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Why are my seedlings collapsing at soil level?

Recognising damping off, why it cannot be cured once it starts, and the hygiene and watering that prevent it entirely.

Difficulty
beginner
Time
20 min
Read
3 min

Short answer

Seedlings that keel over with a pinched, water-soaked stem at soil level have damping off, a soil-borne fungal problem. There is no cure — remove affected seedlings immediately, improve ventilation, water from below with mains water, and use fresh sterile compost next time.

Damping off spreads through a tray in days, so speed matters. It is almost entirely preventable through hygiene, and almost entirely untreatable once it has taken hold.

What you'll need

  • Fresh seed compost
  • Clean modules or pots
  • Vermiculite (optional)

Step by step

  1. Identify it properly.The stem at soil level goes thin, dark and water-soaked, and the seedling topples with the leaves still green. That is damping off. Seedlings that dry, yellow and shrivel from the top are a different problem.
  2. Remove affected seedlings at once.Take them out with the compost around them and bin them. Do not leave them in the tray hoping they recover; they will not, and they will infect neighbours.
  3. Improve ventilation immediately.Take the propagator lid off, open a window or add a fan. Still, humid air over the compost surface is the condition the fungus needs.
  4. Water from below and let the surface dry.Stand trays in shallow water until the surface darkens, then remove them. A constantly wet surface is where the infection lives.
  5. Use mains water, not a butt.Water butts carry the fungi that cause damping off. For seedlings specifically, use tap water; rainwater is fine for established plants.
  6. Sow thinly.Crowded seedlings hold moisture around each other's stems and stop air moving. Thin sowing prevents more damping off than anything else.
  7. Cover the surface with vermiculite.A fine layer over the compost keeps the stem base drier while still letting water through. It measurably reduces losses.
  8. Use fresh compost and clean containers.Reused compost and unwashed trays carry the spores. Wash pots and modules in hot soapy water, and buy fresh seed compost each year.
  9. Do not overheat.Excessive bottom heat combined with high humidity is the classic combination. Reduce heat once germination has happened.
  10. Resow rather than persist.Once a tray is affected, the remaining seedlings usually go too. Resowing into fresh compost costs a fortnight and saves the effort of nursing a doomed tray.

Tips

  • Green leaves with a collapsed stem is the signature. Yellow shrivelled tops are something else.
  • Tap water for seedlings, rainwater for everything else.
  • A thin layer of vermiculite over the compost surface is a cheap and effective preventative.

Common mistakes

  • Keeping the propagator lid on after germination — The lid holds saturated air over the compost surface, which is exactly what the fungus needs. Ventilate as soon as seedlings emerge.
  • Reusing last year's compost for seed sowing — It carries spores and it is nutritionally exhausted. Fresh seed compost each spring is one of the cheapest insurance policies in gardening.

If it doesn't work

Seedlings toppling with green leaves

Cause: Damping off — Fix: Remove affected ones, ventilate, water from below and let the surface dry.

White fluffy growth on the compost surface

Cause: Saprophytic mould from wet, still conditions — Fix: Often harmless in itself but signals the conditions damping off likes. Ventilate and dry the surface.

Whole tray lost in three days

Cause: Dense sowing and no ventilation — Fix: Resow thinly in fresh compost with a vermiculite topping and immediate ventilation.

Recurs every year in the same greenhouse

Cause: Spores in trays, benching and old compost — Fix: Wash trays and benching with a garden disinfectant, and clear old compost out.

Questions people ask

Can I save seedlings that have started damping off?

No. The affected ones will not recover. What you can do is remove them fast, change the conditions and save the rest of the tray.

Is a fungicide worth using?

Domestic copper-based products offer limited protection at best. Hygiene, ventilation, thin sowing and bottom watering do far more.

Why is water butt water a problem for seedlings?

Butts hold decaying organic matter and the water carries several of the fungi responsible. Mature plants shrug it off; seedlings do not.

Written and maintained by the GuideHQ editorial team. More in Garden.