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How do I get rid of blue-green algae?

Blue-green algae is actually cyanobacteria β€” a slimy, foul-smelling film. Clear it with a blackout, better flow, and by keeping nitrate from bottoming out.

The short answer

Blue-green algae is a slimy, blue-green to dark-green film that sheets over substrate, plants and glass, peels off in slippery mats, and gives off a distinctive musty, swampy smell. Despite the name it isn’t really algae at all β€” it’s cyanobacteria. To clear it: syphon out what you can, run a 3–4 day blackout, improve water flow, and make sure nitrate isn’t bottoming out. It spreads fast, so act early.

Remove it, then black out the tank

Start by syphoning off as much of the slimy film as you can during a water change β€” it lifts away in sheets. Then run a total blackout: lights off, and cover the tank with towels or a blanket for 3 to 4 days. Cyanobacteria depend on light, and most plants and fish tolerate a short blackout well. After the blackout, do a big water change to remove the die-off.

Fix the conditions that feed it

Blackouts fail if you don’t change what let cyanobacteria take hold in the first place.

  • Improve flow. It thrives in stagnant, low-flow areas, so angle your filter output or add a circulation pump to clear dead spots.
  • Don’t let nitrate hit zero. Counter-intuitively, cyanobacteria often bloom when nitrate is very low. If tests read near zero, ease off big water changes briefly and let plants and fish supply some.
  • Reduce waste build-up. Vacuum mulm from the substrate, don’t overfeed, and keep the photoperiod to 6–8 hours.
Note: because it's a bacterium, ordinary algae eaters won't touch it. Physical removal, blackout and better flow are what actually work β€” see what cyanobacteria is for the full background.

Keep it gone

Once it’s cleared, keep flow strong into every corner, maintain a modest photoperiod on a timer, and vacuum the substrate during weekly water changes so waste doesn’t accumulate. Steady, balanced tank conditions are what stop it returning. For the wider algae picture, read our how to get rid of aquarium algae guide.

Frequently asked questions

Why does blue-green algae smell so bad?

That musty, earthy, swampy odour comes from the fact that it's cyanobacteria, not a true algae β€” it's a bacterial colony that produces distinctive smelly compounds. The smell is one of the easiest ways to tell it apart from ordinary green algae.

Does a blackout really kill blue-green algae?

Yes β€” cyanobacteria need light, so 3–4 days of total darkness (lights off, tank covered) knocks it back hard while most plants and fish cope fine. Pair the blackout with improved flow and stable nitrate or it will simply return.

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