Find research datasets worth reusing

opencc-by-4.0Jun 2017View details →

Supporting data for 'Simultaneous maximum a posteriori longitudinal PET image reconstruction'

This dataset contains the data used to produce the paper: 'Simultaneous maximum a posteriori longitudinal PET image reconstruction' by Ellis and Reader, Physics in Medicine and Biology (2017). DOI: http://dx.doi.org/10.1088/1361-6560/aa7b49. Please see the article for a full description of methodology used to obtain this data. The dataset comprises a number of MATLAB data files (.mat), MATLAB scripts (.m), and plain text files (.txt), corresponding to each figure in the article. Running the .m script in MATLAB for each figure will reproduce that figure approximately as it appears in the article. Furthermore, the .txt files describe the contents of the .mat data files in order to allow independent exploration of the data. Note that the function plotSparseMarker is required to be able to run fig5.m. This work was funded by the King’s College London & Imperial College London EPSRC Centre for Doctoral Training in Medical Imaging (grant number EP/L015226/1) and supported by the EPSRC grant number EP/M020142/1. This data has been made available in accordance with the EPSRC's policy framework on research data.

opencc-by-4.0Dec 2024View details →

Additional data: Longitudinal single-cell multiomic atlas of high-risk neuroblastoma reveals chemotherapy-induced tumor microenvironment rewiring

This repository provides additional data for the manuscript titled "Longitudinal single-cell multiomic atlas of high-risk neuroblastoma reveals chemotherapy-induced tumor microenvironment rewiring", currently under revision at Nature Genetics. The primary data cohort has been deposited in the HTAN data portal. This repository includes processed 10x Xenium spatial transcriptomic data for six TH-MYCN mice (three chemotherapy-treated and three treatment-naive) as well as processed scRNA-seq data for CHLA15 and CHLA20 neuroblastoma (NBL) cells. The scRNA-seq data includes mono-cultured, co-cultured cells with THP-1 macrophages, and co-culture cells treated with Afatinib/CRM197.

opencc-by-4.0Dec 2017View details →

CATCH-EyoU: Processes in Youth's Construction of Active EU Citizenship: Longitudinal Survey Data: Wave 1 & Wave 2: Estonia

The data set was generated within the research project Constructing AcTive CitizensHip with European Youth: Policies, Practices, Challenges and Solutions (CATCH-EyoU) funded by European Union, Horizon 2020 Programme - Grant Agreement No 649538. The data set is a truncated version of the adolescents’ and young adults’ longitudinal survey that was carried out in Estonia from October 2016 to February 2018. It merges results of two polls (15-19 and 20-30 year olds). Survey was conducted by Univversity of Tartu (UT) within the WP7 research activity which aims at testing processes influencing societal and political engagement of young people.

opencc-by-4.0Aug 2021View details →

Longitudinal data to explore changes in flood risk awareness and preparedness

This upload includes two different longitudinal datasets. The Panel datasets includes two rounds of surveys where the same individuals were interviewed. The Repeated Cross-Sectional includes two rounds of surveys where different individuals were interviewed in each round. The first survey round is the same in the two datasets. Data were collected in the municipality of Negrar (VR), in North-eastern Italy in February 2019 and in February 2020, following a flash flood which occurred in September 2018.

dryad40/100

Data from: Wildlife fecal microbiota exhibit community stability across a semi-controlled longitudinal non-invasive sampling experiment

Wildlife microbiome studies are being used to assess microbial links with animal health and habitat. The gold standard of sampling microbiomes directly from captured animals is ideal for limiting potential abiotic influences on microbiome composition, yet fails to leverage the many benefits of non-invasive sampling. Application of microbiome-based monitoring for rare, endangered, or elusive species creates a need to non-invasively collect scat samples shed into the environment. Since controlling sample age is not always possible, the potential influence of time-associated abiotic factors was assessed. To accomplish this, we analyzed partial 16S rRNA genes of fecal metagenomic DNA sampled non-invasively from Rocky Mountain elk (Cervus canadensis) near Yellowstone National Park. We sampled pellet piles from four different elk, then aged them in a natural forest plot for 1, 3, 7, and 14 days, with triplicate samples at each time point (i.e., a blocked, repeat measures (longitudinal) study design). We compared microbiomes of each elk through time with point estimates of diversity, bootstrapped hierarchical clustering of samples, and a version of ANOVA–simultaneous components analysis (ASCA) with PCA (LiMM-PCA) to assess the variance contributions of time, individual and sample replication. Our results showed community stability through days 0, 1, 3 and 7, with a modest but detectable change in abundance in only 2 genera (Bacteroides and Sporobacter) at day 14. The total variance explained by time in our LiMM-PCA model across the entire 2-week period was not statistically significant (p>0.195) and the overall effect size was small (<10% variance) compared to the variance explained by the individual animal (p<0.0005; 21% var.). We conclude that non-invasive sampling of elk scat collected within one week during winter/early spring provides a reliable approach to characterize microbiome composition in a 16S rDNA survey and that sampled individuals can be directly compared across unknown time points with minimal bias. Further, point estimates of microbiome diversity were not mechanistically affected by sample age. Our assessment of samples using bootstrap hierarchical clustering produced clustering by animal (branches) but not by sample age (nodes). These results support greater use of non-invasive microbiome sampling to assess ecological patterns in animal systems.

opencc-zeroNov 2023View details →

opencc-by-4.0Sep 2021View details →

Viral Communication: Longitudinal Survey Data on the Social Dimensions of the COVID-19 Pandemic

This dataset represents the anonymised data collected as part of the Viral Communication (Understand-ELSED) project, which focussed on the social and ethical dimensions of the COVID-19 pandemic in Germany. It includes the three measurements; Phase I (30 October 2020 and 14 December 2020), Phase II (2 March 2021 and 22 March 2021) and Phase III. The first phase built the foundation for the wider suite of data collection approaches and research methods used in the Viral Communication project by allowing respondents to opt-in to multiple research pathways. Overall sample frame (Phase I): N = 1480 Phase II sample frame: N = 482 Phase III sample frame: N = 426 Computed variables such as weights, groupings (experimental set-ups), and composite scores are included in the dataset.

opencc-by-4.0Mar 2022View details →

Longitudinal structural MRI, MRS, and behavioral data for mice prenatally exposed to maternal immune activation at gestational day 9

Previous evidence from our lab (https://cobralab.ca/) and others suggest that prenatal exposure to maternal immune activation (MIA) can impact trajectories of neurodevelopment as measured through brain anatomy and behavior in mice. Yet, there are still open questions regarding the alterations to developmental trajectories, as well as the impact on brain chemistry, that this data set seeks to explore. The dataset presented here includes magnetic resonance imaging (MRI) and magnetic resonance spectroscopy (MRS) data from two timepoints, adolescence (postnatal day [PND 35]) and young adulthood (PND 60) in C57BL/6J mice prenatally exposed either to poly I:C (POL) inducing maternal immune activation (MIA) or saline (SAL) at gestational day (GD) 9. The dataset also includes three behaviors acquired after each scanning session with 2 days of rest between the scans and each behavior: open field test, social novel object preference test, and prepule inhibition. Finally, the data also include cytokine assays acquired from a separate sample of pregnant mice and a test-retest of MRS acquired from a voxel in the anterior cingulate area.  The data here published were collected and analyzed for a paper under review, available as a preprint where more details can be found here: https://www.preprints.org/manuscript/202203.0136/v1. In brief, using whole-brain, voxelwise analysis techniques (deformation-based morphometry) we found MIA subtly altered developmental trajectories, reducing volume relative to SAL offspring in the hippocampus and the anterior, right caudate putamen, and increasing volume in the posterior, left caudate putamen and cerebellum. Additionally, there was a trending decrease of myo-inositol and GABA in MIA offspring at PND 60 compared to SAL controls. Finally, there was a trending decrease in ratio of distance travelled in the anxiogenic center zone of an open field compared to the outer areas at PND 35 for MIA offspring.  In this dataset you will find a total of 80 preprocessed structural MRIs in minc format acquired at postnatal day ~35 and ~60 in mice exposed to 5mg/kg poly I:C or vehicle control (0.9% sterile saline) at GD9. The images are included in CUPO_MIA_mncs.zip. These are T1-weighted structural images with two averages; repetition time (TR)/echo time (TE) = 21.55 ms/5.13 ms, matrix size = 260 x 158 x 210, voxel dimensions =&thinsp;70 µm isotropic, flip angle =&thinsp;20°, 23 min total using 5% isoflurane for induction, 1.5% for maintenance of anesthesia during the scan on a cryogenically-cooled surface coil. T1-weighted scans were preprocessed by stripping native coordinates, flipping left-right to maintain fidelity, denoising, correcting inhomogeneities in the bias field using the N4 algorithm, and registering in LSQ6 alignment (i.e. 6 degrees of freedom are allowed for imagine alignment: translations and rotations along x, y, and z dimensions). The demographics information for each animal is included in the demographics.csv file.  Behavioural tests were performed following the postnatal day 35 and 60 scans in all animals with a 2 day rest period. These include: open field test, three chambered social approach, and prepulse inhibition. The data for all of these tests is presented in individual .csv spreadsheet and includes data for both the timepoints evaluated. Additionally, cytokine panels were collected from an independent cohort of 7 dams. MRS data are included in two formats: 1) preprocessed quantifications from LCModel software in csvs, and 2) raw data with press and press_w (respectively water supressed and unsupressed acquisitions) for analysis. The raw data were released in upload version 1.1.0. MRS was acquired from a 1.2 x 2.6 x 2.5 mm3 voxel in the ACA with a Point Resolved Spectroscopy sequence (PRESS; TR/TE=3000/8.5 ms, 256 averages). Within the raw_data.zip, Included in this data set are the structural MRIs in MINC format, the behavioural .csv data, the MRS data (csvs and raw files), and a README file providing further detail on the data structure and content, and on how to interpret the data column titles. DICOMS are also available for the structural MRI data, as are the raw (not-preprocessed) MINC files, available upon request to the authors.

opencc-by-4.0May 2022View details →

Study-Data: Longitudinal Study about the relationship between computer mouse usage and emotional states

This Dataset contains the raw data files of the longitudinal study about the relationship between computer mouse usage and emotional states. The files are gzipped json files. There are 3 separate data files. <ol> <li>The self-directed mouse usage data recorded during a 5 minute interval of regular computer use (FreeMouse_dataset)</li> <li>The mouse usage data during the point-and-click task (MouseTask_dataset)</li> <li>The sociodemographics of the dataset (sociodem_dataset)</li> </ol> Note that the sociodemographic data is also included in the FreeMouse dataset as well as in the MouseTask dataset. For any questions about the dataset, contact: paul.freihaut@psychologie.uni-freiburg.de

Text-fig. 10. Langtonia bisulcata REID et CHANDLER. a, b, e–g: Holotype, V. 22984, from micro-CT data. a: Dorsiventral view surface rendering. b: Dorsiventral view translucent volume rendering showing outline of locule cast. c: Equatorial transverse fracture showing paired dorsal infolds and locules with shape of a ε in cross section, reflected light, V. 22993. d: Digital transverse section from micro-CT data, of fruit with two well developed ε-shaped locules, V. 22985. e–g: Successive digital transverse sections with one well developed ε-shaped locule and infolds of the abortive locule visible in (g) (arrows). h–j: Physical transverse thin sections of specimen from middle Eocene Clarno Formation, Oregon, USA with well-preserved mesocarp including longitudinal canals in (j) (arrows), USNM 424875; Scale bars 0.5 cm in (a, b), 2.5 mm in (c–g), 5 mm in (h), 2 mm in (i), 1 mm in (j); (a, b) share same scale bar; (c, d) share same scale bar; (e, f, g) share same scale bar. in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 10. Langtonia bisulcata REID et CHANDLER. a, b, e–g: Holotype, V. 22984, from micro-CT data. a: Dorsiventral view surface rendering. b: Dorsiventral view translucent volume rendering showing outline of locule cast. c: Equatorial transverse fracture showing paired dorsal infolds and locules with shape of a ε in cross section, reflected light, V. 22993. d: Digital transverse section from micro-CT data, of fruit with two well developed ε-shaped locules, V. 22985. e–g: Successive digital transverse sections with one well developed ε-shaped locule and infolds of the abortive locule visible in (g) (arrows). h–j: Physical transverse thin sections of specimen from middle Eocene Clarno Formation, Oregon, USA with well-preserved mesocarp including longitudinal canals in (j) (arrows), USNM 424875; Scale bars 0.5 cm in (a, b), 2.5 mm in (c–g), 5 mm in (h), 2 mm in (i), 1 mm in (j); (a, b) share same scale bar; (c, d) share same scale bar; (e, f, g) share same scale bar.

Text-fig. 6. Exbeckettia mastixioides (E.REID et M.CHANDLER) comb. nov. from the London Clay. a–f: Holotype, V. 23002, bilocular fruit. a–d: Surface renderings from micro-CT data. a: Apical view. b: Basal view. c: Lateral view with dorsal surface of locule facing forward. d: lateral view with interlocular septum facing forward. e, f: Digital sections from micro-CT data. e: transverse equatorial showing U-shaped locules and distinct dark endocarp (arrows). f: Median longitudinal intercepting both locules. g: lateral view of bilocular fruit with interlocular septum facing forward. V. 23013(3). h: Apical view of bilocular fruit with two exposed locule casts, V. 23013(1). i–l: Fruits in physical transverse section showing U-shaped locules and distinct locule lining. i: Bilocular fruit shown in (g). j: Bilocular fruit, V. 23007. k: Fruit with one locule larger than the other, V. 23006. l: Tetralocular fruit, V. 22993. Scale bar 5 mm in (a–l), bar in (a) applies also to (b–d), bar in (e) applies also to (f), bar in (j) applies to (i–l). in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 6. Exbeckettia mastixioides (E.REID et M.CHANDLER) comb. nov. from the London Clay. a–f: Holotype, V. 23002, bilocular fruit. a–d: Surface renderings from micro-CT data. a: Apical view. b: Basal view. c: Lateral view with dorsal surface of locule facing forward. d: lateral view with interlocular septum facing forward. e, f: Digital sections from micro-CT data. e: transverse equatorial showing U-shaped locules and distinct dark endocarp (arrows). f: Median longitudinal intercepting both locules. g: lateral view of bilocular fruit with interlocular septum facing forward. V. 23013(3). h: Apical view of bilocular fruit with two exposed locule casts, V. 23013(1). i–l: Fruits in physical transverse section showing U-shaped locules and distinct locule lining. i: Bilocular fruit shown in (g). j: Bilocular fruit, V. 23007. k: Fruit with one locule larger than the other, V. 23006. l: Tetralocular fruit, V. 22993. Scale bar 5 mm in (a–l), bar in (a) applies also to (b–d), bar in (e) applies also to (f), bar in (j) applies to (i–l).

Text-fig. 1. Diplopanax cacaoides (ZENKER) comb. nov. a–d: [Holotype of Mastixia cantia E.REID et M.CHANDLER, V.22953]. a: Lateral view of longitudinally broken specimen, reflected light. b–d: Surface renderings from micro-CT data. b: Lateral view of longitudinal fracture surface. c: Same specimen rotated to show external surface. d: Enlargement of lower half from (a, b), reflected light. e, f: Specimen figured originally as a paratype of M. cantia, V.22954 (Reid and Chandler 1933: pl. 25, fig. 3), reflected light. e: Ventral view with much of the endocarp wall fallen away exposing smooth convex ventral surface of locule cast. f: Transversely fractured surface, showing thick wall of the endocarp, and dehiscence plane leading to the left limb of the locule. g: Transversely sectioned, laterally compressed specimen from Miocene of Wiesa, Germany for comparison, Senckenberg Museum, SM.B. 21034/I. h–j: Digital transverse sections from micro-CT data of the Holotype V.22953. h: Transverse fracture surface from (b), showing curved locule and zone of weakness defining the germination valve (arrow), reflected light. i: Same orientation with clear demarcation of the separation plane of the germination valve (arrow), digital section from micro-CT scan. j: Enlargement from (h). Scale bars 5 mm. in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 1. Diplopanax cacaoides (ZENKER) comb. nov. a–d: [Holotype of Mastixia cantia E.REID et M.CHANDLER, V.22953]. a: Lateral view of longitudinally broken specimen, reflected light. b–d: Surface renderings from micro-CT data. b: Lateral view of longitudinal fracture surface. c: Same specimen rotated to show external surface. d: Enlargement of lower half from (a, b), reflected light. e, f: Specimen figured originally as a paratype of M. cantia, V.22954 (Reid and Chandler 1933: pl. 25, fig. 3), reflected light. e: Ventral view with much of the endocarp wall fallen away exposing smooth convex ventral surface of locule cast. f: Transversely fractured surface, showing thick wall of the endocarp, and dehiscence plane leading to the left limb of the locule. g: Transversely sectioned, laterally compressed specimen from Miocene of Wiesa, Germany for comparison, Senckenberg Museum, SM.B. 21034/I. h–j: Digital transverse sections from micro-CT data of the Holotype V.22953. h: Transverse fracture surface from (b), showing curved locule and zone of weakness defining the germination valve (arrow), reflected light. i: Same orientation with clear demarcation of the separation plane of the germination valve (arrow), digital section from micro-CT scan. j: Enlargement from (h). Scale bars 5 mm.

Text-fig. 4. Mastixia cf. oregonensis (R.A.SCOTT) TIFFNEY et HAGGARD from the London Clay, originally included within the concept of M. cantiensis. a–c: V. 22960(1). a: Transverse fracture, showing c-shaped locule, dorsal infold, and sculptured endocarp, reflected light. b: Transverse digital section from micro-CT scan data. c: Surface view of ribbed endocarp extracted from micro-CT data. d: Transverse fracture, reflected light, V. 22955 (originally illustrated in pl. 25, fig. 4 of Reid and Chandler 1933). e, f: Transverse physical section, V. 22963(2) showing U-shaped locule and longitudinal dorsal infold. g–i reflected light. g: Detail from left of (d). h, i: Detail from right of (f). Scale bars 5 mm in (a–f), 1 mm in (g–i). in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 4. Mastixia cf. oregonensis (R.A.SCOTT) TIFFNEY et HAGGARD from the London Clay, originally included within the concept of M. cantiensis. a–c: V. 22960(1). a: Transverse fracture, showing c-shaped locule, dorsal infold, and sculptured endocarp, reflected light. b: Transverse digital section from micro-CT scan data. c: Surface view of ribbed endocarp extracted from micro-CT data. d: Transverse fracture, reflected light, V. 22955 (originally illustrated in pl. 25, fig. 4 of Reid and Chandler 1933). e, f: Transverse physical section, V. 22963(2) showing U-shaped locule and longitudinal dorsal infold. g–i reflected light. g: Detail from left of (d). h, i: Detail from right of (f). Scale bars 5 mm in (a–f), 1 mm in (g–i).

Text-fig. 2. Tectocarya spp. a–n: Tectocarya grandis (E.REID et M.CHANDLER) comb. n. Holotype V.22968. a: Lateral view of broken endocarp, reflected light. b–d: Longitudinal views, surface renderings from micro-CT data. e: Translucent volume renderings. f: Apical view, surface rendering. g: View of transversely broken surface showing curved locule, reflected light. h–n: Successive digital transverse sections. Note septum in the dorsal infold (arrows). o, p: Tectocarya rhenana KIRCHH., Miocene of Germany, dorsal view and transverse section [Holotype of Mastixoidea tectocaryoides KIRCHH., Alfred Mine near Konzendorf, photo by Dieter Mai] (Synonym of T. rhenana MAI, 1993). q: T. rhenana transverse section. from Mine Alfred, Düren, Germany, coll. Claire A. Brown 1952, USNM 355632. r, s: Tectocarya sp. from late Eocene of Post, Oregon, USA, physical transverse section, reflected light. UF279-50014. [Surface views of same specimen shown in Manchester and McIntosh 2007: figs 62, 63]. Scale bars 1 cm in (a–r), 0.5 cm in (s). in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 2. Tectocarya spp. a–n: Tectocarya grandis (E.REID et M.CHANDLER) comb. n. Holotype V.22968. a: Lateral view of broken endocarp, reflected light. b–d: Longitudinal views, surface renderings from micro-CT data. e: Translucent volume renderings. f: Apical view, surface rendering. g: View of transversely broken surface showing curved locule, reflected light. h–n: Successive digital transverse sections. Note septum in the dorsal infold (arrows). o, p: Tectocarya rhenana KIRCHH., Miocene of Germany, dorsal view and transverse section [Holotype of Mastixoidea tectocaryoides KIRCHH., Alfred Mine near Konzendorf, photo by Dieter Mai] (Synonym of T. rhenana MAI, 1993). q: T. rhenana transverse section. from Mine Alfred, Düren, Germany, coll. Claire A. Brown 1952, USNM 355632. r, s: Tectocarya sp. from late Eocene of Post, Oregon, USA, physical transverse section, reflected light. UF279-50014. [Surface views of same specimen shown in Manchester and McIntosh 2007: figs 62, 63]. Scale bars 1 cm in (a–r), 0.5 cm in (s).

Text-fig. 3. Mastixia parva E.REID et M.CHANDLER. a–g: Holotype, V. 22972. a: Ventral view (original illustration from pl. 25, fig. 13 of Reid and Chandler 1933), reflected light. b–g: from micro-CT data. b: Dorsal view of specimen in (a) now suffering from encrustation due to pyrite decay; isosurface rendering. c: Translucent volume rendering, dorsal view showing two limbs of the locule and longitudinal groove. d–g: Digital transverse sections at various positions showing c-shaped locule, longitudinal dorsal infold, endocarp wall, and degradational cracks. h, i: V. 22983(1). h: Dorsal view showing longitudinal infold. i: Physical transverse section showing c-shaped locule and longitudinal dorsal infold. Scale bars 5 mm in (a–h), applies also to (b–g), 2 mm in (i). in Mastixioid Fruits (Cornales) From The Early Eocene London Clay Flora: Morphology, Anatomy And Nomenclatural Revision

Text-fig. 3. Mastixia parva E.REID et M.CHANDLER. a–g: Holotype, V. 22972. a: Ventral view (original illustration from pl. 25, fig. 13 of Reid and Chandler 1933), reflected light. b–g: from micro-CT data. b: Dorsal view of specimen in (a) now suffering from encrustation due to pyrite decay; isosurface rendering. c: Translucent volume rendering, dorsal view showing two limbs of the locule and longitudinal groove. d–g: Digital transverse sections at various positions showing c-shaped locule, longitudinal dorsal infold, endocarp wall, and degradational cracks. h, i: V. 22983(1). h: Dorsal view showing longitudinal infold. i: Physical transverse section showing c-shaped locule and longitudinal dorsal infold. Scale bars 5 mm in (a–h), applies also to (b–g), 2 mm in (i).

Text-fig. 3. Juglandaceae. Carya (a–x). Scale bars = 1 cm. a–e: USNM PAL 772346. Micro-CT scan surface rendering. a, b: Lateral, c: apical, d: basal views. e: Virtual equatorial transverse section. f–n: USNM PAL 772347. f: Lateral view, reflected light, showing path of saw cut for transverse section of (i). g: Basal view, reflected light. h: Apical view, micro-CT surface rendering. i: Physical transverse section displaying locule and cellular preservation of parts of wall. j–n: Virtual sections from micro-CT scan data. j: Transverse section at apical 1/3 of nut. Note narrow lacunae (arrows). k: Longitudinal section parallel to primary septum, traversing one of the cotyledon lobes and showing secondary septum at base. l: Longitudinal section in plane at right angles to (k) in plane of primary septum, showing divergent placental bundles arising from base of nut (arrows). m: Equatorial transverse section showing two lobes of locule separated by primary septum. n: Transverse section near base of nut showing primary and secondary septa, creating four basal lobes of locule; note diverging placental bundles (arrows). o–x: USNM PAL 772351. o: Lateral view of broken nut with exposed locule cast, reflected light. p: Same orientation of nut, micro-CT surface rendering. q: Same specimen lateral view, rotated 90° from (p), micro-CT surface rendering. r: Apical view, reflected light. s–x: Virtual sections from micro-CT in The Early Middle Eocene Wagon Bed Carpoflora Of Central Wyoming, U.S.A.

Text-fig. 3. Juglandaceae. Carya (a–x). Scale bars = 1 cm. a–e: USNM PAL 772346. Micro-CT scan surface rendering. a, b: Lateral, c: apical, d: basal views. e: Virtual equatorial transverse section. f–n: USNM PAL 772347. f: Lateral view, reflected light, showing path of saw cut for transverse section of (i). g: Basal view, reflected light. h: Apical view, micro-CT surface rendering. i: Physical transverse section displaying locule and cellular preservation of parts of wall. j–n: Virtual sections from micro-CT scan data. j: Transverse section at apical 1/3 of nut. Note narrow lacunae (arrows). k: Longitudinal section parallel to primary septum, traversing one of the cotyledon lobes and showing secondary septum at base. l: Longitudinal section in plane at right angles to (k) in plane of primary septum, showing divergent placental bundles arising from base of nut (arrows). m: Equatorial transverse section showing two lobes of locule separated by primary septum. n: Transverse section near base of nut showing primary and secondary septa, creating four basal lobes of locule; note diverging placental bundles (arrows). o–x: USNM PAL 772351. o: Lateral view of broken nut with exposed locule cast, reflected light. p: Same orientation of nut, micro-CT surface rendering. q: Same specimen lateral view, rotated 90° from (p), micro-CT surface rendering. r: Apical view, reflected light. s–x: Virtual sections from micro-CT

Text-fig. 4. Juglandaceae Carya (a–w). Scale bars = 1 cm. a–d: USNM PAL 772352, reflected light, palladium coated. a: Obliquelateral view of nut, apex up. b: Basal view with damage to left and clear depiction of meridional grooves. c, d: Two lateral views oriented about 130° from each other and avoiding the area of damage; the meridional grooves clear in (c). e–l: USNM PAL 772350. e: Intact nut, lateral view, apex up, reflected light. f: One half of split nut revealing in situ chalcedony locule cast, reflected light. g–k: Virtual sections from micro-CT data. g: Longitudinal section parallel to the exposed face in (f). h: Longitudinal section at 90° from (g). i: Transverse section in apical 1/3 showing locule bracketed by C-shaped lacunae (arrows). j: Equatorial transverse section showing two lobes of the locule separated by primary septum, lacuna evident below as white line. k: Transverse section near base in The Early Middle Eocene Wagon Bed Carpoflora Of Central Wyoming, U.S.A.

Text-fig. 4. Juglandaceae Carya (a–w). Scale bars = 1 cm. a–d: USNM PAL 772352, reflected light, palladium coated. a: Obliquelateral view of nut, apex up. b: Basal view with damage to left and clear depiction of meridional grooves. c, d: Two lateral views oriented about 130° from each other and avoiding the area of damage; the meridional grooves clear in (c). e–l: USNM PAL 772350. e: Intact nut, lateral view, apex up, reflected light. f: One half of split nut revealing in situ chalcedony locule cast, reflected light. g–k: Virtual sections from micro-CT data. g: Longitudinal section parallel to the exposed face in (f). h: Longitudinal section at 90° from (g). i: Transverse section in apical 1/3 showing locule bracketed by C-shaped lacunae (arrows). j: Equatorial transverse section showing two lobes of the locule separated by primary septum, lacuna evident below as white line. k: Transverse section near base

opencc-zeroMay 2024View details →

dryad40/100

Data from: Longitudinal gut microbiome dynamics in relation to age and senescence in a wild animal population

In humans, gut microbiome (GM) differences are often correlated with, and sometimes causally implicated in, ageing. However, it is unclear how these findings translate in wild animal populations. Studies that investigate how GM dynamics change within individuals, and with declines in physiological condition, are needed to fully understand links between chronological age, senescence, and the GM, but have rarely been done. Here, we use longitudinal data collected from a closed population of Seychelles warblers (Acrocephalus sechellensis) to investigate how bacterial GM alpha diversity, composition, and stability are associated with host senescence. We hypothesised that GM diversity and composition will differ, and become more variable, in older adults, particularly in the terminal year prior to death, as the GM becomes increasingly dysregulated due to senescence. However, GM alpha diversity and composition remained largely invariable with respect to adult age and did not differ in an individual's terminal year. Furthermore, there was no evidence that the GM became more heterogenous in senescent age groups (individuals older than 6 years), or in the terminal year. Instead, environmental variables such as season, territory quality, and time of day, were the strongest predictors of GM variation in adult Seychelles warblers. These results contrast with studies on humans, captive animal populations, and some (but not all) studies on non-human primates, suggesting that GM deterioration may not be a universal hallmark of senescence in wild animal species. Further work is needed to disentangle the factors driving variation in GM-senescence relationships across different host taxa.