cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1632846.v1
title: Nanoparticles restore lysosomal acidification defects: Implication for Parkinson and other lysosomal-related diseases

description: Lysosomal impairment causes lysosomal storage disorders (LSD) and is involved in pathogenesis of neurodegenerative diseases, notably Parkinson disease (PD). Strategies enhancing or restoring lysosomal-mediated degradation thus appear as tantalising disease-modifying therapeutics. Here we demonstrate that poly(DL-lactide-<i>co</i>-glycolide) (PLGA) acidic nanoparticles (aNP) restore impaired lysosomal function in a series of toxin and genetic cellular models of PD, i.e. ATP13A2-mutant or depleted cells or glucocerebrosidase (GBA)-mutant cells, as well as in a genetic model of lysosomal-related myopathy. We show that PLGA-aNP are transported to the lysosome within 24 h, lower lysosomal pH and rescue chloroquine (CQ)-induced toxicity. Re-acidification of defective lysosomes following PLGA-aNP treatment restores lysosomal function in different pathological contexts. Finally, our results show that PLGA-aNP may be detected after intracerebral injection in neurons and attenuate PD-related neurodegeneration <i>in vivo</i> by mechanisms involving a rescue of compromised lysosomes.
DOI: 10.6084/m9.figshare.1632844.v1
title: Spatial Regulation of Greatwall by Cdk1 and PP2A-Tws in the Cell Cycle

description: Entry into mitosis requires the phosphorylation of multiple substrates by cyclin B-Cdk1, while exit from mitosis requires their dephosphorylation, which depends largely on the phosphatase PP2A in complex with its B55 regulatory subunit (Tws in Drosophila). At mitotic entry, cyclin B-Cdk1 activates the Greatwall kinase, which phosphorylates Endosulfine proteins, thereby activating their ability to inhibit PP2A-B55 competitively. The inhibition of PP2A-B55 at mitotic entry facilitates the accumulation of phosphorylated Cdk1 substrates. The coordination of these enzymes involves major changes in their localization. In interphase, Gwl is nuclear while PP2A-B55 is cytoplasmic. We recently showed that Gwl suddenly relocalizes from the nucleus to the cytoplasm in prophase, before nuclear envelope breakdown and that this controlled localization of Gwl is required for its function. We and others have shown that phosphorylation of Gwl by cyclin B-Cdk1 at multiple sites is required for its nuclear exclusion, but the precise mechanisms remained unclear. In addition, how Gwl returns to its nuclear localization was not explored. Here we show that cyclin B-Cdk1 directly inactivates a Nuclear Localization Signal in the central region of Gwl. This phosphorylation facilitates the cytoplasmic retention of Gwl, which is exported to the cytoplasm in a Crm1-dependent manner. In addition, we show that PP2A-Tws promotes the return of Gwl to its nuclear localization during cytokinesis. Our results indicate that the cyclic changes in Gwl localization at mitotic entry and exit are directly regulated by the antagonistic cyclin B-Cdk1 and PP2A-Tws enzymes.
DOI: 10.6084/m9.figshare.12152628.v2
title: Dataset of directed signed networks from social domain

description: This dataset contains a range of directed signed networks (signed digraphs) from social domain. The data come from 9 different sources and in total there are 29 network files. There are two temporal networks and one multilayer network in this dataset. Each network is provided in two formats: edgelist (.csv) and .gml format.<br>For more information about the data, one may refer to the preprint below:<br><br>
DOI: 10.6084/m9.figshare.1632836
title: Environmental assessment of freshwater ecosystems of the Sava River watershed and Cerkniško Lake, Slovenia, using the bioindicator species <i>Fontinalis antipyretica</i>: insights from stable isotopes and selected elements

description: Ten locations in the Notranjska region, Slovenia, with different land use in the catchment (town, village and agricultural areas), including reference points with different geological composition considered as unpolluted sites, were sampled for water and aquatic moss to evaluate environmental assessment in fresh water systems of the Sava River watershed. Samples of fresh water and <i>Fontinalis antipyretica</i> were taken in all four seasons during the years 2010 and 2012. The water chemistry of the investigated locations was dominated by , while concentrations of seasonally ranged from 2.1 to 6.4 mg L<sup>−1</sup> and at one of the reference sites did not exceed 1.3 mg L<sup>−1</sup>. δ<sup>13</sup>C<sub>DIC</sub> values seasonally ranged from −13.3 to −8.1 ‰ and indicated waters dominated by degradation of organic matter and dissolution of carbonates. δ<sup>13</sup>C<sub>plant</sub> values of <i>F. antipyretica</i> seasonally ranged from −45 to −32.9 ‰ and of δ<sup>15</sup>N<sub>plant</sub> from −0.2 to 6.5 ‰. The higher δ<sup>15</sup>N value of 6.5 ‰ found in <i>F. antipyretica</i> was related to agricultural activity in the watershed. The content of minor and trace elements in <i>F. antipyretica</i> ranged from 4–38 µg g<sup>−1</sup> for Ni, 17–105 µg g<sup>−1</sup> for Zn, 2–28 µg g<sup>−1</sup> for Pb, 0.26–1.95 µg g<sup>−1</sup> for Cd, 4–27 µg g<sup>−1</sup> for Cu, 4–49 µg g<sup>−1</sup> for Cr, 1–6 µg g<sup>−1</sup> for As and 0.33–3.24 µg g<sup>−1</sup> for Se. The most polluted watershed was the Pšata stream (agricultural area, cattle farm with the highest concentration of nitrate in water) also with highest values for Ni, Cr, Pb, Zn and As.
DOI: 10.6084/m9.figshare.1632836.v2
title: Environmental assessment of freshwater ecosystems of the Sava River watershed and Cerkniško Lake, Slovenia, using the bioindicator species <i>Fontinalis antipyretica</i>: insights from stable isotopes and selected elements

description: Ten locations in the Notranjska region, Slovenia, with different land use in the catchment (town, village and agricultural areas), including reference points with different geological composition considered as unpolluted sites, were sampled for water and aquatic moss to evaluate environmental assessment in fresh water systems of the Sava River watershed. Samples of fresh water and <i>Fontinalis antipyretica</i> were taken in all four seasons during the years 2010 and 2012. The water chemistry of the investigated locations was dominated by , while concentrations of seasonally ranged from 2.1 to 6.4 mg L<sup>−1</sup> and at one of the reference sites did not exceed 1.3 mg L<sup>−1</sup>. δ<sup>13</sup>C<sub>DIC</sub> values seasonally ranged from −13.3 to −8.1 ‰ and indicated waters dominated by degradation of organic matter and dissolution of carbonates. δ<sup>13</sup>C<sub>plant</sub> values of <i>F. antipyretica</i> seasonally ranged from −45 to −32.9 ‰ and of δ<sup>15</sup>N<sub>plant</sub> from −0.2 to 6.5 ‰. The higher δ<sup>15</sup>N value of 6.5 ‰ found in <i>F. antipyretica</i> was related to agricultural activity in the watershed. The content of minor and trace elements in <i>F. antipyretica</i> ranged from 4–38 µg g<sup>−1</sup> for Ni, 17–105 µg g<sup>−1</sup> for Zn, 2–28 µg g<sup>−1</sup> for Pb, 0.26–1.95 µg g<sup>−1</sup> for Cd, 4–27 µg g<sup>−1</sup> for Cu, 4–49 µg g<sup>−1</sup> for Cr, 1–6 µg g<sup>−1</sup> for As and 0.33–3.24 µg g<sup>−1</sup> for Se. The most polluted watershed was the Pšata stream (agricultural area, cattle farm with the highest concentration of nitrate in water) also with highest values for Ni, Cr, Pb, Zn and As.
DOI: 10.6084/m9.figshare.1632836.v1
title: Environmental assessment of freshwater ecosystems of the Sava River watershed and Cerkniško Lake, Slovenia, using the bioindicator species <i>Fontinalis antipyretica</i>: insights from stable isotopes and selected elements

description: Ten locations in the Notranjska region, Slovenia, with different land use in the catchment (town, village and agricultural areas), including reference points with different geological composition considered as unpolluted sites, were sampled for water and aquatic moss to evaluate environmental assessment in fresh water systems of the Sava River watershed. Samples of fresh water and <i>Fontinalis antipyretica</i> were taken in all four seasons during the years 2010 and 2012. The water chemistry of the investigated locations was dominated by , while concentrations of seasonally ranged from 2.1 to 6.4 mg L<sup>−1</sup> and at one of the reference sites did not exceed 1.3 mg L<sup>−1</sup>. δ<sup>13</sup>C<sub>DIC</sub> values seasonally ranged from −13.3 to −8.1 ‰ and indicated waters dominated by degradation of organic matter and dissolution of carbonates. δ<sup>13</sup>C<sub>plant</sub> values of <i>F. antipyretica</i> seasonally ranged from −45 to −32.9 ‰ and of δ<sup>15</sup>N<sub>plant</sub> from −0.2 to 6.5 ‰. The higher δ<sup>15</sup>N value of 6.5 ‰ found in <i>F. antipyretica</i> was related to agricultural activity in the watershed. The content of minor and trace elements in <i>F. antipyretica</i> ranged from 4–38 µg g<sup>−1</sup> for Ni, 17–105 µg g<sup>−1</sup> for Zn, 2–28 µg g<sup>−1</sup> for Pb, 0.26–1.95 µg g<sup>−1</sup> for Cd, 4–27 µg g<sup>−1</sup> for Cu, 4–49 µg g<sup>−1</sup> for Cr, 1–6 µg g<sup>−1</sup> for As and 0.33–3.24 µg g<sup>−1</sup> for Se. The most polluted watershed was the Pšata stream (agricultural area, cattle farm with the highest concentration of nitrate in water) also with highest values for Ni, Cr, Pb, Zn and As.
DOI: 10.6084/m9.figshare.1632832
title: Sulfur and Oxygen Isotope Fractionation During Bacterial Sulfur Disproportionation Under Anaerobic Haloalkaline Conditions

description: Sulfur and oxygen isotope fractionation of elemental sulfur disproportionation at anaerobic haloalkaline conditions was evaluated for the first time. Isotope enrichment factors of the strains <i>Desulfurivibrio alkaliphilus</i> and <i>Dethiobacter alkaliphilus</i> growing at pH 9 or 10 were −0.9‰ to −1‰ for sulfide (<sup>34</sup>ϵ), +3.6‰ to +4.7‰ for sulfate (<sup>34</sup>ϵ), and +3.5‰ to +7.7‰ for oxygen in sulfate (<sup>18</sup>ϵ). These values are significantly smaller compared to previously published values of sulfur disproportionators at neutral pH. We propose that this discrepancy is caused by masking effects due to preferential formation of polysulfides at high pH leading to accelerated internal sulfur turnover rates, but cannot rule out distinct isotope effects due to specific enzymatic disproportionation reactions under haloalkaline conditions. The results imply that the microbial sulfur cycle in haloalkaline environments is characterized by specific stable sulfur and oxygen isotope patterns.
DOI: 10.6084/m9.figshare.1632832.v2
title: Sulfur and Oxygen Isotope Fractionation During Bacterial Sulfur Disproportionation Under Anaerobic Haloalkaline Conditions

description: Sulfur and oxygen isotope fractionation of elemental sulfur disproportionation at anaerobic haloalkaline conditions was evaluated for the first time. Isotope enrichment factors of the strains <i>Desulfurivibrio alkaliphilus</i> and <i>Dethiobacter alkaliphilus</i> growing at pH 9 or 10 were −0.9‰ to −1‰ for sulfide (<sup>34</sup>ϵ), +3.6‰ to +4.7‰ for sulfate (<sup>34</sup>ϵ), and +3.5‰ to +7.7‰ for oxygen in sulfate (<sup>18</sup>ϵ). These values are significantly smaller compared to previously published values of sulfur disproportionators at neutral pH. We propose that this discrepancy is caused by masking effects due to preferential formation of polysulfides at high pH leading to accelerated internal sulfur turnover rates, but cannot rule out distinct isotope effects due to specific enzymatic disproportionation reactions under haloalkaline conditions. The results imply that the microbial sulfur cycle in haloalkaline environments is characterized by specific stable sulfur and oxygen isotope patterns.
DOI: 10.6084/m9.figshare.1632832.v1
title: Sulfur and oxygen isotope fractionation during bacterial sulfur disproportionation under anaerobic haloalkaline conditions

description: ABSTRACTSulfur and oxygen isotope fractionation of elemental sulfur disproportionation at anaerobic haloalkaline conditions were evaluated for the first time. Isotope enrichment factors of the strains <i>Desulfurivibrio alkaliphilus</i> and <i>Dethiobacter alkaliphilus</i> growing at pH 9 or 10 were −0.9 ‰ to −1 ‰ for sulfide (<sup>34</sup>ϵ), +3.6 ‰ to +4.7 ‰ for sulfate (<sup>34</sup>ϵ), and for oxygen in sulfate (<sup>18</sup>ϵ) in the range of +3.5 ‰ to +7.7 ‰. These values are significantly smaller compared to previously published values of sulfur disproportionators at neutral pH. We propose that this discrepancy is caused by masking effects due to preferential formation of polysulfides at high pH leading to accelerated internal sulfur turnover rates, but cannot rule out distinct isotope effects due to specific enzymatic disproportionation reactions under haloalkaline conditions. The results imply that the microbial sulfur cycle in haloalkaline environments is characterized by specific stable sulfur and oxygen isotope patterns.
DOI: 10.6084/m9.figshare.1632820.v1
title: A juvenile chasmosaurine ceratopsid (Dinosauria, Ornithischia) from the Dinosaur Park Formation, Alberta, Canada

description: An articulated, 1.5 m long skeleton of a juvenile <i>Chasmosaurus</i>, lacking only the front limbs, pectoral girdles, and terminal caudal vertebrae, was collected from the Dinosaur Park Formation in Dinosaur Provincial Park, Alberta. The short, tall skull has a narrow frill that lacks a posterior embayment. Many of the cranial bones are co-ossified in spite of the small size of the specimen. The nasals form an incipient horncore, and the short, knob-like postorbital horncore lacks sinuses. The palpebral is not fused to the rest of the skull. The frontal fontanelle is keyhole-shaped. The triangular squamosal extends to the back of the parietals. Epiossifications are lacking, although the squamosal margin is thick and scalloped. The parietal has a pronounced midline sagittal crest. Parietal fenestrae, if present, would have been narrow and elongate. There are only 18 maxillary tooth positions. The syncervical comprises three co-ossified, but distinct vertebrae. Anterior caudal vertebrae support unfused caudal ribs. Ossified tendons in the neck, trunk, and sacrum do not extend into the tail. Hind limb proportions are comparable to those of adult ceratopsids. The pedal unguals are distally acute. Skin impressions are similar to those of mature chasmosaurines. Phylogenetic analysis, if all characters are coded as they are seen, suggests that the specimen is a basal chasmosaurine. When size or age dependent characters are recoded as ‘?,’ the specimen groups with other <i>Chasmosaurus</i>. These characters should only be used in phylogenetic analyses when all specimens are mature. SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: Currie, P. J., R. B. Holmes, M. J. Ryan, and C. Coy. 2016. A juvenile chasmosaurine ceratopsid (Dinosauria, Ornithischia) from the Dinosaur Park Formation, Alberta, Canada. Journal of Vertebrate Paleontology. DOI: 10.1080/02724634.2015.1048348.
DOI: 10.6084/m9.figshare.1632804
title: Prognostic factors of return to work after traumatic or non-traumatic acquired brain injury

description: <i>Purpose</i>: To investigate and to determine evidence of prognostic factors for return to work (RTW) after acquired brain injury (ABI). <i>Method</i>: A systematic literature search was conducted in PubMed (2008–2014), applying terms for ABI and RTW. In addition, studies published after 2003 of a previous review on the same topic were added. The methodological quality of the included studies was assessed and evidence was classified. <i>Results</i>: Twenty-seven studies were included. There is <i>strong</i> evidence that a high education level is <i>positively</i> associated with RTW after traumatic ABI; a low education level, unemployment and length of stay in rehabilitation are <i>negatively</i> associated, and <i>a clear tendency</i> has been deduced from the studies that conscious state in the Emergency Department is <i>not</i> associated with RTW. <i>A</i>fter non-traumatic ABI, there is <i>strong</i> evidence that independence in activities of daily living is <i>positively</i> associated with RTW and aetiology of stroke is <i>not. Conclusions</i>: This study confirms earlier findings that after both traumatic and non-traumatic ABI injury related factors in the Emergency Department are <i>not</i> associated with RTW. In addition, it provides further evidence that <i>personal factors</i> after <i>traumatic</i> ABI and <i>activity-related factors</i> after <i>non-traumatic</i> ABI are strongly associated with RTW.Implications for RehabilitationWe found <i>strong</i> evidence for a significant association between RTW and <i>personal factors (education level, unemployment)</i> after <i>traumatic</i> ABI, and <i>activities of daily living (ADL)</i> after <i>non-traumatic</i> ABI.We advise to focus on <i>work-related activities</i> during the RTW process besides <i>ADL-training</i> and pay attention to and support patients <i>at risk</i> for not returning to work.
DOI: 10.6084/m9.figshare.1632804.v1
title: Prognostic factors of return to work after traumatic or non-traumatic acquired brain injury

description: <i>Purpose</i>: To investigate and to determine evidence of prognostic factors for return to work (RTW) after acquired brain injury (ABI). <i>Method</i>: A systematic literature search was conducted in PubMed (2008–2014), applying terms for ABI and RTW. In addition, studies published after 2003 of a previous review on the same topic were added. The methodological quality of the included studies was assessed and evidence was classified. <i>Results</i>: Twenty-seven studies were included. There is <i>strong</i> evidence that a high education level is <i>positively</i> associated with RTW after traumatic ABI; a low education level, unemployment and length of stay in rehabilitation are <i>negatively</i> associated, and <i>a clear tendency</i> has been deduced from the studies that conscious state in the Emergency Department is <i>not</i> associated with RTW. <i>A</i>fter non-traumatic ABI, there is <i>strong</i> evidence that independence in activities of daily living is <i>positively</i> associated with RTW and aetiology of stroke is <i>not. Conclusions</i>: This study confirms earlier findings that after both traumatic and non-traumatic ABI injury related factors in the Emergency Department are <i>not</i> associated with RTW. In addition, it provides further evidence that <i>personal factors</i> after <i>traumatic</i> ABI and <i>activity-related factors</i> after <i>non-traumatic</i> ABI are strongly associated with RTW.Implications for RehabilitationWe found <i>strong</i> evidence for a significant association between RTW and <i>personal factors (education level, unemployment)</i> after <i>traumatic</i> ABI, and <i>activities of daily living (ADL)</i> after <i>non-traumatic</i> ABI.We advise to focus on <i>work-related activities</i> during the RTW process besides <i>ADL-training</i> and pay attention to and support patients <i>at risk</i> for not returning to work.
DOI: 10.6084/m9.figshare.1632805
title: Analysis and heading control of continuum planar snake robot based on kinematics and a general solution thereof

description: This paper presents a kinematic calculation and control method for an inextensible continuum planar snake robot. The snake robot is assumed to move without side slipping; this constraint makes it easy to construct its kinematic model based on which we can analyze the movement of the robot. The kinematic model is expressed as a semi-linear partial differential equation (PDE). We discuss the general solution of the PDE and a calculation method based on it. However, the constraint also raises the problem of singular posture. The problem of singularities has been addressed for a snake robot with a serial link structure; however, for a continuum snake robot, much less research has been carried out. In this paper, we propose a method for controlling the direction of movement while avoiding singularities. The validity of our method is tested through simulations and experiments.
DOI: 10.6084/m9.figshare.1632805.v1
title: Analysis and heading control of continuum planar snake robot based on kinematics and a general solution thereof

description: This paper presents a kinematic calculation and control method for an inextensible continuum planar snake robot. The snake robot is assumed to move without side slipping; this constraint makes it easy to construct its kinematic model based on which we can analyze the movement of the robot. The kinematic model is expressed as a semi-linear partial differential equation (PDE). We discuss the general solution of the PDE and a calculation method based on it. However, the constraint also raises the problem of singular posture. The problem of singularities has been addressed for a snake robot with a serial link structure; however, for a continuum snake robot, much less research has been carried out. In this paper, we propose a method for controlling the direction of movement while avoiding singularities. The validity of our method is tested through simulations and experiments.
DOI: 10.6084/m9.figshare.1632801
title: Historical ambient airborne asbestos concentrations in the United States – an analysis of published and unpublished literature (1960s–2000s)

description: Outdoor concentrations of airborne asbestos have been measured throughout the US over time. However, a thorough review and analysis of these data has not been conducted. The purpose of this study is to characterize asbestos concentrations in ambient air by environment type (urban, rural) and by decade, using measurements collected in the absence of known asbestos emission sources. A total of 17 published and unpublished studies and datasets were identified that reported the results of 2058 samples collected from the 1960s through the 2000s across the US. Most studies did not report asbestos fiber type, and data based on different analytical methods (e.g. Phase Contrast Microscopy, Transmission Electron Microscopy, etc.) were combined in the dataset; however, only fibers ≥5 μm in length were considered. For a small subset of the measurements (<i>n</i> = 186, 9.0%), a conversion factor was used to convert mass-based data (e.g. ng/m<sup>3</sup>) to count-based values (i.e. f/cc ≥5 μm). The estimated overall mean and median ambient asbestos concentrations for the 1960s through 2000s were 0.00093 f/cc and 0.00022 f/cc, respectively. Concentrations generally increased from the 1960s through the early 1980s, after which they declined considerably. While asbestos use decreased throughout the 1970s, these results indicate that ambient concentrations peaked during the early 1980s, which suggests the possible contribution of abatement or demolition activities. Lastly, ambient asbestos concentrations were higher in urban than rural settings, which is consistent with the greater use of asbestos-containing materials in more densely populated areas.