Environmental Chemistry III: Water and Soil Chemistry — the Hydrological Cycle and Water as a Solvent, DO, BOD and COD, the Chemistry of Coagulation, Sedimentation and Filtration, pH and Redox Potential, Soil Components and the Nitrogen, Carbon, Phosphorus and Sulphur Cycles, and Pesticides, Heavy Metals and Metalloids

This chapter completes the chemistry of Unit II's middle items. It covers the hydrological cycle and the properties that make water a universal solvent; dissolved oxygen, biochemical and chemical oxygen demand, with the BOD dilution formula and first-order BOD kinetics worked; the chemistry behind coagulation, flocculation, sedimentation and filtration, with Stokes' law; pH, redox potential and the sequence of electron acceptors that governs waterlogged soils and arsenic release; the inorganic and organic components of soils and the chemistry of the nitrogen, carbon, phosphorus and sulphur cycles; and the classification and effects of pesticides and the biochemistry of mercury, cadmium, lead, chromium, arsenic and selenium. The engineering of water treatment returns in Unit VI and the ecology of the cycles in Unit III.

1. The hydrological cycle and water as a universal solvent

The hydrological cycle moves water by evaporation, transpiration, condensation, precipitation, infiltration, percolation and runoff, driven by solar energy and gravity. Most evaporation is from the oceans, and more water evaporates from the sea than falls on it, the surplus being carried over land and returned by rivers and groundwater. Residence times differ enormously: about nine days for water vapour in the atmosphere, weeks for rivers, decades for large lakes, some three thousand years for the oceans and up to many thousands of years for deep groundwater, which is why polluted groundwater recovers so slowly.

Water dissolves more substances than any other common liquid because its molecule is bent and strongly polar and forms hydrogen bonds. Its high dielectric constant, about 78 to 80, weakens the attraction between ions, so ionic salts dissociate; its dipoles hydrate ions and polar molecules. Its other anomalous properties shape the environment too: a high specific heat (4.18 J/g per °C) moderates climate and buffers water bodies against rapid temperature change; a high latent heat of vaporisation moves heat from the tropics towards the poles; and its maximum density at 4 °C means ice floats and lakes freeze from the top, so life survives beneath. The same solvent power means that almost any pollutant released to the environment ends up dissolved in, or carried by, water.

2. Dissolved oxygen, BOD and COD

Dissolved oxygen (DO) is the oxygen dissolved in water, measured by the Winkler iodometric titration (with the azide modification to remove nitrite interference) or by a membrane electrode. Its saturation value is only about 9 mg/L at 20 °C, and most fish need more than about 4 to 5 mg/L, so DO is the single best indicator of the health of a stream. Biochemical oxygen demand (BOD) is the oxygen consumed by micro-organisms while they oxidise the biodegradable organic matter in a sample, measured as the fall in DO over an incubation in the dark, conventionally 5 days at 20 °C (BOD₅); Indian standard methods also use 3 days at 27 °C, which gives a comparable figure in a warmer climate. Because a strong waste would use up all the oxygen in the bottle, the sample is diluted with aerated, seeded dilution water, and BOD = (DOᵢ − DOf) ÷ P, where P is the decimal fraction of sample in the bottle. If 5 mL of wastewater is diluted to 300 mL, P = 5 ÷ 300 = 0.0167; if DO falls from 8.8 to 3.8 mg/L, BOD = 5.0 ÷ 0.0167 = 300 mg/L.

BOD is exerted gradually and is modelled as a first-order reaction: BODt = L₀(1 − e^(−kt)), where L₀ is the ultimate (carbonaceous) BOD and k the rate constant, typically about 0.23 per day (base e) at 20 °C for domestic sewage. Then BOD₅ ÷ L₀ = 1 − e^(−1.15) ≈ 0.68, so about two-thirds of the ultimate demand is exerted in five days; a sewage with L₀ = 300 mg/L has a BOD₅ of about 205 mg/L. After about 8 to 10 days nitrifying bacteria add a second, nitrogenous stage of demand, which is one reason the test is stopped at five days or nitrification is inhibited. Chemical oxygen demand (COD) is the oxygen equivalent of the organic matter oxidised by boiling acid potassium dichromate for two hours, with silver sulphate as catalyst and mercuric sulphate to bind chloride. It takes hours rather than days and oxidises nearly all organics, biodegradable or not, so COD is always greater than or equal to BOD. The BOD/COD ratio indicates biodegradability: around 0.5 or more for domestic sewage, readily treatable biologically; below about 0.3 for many industrial wastes, which need chemical treatment.

⚠️ P is a fraction, not a percentage or a ratio of volumes the wrong way round
In BOD = (DOᵢ − DOf) ÷ P, P is sample volume divided by bottle volume, a number less than one. Dividing by 300 ÷ 5 = 60 instead of by 5 ÷ 300, or by a percentage such as 1.67, gives an answer wrong by a large factor; a quick check is that BOD must be larger than the DO drop whenever the sample was diluted.

3. The chemistry of coagulation, flocculation, sedimentation and filtration

Turbidity in natural water is caused largely by colloidal particles, roughly 1 nm to 1 µm, that carry a negative surface charge. Each is surrounded by an electrical double layer, and the repulsion between like charges, measured by the zeta potential, keeps them apart so that they never settle. Coagulation destabilises them by adding a coagulant, usually alum (aluminium sulphate) or ferric chloride, whose trivalent cations compress the double layer and neutralise the charge; at the doses normally used, the metal hydroxide precipitate also enmeshes particles as it forms, which is sweep flocculation, and long-chain polyelectrolytes add interparticle bridging. With natural alkalinity, Al₂(SO₄)₃·14H₂O + 3Ca(HCO₃)₂ → 2Al(OH)₃ + 3CaSO₄ + 6CO₂ + 14H₂O, so alum consumes alkalinity, about 0.5 mg/L as CaCO₃ for each mg/L of alum, and lowers pH; lime or soda ash is added when the water is soft. The optimum dose and pH are found by a jar test. Flocculation follows: slow, gentle mixing lets the destabilised particles collide and grow into settleable flocs.

Sedimentation removes the flocs by gravity. A discrete particle settles at a terminal velocity given by Stokes' law, vs = g(ρp − ρw)d² ÷ 18µ, so settling depends on the square of diameter: doubling the size quadruples the speed, which is why coagulation, by making particles bigger, makes them settle. A sand grain of 20 µm and density 2,650 kg/m³ in water at 20 °C (µ ≈ 1.0 × 10⁻³ Pa s) settles at 9.81 × 1650 × (2 × 10⁻⁵)² ÷ (18 × 10⁻³) ≈ 3.6 × 10⁻⁴ m/s, about 0.36 mm/s. Filtration then removes what remains. Slow sand filters work at low rates with a biological layer, the schmutzdecke, that forms on the sand surface and removes pathogens; rapid sand filters work many times faster, rely on physical straining and adsorption within the bed after coagulation, and are cleaned by backwashing.

4. pH and redox potential

pH, the negative logarithm of hydrogen-ion activity, controls the solubility of metals (most are more soluble in acid), the speciation of ammonia (toxic un-ionised NH₃ rises with pH), the effectiveness of chlorination and the carbonate equilibria. The redox potential, Eh, measured in volts against the standard hydrogen electrode, expresses the tendency of an environment to accept or donate electrons. It follows the Nernst equation, Eh = E° − (0.0592 ÷ n) log Q at 25 °C, and is sometimes written as pe = Eh ÷ 0.0592. A well-aerated surface water is oxidising, with Eh around +0.4 to +0.6 V; waterlogged soils, sediments and landfills are reducing, with Eh that can fall below −0.2 V. Eh-pH (Pourbaix) diagrams show which form of an element, iron for example, is stable under each combination.

Order as oxygen runs outElectron acceptor → productConsequence
1O₂ → H₂O (aerobic respiration)Most energy yield; oxidising conditions
2NO₃⁻ → N₂, N₂O (denitrification)Loss of fertiliser nitrogen; nitrous oxide emission
3Mn(IV) → Mn²⁺Manganese becomes soluble
4Fe(III) → Fe²⁺Iron dissolves, releasing adsorbed phosphate and arsenic
5SO₄²⁻ → H₂S (sulphate reduction)Rotten-egg smell; metal sulphides precipitate; mercury is methylated
6CO₂ → CH₄ (methanogenesis)Methane from paddy fields, wetlands and landfills

The ladder explains one of the most serious water-quality problems of the Indian subcontinent. In the young deltaic aquifers of the Bengal basin, organic matter drives the groundwater down the ladder until iron(III) oxyhydroxides, onto which naturally occurring arsenic is adsorbed, are reductively dissolved, releasing arsenic into wells. Arsenic enrichment is therefore associated with reducing, iron-rich groundwater rather than with any single industrial source.

5. Soil components and the chemistry of the nitrogen, carbon, phosphorus and sulphur cycles

A typical mineral soil is roughly half solids and half pore space shared between water and air; of the solids most is mineral and a few per cent organic. The inorganic fraction consists of primary minerals such as quartz and feldspars inherited from rock and secondary minerals, above all the clays and the oxides of iron and aluminium, formed by weathering; clays and humus carry the negative charge that gives soil its cation exchange capacity. The organic fraction ranges from fresh residues to humus, a dark, resistant mixture conventionally separated by solubility into fulvic acid (soluble in acid and alkali), humic acid (soluble in alkali only) and humin (insoluble). Soil organic matter is about 58% carbon, which is why organic carbon is multiplied by the van Bemmelen factor of 1.724 to estimate organic matter. Humus binds metals and pesticides, holds water and nutrients and stabilises soil structure.

CycleKey chemical transformationsEnvironmental issue
NitrogenFixation of N₂ to NH₃ by nitrogenase (Rhizobium, Azotobacter, cyanobacteria) and industrially by the Haber-Bosch process; ammonification of organic N; nitrification NH₄⁺ → NO₂⁻ (Nitrosomonas) → NO₃⁻ (Nitrobacter); denitrification NO₃⁻ → N₂O → N₂; anammoxNitrate in groundwater, eutrophication, N₂O as a greenhouse and ozone-depleting gas
CarbonPhotosynthesis and respiration; dissolution in the ocean through the carbonate system; burial as carbonate rock and fossil fuel; methanogenesisRising atmospheric CO₂ and CH₄, ocean acidification
PhosphorusWeathering of apatite; uptake and mineralisation; fixation by Fe, Al and Ca in soil; sedimentation; no significant gaseous phaseOften the nutrient limiting algal growth in fresh water, so phosphate drives eutrophication
SulphurOxidation of sulphide to sulphate (Thiobacillus); reduction of sulphate to H₂S (Desulfovibrio); dimethyl sulphide from marine algae; volcanic and fossil-fuel SO₂Acid rain, acid mine drainage, H₂S in sewers
🧠 Nitrosomonas before Nitrobacter
Alphabetically and chemically, "Nitros-" comes first: Nitrosomonas makes nitrite from ammonium, and Nitrobacter makes nitrate from nitrite. Rhizobium fixes nitrogen and Pseudomonas is the classic denitrifier; neither nitrifies.

6. Pesticides, and the biochemistry of heavy metals and metalloids

Pesticide classExamplesMode of action and behaviour
OrganochlorinesDDT, lindane, endosulfan, aldrin, dieldrinDisrupt nerve sodium channels or GABA receptors; very persistent and fat-soluble, so they bioaccumulate and biomagnify; DDE causes eggshell thinning in birds
OrganophosphatesMalathion, parathion, chlorpyrifos, monocrotophosInhibit acetylcholinesterase irreversibly; far less persistent but acutely toxic to people
CarbamatesCarbaryl, carbofuran, aldicarbInhibit acetylcholinesterase reversibly; methyl isocyanate, the Bhopal gas, was an intermediate in carbaryl manufacture
Synthetic pyrethroids and neonicotinoidsCypermethrin, deltamethrin; imidaclopridPyrethroids keep sodium channels open; neonicotinoids act on nicotinic acetylcholine receptors and are implicated in harm to bees
Herbicides and fungicides2,4-D, glyphosate, paraquat, atrazine; mancozeb, copper compoundsPlant hormone mimics, enzyme inhibitors and cell poisons; atrazine is a common groundwater contaminant

Pesticides are also classified by hazard. The WHO classes run from Ia (extremely hazardous) and Ib (highly hazardous) through II (moderately) and III (slightly) to U (unlikely to present acute hazard). In India the Insecticides Rules 1971 require a coloured triangle on the label: red for extremely toxic, yellow for highly toxic, blue for moderately toxic and green for slightly toxic. Rachel Carson's Silent Spring (1962), on the effects of DDT on birds, began the modern environmental movement.

ElementBiochemical actionHealth effect and classic case
Mercury (Hg)Methylated by sulphate-reducing bacteria in sediments; methylmercury binds thiol groups, crosses the blood-brain barrier and the placenta, and biomagnifies in fishNeurotoxicity: tremor, sensory loss, ataxia, congenital damage; Minamata disease, Japan
Cadmium (Cd)Displaces zinc in enzymes; binds metallothionein and accumulates in the kidney with a biological half-life of decadesKidney damage and bone softening; itai-itai disease along the Jinzu river, Toyama, Japan, from mine waste in irrigation water
Lead (Pb)Inhibits δ-aminolaevulinic acid dehydratase and ferrochelatase in haem synthesis; stored in boneAnaemia, nerve and kidney damage, lowered intelligence in children, with no known safe level; leaded petrol was phased out in India by 2000
Chromium (Cr)Cr(VI) enters cells as chromate and is reduced inside, damaging DNA; Cr(III) enters poorlyCr(VI) is a lung carcinogen and causes skin ulcers; sources are tanneries, chrome plating and chromite waste, and treatment reduces Cr(VI) to Cr(III)
Arsenic (As)As(III) binds thiol groups and inhibits enzymes such as pyruvate dehydrogenase; As(V) mimics phosphate and disrupts ATP formationArsenicosis: pigmentation, keratosis of palms and soles, and cancers of skin, lung and bladder, from groundwater in the Bengal basin
Selenium (Se)Essential in glutathione peroxidase, with a narrow range between deficiency and toxicitySelenosis: loss of hair and nails; seleniferous soils in parts of Punjab; deformities in waterbirds at Kesterson reservoir, California, from drainage water

Key takeaways

  • Water's polarity, hydrogen bonding and high dielectric constant make it a universal solvent; residence times run from days in the atmosphere to millennia in deep groundwater.
  • BOD = (DOᵢ − DOf) ÷ P, with P the decimal fraction of sample; BODt = L₀(1 − e^(−kt)) gives about 68% of L₀ in five days at k = 0.23 per day; COD is always at least BOD, and BOD/COD indicates biodegradability.
  • Coagulants neutralise the negative charge of colloids and form flocs that settle by Stokes' law, vs ∝ d²; alum consumes about 0.5 mg/L of alkalinity per mg/L.
  • As oxygen is used up, microbes use nitrate, Mn(IV), Fe(III), sulphate and finally CO₂; reductive dissolution of iron oxides releases arsenic to groundwater.
  • Organochlorines persist and biomagnify while organophosphates and carbamates inhibit acetylcholinesterase; mercury, cadmium, lead, chromium(VI), arsenic and excess selenium each have a characteristic biochemical target and disease.

Practice questions (10)

Attempt each one before opening the answer. Every explanation names the tempting wrong option as well as the right one, because that is where marks are lost.

  1. In a BOD test, 5 mL of wastewater is diluted to 300 mL. The initial DO is 8.8 mg/L and the DO after five days is 3.8 mg/L. What is the BOD₅ of the wastewater in mg/L?

    Numerical answer — type the value.

    Show answer

    Answer: 300

    P = 5 ÷ 300 = 0.01667, and BOD = (8.8 − 3.8) ÷ 0.01667 = 5.0 × 60 = 300 mg/L. Reporting the DO drop of 5 mg/L forgets the dilution, and dividing by 60 instead of multiplying gives 0.08 mg/L.
  2. Why is the COD of a wastewater normally higher than its BOD?

    1. Dichromate oxidises organic matter that micro-organisms cannot degrade, as well as the biodegradable part
    2. Micro-organisms produce oxygen during the BOD test
    3. COD measures dissolved oxygen, while BOD measures carbon dioxide
    4. The COD test runs for longer than the BOD test
    Show answer

    Answer: A — Dichromate oxidises organic matter that micro-organisms cannot degrade, as well as the biodegradable part

    Boiling acid dichromate oxidises almost all organic compounds, including resistant ones, while BOD counts only what microbes can use in five days, and part of that goes into new cells. The COD test takes about two hours, far shorter than five days.
  3. A sewage has an ultimate carbonaceous BOD (L₀) of 300 mg/L and a BOD rate constant of 0.23 per day (base e). Its BOD₅ is closest to

    1. 300 mg/L
    2. 150 mg/L
    3. 95 mg/L
    4. 205 mg/L
    Show answer

    Answer: D — 205 mg/L

    BOD₅ = L₀(1 − e^(−0.23 × 5)) = 300 × (1 − e^(−1.15)) = 300 × (1 − 0.317) = 300 × 0.683 ≈ 205 mg/L. 95 mg/L is the demand still remaining after five days (300 × 0.317), and 300 mg/L would need infinite time.
  4. Which organisms carry out nitrification? Select all that apply.

    1. Nitrosomonas
    2. Rhizobium
    3. Pseudomonas denitrificans
    4. Nitrobacter
    Show answer

    Answer: A — Nitrosomonas; D — Nitrobacter

    Nitrosomonas oxidises ammonium to nitrite and Nitrobacter oxidises nitrite to nitrate. Rhizobium fixes atmospheric nitrogen in root nodules, and Pseudomonas denitrificans reduces nitrate to nitrogen gas, the reverse direction.
  5. In a sediment where oxygen, nitrate, manganese(IV), iron(III) and sulphate have all been used up as electron acceptors, the next process to occur is

    1. denitrification to nitrogen gas
    2. nitrification of ammonium
    3. aerobic respiration
    4. methanogenesis, reducing CO₂ or acetate to methane
    Show answer

    Answer: D — methanogenesis, reducing CO₂ or acetate to methane

    Methanogenesis is the last rung of the redox ladder, occurring only when all better electron acceptors are exhausted, as in paddy soils, deep wetland sediments and landfills. Denitrification comes much earlier, and aerobic respiration and nitrification need oxygen.
  6. Assertion (A): High arsenic concentrations in the groundwater of the Bengal basin are associated with reducing, iron-rich conditions. Reason (R): Iron(III) oxyhydroxides that carry adsorbed arsenic dissolve when they are reduced. Choose the correct option.

    1. Both A and R are true, and R is the correct explanation of A
    2. Both A and R are true, but R is not the correct explanation of A
    3. A is true, but R is false
    4. A is false, but R is true
    Show answer

    Answer: A — Both A and R are true, and R is the correct explanation of A

    Both are true and R explains A. Organic matter drives the aquifer down the redox ladder to iron reduction, the oxyhydroxide hosts dissolve, and the arsenic adsorbed on them enters solution, which is why arsenic-rich wells are typically also high in dissolved iron.
  7. Itai-itai disease, with kidney damage and painful bone softening, was caused by chronic exposure to

    1. lead
    2. methylmercury
    3. cadmium
    4. arsenic
    Show answer

    Answer: C — cadmium

    Itai-itai disease occurred along the Jinzu river in Toyama, Japan, where cadmium from mine waste entered rice through irrigation water. Methylmercury caused Minamata disease, and lead and arsenic have their own characteristic effects on blood, nerves and skin.
  8. Which statements about organophosphate pesticides are correct? Select all that apply.

    1. They inhibit the enzyme acetylcholinesterase
    2. They are much less persistent in the environment than organochlorines
    3. Malathion and chlorpyrifos belong to this class
    4. They biomagnify through food chains as strongly as DDT
    Show answer

    Answer: A — They inhibit the enzyme acetylcholinesterase; B — They are much less persistent in the environment than organochlorines; C — Malathion and chlorpyrifos belong to this class

    Organophosphates block acetylcholinesterase, so acetylcholine accumulates at nerve endings, and they break down in days to weeks, which is why they replaced organochlorines despite greater acute toxicity. Strong biomagnification is the mark of persistent, fat-soluble organochlorines such as DDT.
  9. Using Stokes' law, find the settling velocity in mm/s of a discrete sand particle of diameter 20 µm and density 2,650 kg/m³ in water of density 1,000 kg/m³ and viscosity 1.0 × 10⁻³ Pa s, with g = 9.81 m/s². Give the answer to two decimal places.

    Numerical answer — type the value.

    Show answer

    Answer: 0.36

    vs = g(ρp − ρw)d² ÷ 18µ = 9.81 × 1650 × (2 × 10⁻⁵)² ÷ (18 × 10⁻³) = 9.81 × 1650 × 4 × 10⁻¹⁰ ÷ 0.018 = 3.6 × 10⁻⁴ m/s, which is 0.36 mm/s. Forgetting to square the diameter, or using 20 × 10⁻⁶ m without squaring, gives a wildly different answer.
  10. On a pesticide container sold in India, a red triangle on the label indicates that the product is

    1. slightly toxic
    2. highly toxic
    3. moderately toxic
    4. extremely toxic
    Show answer

    Answer: D — extremely toxic

    Under the Insecticides Rules 1971 the colour code runs red (extremely toxic), yellow (highly toxic), blue (moderately toxic) and green (slightly toxic). It parallels, but is not identical to, the WHO hazard classes Ia to U.