Septoria Leaf Canker – Information On Controlling Septoria Leaf Spot On Tomatoes

Septoria Leaf Canker – Information On Controlling Septoria Leaf Spot On Tomatoes

By: Bonnie L. Grant, Certified Urban Agriculturist

Septoria leaf canker primarily affects tomato plants and members of its family. Septoria leaf blotch or canker may occur at any phase of the plant’s development and is easy to recognize and distinguish from other leaf disorders. Wet conditions deposit the fungus Septoria on tomato leaves and warm temperatures cause it to bloom.

Identifying Septoria Leaf Canker

Septoria on tomato leaves manifests as water spots that are 1/16 to 1/4 inch (0.15-0.5 cm.) wide. As the spots mature, they have brown edges and lighter tan centers and become septoria leaf cankers. A magnifying glass would confirm the presence of small black fruiting bodies in the center of the spots. These fruiting bodies will ripen and explode and spread more fungal spores. The disease doesn’t leave marks on the stems or fruit but does spread upward to younger foliage.

Septoria leaf blotch or spot causes tomato plants to decline in vigor. The septoria leaf cankers cause so much stress to the leaves that they fall off. The lack of foliage will diminish the health of the tomato as it reduces the ability to gather solar energy. The disease progresses up the stems and causes all the leaves it infects to wither and die.

Septoria on Tomato Leaves and Other Solanaceous Plants

Septoria is not a fungus that lives in soil but on plant material. The fungus is also found on other plants in the nightshade family or Solanaceae. Jimsonweed is a common plant also called Datura. Horsenettle, ground cherry and black nightshade are all in the same family as tomatoes, and the fungus can be found on their leaves, seeds or even rhizomes.

Controlling Septoria Leaf Spot

Septoria is caused by a fungus, Septoria lycopersici, which overwinters in old tomato debris and on wild Solanaceous plants. The fungus is spread by wind and rain, and flourishes in temperatures of 60 to 80 F. (16-27 C.). Controlling septoria leaf spot starts with good garden hygiene. Old plant material needs to be cleaned up, and it’s best to plant tomatoes in a new location in the garden every year. One-year rotations of tomato plants have been shown to be effective in preventing the disease.

Treating septoria leaf spot disease after it appears is achieved with fungicides. The chemicals need to be applied on a seven- to ten-day schedule to be effective. Spraying begins after blossom drop when the first fruits are visible. The most commonly used chemicals are maneb and chlorothalonil, but there are other options available to the home gardener. Potassium bicarbonate, ziram and copper products are a few other sprays useful against the fungus. Consult the label carefully for instructions on rate and method of application.

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Septoria, a leaf spot fungus destroying harvests – learn to destroy it instead!

Septoria is a species of fungus that infects vegetables, trees and ornamental plants. In some cases damage is insignificant, in others there’s no hope.

Key Septoria facts

NameSeptoria species
Common names – leaf spot
Typeleaf spot fungus

Season – spring until fall
Target plantsSolanaceae (nightshade family, like tomato & potato) & others (all septoria host plants here)
Infected plant parts – leaves & stems

Main Septoria spot identification

  • numerous round spots
  • red-yellow-purple rim
  • swollen rim
  • brown or black center
  • tiny black pinheads on underside of spots

Learn to treat against Septoria and protect plants and vegetables from it.

Septoria: The Basics

Septoria leaf spot is a catchall term applied to diseases caused by fungi in the genus Septoria. Thirty-odd species have been formally identified, and each tends to infect a relatively well-defined group of plants or trees.

For example, Septoria dianthi primarily infects carnations, Septoria lactucae is chiefly a pathogen of lettuces, and Septoria pistachiae usually infects pistachios. But at least one species – Septoria musiva – attacks poplar trees of the genus Populus.

The lifecycle and method by which the fungus spreads varies slightly from one species to the next. However, most are spread when the wind blows spores from an infected plant or tree to one that is not yet infected. Grafting may also allow the fungus to spread, and it is possible – though not yet confirmed – that seeds can become contaminated with the fungus too.

The leaves of a plant or tree are typically the first location that becomes infected, with those closest to the ground usually being the first target. Over time, the infection often spreads upward, eventually involving most or all of the affected organism.

Like many other fungi, Septoria species tend to thrive best in warm, relatively wet conditions. These fungi usually overwinter in the ground, but they can also remain on tools. This helps illustrate the importance of cleaning all shears, saws, and other gardening or tree-care implements regularly.

MSU Extension

Tomato gardeners should learn the symptoms of Septoria leaf spot and try these tips for stopping its spread.

Editor's note: Tomatoes are susceptible to several diseases in the summer. To help you identify whether your tomatoes are infected with Septoria leaf spot or another disease, see the tip sheet "Tomato Diseases in the Home Garden."

Tomatoes are one of the favorite fruits or vegetables gardeners grow every year. They are unique in several respects. Botanically, the tomato is a fruit. It is classified as such because the portion that is eaten contains reproductive structures (seeds). However, in 1893, the tomato was declared a vegetable by the United States Supreme Court. The reason involved the collection of import duties. So, the tomato is either a fruit or a vegetable, depending on whose definition is used.

The tomato was called the “love apple “and believed to be poisonous until around 1850. It was only grown for its attractive but forbidden fruits. Because it is in the same family as nightshade, it was considered unsafe for human consumption.

Regardless of its interesting history, almost all gardeners include a tomato or two for their eating pleasure. Michigan summers with their warm and often humid climate are favorable for various leaf blights to develop. One of the common tomato maladies is Septoria leaf spot. It is a fungal disease that affects the leaves, but not the fruit. The first leaves that are affected are typically toward the bottom of the plant. The leaves develop small, dark spots that rapidly enlarge to 0.25 inches and have a tan or gray center. There may be small, black dots, which are the fruiting bodies of the fungus, located in the center of the spot. If there are enough spots, the leaves turn yellow, then brown. The leaf eventually wilts, dries up and falls off. The Septoria pathogen will then spread via water splashing to the upper leaves causing defoliation further defoliation. Michigan State University Extension hotlines are just beginning to answer questions about Septoria now.

Left, Signs of Septoria leaf spot on a tomato leaf. Photo credit: William M. Brown Jr.,
Right, Leaf spotting and advanced decay of Septoria leaf spot. Photo credit: Paul Bachi, Univ. of Kentucky Research and Education Center,

Septoria can be prevented but not cured once it is evident. If Septoria has been a problem on tomatoes in previous years, it may become an issue in subsequent years especially if the tomatoes are always planted in the same garden spot each year. The pathogen survives best on tomato foliage but may also infect Solanceous weeds related to tomatoes like Jimson weed, horse nettle, ground cherry and nightshade. When conditions are wet, spores are exuded from the Septoria fruiting bodies present on the infected tomato leaves. Once the spores land on a healthy leaf, spotting can appear in five days if weather conditions are ideal.

There are a number of cultural techniques that can be used to limit Septoria. Picking off the spotted leaves can slow down the disease if the infection is fairly light. Growing tomato plants in containers can be especially helpful provided that the soil used in the container is not from the garden. Using a commercially available bagged potting mix assures you that you’ll be starting your plants in a fresh environment free of residual Septoria. Remember to stake and space the tomato plants so that air can move freely within the foliage so that the time that the tomato leaves are wet is minimized. Water the plants via trickle irrigation so as to keep the foliage dry. If watering the plants overhead, do it at a time of day that allows the foliage to dry quickly. Avoid watering the plants in the evening as that might allow the leaves to stay wet through the nighttime and that will favor disease. If your garden is large enough, rotate your tomato plants so they are not grown in the same spot each year. At the end of the season, remove any infected tomato debris and dispose of it (do not compost it).

If despite your best efforts, Septoria continues to make a yearly appearance in your garden, you may want to consider using a protectant fungicide. One of the most common fungicides used for tomato spots/blight is chlorothalonil which can be found in several brands. There is now an organic fungicide called “Serenade” that can also be used. It may be difficult to find unless there are local businesses that carry organic products or it may have to be purchased online. Always read and follow all the label directions. It usually indicates that the spray is repeated at seven- to 10-day intervals during the growing season to protect the plant. During rainy periods, the interval between the sprays may need to be shortened. (i.e., applications made every 7 days versus 10 days). However, pesticide sprays cannot be applied more frequently than what is specified on the label.

By following these growing strategies you should be able to minimize Septoria leafspot. Your bacon, lettuce and mayonnaise will thank you.

This article was published by Michigan State University Extension. For more information, visit To have a digest of information delivered straight to your email inbox, visit To contact an expert in your area, visit, or call 888-MSUE4MI (888-678-3464).

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Disease Control for Conventional Growers

In addition to the cultural practices listed above, there are several products that are effective at controlling the disease. For the latest fungicide recommendations for Septoria leaf spot, consult the Southeastern US Vegetable Crop Handbook.

Example products for control of Septoria leaf spot in tomato.

Active Ingredient Example Product PHI (days) FRAC Group
azoxystrobin Quadris 0 11
chlorothalonil Bravo 0 M
chlorothalonil + cymoxanil Ariston 3 M + 27
difenoconazole +cyprodinil Inspire Super 0 3 + 9
penthiopyrad Fontelis 0 7
famoxadone + cymoxanil Tanos 3 11 + 27
fluopyram + trifloxystrobin Luna Sensation 3 7 + 11
fluxapyroxad + pyraclostrobin Priaxor 7 7 + 11
fixed copper Kocide 0 M
mancozeb Penncozeb 5 M
mancozeb + fixed copper ManKocide 7 M + M
mancozeb + zoxamide Gavel 5 M + 22
mandipropamid + difenoconazole Revus Top 1 40 + 3
penthiopyrad Fontelis 0 7
zinc dimethyldithiocarbamate Ziram 7 M

Related products

Use BioBoost™ Biostimulant as a complement to your fertilizing regimen. When used with other natural fertilizers, BioBoost works wonders in your garden. It helps your plants grow bigger, stronger and with a greater yield thanks to.

Our durable, easy-to-use Weed Barrier Mat keeps down weeds so you have more time to enjoy your garden! It blocks all annual weeds (except for a few stubborn perennial weeds) better than any other permeable mulch. It cuts down on time-consuming.

Our Soap-Shield ® Liquid Copper Fungicide uses fixed copper, one of the oldest fungicides and bactericides around that's safe for controlling broad-spectrum plant disease. By mixing a soluble copper fertilizer with a naturally.

Organic Disease Control

Western North Carolina is classified as a temperate rainforest ecosystem. Most people are surprised to hear this, but not organic gardeners. With our fair share of diseases affecting every plant you can imagine, organic gardeners often feel like we’re in for total losses as we encounter steamy humidity, hot temperatures, and seemingly endless rainfall. Since plant diseases love these climatic conditions, chances are disease control will be your biggest challenge as you develop your organic gardening skills. This page is meant to give you a crash course in the most common disease organisms, general tips for prevention, and specific treatments for problems you may encounter.

Looking at the spectrum of potential pathogens, or disease organisms, it’s helpful to divide them into three groups:

  • Fungi—grow on or through plants via thread-like mycelium. Fungi require either living plant hosts or decaying organic matter to survive. Fungal pathogens are the greatest challenge in our region.
  • Bacteria—Single-cell organisms that need a living host to survive. Bacteria reproduce readily when they have warm, moist environments and a host plant to feed on.
  • Viruses—Sub-microscopic organisms that invade the host plant’s cells and then multiply. Viruses spread via infected pest insects, known as vectors.

First, let’s explore some good, preventative measures that you should always try to take. Every season, re-visit this list and try to improve.

  1. Strive for healthy soil with lots of organic matter, which will provide good even moisture and good drainage, as well as plenty of nutrients that plants need to stay healthy. Visit our post on feeding the soil for more info on how to achieve dreamy garden soils. Note: soil building will be a goal that lasts throughout your garden career. It takes years, and should be considered an investment.
  2. Maintain good airflow between plants, by ensuring adequate spacing, minimal weeds, and varied architecture (i.e have tall and short plants together). Pathogens love stagnant, hot air. The better the air circulation, the better your chance of avoiding infection.
  3. Water enough but not too much. Most pathogens thrive in moist to wet environments, especially as the weather heats up. Make sure you water enough to meet the requirements of your crop plants, but be especially careful about stagnant water in the garden, and plants that sit at the bottom of the garden that might collect runoff after heavy rains. Going back to #1, the healthier the soil, the better drained it will be, which will aid in your attempts at optimum water balance.
  4. Look for disease resistant varieties of veggies. Note that many hybrid vegetables are bred to resist diseases that are known to affect that particular crop plant. Read this Ask Ruth article to learn why hybridized seeds are NOT the same as GMO seeds.
  5. Be careful with your hands and tools because many pathogens can spread in water, on tools, on your hands, on clothes, hats, water hoses, etc. The cleaner you keep everything, the better. Also, if you suspect a group of plants have an infection of some sort but you haven’t ruled out nutrient deficiency and don’t want to remove them completely, remember to wash your hands after handling them before handling healthy plants. This will prevent the spread of disease in the garden.
  6. Keep garden beds free of decaying debris like weeds you’ve pulled, or leaves you’ve stripped during harvesting. Fungi and bacteria like to grow on decaying organic matter. There will always be some decaying organic matter in an organic garden, but the less you contribute the better. Take weeds to your compost (only if you manage an active, hot pile) or your burn pile. Be especially aware of weeds that are in the same plant family as your crop plants, such as black nightshade (related to potatoes, tomatoes, eggplants, and peppers), as diseases that love a specific family of food plants will often get their start via weeds from the same plant family.
  7. Rotate crops. Changing the planting area of crops every season will help prevent disease, especially soil-borne pathogens. Rotating your crops by family will provide extra protection. For example, if all your nightshades are in one area this season, make sure to put them as far away from that area as possible next season.

Now that you’re armed with some effective preventative measures, let’s get down to the nitty gritty, and take a look at some common pathogens in WNC gardens.

Mildews: You’ve seen these a thousand times. The main types in our area are:

Downy mildew effects cucurbits like melon, cucumber, squash, and pumpkin. There is also a downy mildew that plagues basil

Powdery mildew is another common mildew, and can be seen on many plants both food and ornamental. In the flower garden,

lilacs are susceptible, as well as roses. In the veggie garden, cucurbits often fall victim. The good news about powdery mildew is that it is species specific, meaning that the particular strains are partial to specific types of plants. So, your lilac will not give powdery mildew to your pumpkin.

Both downy and powdery mildews just love stagnant, warm air and spread on the wind.

Techniques for prevention:

  • encourage good air flow
  • plant early in the season
  • plant disease resistant varieties
  • provide coverage for plants using remay
  • plant more successions of effected annual crops like squash and cucumber, making sure to cover each succession as soon as you set it out into the garden.

Biological deterrents are beneficial bacteria in powder or liquid form. They inoculate the soil and work in cooperation with plant roots to make the plant more resilient. Check out the following:

  • bacillus subtillus (trade name serenade soil)
  • bacillus amyloliquefaciens (double nickel 55)
  • reynoutria sachalinensis (regalia).
  • Calcium silicate used as a fertilizer has been shown to reduce the chances of mildew in organic cucurbit crops. OGS is still looking into this idea, and into the particular product to use, but research out of Rutgers University suggests Wollastonite powder.

Phytophthora infestans on Potato Plant

Phytophthora: Also known as “water molds” phytophthora pathogens are not actually fungi, but they closely resemble fungi, so we’ll throw them in with the others. Phytophthora is what causes late blight in tomatoes, and other similar wilting diseases in almost any vegetable and ornamental crop, as well as many trees. Phytophthora is characterized by a slow wilting of the entire plant, starting at the bottom with the oldest leaves, and progressing upwards. The group of pathogens spread via spores, so wind can transmit them, as can your hands and clothes, wild animals, equipment, water, you get the drill.

Techniques for prevention:

  • Prevention is key for Phytophthora, as there is little aid once the disease has established itself in your garden.
  • Regulate water carefully to ensure plants are not getting too much. In seasons of overwhelming rain, this may be out of your control.
  • Ensure good airflow. This is especially important in tomato crops. Keep plants pruned, space them adequately, and keep them up off of the ground.
  • Keep good cropping records and rotate crops religiously.
  • Choose resistant varieties, and be sure to purchase clean, healthy seed or transplants.
  • Keep your hands, as well as tools and equipment sanitized while working.
  • Provide a cover for plants such as a high tunnel with open sides.
  • Do not prune or otherwise work your plants when they are wet.
  • Don’t leave debris in the garden for fungi to feed on. Remove weeds to ah ot compost pile or a burn pile away from the garden area.

  • Copper Sulfate is approved for organic use, and offers strong defense against fungal pathogens. Be sure to follow all safety and application instructions, as copper is a potent control method, and should be used responsibly.
  • A spray regimen of serenade and copper sulfate in rotation has been effective for many small farmers in WNC. You must spray the plants thoroughly (even the undersides of leaves), make sure to spray weekly, beginning at planting and up until frost.
  • Streptomyces griseoviridis (MycoStop) is a bacteria you can use to inoculate the soil. It’s organic approved, and listed as a control for Phytophthora.

Septoria: Also known as leaf mold, Septoria causes brown and yellow spots on plant leaves and leads to leaf wilt. As a leaf fungus, one might think that septoria doesn’t pose too much of a threat to fruiting plants, like tomatoes, however, Septoria fungi can lead to severe sun scald since the fruits are no longer shaded by leaves. Septoria is usually a problem on nightshades such as tomatoes, potatoes, eggplants, and peppers. It also affects celery. There are over 1000 species of Septoria in our region, and the fungi are known to survive on seeds.

Techniques for prevention:

  • Prevention is key for Septoria, as there is little aid once the disease has established itself in your garden.
  • Maintain good air flow, and for plants that are susceptible like nightshades, put some extra space between species to prevent spread of Septoria from infected plants to healthy plants. For example, don’t plant peppers right next door to eggplant. Put some basil or marigolds in between.
  • Remove infected leaves as you notice them and throw them in the trash (far away from the garden!)
  • Don’t leave debris in the garden for fungi to feed on. Remove weeds to a hot compost pile or a burn pile away from the garden area.
  • Make sure your hands, as well as tools and other equipment are sanitized before working, and be careful to leave the sick plants for last so you don’t carry fungal spores to healthy plants.

  • Copper Sulfate
  • Mix 1 T horticultural oil and 1 T baking soda per gallon of water. Spray weekly as soon as you set plants out. The mix can clump so be sure to shake or stir frequently as you go.

Fusarium wilt is a real doozie of a pathogen, causing big losses when it crops up in the garden. It can persist in the soil for years, and render planting areas virtually useless for long periods of time. It causes total wilt of plants, which can start with yellowing of lower leaves.

Techniques for Prevention :

  • Look for resistant varieties.
  • Fusarium thrives in hot temperatures when the soil moisture is low. Be sure to keep soil evenly moist, especially in the hottest months of the season, without flooding the garden and inviting other pathogens to thrive.
  • Solarizing effected soil by covering with black plastic and leaving it undisturbed during the warm season can kill fungus.

  • MycoStop (Streptomyces griseoviridis)
  • Serenade Soil (bacillus subtillus)

Early Blight is a very common, soil-borne bacteria that effects gardeners in WNC. It causes brown spots with yellow rings on leaves and fruits. Early blight is also known as common blight, and commonly affects tomatoes and other nightshades. Unlike late blight (which is a species of phytophthora, see Fungal Diseases, above) which can kill entire plants in a day, a plant infected with early blight can persist if effected leaves are removed throughout the season. Very bad cases will result in damaged fruits.

Techniques for Prevention:

  • Water from below to avoid soil splashing up onto lower plant leaves. If you grow outside, this will be difficult, since rain showers cannot be controlled. If you can water from below using a soaker hose or drip irrigation AND provide a well-ventilated cover for plants to protect them from the rain, you’ll be all set.
  • Follow a preventative spray regimen, see products below.
  • Make sure you purchase clean plant stock, from a trusted source.
  • Keep equipment that you use for working the soil cleaned between uses, to prevent persistence of bacteria on your tools.
  • If you do see blighty leaves (usually on the bottom of the plant closest to the soil), remove them and throw them away immediately, far from the garden.
  • Do not prune, or otherwise handle your plants when they are wet.
  • Establish a crop rotation and stick to it

  • A spray regimen of copper sulfate and serenade in rotation has proven helpful to some farmers in WNC. Be sure to spray thoroughly (even the underside of leaves), and begin a weekly spraying from planting until frost.

Soft Rot is characterized by mushy soft spots in underground crops like onions, sweet potatoes, garlic, and potatoes.

Techniques for prevention :

  • Don’t let potato or sweet potato seeds get too cold or wet at planting (careful not to plant too early!)
  • Rotate crops
  • Keep soil well drained
  • Make sure you purchase clean seed or tubers and have tools and hands sanitized at planting
  • Make sure to harvest crops when they are mature, and don’t leave them in the ground too long.

Bacterial Wilt affects cucurbits, particularly cucumbers. It causes plants to wilt and die, and is transmitted by cucumber beetles.

Techniques for Prevention :

  • Keep close control on cucumber beetle populations to prevent spread of bacteria.

Scab looks just like it sounds- rough, raised areas on the skins of underground crops, usually potatoes. There are no varieties that are resistant to scab, and little you can do to stop it once it happens. The best way to deal with scab is to prevent it.

Techniques for Prevention:

  • Lower soil pH can be an unfavorable environment for scab. This may be unrealistic for growers with a lot of diversity and an aggressive rotation, however it may be helpful to think about planting potatoes in spring beds that have skipped a year of lime, or have had a good input of organic matter (which usually lowers pH) the previous fall
  • Avoid applying lime in the spring. Look to lime your soils in the fall, as a rule.
  • Purchase clean seed from a trusted source. OGS likes Wood Prairie Farm, in Maine, and local supplier Sow True Seed also provides seed stock.


Aster Yellows is a disease that commonly effects lettuce. It is characterized by yellowing of leaves, usually beginning at the veins. It can lead to stunted growth and twisted leaves. It is spread by leafhoppers.

Techniques for Prevention & Products to Consider

  • Control leafhopper populations with hot pepper spray or garlic oil soap spray. See our post on organic insect control for more info and spray recipes.

Cucumber Mosaic Virus, also known as Tobacco Mosaic virus, affects nightshades and cucurbits with mottled, yellow spots that look like a mosaic on the leaf surface.

Techniques for Prevention:

  • Avoid tobacco use around plants, and if you do smoke or chew tobacco, wash your hands thoroughly before handling plants.
  • Cucumber beetles are vectors of this virus, meaning they can transmit it from plant to plant. Control cucumber beetles to prevent this disease. See our post on insect control for tips.
  • Make sure you clear weed debris from the garden area and sanitize tools and other equipment between uses.

Watch the video: Pruning and Staking Tomatoes - Perfect Techniques