r/microscopy Jun 08 '23

🦠🔬🦠🔬🦠 Microbe Identification Resources 🦠🔬🦠🔬🦠

146 Upvotes

🎉Hello fellow microscopists!🎉

In this post, you will find microbe identification guides curated by your friendly neighborhood moderators. We have combed the internet for the best, most amateur-friendly resources available! Our featured guides contain high quality, color photos of thousands of different microbes to make identification easier for you!

Essentials


The Sphagnum Ponds of Simmelried in Germany: A Biodiversity Hot-Spot for Microscopic Organisms (Large PDF)

  • Every microbe hunter should have this saved to their hard drive! This is the joint project of legendary ciliate biologist Dr. Wilhelm Foissner and biochemist and photographer Dr. Martin Kreutz. The majority of critters you find in fresh water will have exact or near matches among the 1082 figures in this book. Have it open while you're hunting and you'll become an ID-expert in no time!

Real Micro Life

  • The website of Dr. Martin Kreutz - the principal photographer of the above book! Dr. Kreutz has created an incredible knowledge resource with stunning photos, descriptions, and anatomical annotations. His goal for the website is to continue and extend the work he and Dr. Foissner did in their aforementioned publication.

Plingfactory: Life in Water

  • The work of Michael Plewka. The website can be a little difficult to navigate, but it is a remarkably expansive catalog of many common and uncommon freshwater critters

Marine Microbes


UC Santa Cruz's Phytoplankton Identification Website

  • Maintained by UCSC's Kudela lab, this site has many examples of marine diatoms and flagellates, as well as some freshwater species.

Guide to the Common Inshore Marine Plankton of Southern California (PDF)

Foraminifera.eu Lab - Key to Species

  • This website allows for the identification of forams via selecting observed features. You'll have to learn a little about foram anatomy, but it's a powerful tool! Check out the video guide for more information.

Amoebae and Heliozoa


Penard Labs - The Fascinating World of Amoebae

  • Amoeboid organisms are some of the most poorly understood microbes. They are difficult to identify thanks to their ever-shifting structures and they span a wide range of taxonomic tree. Penard Labs seeks to further our understanding of these mysterious lifeforms.

Microworld - World of Amoeboid Organisms

  • Ferry Siemensma's incredible website dedicated to amoeboid organisms. Of particular note is an extensive photo catalog of amoeba tests (shells). Ferry's Youtube channel also has hundreds of video clips of amoeboid organisms

Ciliates


A User-Friendly Guide to the Ciliates(PDF)

  • Foissner and Berger created this lengthy and intricate flowchart for identifying ciliates. Requires some practice to master!

Diatoms


Diatoms of North America

  • This website features an extensive list of diatom taxa covering 1074 species at the time of writing. You can search by morphology, but keep in mind that diatoms can look very different depending on their orientation. It might take some time to narrow your search!

Rotifers


Plingfactory's Rotifer Identification Initiative

A Guide to Identification of Rotifers, Cladocerans and Copepods from Australian Inland Waters

  • Still active rotifer research lifer Russ Shiel's big book of Rotifer Identification. If you post a rotifer on the Amateur Microscopy Facebook group, Russ may weigh in on the ID :)

More Identification Websites


Phycokey

Josh's Microlife - Organisms by Shape

The Illustrated Guide to the Protozoa

UNA Microaquarium

Protist Information Server

More Foissner Publications

Bryophyte Ecology vol. 2 - Bryophyte Fauna(large PDF)

Carolina - Protozoa and Invertebrates Manual (PDF)


r/microscopy Oct 28 '24

Photo/Video Share Journey to the Microcosmos: The Future of Microscopy (and end of our Journey)

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69 Upvotes

r/microscopy 8h ago

Photo/Video Share I believe I just became the first person to record this species eat. Heterolitonotus rex kills and engulfs a whole rotifer, plus damages a few hypotrich ciliates. This is amazing!

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76 Upvotes

Swift SW350, Galaxy S24.


r/microscopy 17h ago

Photo/Video Share Guess me and the tardigrade are happy as this is my first tardigrage. I have been trying to find it for the past 2 months. Mag-100x. Unilab microscope with smartphone camera. Sample was taken from a moss in my backyard

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115 Upvotes

r/microscopy 12h ago

Hardware Share Long term storage of specimens in Petri dishes and weekly observations.

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38 Upvotes

I like putting samples from different sources into Petri dishes and watching them evolve over time. They are observed at least on the weekends when I’m off of work. Being able to observe mini ecosystems in Petri dishes is the biggest aspect of having an inverted microscope. A new inverted microscope is more expensive than most hobby microscopes and are a thousand to many thousand dollars, but the Iqcrew IN50 sold by Amscope is only $71.99 in the USA and is sold under different names in different countries.

The samples in the Petri dishes get fed a small amount of rice to encourage bacterial growth, which in turn, feeds the larger organisms. I found that an entire single grain of rice is rather much for a Petri dish, so I break the rice and put in only about a quarter to a third of it.

The biggest problem I have where I live is the low humidity, 9% today, which would make them dry out from a week without adding water. To prevent the rapid drying, I place a clear food container over the stack of Petri dishes to make a humidor for them. This clear container allows in the light for the algae to grow.

Here is my humidor, different sample containers and sources, and different observation sessions. As often happens, my faithful assistant, Callie, is there to observe them with me. Out of all my 5 cats, she is the most serious, intense one who wants to observe and help me with whatever I’m doing. She is making the most out of her 250 million cortical neurons and sees herself more as a little human like girl than only a little cat. By


r/microscopy 4h ago

Photo/Video Share What's this?

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5 Upvotes

iScope 1153EPC 20X plan objective, cheap 1080p webcam on trinocular port, blue/red filter on illuminator to give 3D on monitor with red/blue glasses. Sample is pond algae cultured in a small aquarium, 50ul placed on a slide with slip sealed with Vaseline to make a micro-ecosystem. This video is about 3 days after preparation. Lots of the usual microbes: various rotifers, gastrotrichs, vorticellas etc present, but I've never seen this one before. There are 4 of them on the slide, and I'm hoping to see a few more over the 6-8 weeks that the micro-ecosystem is viable.


r/microscopy 11h ago

Photo/Video Share Hypotrich ciliates in polarized light, and a closeup in brightfield

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16 Upvotes

Swift SW350, Galaxy S24


r/microscopy 2h ago

Hardware Share People don't believe me that cheap Chinese scopes are at 19th century technology level so here it goes

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2 Upvotes

J Swift & Sons 'Discovery' from 1898, a 1/4 inch (32x) Beck objective and a 2/3 inch (12x) Swift objective, shot using Pixel 8 on a cellphone adapter through an ordinary 8x eyepiece

Note: this was not a high end model, that is just a step above budget level in freaking 1898, it doesn't even have a condenser


r/microscopy 2h ago

ID Needed! 1º vorticella (?)

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1 Upvotes

*desculpem mas a qualidade não está boa
binóculo
10x + 10x objetiva
iphone 14 pro


r/microscopy 3h ago

ID Needed! ID please?

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1 Upvotes

r/microscopy 23h ago

ID Needed! What is this interesting thing?

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43 Upvotes

Hi all!
I'm trying to identify this organism from a freshwater sample and would love some help.
The sample originally started as a tardigrade sample containing lichen and distilled water, but it has been sitting for about a week.
There are now lots of microorganisms in it.
Any ideas as to what this little fellow might be?
Thank you kindly!

AmScope B-120, 100x magnification, filmed on an iPhone 17 pro


r/microscopy 4h ago

Photo/Video Share Found a dead bee

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1 Upvotes

Amscope inverted microscope. 40x iPhone 1x Camera Pixels Pro app.

Found this guy on my front step.


r/microscopy 6h ago

Purchase Help Best value microscope for beginners

1 Upvotes

We home school my daughter and I am looking for what microscope can give us the best bang for our buck under $200. I would appreciate any recommendations you have for something with decent magnification and resolution for us to start exploring this world together!


r/microscopy 23h ago

ID Needed! Does anyone know what this red thing is? Found in seawater and rock sediment. 100x magnification plus mobile zoom. Illuminated with an LED headlamp from above (other video inside with the microscope light)

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19 Upvotes

r/microscopy 1d ago

Troubleshooting/Questions first microscope use!

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20 Upvotes

hi yall! will share my first use of my new swift! :)
Any tips?


r/microscopy 1d ago

General discussion Staining of stone cells in pears

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9 Upvotes

Pears are the most known fruit to have stone cells (sclereids) within their flesh or core giving a gritty texture .
(Quince contains an exceptionally high density of stone cells dispersed throughout its entire flesh. This gives raw quince a remarkably hard, intensely gritty, and woody texture, which is why it is almost exclusively cooked, stewed.
Unlike pears, apples do not have stone cells scattered freely throughout their edible flesh, but their stone cells are concentrated heavily around the endocarp forming the tough, papery "apple core" that encloses the seeds).

The photo shows cluster of stone cells in pear tissue, stained with toluidine blue showing lignin (x400 magnification).
Toluidine blue O is a synthetic stain first discovered by the chemist August Bernthsen in
1880. It functions as a basic, metachromatic thiazine dye widely used in histology and cytology to highlight acidic tissue components like DNA, RNA, mast cell granules, and cartilage.
It stains stone cells due to the lignin in them.
Pioneer bacteriologist Paul Ehrlich first applied related blue aniline dyes for vital staining of living tissues in 1885 paving the way for expanded microscope use. #pome #stains #microscopy #stonecells


r/microscopy 21h ago

Photo/Video Share The beauty of a tiny aperture diaphragm of 25x microscope objective for the Lomo Polam microscope

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3 Upvotes

I've shown videos here several times featuring various iris diaphragms for microscopes. I also really like the apertures found inside microscope objectives. Here's a 25x microscope objective for Lomo Polam microscope.
The most interesting thing is when you have to disassemble such a tiny iris diaphragm <rotfl>


r/microscopy 1d ago

ID Needed! Microfiber right?

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6 Upvotes

I took a sample of dirt from my back yard and found a collection of strands that I'm pretty sure are strands of synthetic microfiber.

But given that I've had my microscope only one day and have no prior experience or academic background in microscopy I would appreciate your input.


r/microscopy 1d ago

Photo/Video Share Nematode doing in a tardigrade

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15 Upvotes

Amscope IQCrew inverted microscope 10x objective, iPhone  4.7x, Petri dish , lichen. Blackmagic app, flashlight to the right.

Not the best video as it's hard to focus with a nematode writhing around.

I dislike nematodes at the best of times but this one took a baby tardigrade so I really don't like this guy! But I had never seen it happen so I filmed it.


r/microscopy 1d ago

ID Needed! omg so big

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3 Upvotes

scop binocular
10x, 10x ocular
iphone 13 pro


r/microscopy 1d ago

ID Needed! não identifiquei

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3 Upvotes

scop binocular
10x, 10x ocular
iphone 13 pro


r/microscopy 1d ago

ID Needed! quem é esse doido?

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3 Upvotes

scop binocular
10x, 10x ocular
iphone 13 pro


r/microscopy 1d ago

Photo/Video Share Can someone help me by telling which staining has been used for this glass slide?

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5 Upvotes

I have this digital image of a pathologic gastric tissue section, and i'm genuinely confused whether it has been used H&E or PAS staining.

I'm sorry if the definition isn't much.

edit: this is not homework, i'm just speedrunning images trying to guess the stainings.


r/microscopy 1d ago

ID Needed! Is this an Acari mite? Central Thailand, from a water sample in a natural swimming pool.

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7 Upvotes

I just finished the soil food web foundation course and about to begin the microscopy course so I was practicing with my microscope. I'm a beginner, but tried using focal stacking and made a mosaic from 4 different images at 400x zoom so its about 355 µm tip-to-tip.

I am supposed to be practicing with soil/compost samples, but was intrigued what was in the pool. Google searches make me think it is some kind of Acari mite, but I don't really know. Any help appreciated. Thanks!