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Supplementary material 2 from: Zafeiropoulos H, Gargan L, Hintikka S, Pavloudi C, Carlsson J (2021) The Dark mAtteR iNvestigator (DARN) tool: getting to know the known unknowns in COI amplicon data. Metabarcoding and Metagenomics 5: e69657. https://doi.org/10.3897/mbmg.5.69657
Table S2
Supplementary material 1 from: Zafeiropoulos H, Gargan L, Hintikka S, Pavloudi C, Carlsson J (2021) The Dark mAtteR iNvestigator (DARN) tool: getting to know the known unknowns in COI amplicon data. Metabarcoding and Metagenomics 5: e69657. https://doi.org/10.3897/mbmg.5.69657
Table S1
Supplementary data to: Trapped in the morphospace: the trade-off between morphological integration and functional performance can limit adaptation
<p>The evolution of complex morphological structures can be seen as the result of interplay between different anatomical units evolving in a coordinated fashion. These can be influenced by genetic, developmental and/or functional integration in response to selective pressures. Using the highly derived humeral morphology of talpid moles as model, here we test whether functional specialization (measured as performance) can be linked to increased levels of morphological integration and, if so, what is the extent of the relationship. Combining 2D geometric morphometrics, phylogenetic comparative methods and functional landscape modelling, we demonstrate that the high biomechanical performance of subterranean moles was coupled with a high degree of integration, whereas less specialized taxa displayed intermediate or low magnitudes of integration. Theoretical morphs occurring in high-performance areas of the functional landscape not covered by any species showed a marked drop in covariation levels, suggesting the existence of a genuine tradeoff between integration and performance in the evolution of talpid moles. We argue that the remarkable stability of the subterranean environment may have helped constraining humeral morphology over a restricted area of the functional landscape, trapping subterranean moles in a narrow region of the landscape, impeding any attempt to reposition on a new ascending slope.</p>
Supplementary material 1 from: Inäbnit T, Jochum A, Slapnik R, Neubert E (2021) New genetic data reveals a new species of Zospeum in Bosnia (Gastropoda, Ellobioidea, Carychiinae). ZooKeys 1071: 175-193. https://doi.org/10.3897/zookeys.1071.66417
Figure S1
Supplementary Data from Article : Digging into Digging into Sheep Feed Efficiency using Rumen and Plasma Metabolomic Data.
<p><strong>Figure S1. </strong>Results of the Partial-Least Square Regression Discriminant Analysis on Plasma metabolites measured during the CONC phase. Samples from phenotypically efficient and inefficient animals are represented in gold circles and blue diamonds respectively. Variables with VIP values higher than 1.5 for the whole model are represented in green, those with values belonging to [1,1.5] are represented in red and those with values lower than 1 are represented in black. BER for the whole model is calculated. <strong>Figure S2. </strong>Results of the Partial-Least Square Regression Discriminant Analysis on Plasma metabolites measured during the MIX phase. Samples from phenotypically efficient and inefficient animals are represented in gold circles and blue diamonds respectively. Variables with VIP values higher than 1.5 for the whole model are represented in green, those with values belonging to [1,1.5] are represented in red and those with values lower than 1 are represented in black. BER for the whole model is calculated. <strong>Figure S3. </strong>Results of the Partial-Least Square Regression Discriminant Analysis on Rumenmetabolites measured during the CONC phase. Samples from efficient and inefficient animals are represented in gold circles and blue diamonds respectively. Variables with VIP values higher than 1.5 for the whole model are represented in green, those with values belonging to [1,1.5] are represented in red and those with values lower than 1 are represented in black. <strong>Figure S4. </strong>Results of the Partial-Least Square Regression Discriminant Analysis on Rumen metabolites measured during the MIX phase. Samples from efficient and inefficient animals are represented in gold circles and blue diamonds respectively. Variables with VIP values higher than 1.5 for the whole model are represented in green, those with values belonging to [1,1.5] are represented in red and those with values lower than 1 are represented in black.</p>
Supplementary Material for Ph.D. thesis: "Development of a data-intensive centralized system for surveillance and outbreak investigation of bacterial pathogens using whole-genome sequencing""
<p>Supplementary material for Ph.D. thesis.</p>
Supplementary Data of microbial diversity in the eastern Atlantic Ocean
<p>Supplementary Data of microbial diversity in the eastern Atlantic Ocean</p>
Quantitative analyses of feliform humeri reveal the existence of a very large cat in North America during the Miocene: Supplementary data
<p class="MsoNoSpacing">Felids are keystone predators in modern ecosystems and likely played a similar role in shaping ecosystem through the Cenozoic. Unfortunately, understanding the paleoecological impact of felids has been hampered by taxonomic confusion and uncertainty in big cat diversity through time. This stems, in part, from the importance of dentition in differentiating feliform taxa combined with the abundance of postcrania in the fossil record. This dilemma is best illustrated by the humeri of a very large felid uncovered from a number of Hemphillian-aged localities in North America that, in the absence of craniodental remains, have not previously been definitively identified. We present the results of an analysis of the potential of isolated distal humeri to identify feliform taxa. We compared the form and size of distal humeri across feliforms using geometric morphometric analysis and used linear measurements to reconstruct body mass and estimate prey size. Our results suggest that distal humeri are useful tools for differentiating feliform families, genera, and species. Further, along with a specimen from Idaho with associated dentition, they suggest that the large Hemphillian-aged felid is a new species of <em>Machairodus</em>. Future phylogenetic analyses will be necessary to reconstruct the evolutionary history of North American Machairodontinae, but this new taxon provides evidence for a diverse predator fauna during the late Miocene of North America that included some of the largest felids in Earth history.</p>
Supplementary Data - The Paris Biota decapod (Arthropoda) fauna and the diversity of Triassic decapods
<p>We describe here the early Spathian (Early Triassic) Paris Biota decapod fauna from the western USA basin. This fauna contains two taxa of Aegeridae (Dendobranchiata), namely <em>Anisaeger longirostrus</em> n. sp. and Aeger sp. that are the oldest known representatives of their family, thus extending its temporal range by 5 Myr back into the Early Triassic. This fauna also includes two representatives of Glypheida (Pleocyemata) with <em>Litogaster turnbullensis</em> Schram, 1971 and <em>Pemphix krumenackeri </em>n. sp., comforting for the former, and extending for the latter, the temporal range of their respective superfamily back to the Early Triassic. Overall, the Paris Biota decapods are some of the oldest known representatives of Decapoda, filling in an important gap in the evolutionary history of this group, especially during the Triassic that marks the early diversification of this clade. Additionally, we overview and compile all known Triassic decapods, which leads to the revision of four species of Middle and Late Triassic Aegeridae, and to a revised family assignment of a Middle Triassic Glypheida. Based on this refined dataset, we also investigate decapod diversity throughout the Triassic. We show that the apparent increase in decapod taxonomic richness is probably driven by the heterogeneity of the fossil record and/or sampling effort, and that the decapod alpha diversity is actually relatively high as soon as the Early Triassic and remains rather stable throughout the Triassic.</p>
Supplementary material 2 from: Li Y, Luo X, Zhang J, Wang Z, Che Y (2022) A new species of Bundoksia Lucañas, 2021 with comments on its subfamilial placement, based on morphological and molecular data. ZooKeys 1085: 145-163. https://doi.org/10.3897/zookeys.1085.72927
Table S2
Supplementary material 4 from: Li Y, Luo X, Zhang J, Wang Z, Che Y (2022) A new species of Bundoksia Lucañas, 2021 with comments on its subfamilial placement, based on morphological and molecular data. ZooKeys 1085: 145-163. https://doi.org/10.3897/zookeys.1085.72927
Figure S1
Supplementary material 1 from: Li Y, Luo X, Zhang J, Wang Z, Che Y (2022) A new species of Bundoksia Lucañas, 2021 with comments on its subfamilial placement, based on morphological and molecular data. ZooKeys 1085: 145-163. https://doi.org/10.3897/zookeys.1085.72927
Table S1
Supplementary material 3 from: Li Y, Luo X, Zhang J, Wang Z, Che Y (2022) A new species of Bundoksia Lucañas, 2021 with comments on its subfamilial placement, based on morphological and molecular data. ZooKeys 1085: 145-163. https://doi.org/10.3897/zookeys.1085.72927
Table S3
Supplementary data for "Detrainment and braking of snow avalanches interacting with forests"
<p>Figure 5. Data of Fig. 5. Evolution of the detrainment mass per unit of area of snow with the velocity (regular staggered forest, e= 8m).</p> <p>Figure 6. Data of Fig. 6. Evolution of the detrainment mass observed for the one tree arrangement and the fits with the tree diameter for 3 flow regimes: Case 1, Case 2, and Case 3 with respectively a front velocity of 12.5 m/s,10.9 m/s and 10.75 m/s, ‘maximum’ refer to the maximum mass stored behind the tree and ‘final’ refer to the final mass stored. A slope of 30°, and a top wedge angle of 60° (from measurements Feistl et al. (2014)) are used for the theoretical model (Eq. 8). The removed point denotes a special case not considered in the proposed square relation in Eq. 9, since the entire avalanche in this case is stopped due to the low flow velocity and the high tree diameter. Please note that it is a coincidence that Case 1 maximum and Case 2 final agree well.</p> <p>Figure 8. Data of Fig. 8. Evolution of the detrainment mass per unit of area with the tree diameter for different types of snow and front velocity (regular staggered forest, e = 8 m)</p> <p>Figure 9. Data of Fig. 9. (a) Evolution of the detrainment mass per unit of area with the forest density for different front velocities (regular staggered forest, snow properties: Case 2, m). (b) Evolution of the detrainment mass per unit of area with the tree diameter for a constant Stand Density Index, SDI = 925 trees/ha (regular staggered forest, m/s, snow properties: Case 2).</p> <p>Figure 10. Data of Fig. 10. Evolution of the detrainment mass predicted with the model (Eq. 11) and with the observation, the coefficient of determination r² for the model prediction on the detrainment mass is 0.9912.</p> <p>Figure 11. Data of Fig. 11. Temporal evolution of the kinetic and potential energy without forest and with a regular staggered forest (Case 2, v<sub>0 </sub>= 6 m/s).</p> <p>Figure 12. Data of Fig. 12. Temporal evolution of the detrainment energy and dissipation due to the forest (Case 2, v<sub>0 </sub>= 6 m/s).</p> <p>Figure 13. Data of Fig. 13. Energy detrainment and dissipation for different snow properties (1: Case 1, 2: Case 2, 3: Case 3 with M=1) and for 3 types of forest structure (regular aligned, regular staggered and random).</p>
Supplementary Data Tables for Stolper et al. (2022) Constraints on Early Paleozoic deep-ocean oxygen concentrations from the iron geochemistry of the Bay of Islands ophiolite in G-Cubed
<p>Supplementary data tables for Stolper et al. (2022) associated with the paper entitled "Constraints on Early Paleozoic deep-ocean oxygen concentrations from the iron geochemistry of the Bay of Islands ophiolite" published in <em>G-Cubed</em>.</p>
MO2, behaviour data and supplementary material for the first physiological evidence of sleep in sharks
<p>Sharks represent the earliest group of jawed vertebrates and as such, they may provide original insight for understanding the evolution of sleep in more derived animals. Unfortunately, beyond a single behavioural investigation, very little is known about sleep in these ancient predators. As such, recordings of physiological indicators of sleep in sharks have never been reported. Reduced energy expenditure arising from sustained restfulness and lowered metabolic rate during sleep have given rise to the hypothesis that sleep plays an important role for energy conservation. To determine whether this idea applies also to sharks, we compared metabolic rates of draughtsboard sharks (<em>Cephaloscyllium isabellum</em>) during periods ostensibly thought to be sleep, along with restful and actively swimming sharks across a 24-h period. We also investigated behaviours that often characterise sleep in other animals, including eye closure and postural recumbency, to establish relationships between physiology and behaviour. Overall, lower metabolic rate and a flat body posture reflect sleep in draughtsboard sharks, whereas eye closure is a poorer indication of sleep. Our results support the idea for the conservation of energy as a function of sleep in these basal vertebrates.</p>
Supplementary data for Life-cycle assessment shows that retrofitting coal-fired power plants with fuel cells will substantially reduce greenhouse gas emissions
<p>This dataset contains supplementary data for "Life-cycle assessment shows that retrofitting coal-fired power plants with fuel cells will substantially reduce greenhouse gas emissions" DOI: <strong>10.1016/j.oneear.2022.03.009</strong>.</p> <p>S1-S10 contains life-cycle inventories of solid oxide fuel cells, molten carbonate fuel cells, phosphoric acid fuel cells, and proton exchange membrane fuel cells with either natural gas or wind-electrolysis hydrogen as a feedstock.</p> <p>S11-S13 contains technological information of coal-fired power plants in China</p>
Supplementary data for: Abducens nerve palsy with ipsilateral excessive eye tearing attributed to internal carotid artery sympathetic plexus schwannoma
<p>A 65-year-old man developed subacute horizontal diplopia due to left-abducens nerve (AN) palsy and excessive left-eye tearing. Brain-MRI revealed a hyperintense T2-lesion with an elongated course within the left-carotid canal, presenting homogenous contrast-enhancement (Figure-1). The imaging findings were characteristic for an internal-carotid-artery sympathetic plexus (ICSP) schwannoma compressing the left-AN. Subsequent irritation of the deep petrosal nerve originating directly from ICSP and continuing as the vidian nerve may have led to the lacrimal gland edema and excessive left-eye tearing (Figure-2).</p> <p>ICSP schwannoma represents an uncommon cause of AN palsy that may also manifest with excessive ipsilateral-eye tearing due to vidian nerve involvement.</p>
Supplementary data to Geographic patterns of vascular plant diversity and endemism using different taxonomic and spatial units
<p>The zip file includes a series of 72 raster maps in ascii format depicting the spatial distribution of the geographic boundaries of Chile for three biodiversity indices, four spatial resolutions and three taxonomic units based on both specimen data and species distribution models. Filenames of maps generated with species distribution models are prefixed with "SDM". Otherwise, all maps were named using the following codes for biodiversity indices, spatial resolutions and taxonomic units.</p> <p><strong>Biodiversity indices</strong>:</p> <p>TR: Taxon Richness</p> <p>WE: Weighted Endemism</p> <p>TT: Taxon Turnover</p> <p><strong>Spatial resolutions</strong>:</p> <p>100km, 75km, 50km and 25km on a side of a grid-cell</p> <p><strong>Taxonomic units</strong>:</p> <p>SP: Species</p> <p>GEN: Genus</p> <p>OTU: Operational Taxonomic Units</p>
Supplementary material 1 from: Hatami R, Inglis G, Lane SE, Growcott A, Kluza D, Lubarsky C, Jones-Todd C, Seaward K, Robinson AP (2022) Modelling the likelihood of entry of marine non-indigenous species from internationally arriving vessels to maritime ports: a case study using New Zealand data. NeoBiota 72: 183-203. https://doi.org/10.3897/neobiota.72.77266
Supplementary materials
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.