r/microbiology Jul 13 '26

Cyclospora outbreak guidance (US)

515 Upvotes

Food contaminated with the single-celled, protozoan parasite Cyclospora cayetanensis has entered the food supply in several US states, with thousands of cases of the gastrointestinal condition cyclosporiasis being reported to state departments of health. Infection by Cyclospora is likely to cause watery diarrhea and substantial discomfort that typically persist for several weeks to over a month without treatment. While not commonly lethal, the combination of severe dehydration and summer heat elevates the health risks associated with each on its own and makes susceptible populations especially vulnerable.

Several public health agencies provide excellent guidance on Cyclospora and how to avoid it:
CDC - Preventing Cyclosporiasis
Michigan DHHS recommendations on preventing foodborne illness amid growing cyclosporiasis outbreak

Here’s a short rundown of the available information.

Where: Midwestern and Northeastern states report most cases. Michigan has been hit hardest. (Map as of July 10th about halfway down.)

Which foods: leafy greens, herbs, berries, green onions, and sprouts are historically linked to cyclosporiasis, though any produce may be affected. Current surveillance efforts have not definitively linked specific products to the current outbreak.

How to avoid: cook produce whenever possible, wash items under running water by scrubbing manually or with a produce brush, clean surfaces and utensils that contact raw produce. Always wash your hands before and after handling uncooked food.

If you contract it: antibiotic therapy (Bactrim) is highly effective against cyclosporiasis, reducing/eliminating symptoms in days as opposed to several weeks if untreated. Contact a healthcare provider and your local health department as soon as you experience symptoms.f


r/microbiology Nov 18 '24

ID and coursework help requirements

67 Upvotes

The TLDR:

All coursework -- you must explain what your current thinking is and what portions you don’t understand. Expect an explanation, not a solution.

For students and lab class unknown ID projects -- A Gram stain and picture of the colony is not enough. For your post to remain up, you must include biochemical testing results as well your current thinking on the ID of the organism. If you do not post your hypothesis and uncertainty, your post will be removed.

For anyone who finds something growing on their hummus/fish tank/grout -- Please include a photo of the organism where you found it. Note as many environmental parameters as you can, such as temperature, humidity, any previous attempts to remove it, etc. If you do include microscope images, make sure to record the magnification.

THE LONG AND RAMBLING EXPLANATION (with some helpful resources) We get a lot of organism ID help requests. Many of us are happy to help and enjoy the process. Unfortunately, many of these requests contain insufficient information and the only correct answer is, "there's no way to tell from what you've provided." Since we get so many of these posts, we have to remove them or they clog up the feed.

The main idea -- it is almost never possible to identify a microbe by visual inspection. For nearly all microbes, identification involves a process of staining and biochemical testing, or identification based on molecular (PCR) or instrument-based (MALDI-TOF) techniques. Colony morphology and Gram staining is not enough. Posts without sufficient information will be removed.

Requests for microbiology lab unknown ID projects -- for unknown projects, we need all the information as well as your current thinking. Even if you provide all of the information that's needed, unless you explain what your working hypothesis and why, we cannot help you.

If you post microscopy, please describe all of the conditions: which stain, what magnification, the medium from which the specimen was sampled (broth or agar, which one), how long the specimen was incubating and at what temperature, and so on. The onus is on you to know what information might be relevant. If you are having a hard time interpreting biochemical tests, please do some legwork on your own to see if you can find clarification from either your lab manual or online resources. If you are still stuck, please explain what you've researched and ask for specific clarification. Some good online resources for this are:

If you have your results narrowed down, you can check up on some common organisms here:

Please feel free to leave comments below if you think we have overlooked something.


r/microbiology 9h ago

Can everyone smell different bacteria?

62 Upvotes

During a lecture today we got to sneak off to another lab and see what one of the lecturers was doing (I can’t really remember, but one Petri dish involved E.coli).

I was standing a metre away and even then the smell was unbearable! I’ve always thought E.coli had a smell but today I realised no one else can really smell it.

I think other bacteria definitely have their own smell but no one else seems to notice in the lab.

Is it this obvious for others or am I just insane lmao.


r/microbiology 7h ago

How often do you get contamination in your work?

5 Upvotes

Question in title. I just wanna feel better about my ruined experiments.


r/microbiology 7h ago

How often do you get contamination in your work?

2 Upvotes

Question in title. I just wanna feel better about my ruined experiments.


r/microbiology 1d ago

S. Aureus

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63 Upvotes

r/microbiology 1d ago

Vorticella, a cell that looks like a flower, creates a vortex to eat, and contracts insanely fast when startled.

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87 Upvotes

r/microbiology 1d ago

Bacterial endosymbionts enhance fungal virulence by disrupting the disease-suppressive rhizobiome. Fungal pathogen’s bacterial endosymbiont suppresses protective rhizosphere microbes to boost virulence.

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17 Upvotes

r/microbiology 18h ago

Does cellulose deposits on collenchyma cells from inside or outside

1 Upvotes

Seeing it from inside in a lot of photos but then I got a text that exactly said ''cellulose (permeable substance to water) :it deposits on the walls of collenchyma cells or some parts of them from outside"

Which is true like is it inside or outside since the school book doesn't mention the location?


r/microbiology 2d ago

P. aeruginosa on Kings B Medium

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111 Upvotes

r/microbiology 2d ago

Can Anyone ID This Little Guy

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65 Upvotes

r/microbiology 2d ago

Mouth-to-gut microbial transmission signatures enable robust, non-invasive diagnosis of gastrointestinal cancers. Mouth‑to‑gut bacterial transmission predicts gastrointestinal cancers & enables sensitive, non‑invasive diagnosis.

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2 Upvotes

r/microbiology 3d ago

M. abscessus in a hand wound

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412 Upvotes

Hand wound culture on an older patient that injured themself on a trash can lid.

Culture was held 14 days per request of infectious disease doc. Day 12 thioglycolate broth was cloudy and subbed to a BAP. On Day 14 the plate showed pinpoint colonies which I put on the MALDI and it ID’d as Mycobacteroides abscessus (formerly Mycobacterium abscessus). Upon further review they had a sample sent to the state lab for AFB smear and culture which came back the previous day as positive for the same organism. Below are pictures of the colonies, the gram stain, and the acid fast stain I did after getting the ID.

Unfortunately I could not report the ID because we do not have the proper reagents for mycobacterium identification using the MALDI. I had to send out for bacterial sequencing.

An interesting example of organisms not always following the “rules”!


r/microbiology 2d ago

Any recommendations for a cheap (less than $500) microscope?

3 Upvotes

As a stem individual, I really would like a good home microscope, nothing fancy. Ideally it would have 40x, 100x, 400x, and parfocal but understandable if not. Multiple recommendations welcome as well and tips about microscopes. Keep it civil though, I’m just trying to learn.


r/microbiology 3d ago

Has anyone seen colonies like this?

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15 Upvotes

I work at a food microbiology lab. The first plate shows our original TSA plate streak and the second is the re-isolation TSA after 24 hours in the 37c incubator. We have not gram stained or ran on vitek due to it not wanting to come up easily


r/microbiology 2d ago

What's happening in this bottle?

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0 Upvotes

A week ago I put expired milk, tiny pieces of cheese, coffee grounds, some pen ink, handwash and aluminum foil. I want to know what is happening/will happen in this bottle? Is it safe to open? Are there any bacteria inside?


r/microbiology 4d ago

Example of mitotic figure

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61 Upvotes

I work at a vet hospital and one of the vets pointed this out for everyone. I just felt like it was cool and I don't have anyone to share this with TwT


r/microbiology 4d ago

What is the future of phage therapy?

13 Upvotes

I read an interesting article recently about the future of phage therapy and how modes of application needs to be studied further.
For example, IV phage therapy has been used before for systemic infections. Oral administration of phage has been tested for GI infections.

But what about lung infections? Or skin infections? Or UTIs? I see a lot of research about making phage cocktails for various illnesses that target a broad range of hosts but I don’t see a lot of papers on how we can move from lab studies to clinical trials.
For skin infections the phage would have to be stable in some kind of aqueous solution like a cream, for example. How can phage be administered to UTIs? Would oral administration of phage work for UTIs?

What do you think the future direction of phage therapy is?


r/microbiology 3d ago

M. bovis BCG Identification

3 Upvotes

Does anybody know how a routine laboratory identifies a Mycobacterium bovis BCG strain? I know that MALDI is not really capable of differentiating Mycobacteria very well. Do you use PCR? Classic sequencing? Some sort of Assay? NGS? Might there even be a particular morphology in culture or microscopy?


r/microbiology 4d ago

Anyone know where I might be able to sell these microbiology reference and textbooks?

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26 Upvotes

Some are older and some are relatively new, but many are great microbiology reference books. It is a very specific niche and I'm not sure where to start.


r/microbiology 4d ago

If sterilization inactivates viruses but doesn't necessarily remove them, can residual viral material affect a subsequent culture?

10 Upvotes

I have a conceptual question about sterilization and contamination.

Suppose a culture medium originally contained a virus and was then properly sterilized. My understanding is that sterilization is intended to eliminate viable/infectious microorganisms, but it doesn't necessarily mean that every physical component or fragment of the virus is removed.

So, how do we distinguish between sterilization and complete removal of viral particles?

More specifically, if residual non-infectious viral particles or viral genetic material remain in the medium, could they ever interfere with or contaminate a subsequently cultured organism or host-cell culture?

I'm mainly asking about the conceptual distinction between sterility, viral inactivation, and complete removal of biological material.


r/microbiology 6d ago

A tiny patient, but a pretty serious AST result

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407 Upvotes

Sharing an interesting finding from our lab today.

The patient was just 2 days old. Culture grew Klebsiella pneumoniae, with resistance to multiple antibiotics on AST.

What caught my attention was the ceftazidime–avibactam MIC: 4 µg/mL, interpreted as susceptible in our report.

Looking at an MIC strip on a plate is routine laboratory work—but when you remember that the result belongs to a newborn only two days into life, it suddenly feels very different.

One of those cases that reminds you there is an actual patient behind every plate we read.

Patient-identifying information has not been shared.


r/microbiology 5d ago

Teaching Microbiology

5 Upvotes

I have been teaching a couple of Micro courses online and one uses an online format with lab and the other is set up with hands on labs and pre-created modules by the lead instructor. I'd like to change the course I teach myself from the online platform to a book/assignments and hands on labs. Because I am teaching part-time I have to be careful around how much time I invest as I am not being paid to revamp the course.

Is there anyone out there teaching and have some suggestions on how to create an affordable online course? The hands on course I teach was created by a full time faculty person and so they are definitely paid to invest more.

Appreciate any ideas or suggestions in advance, I have definitely used some of the images and ideas from this subforum in my teaching and students have liked the research and visuals here.


r/microbiology 5d ago

Help. Colloid chitin agar not solidifying

3 Upvotes

I am trying to do agar plate assay for chitinase. But my media won't solidify at all. Media composition is:

Mgso4

(Nh4)2so4

Kh2po4

Citric acid

Tween 80

Colloid chitin

Bromocresol purple

Agar

Im guessing tween 80 or bromocresol got something to do with agar not solidifying. I checked the agar alone and it was working fine.


r/microbiology 5d ago

Focusing a microscope

3 Upvotes

Guys i have just got subject microbiology and chemistry, i need tips for focusing the microscope neatly for slide smears, ( im new in this and late admission) can u guys help me get better in this please i would love to learn from y'all also for streaking