r/microbiology • • Nov 18 '24

ID and coursework help requirements

69 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 • • 2h ago

My blood cells, some room plants cells, and deadh cork cells on my 640x microscope

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6 Upvotes

r/microbiology • • 1d ago

Microbe discovered with one of the smallest genomes on record

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90 Upvotes

r/microbiology • • 1d ago

Spore ID

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32 Upvotes

Hi! I work in shelter veterinary medicine and need help identifying what fungal species this is. Pt is a kitten who had a spot of hair loss, apparently staff at time of assessment weren’t sure whether the lesion was woods lamp positive or not. DTM was collected on 10/2. Pictures of microscopic findings are on 10x and 40x. With ringworm we usually (or only ever) see M. Canis, M. Gypseum, or Trichophyton spp, haven’t seen this one before. Any help is appreciated, thanks!


r/microbiology • • 1d ago

Major concerns about research practices in my new lab!!! Pls guide me someone!

25 Upvotes

Concerns about the lab where I have joined as a PhD

I have joined the lab of this PI as I quite liked the project and had a good 2-3 interviews with the PI.

For context it is a microbiology lab

I have now finally joined the lab and I am not able to adjust to some of the practices in the lab.

In the lab eppendorfs and tips for micropipette are reused. Had this been done in the lab it is still fine but the same practice is done in tissue culture as well. After using the tips they are supposed to be dunked in a detergent and then autoclaved. I assume this might even kill the bacteria but what about the DNA.

Is this normal , does this happen in other labs, it certainly did not happen in the lab where I did my master's.

I am doubting if this is the right lab for me. It's been a short while only but at this point I am thinking of quitting this lab as it somehow goes against the research practices I have so far learnt.

Can someone please guide me what to do. I am panicking a lot.


r/microbiology • • 21h ago

Growing a mold Culture - Any suggestions?

2 Upvotes

Im growing a mold culture of Penicillium chrysogenum for a school thing, and im buying a tube from Wards Science (all being run with proper safety precautions and with teacher). I then plan on creating a spore/sterile water solution to inoculate potato dextrose agar plates (60 of them). My questions are: do i absolutely need a surfactant like tween 20 to prevent the spores from sticking together in the water, will one tube be enough for 60 petri dishes (0.01ml of solution per dish, im thinking), do i need an inoculation needle or can i just use a boiled needle/wire, and how difficult is it to successfully inoculate a culture? Also any tips?


r/microbiology • • 1d ago

Phytoplankton ID?

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3 Upvotes

I needed some phytoplankton for feeding my amano shrimp larvae and finding phytoplankton in my area is close to impossible so, brine shrimp are locally collected from salt lakes and frozen to sell as fish food.

I bought some, crushed them into a paste and added it into salt water and left it in the sun, after a few days, I had different types of algae in they bucket, I took a sample and started to culture it indoors and this is the algae which I am able to maintain, rest all types vanished.

The first picture is 100× second is 400×, the salinity is 1.018 SG and I had it in 1.024 SG also and it survived effortlessly between any salt range.

The third picture is the colour of the tank.

Location is India

Please help me Id this phytoplankton and can it be fed to my shrimp larvae?


r/microbiology • • 2d ago

I made a microscope-style sim of pond life with real species and soft-body cells. Going open source, need ideas

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214 Upvotes

Hey! I've been working on a small sim of a drop of pond water, seen through a brightfield microscope.

Cells are soft bodies made of particles, so they swim, eat, divide and burst because of the physics, not because of animations. The water has no inertia (low Reynolds), and I tried to keep everything real: Paramecium, Euglena, Amoeba, Volvox, Hydra, rotifers, diatoms, nematodes, fungi, cyanobacteria, phages, even sand grains and silica.

There's a sandbox where you can spawn anything, turn yourself into another species and force reproduction. There's also an explore mode: click any organism and it tells you what it is and why it's moving the way it is.

I built the whole system with Claude Opus 5.5. I'm going to put it on GitHub as open source soon.

I'm still not sure if this should be an educational sandbox or an actual game. What would you add? Species, behaviors, tools, anything. Criticism is welcome too


r/microbiology • • 1d ago

Biosystems Engineering or Microbio?

2 Upvotes

I know that these two majors aren't even really comparable but I can see myself studying both. I want to do some kind of research in the future, whether in a lab or at a desk. I'm leaning Microbio as I'm more of a science than math kinda guy but I'm afraid a BS in Microbio won't make me too employable as I'm not currently planning to go to med school. What do yall think?


r/microbiology • • 19h ago

Is this mold/bacteria or insect casings?

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0 Upvotes

Hi! I'm curious about getting a professional opinion, because my dad and I disagree on the matter.

I insist these are insect casings, and to me they look like that of a mosquito. These are at the bottom of my cat's running water dish, they have stripes across them and look to be hollow cylinders, but they come in all different lengths. Some of them look to be slowly chipping off the bottom.

Any opinions would be appreciated! Thanks!


r/microbiology • • 1d ago

video Food Additives That Are Bad For The Gut: Dan Winer, MD

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0 Upvotes

r/microbiology • • 2d ago

Ideas?

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8 Upvotes

I'm thinking M. xanthus or some member of the family Porinaceae? Really curious lol I've never seen such a thing before in my life. It's growing directly on coral frags that I water with oxygenated distilled water, plants in association are Pinguicula sp.

4th image is Porina leptalea

5th image is relative size since images make them appear larger than they are (I did not use this slide)

6th image is under 10x, smooshed under cover w/ water

7th image is 100x

8th image is 40x

9th image is 10x but without a cover to get a view of the capsule?

The balls themselves are incredibly hard and rigid. Not soft, squishy or slimy. There does appear to be a cell wall of sorts, definitely not an egg as I would've seen the contents within. Maybe even some kind of testate amoeba? I have no clue lol. It is to be noted it's growing exclusively in areas near algae, and some algae can be seen in image 8, which made me think maybe crustose lichen? Image 10 is Centropyxis aculeata for comparison. Not included are blurry images I have wherein there could have been ascospores. I don't really expect a definitive answer here but I've racked my mind over this and I'm curious what others might think based off the little I can provide.


r/microbiology • • 2d ago

Getting a microbiology major?

1 Upvotes

Hello, I’m a senior in high school applying to university and for a while I’ve been pretty set in eventually attending med school to become some sort of doctor (likely an oncologist?). My first choice university has a microbiology and human immunology major that sounds very interesting, but I’m worried I might be putting myself through more trouble than I would have if I majored in regular biology or premed. I really do enjoy learning about different pathogens and what the latest research has been on them (sometimes I’ll spend hours reading studies about things like prions or hiv alone). I’m just a bit nervous I might be making a major mistake (pun intended) and somehow will struggle to get into med school with this major. Am I just severely overthinking things?


r/microbiology • • 3d ago

Struggling to get my first job after a Microbiology degree

55 Upvotes

Hi everyone!

I graduated a few months ago with a degree in Microbiology and I’m really struggling to find my first job in the field.

I’ve been applying for entry-level laboratory, clinical research and laboratory assistant roles, but so many of them require 6–12 months of professional lab experience, even when they’re advertised as entry-level and only require gcses or alevels. I just don’t know what to do because I can’t gain experience without someone giving me a chance.

I’ve had a few rejections and I’m starting to feel quite discouraged, especially seeing other graduates move forward while I’m struggling to get started.

For anyone who’s been in a similar position, how did you get your first lab job? Any advice would be really appreciated!


r/microbiology • • 3d ago

Asgard archaea: have we found our microbial ancestors?

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6 Upvotes

Good review for people (like myself) that would like to start learning something about Asgard archaea and their role in the evolution towards eukariotic cells.


r/microbiology • • 4d ago

Antibiotics Game available on Apple store! And looking for more testers for Android

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107 Upvotes

Hi, I was really encouraged by your enthousiasm with my last post. The Antibiotics Game (Go Narrow) is now available for Apple useres - you can download it in the apple store (3.99 Euros) or send me a DM for a promo code (as long as they last).

I am still looking for testers for the Android version. It is a closed testing, starts when I have at least 12 people in the testing group and then lasts for 14 days. It's a required step to launch the app on Android. The testing requires about 5 minutes engagement with the app daily for two weeks, trying different features. Your support would mean a lot!


r/microbiology • • 3d ago

Brainpower

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1 Upvotes

r/microbiology • • 4d ago

Batteries in VITEK 2 DensiChek

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5 Upvotes

Hi everyone! Is anyone in this group still using the battery-powered VITEK 2 DensiChek turbidity meter for McFarland standardization?

We are still using this model in our lab, but I’ve noticed that it consumes batteries quite quickly. The Panasonic batteries we use start to run low in less than 3 months.

Has anyone else experienced the same issue? What brand of batteries are you using, and how long do they typically last? I’d appreciate it if you could share your experience. Thank you!


r/microbiology • • 4d ago

Photograph from a laboratory session: bacterial culture stained using the Burri-Gins method.

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20 Upvotes

r/microbiology • • 4d ago

Filipino Microbiologist looking to work or pursue a Master's abroad — where should I start?

0 Upvotes

Hi everyone! I'm a Registered Microbiologist from the Philippines, currently working as a Microbiologist in one of the well-known food companies here. This is my first job, and I currently have around 6 months of experience in the food microbiology/QA field.

My goal is to gain at least 2 years of relevant work experience here in the Philippines before trying to pursue opportunities abroad. Ideally, I'd like to work in Australia or New Zealand, but I'm also open to other countries where there might be better opportunities for microbiologists.

I'm also considering pursuing a Master's degree in Microbiology or a related field. However, I'm still weighing my options between gaining more work experience first, pursuing post-grad studies here in the Philippines, or applying directly to universities abroad. If possible, I'd prefer to pursue my Master's overseas rather than locally, especially if I can gain relevant industry experience in the meantime.

I'm hoping to get advice from fellow Filipino microbiologists, people working in microbiology-related fields abroad, or anyone who has gone through a similar journey.

I'd really appreciate any advice, personal experiences, or recommendations for resources I can start researching. Thank you so much! Any insights would be a huge help. 😊


r/microbiology • • 5d ago

Cuteee

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48 Upvotes

r/microbiology • • 4d ago

Lawn/Overgrowth issue with pMG36e transformation in E. coli (DH5a/MC1061) using Erythromycin.

2 Upvotes

I am currently running into an issue where I keep getting a bacterial lawn (overgrowth/no single colonies) after transforming the pMG36e plasmid into E. coli. I would really appreciate some fresh eyes on my protocol to help me troubleshoot.

Here are the details of my setup and experiment:

• Plasid: pMG36e (an E. coli / Lactic Acid Bacteria shuttle vector, high-copy number, carrying an Erythromycin (Em/Erm) resistance marker).

• Host Strains: E. coli DH5α and MC1061 chemically competent cells.

• Antibiotic Selection: Erythromycin at 200 mg/L (200 µg/mL) in LB agar.

• Outgrowth/Recovery: 1 hour in SOC/LB medium at 37°C.

• Plating: After recovery, I spun down the cells, discarded the supernatant, resuspending the pellet to plate 100 µL of the concentrated culture.

• Incubation: 37°C overnight.

The Problem:

The next morning, the plates showed a complete bacterial lawn / heavy overgrowth. There are no isolated single colonies at all, making it impossible to pick anything for colony PCR or sequencing.

My Hypotheses / What I'm suspecting:

  1. Overloading the plate: Since DH5α and MC1061 have very high transformation efficiencies, spinning down and plating the entire concentrated pellet might have introduced way too many cells onto a single plate.

  2. Erythromycin Concentration/Efficacy: I know E. coli has a higher natural tolerance to Erythromycin compared to Gram-positive bacteria. Is 200 µg/mL too low, or could the antibiotic have degraded if the agar was too hot when pouring?

My Questions for the community:

  1. Should I perform a serial dilution (e.g., 10⁻¹, 10⁻², 10⁻³) of the recovery mix instead of concentrating it by centrifugation?

  2. Do I need to bump up the Erythromycin concentration for E. coli selection? (I've seen some protocols suggest up to 400 or 500 µg/mL).

  3. Are there any strain-specific issues with MC1061 or DH5α when utilizing the pMG36e vector?

Thank you so much in advance for your insights and suggestions!


r/microbiology • • 4d ago

Childcraft - The Green Kingdom 1982 pressing has some pleasantly outdated slime mold info

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5 Upvotes

r/microbiology • • 5d ago

From hand sweat!!

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33 Upvotes

r/microbiology • • 5d ago

Repeated contaminant in neomycin lawn?

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7 Upvotes

Science fair project on antimicrobial resistance using Kirby Bauer (ish). We started with the same culture of E. coli K12 for all sections, then used the edge of each individual zone of inhibition to inoculate the corresponding sections on subsequent plates. (Of course it is not ideal to use the same plate for different cultures, but Mueler-Hintons are pricey and this is a junior high project already running expensive- she needs a large sample size with many repetitions = 50 plates). We are working in a BSL-1.

On the 3rd exposure, the lawn on the neomycin section is growing much more yellow than the other sections. We assumed we had grown a contaminant so we re-inoculated with the control specimen on a new plate but got the same result. I know the inoculation technique isn’t great (again, junior high), but I had thought the sterile technique was good! Maybe the neo discs are contaminated?

Is this a second instance of the same contaminant? Or is it the e. Coli K12 looking different for some reason?

Re: rule 1 - not looking for an ID per se, just contaminant or not. Hopefully that’s different enough than requesting ID!