iiinova — where your digital self keeps evolving

Dr. Jaimi Gray @jaimiagray.bsky.social · 30/06/2026

1 week till @sebiology.bsky.social in Florence! Join me for my keynote for symposium A12: "Digital Resilience: Immortalising Biodiversity Through 3D Anatomical Models". Take a walk through the long grass of 3D imaging with me & collect all of my critter cards along the way! 4pm Tues in Modulo 2.1 🩻

A black background with green cartoon at the bottom of the image. Above the grass are 7 card backs that are styled purple with the radiation symbol in the middle. A "critter card" for the spiny lumpsucker in the top middle of the image gives access to a 3D model via tiny link and QR code. Surrounding the critter cards are silhouettes of 7 other 3D models that represent other 3D models in the set.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 18/05/2026

Bonus content 🐡: jaimigray.github.io/lumpsucker-v... play with the model using an online 3D viewer I built. Special thanks to my bud @karlycohen.bsky.social for catching this little lady straight out of Friday Harbor 🩵

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Dr. Jaimi Gray @jaimiagray.bsky.social · 18/05/2026

The Pacific spiny lumpsucker, an inefficient swimmer but a highly efficient suction cup. The pelvic fins have evolved into a strong suction disk on the belly, giving it the ability to anchor itself to substrates. Plate-like structures called "tubercles" provide defense against predators.

A 3D model made from a micro-CT scan of a Pacific spiny lumpsucker, with the skeleton rendered in light brown/beige and the tubercles rendered in a gradient of colors, beginning with pink at the head, and changing from purple, to blue, to teal as you move towards the tail. Outline of the body is rendered in white and transparent. Shown in antero-lateral view (top), anterior view (bottom left), and left lateral view of the head (bottom right). Scale bar at the bottom right is 5 mm.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 28/04/2026

In the 1960s this species (Podocnemis unifilis) was heavily exploited by the pet trade. It's now listed at "vulnerable" by the IUCN red list. This is one of my most popular #oVertTCN #diceCT scans in MorphoSource. Download it here: www.morphosource.org/concern/medi... (2/2)

Two grayscale cross sections lengthways through a contrast-enhanced CT scan of a yellow spotted river turtle. The left side shows a more dorsal cross section, the right side shows a more ventral cross section.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 28/04/2026

This yellow spotted river turtle from the Florida Museum of Natural History was collected in Colombia in 1957. It's likely it was exploited by the pet trade, as it was once common for people to drill holes in the marginal scutes of the shell to tether the turtle & stop it from wandering away (1/2)

3D Renderings of a contrast-enhanced CT scan of a yellow spotted river turtle, colored in brown (least dense tissues), green (medium density tissues), and yellow (high density tissues). A dorsal view is shown at the top of the image, and a ventral view is shown at the bottom of the image.

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Reposted by Dr. Jaimi Gray

William B. Ludt, PhD @planet-of-fishes.bsky.social · 10/03/2026

Are you a student who wants to visit the NHMLA for your research? Do you advise or know a student who would benefit from visiting our collections? Well, there are three weeks left to apply for the NHMLA Student Collections Award. Help spread the word!

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Reposted by Dr. Jaimi Gray

Alice Leavey @leaveylab.bsky.social · 27/02/2026

Just one week to get your abstracts in for A12 - "Digital Resilience: Immortalising biodiversity through 3D anatomical models"! You'll present alongside our keynote speaker @jaimiagray.bsky.social who will talk about how making CT data and derivatives FAIR can level the playing field for biologists.

sebiology.org

SEB Annual Conference Florence 2026

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Reposted by Dr. Jaimi Gray

Dr. Karly E. Cohen @karlycohen.bsky.social · 06/02/2026

Priority deadline (Feb 16) for this years Fish Class at Friday Harbor is coming up quick! Get your applications in for what will be an amazing summer filled with great science, people, and tools! Financial aid is available!! @cmdonatelli.bsky.social @fishguy.bsky.social @karlycohen.bsky.social

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Reposted by Dr. Jaimi Gray

Adam Summers @fishguy.bsky.social · 28/01/2026

Want to do a postdoc at Friday Harbor Labs? We have two positions open. Apply by March 1st. I am happy to discuss potential projects with fish people. apply.interfolio.com/180092 🧪

A view of Friday Harbor Labs dock in the early morning with blowing sea fog in the background.

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Reposted by Dr. Jaimi Gray

SICB journals @sicbjournals.bsky.social · 11/12/2025

This Thursday's IOB cover spotlight is on The Diffusion Diaries: Diffusible Iodine-Based Contrast-Enhanced Computed #Tomography for #Vertebrate Natural History #Specimens @jaimiagray.bsky.social Gray , et al doi.org/10.1093/iob/... #morphology #science #biology #vertebrates

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Reposted by Dr. Jaimi Gray

Aaron Griffing @aaronhgriffing.bsky.social · 14/11/2025

New paper out in @devdynamics.bsky.social on lizard lung development! Project co-led w/ Kaleb Hill and also w/ @tonygamble.bsky.social @shylonatasha.bsky.social @aussiebiologist.bsky.social @bezbez.bsky.social @celestemnelson.bsky.social anatomypubs.onlinelibrary.wiley.com/doi/10.1002/...

brightfield images of three lizard embryos of approximately the same developmental stage. Below each embryo image is an immunofluorescence image labeling E-cadherin (green) and alpha-smooth muscle actin (magenta) of their developing lungs

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Dr. Jaimi Gray @jaimiagray.bsky.social · 29/10/2025

Excited to be a co-author on this one in @currentbiology.bsky.social! @tillramm.bsky.social did a fantastic job bringing it all together. A mountain dragon was the *very first* CT scan I ever worked on as an undergraduate, so it holds a special place in my ❤️

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Dr. Jaimi Gray @jaimiagray.bsky.social · 13/10/2025

When you visit Friday Harbor Labs, @fishguy.bsky.social always has cool fish to discuss 🐟 Last week we pondered the horned searobin (Bellator militaris), & what its spines could be for. CT scan available on MorphoSource for you to explore www.morphosource.org/media/000027546 Images made in 3D Slicer

Colored rendering of a CT scan of Bellator militaris, in anterior and anterolateral view

Colored rendering of a CT scan of Bellator militaris, in dorsal, left lateral, and ventral views

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Reposted by Dr. Jaimi Gray

Adam Summers @fishguy.bsky.social · 11/10/2025

Just wrapped up a week of SlicerMorph/MorphoDepot/MorphoCloud work with @jaimiagray.bsky.social, @cmdonatelli.bsky.social and a great team of folks. This is Enophrys taurina with a damaged preopercular spine. Fighting or defense? 🧪🐡

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Dr. Jaimi Gray @jaimiagray.bsky.social · 03/10/2025

"What makes us human, I think, is an ability to ask questions, a consequence of our sophisticated spoken language" - J. Goodall. This #oVertTCN chimpanzee CT scan is available for exploration on MorphoSource: www.morphosource.org/concern/medi...

3D rendering of a whole body CT scan of a chimpanzee, showing the skeleton with a density map where yellow = most dense material, blue = medium density material, purple = low density material. Top shows 3 images of the whole body rendered in a series rotating from front to back. Bottom shows a close up of the head and shoulders. The "oVert" symbol is in the top right corner. In the bottom left corner it reads "Pan troglodytes; YPM:VZ:015959; MorphoSource ID: 0000058004"

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Dr. Jaimi Gray @jaimiagray.bsky.social · 09/09/2025

Meet the newest species of Brazilian flea-toad 🐸 Brachycephalus nanicus! 🐸 B. nanicus is <1cm long & dwells under the leaf litter in the cloud forests of Serro do Mar, southeastern Brazil I CT scanned this specimen for the osteological description Out today in Zootaxa: mapress.com/zt/article/v...

3D rendering of a CT scan of Brachycephalus nanicus, with the skeleton rendered in light brown and skin rendered in transparent purple. Top = dorsal view, bottom = ventral view. In the bottom right corner there is an image of the frog (a small brown frog) sitting on a coin.

3D renderings of the skeleton of Brachycephalus nanicus, rendered in light brown. Top left = whole skeleton in dorsal (left) and ventral (right) views. Top right = skull in dorsal (left), ventral (middle), and right lateral (right) views. Bottom from left to right, 3D renderings of the hand, foot, spinal column, and should girdle (top) / pelvic girdle (right lateral).

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Dr. Jaimi Gray @jaimiagray.bsky.social · 14/08/2025

They are also called shingleback/bobtail/two-headed skink/pinecone lizard/stumpy lizard, and more. They're heavily armoured, with a peaceful demeanor (but can be a sassy when bothered). They tend to pair up & stay with the same mate year after year, & you can often find pairs hanging out together ❤️

Two sleepy lizards side by side, photographed on the side of a rural road in South Australia.

A sleepy lizard standing peacefully in the sun, facing the camera

A sleepy lizard facing the camera with it's mouth open and tongue out.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 14/08/2025

Hey it's #WorldLizardDay 🦎 Here's one of my faves & one I saw *a lot* of growing up in rural Australia. Tiliqua rugosa has many common names, but where I'm from we call them "sleepy lizard" or "stumpy tail". Download the #oVertTCN CT scan from MorphoSource here: www.morphosource.org/concern/medi...

A 3D rendering of a CT scan of Tiliqua rugosa, facing the front (top) and facing the back (bottom), rendered in yellow (most dense parts), pink (medium density parts), and blue (least dense parts).

A 3D rendering of a CT scan of the head Tiliqua rugosa, in dorsal view (top) and ventral view (bottom), rendered in yellow (most dense parts), pink (medium density parts), and blue (least dense parts).

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Dr. Jaimi Gray @jaimiagray.bsky.social · 11/08/2025

I got my hands on this @floridamuseum.bsky.social specimen freshly fixed in 2021, & created skeletal & soft tissue CT scans. You can download them here (including colored skull model): www.morphosource.org/concern/biological_specimens/000408235 View the exploding skull model here: skfb.ly/pzUFC

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Dr. Jaimi Gray @jaimiagray.bsky.social · 11/08/2025

Climbing into my #ColorsOfSkullAnatomy collection: a veiled chameleon (Chamaeleo calyptratus) 🦎 this large male was getting up there in age when he was collected, as shown by his worn down teeth and bone pathologies. Find the model here: www.graysvertebrateanatomy.com/veiled-chame...

Image of a 3D model of a veiled chameleon skull, with bones colored to demonstrate skull anatomy, on a black background. Model is shown in lateral (top), antero-lateral (middle), and anterior (bottom) views. A small image of the whole museum specimen is shown with a scale bar in the bottom right corner.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 27/07/2025

It appears that these aquatic caecilians are doing pretty well down there and definitely reproducing in Miami, with a whopping 115 individuals collected using cans of chicken vienna sausages 🌭

top left - front page of the PDF of the paper entitled " Establishment of Aquatic Rio Cauca Caecilians, Typhlonectes natans (Fischer 1880) (Gymnophiona: Typhlonectidae), in Florida, with Notes of their Relative Abundance, Distribution, and Natural History. Top right - a 3D rendering of a CT scan of a caecilian, with bone colored skeleton and transparent body, with fish bones inside (rendered in blue) and radiodense digested food (rendered in yellow). Bottom - photograph of a live Rio Cauca Caecilian.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 27/07/2025

I had so much fun being part of this project! On my scheduled scanning days @ UF Coleman would hand me a bucket of caecilians collected from the Tamiami canal. I put each under the X ray beam to look for babies or interesting food items. If I saw anything of interest, I CT scanned them.

A 3d rendering of a CT scan of two Rio Cauca caecilian with transparent body and bone colored skeleton, showing baby caecilians inside, each rendered in a different color. There are three baby caecilians in the top individual, rendered in green, pink, and purple, and one baby caecilian (rendered in blue) plus one unidentified object (rendered in yellow) in the second individual.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 27/07/2025

Say hello to Florida's newest established species, Typhlonectes natans - the Rio Cauca Caecilian! You can read about their relative abundance, distribution, & natural history, in our brand new paper: journals.ku.edu/reptilesanda... Here is one individual I CT scanned that had 7 babies inside!

A 3d rendering of a CT scan of a Rio Cauca caecilian with transparent body and bone colored skeleton, showing 7 baby caecilians inside, each rendered in a different color - counter-clockwise from tail to head - red, orange, yellow, green, light blue, dark blue, purple.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 16/07/2025

It's #WorldSnakeDay so here is a green tree python I CT scanned for #oVertTCN 🐍 Get the datasets (both #diceCT and regular CT) on MorphoSource: www.morphosource.org/concern/biol... 💚💚💚

3D rendering of a diceCT scan of a coiled green tree python, rendered in bright green. Slightly overlapping is a 3D rendering of the python's skeleton, rendered in a light brown color.

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Reposted by Dr. Jaimi Gray

Milton Tan @mtanichthys.bsky.social · 12/07/2025

Now Jaimi Gray is up! "The Diffusion Diaries: Using diffusible iodine-bases contrast-enhanced Computed Tomography for High-throughout imaging of 3D anatomy of natural history specimens" #JMIH25 #ASIHin3D

The Diffusion Diaries: Using diffusible iodine-bases contrast-enhanced Computed Tomography for High-throughout imaging of 3D anatomy of natural history specimens

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Dr. Jaimi Gray @jaimiagray.bsky.social · 12/07/2025

Catch me at 10.30am in the Science in 3D #ASIHin3D symposium at #JMIH25 today! Amphibians 🐸 Reptiles 🦎 CT scanning ☢️ Iodine 🧪 Anatomy 🧠

Display slide that reads "Joint meeting of Ichthyologists and Herpetologists

Saturday July 12, 2025 / 10.30am - 10.45

Session with big attendance

'28.1 | the Diffusion Diaries: using Diffusible Iodine-Based Contrast-Enhanced...'

Jaimi Gray"

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Dr. Jaimi Gray @jaimiagray.bsky.social · 12/07/2025

#ASIHin3D begins! An absolute banger line up of speakers today (including me @ 10.30). LET'S GO 🥳 #JMIH25

Picture of a powerpoint slide that reads "Science in 3D"

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Dr. Jaimi Gray @jaimiagray.bsky.social · 10/07/2025

"Early bird gets the sperm" direct quote by @drscanley.bsky.social during Katherine Greenwald's amazing keynote on unisexual salamanders... And so #JMIH25 begins

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Dr. Jaimi Gray @jaimiagray.bsky.social · 09/07/2025

Alert for those also arriving to St Paul for #JMIH25 on very little sleep and are also into sharks (I think there's a few of you 😉), the Lost Fox has a very strong coffee option called the "Hammerhead".... 🦈

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Dr. Jaimi Gray @jaimiagray.bsky.social · 09/07/2025

En route to the Twin Cities MN for #JMIH2025 ✈️ I'm bringing plenty of stickers for y'all so you have an excuse to hit me up and talk fish and herps 🐟🐢🐠🐡🐸🦎🐍🐊 Catch my talk in the #ASIHin3D symposium on Saturday...

A coffee cup sitting on a table at an airport. Next to the coffee cup lies a pile of colorful stickers showcasing 3D renderings of CT scans

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Dr. Jaimi Gray @jaimiagray.bsky.social · 26/06/2025

I made these, they haven't been used for teaching yet though: bsky.app/profile/jaim...

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Dr. Jaimi Gray @jaimiagray.bsky.social · 26/06/2025

You can buy models like this online, but they are pricey (100s of $ each or >$1000 a set). I made these using NSF funded *free* data (from the oVert project), a few bucks worth of PLA filament, and sandpaper & paint (a combo of automotive and acrylics).

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Dr. Jaimi Gray @jaimiagray.bsky.social · 26/06/2025

I used my 3D printer to create educational anatomical models of the brains of fish, frog, & lizard 🐟🐸🦎 The (color-blind friendly) colors demonstrate anatomical regions, and the 🧠 are many times larger than their real size. They can be removed from their stands for closer examination/comparison 🧪

Top: black and white 3D rendering of a dusky basslet fish
Bottom left: purple/pink 3D rendering of the brain of the fish, with a scale bar representing 0.5 mm
Bottom right: A photograph of a 3D printed and painted anatomical model of the fish brain on a white stand, with colors demonstrating anatomical regions.

Top: black and white 3D rendering of a midwife toad
Bottom left: purple/pink 3D rendering of the brain of the frog, with a scale bar representing 1 mm
Bottom right: A photograph of a 3D printed and painted anatomical model of the frog brain on a white stand, with colors demonstrating anatomical regions.

Top: black and white 3D rendering of a plated lizard
Bottom left: purple/pink 3D rendering of the brain of the lizard, with a scale bar representing 3 mm
Bottom right: A photograph of a 3D printed and painted anatomical model of the lizard brain on a white stand, with colors demonstrating anatomical regions.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 20/06/2025

Who are those sweet slippery noodles with tiny eyes? Caecilians of course! 🥰 I imaged these limbless amphibs for #oVertTCN using #diceCT to enhance the contrast of the soft tissues. You can find the datasets on MorphoSource with the other diceCT amphibians: www.morphosource.org/projects/000... 🧪

Seven 3D renderings of caecilians (limbless amphibians) arranged on a balck background. Each is rendered in a different color, from left to right and top to bottom: red, teal, electric blue, purple, green, orange, yellow.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 13/06/2025

This gopher tortoise also features in my 2023 diceCT turtle paper: doi.org/10.1002/ar.2... I used this specimen to create the world's first ever whole body diceCT turtle dataset!

doi.org

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Dr. Jaimi Gray @jaimiagray.bsky.social · 13/06/2025

I also urge you to check out the re-vamped MorphoSource online 3D viewer! The team has been working on new features for it, including the ability to save annotations, take measurements, new navigation controls, & camera settings. You may not even need to download models to collect data you need!

Screenshot of the media page on MorphSource, showing specimen/media details on the left, and 3D viewer with controls on the right. A colored 3D model of a gopher tortoise skeleton is shown in the 3D viewer.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 13/06/2025

Can we just take a moment to appreciate turtle skeletons? 🐢🦴🤯 The original model of this gopher tortoise skeleton on Sketchfab (skfb.ly/ooVZS) is a crowd favorite & I've received requests for a downloadable version lately, so I uploaded a new one to MorphoSource: www.morphosource.org/concern/medi...

image with black background, showing a colored 3D model of a gopher tortoise with bisected shell and transparent right side, revealing the skeleton inside. Shown in anterior (top), anterolateral (middle), and right lateral (bottom) views. An image of the museum specimen on a white background, with scale bar, is shown in the top left corner.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 13/06/2025

Done by hand, mostly with a thresholded 3D brush. No scripts! This one was segmented in 3D Slicer, and further mesh editing (clean up, simplification, colors) done in Blender.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 12/06/2025

Glad to see Vera et al. lead the way for 3D data sharing in Aus. I hope that Ozboneviz 🦴 shows great things that can happen when you share 3D data FAIR-ly. After working on oVert & seeing it be an amazing thing for US collections, it's somewhat poetic that this paper comes from my home state of SA 🥰

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Reposted by Dr. Jaimi Gray

Weisbecker B&B Lab @weisbeckerbblab.bsky.social · 11/06/2025

The result of three years’ worth of travel through Australia’s museum collections and three Universities, and heaps of help from the MorphoSource and oVert Teams @jaimiagray.bsky.social :

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Dr. Jaimi Gray @jaimiagray.bsky.social · 12/06/2025

Hello I would like to add that Slicer just keeps getting better - new modules are being written all the time. My fave is the Colorize Volume module they whipped up a couple years ago after I demo'ed the layer-style rendering in another (very expensive) software discourse.slicer.org/t/new-colori...

discourse.slicer.org

New Colorize Volume module

Just added to 3D Slicer 5.5 is the new Colorize Volume module! I tried it on a fully segmented rattlesnake skull with really nice results comparable to the expensive proprietary software VGStudio Max....

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Dr. Jaimi Gray @jaimiagray.bsky.social · 10/06/2025

All scans for this specimen were funded by NSF and #oVertTCN, and are available on MorphoSource, including contrast enhanced #diceCT scans! If you look closely, you can see that I had to digitally re-attach its tail to make the rendering ❤️‍🩹 www.morphosource.org/concern/biol...

morphosource.org

Making sure you're not a bot!

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Dr. Jaimi Gray @jaimiagray.bsky.social · 10/06/2025

Decided there's not enough lizards in the #ColorsOfSkullAnatomy collection 🦎 So, new to the gang: Phyllurus platurus (southern leaf tail gecko). An Aussie lizard of course, and one of the 1st specimens I scanned at Florida Museum in 2021 www.graysvertebrateanatomy.com/leaftail-gecko-skull-anatomy/

On the left of the image are three different views of a 3D model of the skull of a leaf tail gecko (Phyllurus platurus), with all bones isolated and colored to demonstrate skull anatomy, from top to bottom, anterolateral view, dorsal view, and anterior view. On the right side of the image is a 3D rendering of a contrast enhanced CT scan of the whole body of the specimen, rendered in purple.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 06/06/2025

Had a marvelous time teaching our UTCT bio/paleo short course this week! 3D Slicer and dragonfly, with a hint of Blender and diceCT... Participants are now equipped to go forth and render/segment/measure/analyze their CT data 🤓

The computer lab at UTCT, with large monitors showing CT data being processed by students. Dave Edey sits at a PC at the front of the room, demonstrating how to use the Dragonfly CT processing software.

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Dr. Jaimi Gray @jaimiagray.bsky.social · 02/06/2025

Today we welcome our bio/paleo short course participants to UTCT! Three days of CT and data processing, coming right up 💁

Sign that reads "welcome to UTCT bio/paleo short course, Jessie, Dave Romy, Jaimi"

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Dr. Jaimi Gray @jaimiagray.bsky.social · 17/05/2025

And that's a wrap on our NoCTURN 2025 meeting at the @amnh.org 🎉🎉 I'm brimming with pride at all the things we've been able to achieve! Just the most marvelous community (who knows how to have a good time). Look at all the things we did (much more still to come 😉): nocturnetwork.org

The Non-Clinical Tomography Users Research Network standing all together in the dinosaur hall at the American Museum of Natural History

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