10.5061/DRYAD.XKSN02VC2
Davesne, Donald
0000-0002-4775-2360
University of Oxford
Schmitt, Armin
University of Oxford
Fernandez, Vincent
Natural History Museum, London
Benson, Roger
University of Oxford
Sanchez, Sophie
Uppsala University
Data for: Three-dimensional characterization of osteocyte volumes at
multiple scales, and its relationship with bone biology and genome
evolution in ray-finned fishes
Dryad
dataset
2020
Osteocytes
bone biology
SRµCT
genome size
palaeogenomics
Leverhulme Trust
https://ror.org/012mzw131
RPG-2016-168
2020-03-27T00:00:00Z
2020-03-27T00:00:00Z
en
https://doi.org/10.1111/jeb.13612
30860021 bytes
6
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Osteocytes, cells embedded within the bone mineral matrix, inform on key
aspects of vertebrate biology. In particular, a relationship between
volumes of the osteocytes and bone growth and/or genome size has been
proposed for several tetrapod lineages. However, the variation in
osteocyte volume across different scales is poorly characterised, and
mostly relies on incomplete, two-dimensional information. In this study,
we characterise the variation of osteocyte volumes in ray-finned fishes
(Actinopterygii), a clade including more than half of modern vertebrate
species in which osteocyte biology is poorly known. We use X-ray
synchrotron micro-computed tomography (SRµCT) to achieve a
three-dimensional visualisation of osteocyte lacunae and direct
measurement of their size (volumes). Our specimen sample is designed to
characterise variation in osteocyte lacuna morphology at three scales:
within a bone, among the bones of one individual and among species. At the
intra-bone scale, we find that osteocyte lacunae vary noticeably in size
between zones of organised and woven bone (being up to six times larger in
woven bone), and across cyclical bone deposition. This is probably
explained by differences in bone deposition rate, with larger osteocyte
lacunae contained in bone that deposits faster. Osteocyte lacuna volumes
vary 3.5-fold among the bones of an individual, and this cannot readily be
explained by variation in bone growth rate or other currently observable
factors. Finally, we find that genome size provides the best explanation
of variation in osteocyte lacuna volume among species: actinopterygian
taxa with larger genomes (polyploid taxa in particular) have larger
osteocyte lacunae (with a nine-fold variation in median osteocyte volume
being measured). Our findings corroborate previous two-dimensional studies
in tetrapods that also observed similar patterns of intra-individual
variation and found a correlation with genome size. This opens new
perspectives for further studies on bone evolution, physiology and
palaeogenomics in actinopterygians, and vertebrates as a whole.
These data sheets (in the .csv format) are generated from the software
VGStudioMax. They stem from the segmenting of tomograms (digital
'slices') obtained with PPC-SRµCT (synchrotron microtomography)
of modern ray-finned fish bones. The osteocyte lacunae (bone cell spaces)
were segmented out of the bone mineral matrix, and analysed with the
'Porosity/Inclusion' module to automatically obtain a set of
measurements. These include (but are not limited to): osteocyte lacuna
volumes (µm³), position in the x, y and z axis and range of tomogram gray
values. Each data sheet corresponds to one set of segmented objects
(osteocytes lacunae and a few, mostly smaller, unidentified objects) from
each PPC-SRµCT tomogram (list of specimens and scans in the accompanying
article), with two segmenting thresholds ('min' and
'max') for each tomogram. The name of each file corresponds to
the following convention: 'Genus name' _ 'Species
name' _ 'Specimen number'_ 'Bone' _
'Location in bone (when appropriate)' _ 'Segmenting
threshold'