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opencc-by-4.0Jul 2023View details →

Data to our paper "Water-soluble ionic carbon nitride as unconventional stabilizer for highly catalytically active ultrafine gold nanoparticles"

Data to our paper "Water-soluble ionic carbon nitride as unconventional stabilizer for highly catalytically active ultrafine gold nanoparticles"

opencc-by-4.0Nov 2023View details →

Reception of a physical activity intervention program in German older adults. Data from a feedback analysis of PROMOTE II.

As part of the AEQUIPA prevention research network, the aim of the PROMOTE II study was to gain insights into primary prevention for healthy aging. One focus was on the development and dissemination of ready-to-use tools and work aids to promote physical activity.As part of a nine-month randomized trial with a cross-over design among adults aged 60 and above, eligible participants from 14 districts in Bremen in proximity to the two study centers (one in the North and one in the East of the city of Bremen, Germany) were randomly assigned to either a) a print-based intervention (PRINT) or b) a web-based intervention (WEB). Randomly selected thirty percent of the web-based intervention group received an activity tracker in addition (WEB+).Usage of program components, attendance of group sessions and acceptance of the intervention were assessed via self-administered paper-based questionnaires three and nine months after baseline as well as feedback interviews and class recordings. Participant feedback was analyzed using quantitative methods on a descriptive basis, as well as using qualitative content analysis of open-ended questions, group-interviews and protocols based on the socio-ecological model as coding framework.This publication provides the coding matrix, including the participant feedback data.

opencc-zeroNov 2023View details →

Data from: Mouse gingival single cell transcriptomic atlas identified a novel fibroblast subpopulation activated to guide oral barrier immunity in periodontitis

Periodontitis, one of the most common non-communicable diseases, is characterized by chronic oral inflammation and uncontrolled tooth supporting alveolar bone resorption. Its underlying mechanism to initiate aberrant oral barrier immunity has yet to be delineated. Here, we report a unique fibroblast subpopulation activated to guide oral inflammation (AG fibroblasts) identified in a single-cell RNA sequencing gingival cell atlas constructed from the mouse periodontitis models. AG fibroblasts localized beneath the gingival epithelium and in the cervical periodontal ligament responded to the ligature placement and to the discrete topical application of Toll-like receptor stimulants to mouse maxillary tissue. The upregulated chemokines and ligands of AG fibroblasts linked to the putative receptors of neutrophils in the early stages of periodontitis. In the established chronic inflammation, neutrophils together with AG fibroblasts appeared to induce type 3 innate lymphoid cells (ILC3s) that were the primary source of interleukin-17 cytokines. The comparative analysis of Rag2-/- and Rag2gc-/- mice suggested that ILC3 contributed to the cervical alveolar bone resorption interfacing the gingival inflammation. We propose that the AG fibroblast–neutrophil–ILC3 axis as a previously unrecognized mechanism which could be involved in the complex interplay between oral barrier immune cells contributing to pathological inflammation in periodontitis.

opencc-zeroDec 2023View details →

Data from: A maximum of two readily releasable vesicles per docking site at a cerebellar single active zone synapse

Recent research suggests that in central mammalian synapses, active zones contain several docking sites acting in parallel. Before release, one or several synaptic vesicles (SVs) are thought to bind to each docking site, forming the readily releasable pool (RRP). Determining the RRP size per docking site has important implications for short-term synaptic plasticity. Here, we take advantage of recently developed methods to count the number of released SVs at single glutamatergic synapses in response to trains of action potentials. In each recording, the number of docking sites was determined by fitting with a binomial model the number of released SVs in response to individual action potentials. After normalization with respect to the number of docking sites, the summed number of released SVs following a train of action potentials was used to estimate of the RRP size per docking site. To improve this estimate, various steps were taken to maximize the release probability of docked SVs, the occupancy of docking sites, as well as the extent of synaptic depression. Under these conditions, the RRP size reached a maximum value close to two SVs per docking site. The results indicate that each docking site contains two distinct SV binding sites that can simultaneously accommodate up to one SV each. They further suggest that under special experimental conditions, as both sites are close to full occupancy, a maximal RRP size of two SVs per docking site can be reached. More generally, the results validate a sequential two-step docking model previously proposed at this preparation.

opencc-zeroDec 2023View details →

Data from: Blood pressure pulsations modulate central neuronal activity via mechanosensitive ion channels

The transmission of heartbeat through the cerebral vascular system is known to cause intracranial pressure pulsations. Here we report that arterial pressure pulsations can directly modulate central neuronal activity. In a semi-intact rat brain preparation, vascular pressure pulsations elicit correlated local field oscillations in the olfactory bulb (OB) mitral cell layer. These oscillations do not require synaptic transmission, but reflect baroreceptive transduction in mitral cells. This transduction is mediated by an excitatory mechanosensitive ion channel and modulates neuronal spiking activity. Indeed, in awake animals, the heartbeat entrains the activity of a subset of OB neurons within ~20 ms. Thus, we propose that this fast intrinsic interoceptive mechanism can modulate perception, e.g. during arousal, within the OB and also possibly across various brain areas.

opencc-zeroDec 2023View details →

Data from: Different dynamics and controls of enzyme activities of leaf and root litter during decomposition

Litter enzyme dynamics are strongly shaped by litter, soil, and microbial attributes during decomposition, however, enzyme dynamics of leaf and root litter remains unresolved due to contrasting differences in rates and controls on leaf and root litter decomposition. Herein, we conducted a 784-day field experiment to evaluate the relative importance of litter, alkaline soil, and microbial attributes to enzyme activities and their C:N:P stoichiometry of leaf and root litter during decomposition under subtropical land use change of China. We found that only the C- and N-acquiring enzyme activities of shrub leaves were greater than those of wood and crop, and there was no significant difference in P-acquiring enzyme activity among the three species of leaves. Both the C- and P-acquiring enzyme activities of crop roots were significantly lower than those of afforested lands (i.e., woodland and shrubland). The N-acquiring activities of wood roots were significantly lower than those of shrub and crop. At the temporal dynamics, the C-, N-, and P-acquiring enzyme activities of the leaves decreased with mass loss, which was affected by the shift in litter nutrients (e.g., N and P) and soil moisture during decomposition. In contrast, the three enzyme activities of roots increased with mass loss, largely due to the increase in microbial biomass of bacteria regulated by litter stoichiometry. The enzymatic C:nutrient (N and P) ratios declined with mass loss, but the enzymatic P:N ratios remained relatively constant with mass loss during the leaf litter decomposition. Whereas, both of the enzymatic C:nutrient ratios and enzymatic P:N ratios decreased with mass during the root litter decomposition. Our results showed that the enzymatic C:N:P stoichiometry of decaying leaves and roots was predominantly predicted by microbial biomass and bacterial biomass, respectively. Overall, we outlined the pattern of contrasting contributions of litter, soil, and microbial attributes to enzyme dynamics during decomposition, which provided a framework for better understanding litter C, N, and P dynamics in relation to microbial resource allocation strategy during decomposition.

Extended data for behavioural change for Parkinson's disease: A randomised controlled feasibility study to promote physical activity and exercise adherence among people with Parkinson's, study protocol

Background: Parkinson's is a common progressive neurological condition characterized by motor and non-motor deficits. Physical activity and exercise can improve health, but many people with Parkinson's have trouble reaching the recommended dosage. Our recent literature review found improvements in exercise adherence with behavioural change interventions, but it remains unclear which are most effective. Further qualitative research and patient and public involvement has informed a novel behavioural change support intervention to be tested alongside an existing exercise program. Objective: To examine the feasibility of behavioural change support techniques delivered alongside an exercise programme to improve physical activity, function, and self-efficacy in PwP (and study procedures) to inform a future pilot RCT trial. Methods: A parallel-arm single blinded randomised feasibility study. Twenty participants with Parkinson's (Hoehn and Yahr stage 1-3) will be recruited from a physiotherapy primary-care waiting list. Following written consent, and baseline assessment, the participants will be randomly allocated to the intervention (n=10) or the control group (n=10). Both groups will receive usual care, which includes a weekly program of a multidisciplinary education, a supervised exercise class and a prescribed home exercise program. The intervention group will receive additional behavioural change techniques, targeting behaviour regulation, belief about capabilities and social influences. Class and home exercise adherence, behavioural component uptake and adherence, and negative events will be recorded. Outcomes will include enrolment and maintenance rates, physical function, falls, physical activity, and exercise self-efficacy measured pre- and post- the 12- week program (in-person). Surveys will be used to compare experiences and satisfaction between groups. Exit interviews will be completed with the intervention group only, exploring their experience of the behavioural change techniques. Discussion: The results will help inform a future pilot RCT, based on the intervention acceptability, consent rate, maintenance, and protocol integrity.

Data from: LHFPL5 is a key element to the gating spring of cochlear hair cells: comparison of mechanotransduction channel activation in presence or absence of LHFPL5

During auditory transduction, sound-evoked vibrations of the hair cell stereociliary bundles open mechanotransducer (MET) ion channels via tip links extending from one stereocilium to its neighbor. How tension in the tip link is delivered to the channel is not fully understood. The MET channel comprises a pore-forming subunit, transmembrane channel-like protein (TMC1 or TMC2), aided by several accessory proteins, including LHFPL5 (lipoma HMGIC fusion partner-like 5). We investigated the role of LHFPL5 in transduction by comparing MET channel activation in outer hair cells of Lhfpl5-/- knockout mice with those in Lhfpl5+/- heterozygotes. The 10-90 percent working range of transduction in Tmc1+/+; Lhfpl5+/- was 52 nm, from which the single-channel gating force, Z was evaluated as 0.34 pN. However, in Tmc1+/+; Lhfpl5‑/- mice, the working range increased to 123 nm and Z more than halved to 0.13 pN, indicating reduced sensitivity. Tip link tension is thought to activate the channel via a gating spring, whose stiffness is inferred from the stiffness change on tip link destruction. The gating stiffness was ~40 percent of the total bundle stiffness in wild-type but was virtually abolished in Lhfpl5-/-, implicating LHFPL5 as a principal component of the gating spring. The mutation Tmc1 p.D569N reduced the LHFPL5 immunolabeling in the stereocilia and like Lhfpl5-/- doubled the MET working range but other deafness mutations had no effect on the dynamic range. We conclude that tip-link tension is transmitted to the channel primarily via LHFPL5; residual activation without LHFPL5 may occur by direct interaction between PCDH15 and TMC1.

Data from: Direct propylene epoxidation via water activation over Pd-Pt electrocatalysts

Direct electrochemical propylene epoxidation using water oxidation intermediates presents a sustainable alternative to existing routes that involve hazardous chlorine or peroxide reagents. Here we report an oxidized palladium-platinum alloy catalyst (PdPtOx/C), which reaches a Faradaic efficiency of 66±5% toward propylene epoxidation at 50 mA/cm2 at ambient temperature and pressure. Embedding platinum into the palladium oxide crystal structure stabilized oxidized platinum species, resulting in improved catalyst performance. The reaction kinetics suggest that epoxidation on PdPtOx/C proceeds through electrophilic attack by metal-bound peroxo (OO*) intermediates. This work demonstrates an effective strategy for selective electrochemical oxygen-atom transfer from water, without mediators, for diverse oxygenation reactions.

Data from: Seeking temporal refugia to heat stress: Increasing nocturnal activity despite predation risk

Flexibility in activity timing may enable organisms to quickly adapt to environmental changes. Under global warming, diurnally adapted endotherms may achieve a better energy balance by shifting their activity towards cooler nocturnal hours. However, this shift may expose animals to new or increased environmental challenges (e.g., increased predation risk, reduced foraging efficiency). We analysed a large dataset of activity data from 47 ibex (Capra ibex) in two protected areas, characterized by varying levels of predation risk (presence vs absence of the wolf – Canis lupus). We found that ibex increased nocturnal activity following warmer days and during brighter nights. Despite the considerable sexual dimorphism typical of this species and the consequent different predation-risk perception, males and females demonstrated consistent responses to heat in both predator-present and predator-absent areas. This supports the hypothesis that shifting activity towards nighttime may be a common strategy adopted by diurnal endotherms in response to global warming. As nowadays different pressures are pushing mammals towards nocturnality, our findings emphasize the urgent need to integrate knowledge of temporal behavioural modifications into management and conservation planning.

Data from: Diurnal variation of brain activity in the human suprachiasmatic nucleus

The suprachiasmatic nucleus (SCN) is the central clock for circadian rhythms. Animal studies have revealed daily rhythms in the neuronal activity in the SCN. However, the circadian activity of the human SCN has remained elusive. In this study, to reveal the diurnal variation of the SCN activity in humans, the SCN was localized, and its activity was investigated using perfusion imaging. We scanned each participant four times a day, every six hours, and higher activity was observed at noon while lower activity was recorded in the early morning. The SCN activity was then measured every thirty minutes for six hours from midnight to dawn and showed a decreasing trend and was comparable with the rodent SCN activity after switching off the lights. These results suggest that the diurnal variation of the human SCN follows the zeitgeber cycles of mammals and is modulated by physical lights rather than the local time.

Data from: Past volcanic activity predisposes an endemic threatened seabird to negative anthropogenic impacts

Humans are regularly cited as the main driver of current biodiversity extinction, but the impact of historic volcanic activity is often overlooked. Pre-human evidence of wildlife abundance and diversity are essential for disentangling anthropogenic impacts from natural events. Réunion Island, with its intense and well-documented volcanic activity, endemic biodiversity, long history of isolation and recent human colonization, provides an opportunity to disentangle these processes. We track past demographic changes of a critically endangered seabird, the Mascarene petrel Pseudobulweria aterrima, using genome-wide SNPs. Coalescent modeling suggested that a large ancestral population underwent a substantial population decline in two distinct phases, ca. 125,000 and 37,000 years ago, coinciding with periods of major eruptions of Piton des Neiges. Subsequently, the ancestral population was fragmented into the two known colonies, ca. 1,500 years ago, following eruptions of Piton de la Fournaise. In the last century, both colonies declined significantly due to anthropogenic activities, and although the species was initially considered extinct, it was rediscovered in the 1970s. Our findings suggest that the current conservation status of wildlife on volcanic islands should be firstly assessed as a legacy of historic volcanic activity, and thereafter by the increasing anthropogenic impacts, which may ultimately drive species towards extinction.

Data from: Camera traps reveal seasonal variation in activity and occupancy of the Alpine mountain hare (Lepus timidus varronis)

Mountain hare is a cold-adapted species threatened by climate change, but despite its emblematic nature, our understanding of the causes of population decline remains limited. Camera traps are increasingly used in ecology as a tool for monitoring animal populations at large spatial and temporal scales. In mountain environments where field work is constrained by difficult access and harsh conditions, camera traps constitute a promising tool for surveying rare and elusive species such as the mountain hare. Our study explored the use of camera traps as a tool for studying seasonal habitat occupancy and daily activity patterns of the mountain hare, in order to carry out long-term monitoring of populations. We installed 46 camera traps along elevation gradients in the Mont-Blanc massif (France) from January 2018 to June 2022. We measured habitat variables at each camera trap site in order to define vegetation composition and habitat structure. We performed multi-season and single-season occupancy models to respectively describe habitat occupancy of the mountain hare throughout the year and identify the environmental variables influencing mountain hare presence during the breeding season. Mountain hares occupy coniferous forest in winter, and then switch to mixed areas of shrubland and grassland above treeline in spring and the beginning of summer. In spring, occupancy probability of the mountain hare increases with relative cover of mixed low shrub and herbaceous layer (i.e. the 10-40 cm vegetation layer), suggesting a link to food resources and protection from predation. Our results also confirm the nocturnal and crepuscular activity of the mountain hare during the breeding season, and strictly nocturnal activity in winter. Our results demonstrate the efficiency of camera traps as tools for monitoring mountain hare habitat occupancy in mountain environments and underline the importance of diverse habitat mosaics for the preservation of the species.

Data from: The Drosophila Genetic Reference Panel (DGRP) on locomotor activity across different environmental conditions

In nature, organisms are exposed to variable and occasionally stressful environmental conditions. Responses to diurnal and seasonal fluctuations, such as temperature and food accessibility, involve adaptive behavioral and physiological changes. While much work has been done on understanding the genetic architecture and evolutionary potential of stress tolerance traits under constant thermal conditions, there has been less focus on the quantitative genetic background in variable environments. In this study, we use the Drosophila Genetic Reference Panel (DGRP) to investigate locomotor activity, a key behavioral trait, under variable natural thermal conditions during the summer in a temperate environment. Male flies from 100 DGRP lines were exposed to natural thermal and light conditions in Drosophila activity monitors across three experimental days. We found that activity was highly temperature- and time-dependent and varied between lines both within and between days. Further, we observed variation in genetic and environmental variance components, with low to moderate estimates of the heritability for locomotor activity, consistently peaking in the afternoons. Moreover, we showed that the estimated genetic correlations of locomotor activity between two time points decreased as the absolute differences in ambient temperature was increased. In conclusion, we find that the genetic background for locomotor activity is environment specific and we conclude that more variable and unpredictable future temperatures will likely have a strong impact on the evolutionary trajectories of behavioral traits in ectotherms.

opencc-by-4.0Dec 2023View details →

Raw data: The novel gammaproteobacterial methanotroph "Ca. Methylocalor cossyra" CH1 actively coexists with verrucomicrobial methanotrophs in acidic and hot geothermal soil

Open the record for dataset details and reuse information.

Data from: Coordinated ARP2/3 and glycolytic activities regulate the morphological and functional fitness of human CD8+ T cells

CD8+ T cells rely on actin cytoskeleton remodeling to search for target cells and assemble the immunological synapse (IS) for lethal hit delivery. We here investigated how the energy expenditure related to actin remodeling might influence the fitness of human cytotoxic T cells. We first established that the spreading ability of CD8+ T cells in conditions of LFA-1 and TCR engagement mirrored the cytotoxic potential of these cells. Morphological and functional fitness were both potentiated by IL-2, which co-stimulated the transcription of glycolytic enzymes, actin isoforms and the subunits of the ARP2/3 complex. This molecular program scaled with F-actin content and cell spreading. Blockade of glycolysis impaired F-actin remodeling at the lamellipodium, chemokine-driven motility and synaptic adhesion, while blockade of mitochondrial OXPHOS affected F-actin less severely and selectively reduced cell elongation during confined migration. Although T cells deficient for the ARP2/3 subunit ARPC1B increased their ATP content upon IL-2 exposure, their morphological and functional defects were only partially corrected, pointing to the pivotal position of ARP2/3 mediated actin polymerization as integrator of T cell energetic state. Our study therefore highlights that the ability of effector T cells to migrate, form IS and ultimately kill target cells depends on a tight coordination of their metabolic and actin remodeling activities.

opencc-by-4.0Mar 2024View details →

Spatial patterns and effects of invasive plants on soil microbial activity and diversity along river corridors - raw data

Dataset for the study Spatial patterns and effects of invasive plants on soil microbial activity and diversity along river corridors <ol> <li>environmental variables of the research plots</li> <li>vascular plant species composition of the research plots</li> <li>mcirobial activity on the research plots</li> <li>CLPP profiles of the research plots</li> </ol>

opencc-by-4.0Mar 2024View details →

STORM Data: Transcriptionally active chromatin loops contain both 'active' and 'inactive' histone modifications that exhibit exclusivity at the level of nucleosome clusters

The dataset underlying the SMLM STORM super-resolution images of 'Transcriptionally active chromatin loops contain both ‘active’ and ‘inactive’ histone modifications that exhibit exclusivity at the level of nucleosome clusters'. See Biorxiv paper for details on sample preparation: <a href="https://www.biorxiv.org/content/10.1101/2023.09.03.555774v1.full.pdf">https://www.biorxiv.org/content/10.1101/2023.09.03.555774v1.full.pdf</a>, Pyranose Oxidase STORM buffer on Elyra 7 Zeiss Microscope, processed with Zen Black. Samples are named according to which figures they occur in the above paper.

opencc-by-4.0Mar 2024View details →

Example data set for Replay-triggered Brain-wide Activation in Humans

Example data set for Replay-triggered Brain-wide Activation in Humans  Unzip the file and place it in the directory named "example_data_code".