Monotreme development reveals ancestral mechanisms of mammalian middle ear and jaw evolution
Data files
Sep 23, 2026 version files 27.31 GB
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1_9_26_P0_Echidna.zip
3.54 GB
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5_9_26_P3_Echidna.zip
4.99 GB
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6_9_26_P20_Echidna_pt1.zip
6.02 GB
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6_9_26_P20_Echidna_pt2.zip
7.15 GB
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7_9_26_P50_Echidna.zip
2.78 GB
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8_9_26_subadult_Echidna.zip
2.84 GB
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README.md
9.48 KB
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Scanning_parameters_table.xlsx
10.45 KB
Abstract
During the origin of mammals the ancestral jaw joint separated from the mandible to form the detached mammalian middle ear, requiring substantial remodelling of musculoskeletal elements including the loss of a persistent Meckel’s cartilage connecting the ear and dentary. Evidence suggests a conserved mechanism underpins loss of Meckel’s in marsupials and placentals, but the mechanism behind the multiple transformations in fossil Mesozoic mammals remains unclear. Here we exploit the fact that a similar transformation occurs in extant monotremes during post-hatching development. Using micro-CT scanning and histology, we map changes to musculoskeletal anatomy and determine the mechanism of Meckel’s cartilage breakdown in the developing short-beaked echidna. Meckel’s cartilage is initially the main structural component of the jaw, persisting for >50 days before resorption. Early clast cell recruitment is responsible for Meckel’s breakdown in echidnas, strongly suggesting conservation of ossification and resorption mechanisms across all living mammal lineages. We argue that this shared mechanism underpins the multiple instantiations of the mammalian detached middle ear in living and fossil mammals. Furthermore, our results demonstrate that the intermandibular muscles show prolonged attachment to Meckel’s cartilage in monotremes and suggest that this attachment was a key function of the persistent Meckel’s cartilage in extinct mammals.
Dataset DOI: 10.5061/dryad.9zw3r22w3
Description of the data and file structure
This dataset contains micro-computed tomography (micro-CT) scans of the heads of five specimens of short-beaked echidna (Tachyglossus aculeatus) at five different growth stages. These data are used in the accompanying research paper to investigate changes to the morphology of the jaw and middle ear throughout early ontogeny and how that relates to the separation of the middle ear in mammalian evolution.
Files and variables
File: 1_9_26_P0_Echidna.zip
Description: ZIP file containing DICOM files reconstructed from a micro-CT scan of the head of a p0 (day of hatching) Tachyglossus specimen, accessioned as 1/9/26 (see Access Information below). Information regarding the scanning parameters of this specimen (including voxel size) can be found in Scanning_parameters_table.xlsx.
Contents:
1_9_26_P0_Echidna_dicom: Folder containing the DICOM files that make up the tomographic data of this specimen, named as "C0003643_#####.DCM". Five digit number in the file name corresponds to slice number through the specimen. DICOM files can be opened with dedicated DICOM viewing software such as MicroDicom or RadiAnt DICOM Viewer, certain image viewing software such as ImageJ, or imported as an image stack into Dragonfly 3D World Version 2022.2 as was the case in our study.
File: 5_9_26_P3_Echidna.zip
Description: ZIP file containing DICOM files reconstructed from a micro-CT scan ofthe head of a p3 (3 days post-hatching) Tachyglossus specimen, accessioned as 5/9/26 (see Access Information below). Information regarding the scanning parameters of this specimen (including voxel size) can be found in Scanning_parameters_table.xlsx.
Contents:
5_9_26_P3_Echidna_dicom: Folder containing the DICOM files that make up the tomographic data of this specimen, named as "C0003642_#####.DCM". Five digit number in the file name corresponds to slice number through the specimen. DICOM files can be opened with dedicated DICOM viewing software such as MicroDicom or RadiAnt DICOM Viewer, certain image viewing software such as ImageJ, or imported as an image stack into Dragonfly 3D World Version 2022.2 as was the case in our study.
File: 6_9_26_P20_Echidna_pt1.zip
Description: ZIP file containing tiff files reconstructed from a micro-CT scan of the head of a p20 (twenty days post-hatching) Tachyglossus specimen, accessioned as 6/9/26 (see Access Information below). Additional tiff files of the same scan are found in 6_9_26_P20_Echidna_pt2.zip. Information regarding the scanning parameters of this specimen (including voxel size) can be found in Scanning_parameters_table.xlsx.
Contents:
6_9_26_P20_tifs: Folder containing the TIF files that make up the tomographic data of this specimen, named as "UoM_Echidna_25918_S02_####.tif". Number in the file name corresponds to slice number through the specimen. Can be opened as single images with most standard image viewing software, but best viewed as a stack of TIFs in ImageJ or a segmentation software such as Dragonfly 3D World. Combine in a single folder with the TIF files in 6_9_26_P20_Echidna_pt2.zip (see below) to obtain the full stack of TIF files for the p20 specimen.
File: 6_9_26_P20_Echidna_pt2.zip
Description: ZIP file containing additional tiff files reconstructed from a micro-CT scan of the head of a p20 (twenty days post-hatching) Tachyglossus specimen, accessioned as 6/9/26 (see Access Information below). The rest of the material from this scan is found in 6_9_26_P20_Echidna_pt1.zip. Information regarding the scanning parameters of this specimen (including voxel size) can be found in Scanning_parameters_table.xlsx.
Contents:
6_9_26_P20_pt2_tifs: Folder containing the TIF files that make up the tomographic data of this specimen, named as "UoM_Echidna_25918_S02_####.tif". Number in the file name corresponds to slice number through the specimen. Can be opened as single images with most standard image viewing software, but best viewed as a stack of TIFs in ImageJ or a segmentation software such as Dragonfly 3D World. Combine in a single folder with the TIF files in 6_9_26_P20_Echidna_pt1.zip (see above) to obtain the full stack of TIF files for the p20 specimen.
File: 7_9_26_P50_Echidna.zip
Description: ZIP file containing CT-scan information and tiff files reconstructed from a micro-CT scan of the head of a p50 (fifty days post-hatching) Tachyglossus specimen, accessioned as 7/9/26 (see Access Information below).
Contents:
7_9_26_P50_tifs: Folder containing the TIF files that make up the tomographic data of this specimen, named as "JR_echidna_D50_retry_####.tif". Four digit number in the file name corresponds to slice number through the specimen. Can be opened as single images with most standard image viewing software, but best viewed as a stack of TIFs in ImageJ or a segmentation software such as Dragonfly 3D World.
7_9_26_P50.ctprofile.xml: Extensible Markup Language file produced during CT scanning process containing parameters used by the scanner during data acquisition, some of which are also found in Scanning_parameters_table.xlsx. Can be opened by text editor software such as Notepad.
File: 8_9_26_subadult_Echidna.zip
Description: ZIP file containing CT-scan information and tiff files reconstructed from a micro-CT scan of the head of a subadult (exact age unknown) Tachyglossus specimen, accessioned as 8/9/26 (see Access Information below).
Contents:
8_9_26_subadult_tifs: Folder containing the TIF files that make up the tomographic data of this specimen, named as "JR_echidna_juv_3_####.tif". Four digit number in the file name corresponds to slice number through the specimen. Can be opened as single images with most standard image viewing software, but best viewed as a stack of TIFs in ImageJ or a segmentation software such as Dragonfly 3D World.
8_9_26_subadult.ctprofile.xml: Extensible Markup Language file produced during CT scanning process containing parameters used by the scanner during data acquisition, some of which are also found in Scanning_parameters_table.xlsx. Can be opened by text editor software such as Notepad.
File: Scanning_parameters_table.xlsx
Description: Excel spreadsheet containing parameters used when scanning each Tachyglossus specimen, including scanning facility, voxel size, energy, exposure time and number of projections. NOTE: Exposure time for the tomographic data of P20 is not available (N/A) due to failure to record during the scanning process. Open using Microsoft Excel
- Accession number (Museum of Life Sciences, Guy’s Hospital): Accession number of the specimen, see Access Information below for more information.
- Age: Age of each Tachyglossus specimen. Note that 'P' here stands for 'post-hatching', representing the number of days since each specimen emerged from the egg. P0 represents the day of hatching.
- Scanning Facility: Location that each Tachyglossus specimen was scanned in, and the make and model of scanner used to produce the tomographic data.
- Voxel size (mm): Real-world length represented by each side of each 3D voxel in the tomographic data, measured in millimetres. Voxel size is equal in the X, Y and Z directions. This number is used to scale the image files to accurate size when opening the data.
- Number of projections: The number of X-ray projections produced during the scanning of each specimen. Note that this does ot correspond to the number of DICOM or TIF files, which are produced via a reconstruction algorithm after scanning is complete.
- Exposure time (ms): The time taken for the X-ray detector sensor to capture a single projection, measured in milliseconds.
- Engergy (kV): The energy applied to each X-ray when capturing the tomographic data, measured in kilovolts.
- Amperage (uA): The amperage used during micro-computed tomography scanning, measured in microamps.
Code/software
Tomographic data of each specimen can be opened using any image viewer compatible with stacked tomographic images (e.g. Avizo, ImageJ etc.). All data in the accompanying project was analysed in Dragonfly 3D World Version 2022.2 Build 1367 (Object Research Systems, Montréal, Québec, Canada).
Access Information
Data was derived from the following sources:
- The specimens were scanned on a Scanco uCT50 microCT scanner (Scanco) at King’s College London (P0, P3 specimens), a Phoenix Nanotom M (Waygate Technologies) at the University of Melbourne (P20), and a Nikon XTH225 ST Micro CT scanner at the University of Bristol (P50 and subadult specimens).
- The University of Queensland Animal Experimentation Ethics Committees approved all sampling for echidnas, in accordance with the National Health and Medical Research Council of Australia Guidelines (2013).
All echidna specimens have been accessioned in the Museum of Life Sciences located in Guy's campus, Great Maze Pond, London, SE1 1UL and are currently located in the Centre for Craniofacial and Regenerative Biology in King's College London.
This work is licensed under a CC0 1.0 Universal (CC0 1.0) Public Domain Dedication license. This work was published on 17/09/2026.
