. The order worth memorising is ammonia to nitrite by Nitrosomonas, then nitrite to nitrate by Nitrobacter, and both of these bacteria are chemoautotrophs that take their energy from the oxidation itself.
Denitrification, which returns nitrogen to the atmosphere, is carried out mainly by
- A.Nitrosomonas and Nitrococcus
- B.Azotobacter and Clostridium
- C.Pseudomonas and Thiobacillus
- D.Nostoc and Anabaena
Show answer
Correct answer: C. Pseudomonas and Thiobacillus
Explanation
The correct answer is C, Pseudomonas and Thiobacillus. Denitrification is the reduction of nitrate to nitrogen gas, which escapes to the atmosphere and completes the nitrogen cycle; it is carried out by these bacteria in waterlogged soils where oxygen is scarce, and it is the reason farmers lose nitrogen from flooded fields. Option A is wrong because Nitrosomonas and Nitrococcus oxidise ammonia to nitrite, the first step of nitrification. Option B is wrong because Azotobacter and Clostridium are free living nitrogen fixers, which bring nitrogen in rather than send it out. Option D is wrong because Nostoc and Anabaena are cyanobacteria and also fix nitrogen, Anabaena notably in association with the fern Azolla in rice fields. Denitrification is the only step of the cycle that moves nitrogen out of the soil and back to the air.
Nitrogen constitutes approximately what share of the atmosphere by volume?
- A.21 per cent
- B.78 per cent
- C.0.04 per cent
- D.93 per cent
Show answer
Correct answer: B. 78 per cent
Explanation
The correct answer is B, 78 per cent. Dry air is about seventy-eight per cent nitrogen by volume, which makes the atmosphere the great reservoir of the nitrogen cycle, yet the triple bond of the nitrogen molecule is so strong that plants and animals cannot use the gas directly and depend on fixation. Option A is wrong because twenty-one per cent is the share of oxygen, the second most abundant gas. Option C is wrong because about four hundredths of one per cent is the share of carbon dioxide, small in quantity but decisive for photosynthesis and for the greenhouse effect. Option D is wrong because no single gas forms ninety-three per cent of air; argon, the commonest of the inert gases in air, is well under one per cent.
The enzyme responsible for biological nitrogen fixation is
- A.Nitrogenase
- B.Nitrate reductase
- C.Carbonic anhydrase
- D.Catalase
Show answer
Correct answer: A. Nitrogenase
Explanation
The correct answer is A, nitrogenase. Nitrogenase is the enzyme complex, containing molybdenum and iron, that breaks the triple bond of the nitrogen molecule and joins the atoms with hydrogen to make ammonia; it is destroyed by oxygen, which is why a root nodule keeps leghaemoglobin to mop oxygen up. Option B is wrong because nitrate reductase works later, inside the plant, reducing absorbed nitrate towards ammonia for making amino acids. Option C is wrong because carbonic anhydrase handles carbon dioxide and water in the blood and belongs to the carbon cycle rather than this one. Option D is wrong because catalase breaks hydrogen peroxide into water and oxygen and protects cells from oxidative damage. Nitrogenase needs molybdenum and iron, which is why these two trace elements matter so much to a legume crop.
Lightning contributes to the nitrogen cycle by
- A.Killing denitrifying bacteria
- B.Combining atmospheric nitrogen with oxygen to form oxides of nitrogen
- C.Breaking down humus in the soil
- D.Releasing phosphate from rock
Show answer
Correct answer: B. Combining atmospheric nitrogen with oxygen to form oxides of nitrogen
Explanation
The correct answer is B, combining atmospheric nitrogen with oxygen to form oxides of nitrogen. The very high temperature of a lightning discharge supplies enough energy to break the triple bond of nitrogen, and the atoms join oxygen to give nitric oxide and then nitrogen dioxide, which dissolve in rain as nitrous and nitric acid and reach the soil as nitrate; this is physical or atmospheric fixation, a small share of the total. Option A is wrong because lightning has no such effect on soil bacteria. Option C is wrong because humus is broken down slowly by microbes, not by lightning. Option D is wrong because phosphate is released by the weathering of rock, which belongs to the sedimentary phosphorus cycle and not to the nitrogen cycle at all.
Apart from the oceans, the largest store of water on the earth is
- A.Rivers and lakes
- B.Glaciers and polar ice
- C.Water vapour in the atmosphere
- D.Soil moisture
Show answer
Correct answer: B. Glaciers and polar ice
Explanation
The correct answer is B, glaciers and polar ice. About ninety-seven per cent of the water on earth is salt water in the oceans, and of the small freshwater remainder the greater part is locked up as ice in glaciers and the polar ice sheets, with most of what is left held as groundwater. Option A is wrong because rivers and lakes together hold only a tiny fraction of fresh water, even though they supply most of what people use. Option C is wrong because the atmosphere holds the least of all, a mere trace, which is why it must turn over many times a year to produce the rainfall it does. Option D is wrong because soil moisture is likewise a very small store, important to plants but minute in total volume.
In the water cycle, the loss of water vapour from the aerial parts of plants is called
- A.Evaporation
- B.Transpiration
- C.Condensation
- D.Percolation
Show answer
Correct answer: B. Transpiration
Explanation
The correct answer is B, transpiration. Transpiration is the escape of water vapour from a plant, chiefly through the stomata of the leaves, and over a forest or a crop field it returns a large volume of water to the air; together with evaporation from open surfaces it is called evapotranspiration. Option A is wrong because evaporation is the change of liquid water to vapour from a free surface such as a lake, a sea or wet soil, with no living tissue involved. Option C is wrong because condensation is the reverse change, vapour turning to droplets around dust particles to form cloud. Option D is wrong because percolation is the downward seepage of water through soil and rock to the water table. Transpiration and evaporation taken together over vegetated land are called evapotranspiration.
Carbon dioxide forms about what share of the atmosphere by volume?
- A.About 0.04 per cent
- B.About 4 per cent
- C.About 21 per cent
- D.About 0.9 per cent
Show answer
Correct answer: A. About 0.04 per cent
Explanation
The correct answer is A, about 0.04 per cent. Carbon dioxide is a trace gas, roughly four hundredths of one per cent of dry air by volume, yet it is the source of all the carbon that photosynthesis fixes into food and the chief gas by which human activity is warming the planet. Option B is wrong because four per cent would be a hundred times the real figure; no atmosphere of that composition could support present life comfortably. Option C is wrong because twenty-one per cent is the share of oxygen. Option D is wrong because about nine tenths of one per cent is the share of argon, the commonest inert gas in air. Nitrogen at seventy-eight per cent and oxygen at twenty-one make up almost all of it.
Plants absorb nitrogen from the soil mainly in the form of
- A.Nitrogen gas
- B.Nitrate
- C.Nitrogen dioxide
- D.Urea
Show answer
Correct answer: B. Nitrate
Explanation
The correct answer is B, nitrate. Roots take up nitrogen chiefly as the nitrate ion and to a smaller extent as ammonium; inside the plant the nitrate is reduced and built into amino acids, proteins and nucleic acids. Option A is wrong because the triple bond of nitrogen gas is too strong for a plant to break, which is the whole reason fixation by bacteria, lightning or industry is needed. Option C is wrong because nitrogen dioxide is a pollutant gas of the air that reaches soil only after dissolving in rain as nitrate. Option D is wrong because urea applied as fertiliser must first be hydrolysed to ammonia by the enzyme urease in the soil and then nitrified before most of it is taken up.
Frequently Asked Questions
Why is the phosphorus cycle called a sedimentary cycle?
Because phosphorus forms no stable gas at ordinary temperatures, so there is no atmospheric step in its path. Its reservoir is rock, chiefly the mineral apatite, from which weathering slowly releases phosphate into soil and water. Plants take it up, animals get it from plants, decomposition returns it to the soil, and runoff eventually carries it to the sea bed, where it becomes sediment again. That makes it the slowest of the common cycles.
What are the five steps of the nitrogen cycle?
Fixation, in which nitrogen gas becomes ammonia through bacteria, lightning or industry; nitrification, in which ammonia is oxidised to nitrite by Nitrosomonas and then to nitrate by Nitrobacter; assimilation, in which plants absorb nitrate and build proteins; ammonification, in which decomposers release ammonia from dead matter and excreta; and denitrification, in which Pseudomonas and similar bacteria reduce nitrate back to nitrogen gas.
Why can plants not use the nitrogen in the air directly?
Because the two atoms of a nitrogen molecule are joined by a triple bond, one of the strongest in chemistry, and neither plants nor animals have an enzyme that can break it. Only certain bacteria carry nitrogenase, which can; a very high energy event such as lightning can also break the bond, and industry does it at high temperature and pressure in the Haber process.
What is the difference between evaporation and transpiration?
Evaporation is the physical change of liquid water to vapour from any free surface, such as the sea, a lake or wet soil, and involves no living thing. Transpiration is the loss of water vapour from a living plant, mostly through the stomata of its leaves, and it also draws water up from the roots. Over vegetated land the two are often measured together and called evapotranspiration.
How has human activity disturbed these cycles?
In the carbon cycle, burning coal, oil and gas and clearing forests release in decades carbon that took millions of years to be buried, so atmospheric carbon dioxide rises. In the nitrogen cycle, fertiliser and legume cultivation now fix more nitrogen than nature does; the surplus washes into water and causes eutrophication, while nitrous oxide adds to warming. In the water cycle, groundwater is pumped faster than it recharges.
Sources
- Biology, Class XII, Chapter on Ecosystem — NCERT
- Biology, Class XI, Chapter on Mineral Nutrition — NCERT
- Science, Class IX, Chapter on Natural Resources — NCERT





