Organism
Botrytis cinerea
Grey mould: a broad-host-range fruit rot whose laccase enzyme oxidises phenolics and whose glucans make a juice difficult to clarify.
Also called grey mould.
- Kind
- Mould
- Binomial
- Botrytis cinerea
- Role
- Spoilage
What it does
- Rots fruit in the orchard and in store, entering through wounds and through senescing floral tissue, and spreading readily between touching fruit in damp conditions.
- Secretes laccase, a copper-containing polyphenol oxidase that oxidises a wider range of phenolic substrates than the fruit’s own enzyme and is not inhibited by sulphite, so juice from affected fruit browns in a way sulphiting does not prevent.
- Produces β-glucans that raise juice viscosity and block filters, making affected batches slow and difficult to clarify.
- Degrades pectin and cell walls, softening the fruit and reducing pressing efficiency.
Conditions it works in
What the organism tolerates and what suppresses it. These are the levers a maker actually has: temperature, acidity, air, alcohol and sulphite.
| Condition | What is recorded |
|---|---|
| Temperature | Grows from near 0 °C to about 30 °C, and remains active in cold store. |
| pH | Tolerates fruit acidity throughout. |
| Oxygen | Aerobic; a fruit and orchard organism, not a ferment organism. |
| Sulphite tolerance | The laccase it leaves behind is markedly resistant to sulphite, which is the practical reason the rot matters after the mould itself is gone. |
What it produces
Compounds this organism makes. Which organism made a compound usually decides whether it reads as a feature or as a symptom.
Polyphenol oxidase
The copper enzyme that turns cut apple brown within seconds, and the reason a cidermaker has to decide, at the press, whether to let the juice oxidise or to stop it.
Beta-glucan
The bacterial exopolysaccharide behind ropiness, which turns a cider oily and thread-like without changing how it smells or tastes.
Pectin lyase
The chain-cutting activity in a commercial pectinase preparation, which raises press yield and clears a juice by destroying the colloid pectin creates — and destroys the possibility of keeving in the same stroke.
Total phenolics
The single number used to summarise everything phenolic in a juice, useful for comparing fruit and misleading whenever it is used to predict how a cider will taste.
Faults it causes
Faults this organism is implicated in. Several are faults only against a particular expectation — the same activity is a signature elsewhere.
Oxidation
The cumulative effect of oxygen on finished cider: fruit aroma flattens, colour deepens towards amber, and a bruised-apple or sherry-like character replaces the fresh one.
Enzymatic browning
The rapid darkening of milled fruit and fresh juice as polyphenol oxidase converts phenolics to quinones, taking colour and some tannin structure with it.
Colour loss
A cider left noticeably paler than it should be, usually because fining, filtration or sulphite has removed the phenolic material that gave it colour.
Mould taint
Musty, earthy, cellar-damp or rotten-fruit character carried in from mouldy fruit or from mouldy equipment, and a marker that the patulin question needs asking.
Pectin haze
A persistent, slightly viscous haze that will not settle, caused by pectin from the fruit remaining in solution as a colloid.
Microbial haze
Cloudiness caused by a growing population of spoilage organisms, and therefore a symptom of something worse rather than a clarity problem in itself.
Gushing
Cider that erupts from the bottle on opening, either because it is over-pressurised or because something in it is nucleating the dissolved gas violently.
Patulin contamination
Contamination of juice or cider with patulin, a mycotoxin produced by *Penicillium expansum* in rotting apples — a genuine food-safety question rather than a flavour one.
Where in the process it appears
Fruit sorting
Taking rotten, mouldy and damaged fruit and foreign material out of the crop before it reaches the mill, which is the primary control on patulin in cider.
Fruit storage before milling
Holding a gathered crop between harvest and the mill, and managing what respiration, water loss and spoilage do to it while it waits.
Pest and disease management
Keeping scab, canker, rots and the main insect pests to a level the orchard can carry, at a cosmetic standard well below dessert fruit but without allowing rot into the crop.
Juice clarification
The deliberate use of enzyme, fining agents or mechanical separation to produce a bright juice before fermentation, and what that costs the ferment.
Filtration
Passing cider through a porous medium to reach a stated visual brightness, at a real cost in colloidal material, body and aroma.
Pectinase treatment
Adding pectin-degrading enzyme preparations to juice so that haze-forming and viscosity-forming pectin is broken down before fermentation.
Sulphiting
Adding sulphur dioxide to juice to suppress spoilage organisms and oxidative browning, at a level that only means anything once the juice pH is known.
Patulin control
Managing the mycotoxin produced by rot fungi in damaged apples, which is controlled by fruit selection rather than by any treatment applied to juice.
Sweating the fruit
Deliberately heaping or storing gathered fruit so that it softens, loses water and finishes converting starch before it goes to the mill.
Fruit washing
Removing soil, grass, stones and surface contamination from gathered fruit, usually in a water flume, before it reaches the mill.
Windfall management
Deciding which fruit that has reached the orchard floor can be used, and getting the rest out of the crop before it becomes a patulin problem.
About Botrytis cinerea
Botrytis cinerea is most familiar from wine, where under specific conditions it produces noble rot and some of the world’s most valued sweet wines. Nothing equivalent exists in cider. In apples it is grey mould, an unwelcome rot of damaged and stored fruit that spreads by contact in humid conditions, and there is no cider tradition that seeks it.
Its distinctive contribution is enzymatic. Laccase is a polyphenol oxidase with a broader substrate range than the apple’s own enzyme, and — critically — it is far less inhibited by sulphur dioxide. Juice from botrytised fruit therefore browns and loses colour in ways the maker’s usual sulphiting will not stop, and the oxidation continues after pressing. Where a cider is made in a reductive, pale style this is a serious defect; where it is made oxidatively it matters less.
The second problem is physical. Botrytis glucans are high-molecular-weight polysaccharides that raise viscosity and blind filter media, and a batch made from affected fruit can be disproportionately difficult and expensive to clarify. Both problems are avoided the same way — by not pressing rotted fruit — which is a recurring theme across every mould record in this file.
What people ask next
Questions readers ask about the things this page mentions. Each one goes to the section that answers it rather than to a page written to receive the question.
- How do i clear a cloudy cider
- What is oxidation in cider
- Why is sulphite added to cider — Sulphur dioxide suppresses spoilage bacteria and wild yeast before fermentation and protects the finished cider from oxidation. How much of it is active depends strongly on pH, which is why low-acid juice is harder to protect.
- Do i need a filter to make cider
- How is apple juice clarified before fermentation
- How long can apples be kept before pressing
Where to go next
- All organisms — Grouped by what each does in the ferment, and by what kind of organism it is.
- Compounds — The chemistry this microbiology produces.
- Troubleshooting — Work from the symptom in the glass back to the organism.
Sources
What this page rests on. Where a source is marked as registered rather than read, CiderHQ is recording that the body is authoritative on the subject without claiming to have worked through the document itself. See our evidence policy for what each state means.
Peer-reviewed literature on cider fermentation microbiology
Various journals · peer-reviewed literature · registered as competent for this subject
Covers the microbial succession of spontaneous cider fermentation, the role of non-Saccharomyces yeasts in the early stages, malolactic conversion by Oenococcus and Lactobacillus species, and the organisms behind the principal spoilage faults.
NIAB (incorporating East Malling Research)
NIAB · research institute · retrieved 2026-08-24
East Malling developed the M-series apple rootstocks that determine tree size in essentially every modern orchard, cider orchards included. The authority CiderHQ uses for rootstock behaviour.
The Science of Cidermaking and associated technical writing
Andrew Lea · reference work · passage verified 2026-08-24
Written by a food chemist who worked at Long Ashton on apple phenolics. Unusual among specialist cider writing in that it is primary-research-adjacent: the author is describing work he did, and cites the literature. This is why it is registered at tier 1 for chemistry while a general cider book is not.