Problems with Your Seedlings? Here’s What to Do!


Most of the time, if you sow seeds and give them reasonable growing conditions, you’ll end up with quite decent results. On the other hand, when things go wrong, they usually do so very quickly, so always keep a close eye on your seedlings, ready to give them a helping hand at a moment’s notice.

Here are some situations you may encounter with young seedlings along with an explanation of what to do to help them recover.

Poor or no germination.Seeds unviable or of poor quality; poor growing conditions; soil allowed to fully dry outBuy fresh seeds; improve conditions; keep soil evenly moist during whole germination process
Seedlings wilt, soil dryLack of waterWater gently, but deeply; if seedlings recover, keep soil moist in the future; if not, resow
Seedlings wilt, pinched at the baseDamping off (fungal disease)Use fresh seedling mix; avoid soil from garden for indoor sowing; improve ventilation
Indoor seedlings leggy and pale greenLack of lightGive seedlings better light: sunny window or artificial lighting
Indoor seedlings leggy and dark greenToo hotReduce night temperature
Small black flies presentFungus gnatsRarely cause much damage, but can carry diseases. Allowing soil to dry a little longer between waterings will kill larvae
Outdoor seedlings cut off at the baseCutwormsInsert tin can with bottom removed around unaffected seedlings to serve as a barrier; harvest cutworm by hand (will be hiding in the ground at the base of its victims)
Leaves eaten on seedlings outdoorsVarious insects, slugs, etc.Hand pick slugs or apply slug bait; treat insects with insecticidal soap. Sometimes you have to resow
Seedlings blackened after a cold nightFrost damageResow

Keeping Fungus Gnats Under Control


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Fungus gnats: often more annoying than really harmful. Source: &

You’re sitting quietly in your living room and, suddenly, a tiny black fly zigzags in front of your face. You chase it off with a wave of the hand. Attracted by the CO2 in your breath, it soon comes back. You manage to squash it this time, but soon another one appears.

What is this insect? And where does it come from?

Many people mistake this tiny pest for a fruit fly (Drosophila spp.), and it is about the right size, but this particular little creature has no interest in fruits. Instead, it seems mostly to hang out around your firewood or your houseplants … that is, when it’s not flitting about your face.

The pest in question is a fungus gnat, a fly in the Sciaridae family of which there are some 20,000 species worldwide. Most of those that infest our houseplants are in the genera Scatella, Bradysia, Orfelia and Sciara, a rather useless bit of information, because it’s unlikely you’ll ever know the name of the exact species that shows up in your home.

A Family Portrait

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You’d need a magnifying lens to see this much detail on such a tiny insect as a fungus gnat. Source: Luis Miguel Bugallo Sánchez, Wikimedia Commons

The adult fungus gnat is a very small fly, rarely more than 4 mm in length, and usually black with transparent or grayish wings. You’ll often find several of them in the vicinity of a pile of firewood or around houseplants, but it also roams all over the house and, as mentioned, seems particularly interested in the air you breathe out.

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Fungus gnat larvae. Source:

The larva, which resembles a whitish, translucent, black-headed worm about 5 mm long, needs moisture to survive and will be found in some sort of moist organic medium, such as damp bark or potting soil.

How do fungus gnats get into your house? Well, adults may not be the world’s greatest flyers, but they can certainly be blown indoors or travel in on a pet or clinging to someone’s clothes. And it only takes one fertilized female to start a new horde!

That’s not the most common method, though. Most of the time, you (and yes, I’m pointing my finger in your direction!) brought eggs into the house by accident, either on firewood or when you bought a new houseplant or a bag of contaminated potting soil.

Most gardeners assume potting soils and seed starting mixes have been sterilized, but in fact, that’s almost never the case. Potting soil manufacturers instead use ingredients that are unlikely to harbor pests, but that do include some beneficial organisms: organic ingredients like peat, chopped bark and coir. They don’t want to sterilize their blends, as that would kill the beneficials. However, even if the potting mix is shipped out sans fungus gnat eggs, that doesn’t mean it will stay free of them.

When the bags of soil make it to the retail store, they often sit there for months and any tiny hole in the bag, even one no larger than a pin prick, is enough for female fungus gnats to lay their eggs in. Since garden centers inevitably host at least a small population of fungus gnats (they’re pretty much ubiquitous in humid environments), it’s not at all rare to bring home a potting or seed-starting mix already contaminated with fungus gnat eggs.

Good News, Bad News

The good news is that fungi are usually quite harmless.

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Adult fungus gnat. Source:

Other than annoying humans by their mere presence (who wants to see Aunt Mathilda swatting at gnats when she’s over for a visit?), adult fungus gnats cause no damage. Yes, they have mouth parts, but they neither bite nor sting. In fact, many even make themselves useful by pollinating flowers!

Even the larvae are usually not very harmful to plants. They mostly consume decaying plant matter they find in the soil mix as well as small fungi and algae. They’re especially attracted to the types of fungus found growing in overly moist soil. And here too, they can make themselves useful, because by digesting these products, they produce mineral-rich droppings plants can feed on.

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Some species of fungus gnat will attack plant roots if there is little else to eat. Source: Clipart Library &

On the other hand, especially when there is nothing else to eat, the larvae of some species (but not all) do attack plant roots. On a healthy plant, this is rarely very harmful, however. To start with, most houseplants produce more roots than they really need and in fact, a bit of fungus gnat pruning often stimulates the plant to develop a denser and more efficient root system! Plus, fungus gnats generally prefer dead or dying roots to live ones, especially tending to feed on roots that have been immersed in water too long and have started to rot. A mature plant has to be in pretty bad shape for fungus gnats to do any major damage.

Their effect on seedlings, on the other hand, can be much more serious. Young plants have very limited root systems and rather weak ones at that. In addition, adult flies can carry spores of harmful fungi, such as the dreaded seedling disease known as damping off. Plus, the small wounds fungus gnat larvae leave can serve as an open door for rot to set in. So, you really don’t want them chomping on the roots of your seedlings.

That’s why, even if the fungus gnats are not always very harmful, eliminating them is still the best policy … and if you discover they’ve found your seed trays, you need to get rid of them as soon as possible.

Know Thine Enemy

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Source: Knock-Out Gnats Granules

Indoors, fungus gnats can be present in any season and produce several to many generations a year. Although the adult seldom lives longer than 8 days, the female still has time to lay about 50 to 200 tiny eggs in moist potting soil or organic debris, preferably in the presence of fungi (it’s not for nothing they’re called fungus gnats: the odor of fungus attracts them). The eggs hatch in about 5 days and the larvae then feed for another 14 days. Next they pupate for 5 days. Following that, the adults emerge and the cycle begins again. The entire process takes about a month under normal indoor conditions, but can take place in as few as 17 days in a hot, humid greenhouse.

How to Control Fungus Gnats

Reduce Your Watering


Letting the potting mix dry out before you water can sometimes eliminate fungus gnats entirely. Source:

The first key to success in controlling fungus gnats in indoor plants is to understand that they absolutely need constantly moist potting soil during their larval stage. If you make a habit of letting your plants dry out a little longer, this will often solve the problem completely. In fact, many experts consider fungus gnats more a symptom of overwatering than a problem in itself.

Try applying the golden rule of watering. That is, water deeply, enough to moisten the entire root ball, then allow the soil to dry before watering again. Many gardeners discover that careful watering keeps fungus gnats fully under control.

Don’t be discouraged if this doesn’t seem to work at first: it takes at least a month to before the treatment will have reached all the stages of the insect’s life cycle.

A Barrier Between Soil and Air

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By covering the soil with sand or small stones (here: Growstone Gnat Nix top dressing, made from recycled glass), you can eliminate fungus gnats. Source: Growstone Gnat Nix

Another possibility is to make the surface soil unfit for fungus gnat larvae. Larvae live near the surface of the soil, no more than 1 ¼ inch (3 cm) deep, as they have to regularly move to the surface to breathe. Plus, they need moist, organic soil to live in. If you cover the soil with a ½ inch (1 cm) layer of sand or pebbles (there are even commercial products especially developed for this purpose, such as Gnat Nix), the larvae will no longer be able to live there … and besides, adults won’t be able to lay their eggs on such a dry medium either.

Trap the Adults


Light traps catch all flying indoor insects. Source:

To control adults, you can try setting out yellow sticky traps or, better yet, a light trap. I find the latter works like a charm!

Bring Out the Insecticides

It is also possible to drench the soil with an insecticide. Might I suggest one with few adverse effects on the environment, such as insecticidal soap or neem oil? It is also possible to make the soil less attractive to larvae by mixing diatomaceous earth or cinnamon powder into it.

Predators to the Rescue

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Knock-Out-Gnats brand Bti. Source:

The biological larvicide Bti* (Bacillus thuringensis israelensis), a bacterium usually used to manage mosquitoes, will help control fungus gnat larvae as well. Make a solution and use it to drench the potting soil. There are even formulations developed specifically for this purpose, such as Knock-Out-Gnats and Gnatrol, two professional products you can find on the Internet. You can also take MosquitoDunk type pellets, likely available locally, and crush them into powder to make a solution.

*Do not use Btk (Bacillus thuringensis kurstaki), designed for use on butterfly larvae, on fungus gnats. You need Bti, specific to Diptera larvae (flies).

Bti will only be effective when larvae are present in the soil. It has no effect against adults, eggs or pupae. Larvae, though, quickly consume the bacteria and die within 24 hours. It will likely be necessary to repeat the Bti treatment weekly for 3 or 4 weeks in order to eliminate all the pests as they cycle through the various stages of their life.

There are also other predators you can use to control fungus gnats, including beneficial nematodes like Steinernema feltiae or predatory mites like Hypoaspis miles. You can order these predators on the Internet.

Fungus gnats: often more annoying than really harmful and fairly easy to eliminate as well. Don’t lose too much sleep over them!20180111B Luis Miguel Bugallo Sánchez, WC

Fungus Gnats Hate Dry Soil!


20150114Fungus gnats, often mistakenly called black flies or fruit flies, are small flies that live mostly, along with their lookalike cousins, the shore flies, in our gardens, but are most noticeable when they move indoors when they take up residence in our houseplants and seed trays. Tiny as they are, their habit of flitting around the house and flying into the faces of your guests (humans exhale carbon dioxide and this attracts them) can be rather embarrassing.

In actual fact, fungus gnats and shore flies rarely do much damage to plants. The adults don’t feed on plants at all while their larvae, which look like small white worms with a darker head that live in the top layer of potting mix, feed mainly on soil particles, fungus and algae. They can however sometimes damage the fine roots of very young seedlings.

The most obvious fungus gnat control is simply to let the soil dry out a bit more between waterings, to a depth of an inch or so (2,5 à 3 cm): the larvae simply can not survive in a dry environment. You can also try top-dressing the soil with Gnat Nix, a recycled glass material that looks a bit like perlite. It creates a physical barrier that keeps the adults from being able to lay their eggs in the potting mix below.

However, you have to be patient at first. Even if you kill the larvae by letting the soil dry out a little more or prevent the adults from laying new eggs with Gnat Nix, that doesn’t eliminate the adults gnats right away and you may still see them flitting about for a week or so. However, without no younger generation to replace the adults, you will soon be able to invite guests over again… and all that, without having had to use any toxic pesticide!