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2,216 results for “membrane”
Data from: The cutaneous lipid composition of bat wing and tail membranes: a case of convergent evolution with birds
The water vapour permeability barrier of mammals and birds resides in the stratum corneum (SC), the outermost layer of the epidermis. The molar ratio and molecular arrangement of lipid classes in the SC determine the integrity of this barrier. Increased chain length and polarity of ceramides, the most abundant lipid class in mammalian SC, contribute to tighter packing and thus to reduced cutaneous evaporative water loss (CEWL). However, tighter lipid packing also causes low SC hydration, making it brittle, whereas high hydration softens the skin at the cost of increasing CEWL. Cerebrosides are not present in the mammalian SC; their pathological accumulation occurs in Gaucher's disease, which leads to a dramatic increase in CEWL. However, cerebrosides occur normally in the SC of birds. We tested the hypothesis that cerebrosides are also present in the SC of bats, because they are probably necessary to confer pliability to the skin, a quality needed for flight. We examined the SC lipid composition of four sympatric bat species and found that, as in birds, their SC has substantial cerebroside contents, not associated with a pathological state, indicating convergent evolution between bats and birds.
Twisting and tilting of a mechanosensitive molecular probe detects order in membranes
<p>Original data and procedures underlying Figures S11 and S12.</p> <p>Data can be viewed using freely distributed Origin Viewer (https://www.originlab.com/viewer/)</p>
Lattice Boltzmann simulations on the tumbling to tank-treading transition: effects of membrane viscosity
<p>The tumbling to tank-treading (TB-TT) transition for red blood cells (RBCs) has been widely investigated, with a main focus on the effects of the viscosity ratio λ (i.e., the ratio between the viscosities of the fluids inside and outside the membrane) and the shear rate γ ̇ applied to the RBC. However, the membrane viscosity μm plays a major role in a realistic description of RBC's dynamics, and only a few works have systematically focused on its effects on the TB-TT transition. In this work, we provide a parametric investigation on the effect of membrane viscosity μm on the TB- TT transition, for a single RBC. It is found that, at fixed viscosity ratios λ, larger values of μm lead to an increased range of values of capillary number at which the TB-TT transition occurs. We systematically quantify such an increase by means of mesoscale numerical simulations based on the lattice Boltzmann models.</p>
Long chain lipids facilitate insertion of large nanoparticles into membranes of small unilamellar vesicles
<p>DLS data and Cryo Images of SUVs-QDs</p>
Membrane lipid metabolism, heat shock response, and energy costs mediate the interaction between acclimatization and heat hardening response
<p>Thermal plasticity on different timescales, including acclimation/acclimatization and heat hardening response – a rapid adjustment for thermal tolerance after a nonlethal thermal stress, can interact on organisms to improve the resilience to thermal stress. However, little is known about the physiological mechanisms mediating this interaction. To investigate underpinnings of heat hardening responses after acclimatization in warm season, we measured thermal tolerance plasticity, compared transcriptomic and metabolomic changes after heat hardening at 33 or 37<sup>o</sup>C followed by recovery of 3 h or 24 h in an intertidal bivalve <i>Sinonovacula constricta</i>. The clams showed explicit heat hardening responses after acclimatization in warm season. The higher inducing temperature (37<sup>o</sup>C) caused a less effective heat hardening effect than the inducing temperature that was closer to seasonal maximum temperature (33<sup>o</sup>C). Metabolomic analysis highlighted the elevated contents of membrane glyceropholipids in all heat hardened clams, which may help to maintain structure and function of membrane. Heat shock proteins (HSPs) tended to be up-regulated after heat hardening at 37<sup>o</sup>C but not at 33<sup>o</sup>C, indicating that there was no complete dependency of heat hardening effects on up-regulated HSPs. Enhanced energy metabolism and decreased energy reserves were observed after heat hardening at 37<sup>o</sup>C, suggesting more energy costs during exposure to higher inducing temperature which may restrict heat hardening effects. These results highlighted the mediating role of membrane lipid metabolism, heat shock responses and energy costs in the interaction of heat hardening response and seasonal acclimatization, and benefit the mechanistic understanding of evolutionary change and thermal plasticity during global climate change.</p>
How Can Giant Plasma Membrane Vesicles Serve as a Cellular Model for Controlled Transfer of Nanoparticles?
<p>Data underlying the figures in the publication “How Can Giant Plasma Membrane Vesicles Serve as a Cellular Model for Controlled Transfer of Nanoparticles?”, published in <em>Biomacromolecules</em>, <strong>2021</strong>, 22, 1, 106–115.</p> <p><a href="https://pubs.acs.org/doi/10.1021/acs.biomac.0c00624">https://pubs.acs.org/doi/10.1021/acs.biomac.0c00624</a></p> <p>Table of contents:</p> <p><strong>1. Figure 1</strong>; Zip file containing the data for <em>Figure 1</em>.</p> <p><strong>2. Figure 2</strong>; Zip file containing the TEM micrographs for <em>Figure 2</em>.</p> <p><strong>3. Figure 4</strong>; Zip file containing numerical data of the flow cytometry measurements and analysis for <em>Figure 4</em>.</p> <p><strong>4. Figure 5</strong>; Zip file containing the data for <em>Figure 5</em>.</p> <p><strong>5. Figure 6,7</strong>; Zip file containing numerical data for <em>Figures 6 </em>and <em>7</em>.</p>
Fig. 4 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 4. Relative expression levels of SzeaSNMP in various tissues of Sitophilus zeamais. mAn = male antennae; fAn = female antennae; H = heads without antennae; T = thoraces without legs and wings; Abd = abdomens; W = wings; L = legs. Error bars represent the standard error, and the different letters above each bar indicate significant differences in relative levels of expression at P <0.05 (Tukey's HSD test).
Fig. 2 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 2. Sequence alignments of Sitophilus zeamais sensory neuron membrane protein with SNMPs from other Coleoptera species. Black triangles represent six conserved cysteine residues that could form three pairs of disulphide bridges in the SNMPs (Rasmussen et al. 1998). Abbreviated species names and GenBank accession numbers of amino acid sequences are described in Fig. 3.
Fig. 3 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 3. Phylogenetic analysis of insect SNMPs. A tree of SNMPs from Sitophilus zeamais and other insects was made by MEGA7 through the Neighbor-joining method with 1,000 bootstrap replications. The insect species and GenBank accession numbers for all the sequences of SNMPs are as follows: Aethina tumida (AtumSNMP2a/XP_019867287.1, AtumSNMP2b/ XP_019867285.1); Anoplophora chinensis (AchiSNMP1a/AUF73093.1, AchiSNMP1b/AUF73091.1); Anoplophora glabripennis (AglaSNMP2a/XP_018566912.1, AglaSNMP2b/XP_018566911.1); Colaphellus bowringi (CbowSNMP1a/ ALR72542.1, CbowSNMP1b/ALR72543.1, CbowSNMP2/ALR72544.1); Dendroctonus ponderosae (DponSNMP1a/ AGI05171.1, DponSNMP1b/XP_019756753.1, DponSNMP2a/XP_019770615.1, DponSNMP2b/AGI05184.1); Holotrichia parallela (HparSNMP1/AVM18969.1); Leptinotarsa decemlineata (LdecSNMP2/XP_023025981.1); Onthophagus taurus (OtauSNMP1/XP_022906339.1); Phyllotreta striolata (PstrSNMP1/ANQ46504.1, PstrSNMP2/ANQ46505.1); Tenebrio molitor (TmolSMMP1/AJO62245.1); Tribolium castaneum (TcasSNMP1/KYB28032.1, TcasSNMP2a/XP_008198962.1, TcasSMMP2b/ XP_970008.1).
Fig. 1 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 1. Nucleotide and deduced amino acid sequences of SzeaSNMPs from Sitophilus zeamais. The stop codons are marked with "-", and the black lines below the amino acid sequences indicate the two transmembrane domains. A) SzeaSNMP1a, B) SzeaSNMP1b, C) SzeaSNMP2a, D) SzeaSNMP2b.
Membrane Protein Channels Equipped With a Cleavable Linker for Inducing Catalysis Inside Nanocompartments
<p>Data underlying the figures in the publication “Membrane protein channels equipped with a cleavable linker for inducing catalysis inside nanocompartments”, published in <em>J. Mater. Chem. B, </em><em><strong>2021</strong></em><em>.</em></p> <p><em><a href="https://pubs.rsc.org/en/content/articlelanding/2021/TB/D1TB01463C">https://pubs.rsc.org/en/content/articlelanding/2021/TB/D1TB01463C</a></em></p> <p>Table of contents:</p> <p><strong>1. Figure 1</strong>: Experimental data for <em>Figure 1</em>. OmpF structure and linker design. <em>(A)</em> PyMol ribbon representation of OmpF-M secondary structure reveals a distance of about 30 Å between the side groups of the two amino acids replaced by Cys in OmpF-M. <em>(B)</em> The linker length corresponds to the distance between the two opposing Cys of OmpF-M, as estimated by PyMol modeling. <em>(C)</em> Chemical structure of the designed linker terminal maleimide groups, fluorophore side chains (pink) and the diol unit (blue).</p> <p><strong>2. Figure 2</strong>: Experimental data for <em>Figure 2</em>. Ultrastructural morphology of <em>(A)</em> CNCs without OmpF, <em>(B)</em> CNCs with linker-OmpF-M inserted in the membrane, <em>(C)</em> CNCs with OmpF-M, and <em>(D)</em> OmpF wild-type. Scale bars: 200 nm. <em>(E)</em> FCS autocorrelation curves (solid line) and raw data (dots) of PBS solutions of the linker (black), standalone linker-OmpF-M in 1% OG (blue), and CNCs with linker-OmpF-M inserted in the membrane (red).</p> <p><strong>3. Figure 3</strong>: Experimental data for <em>Figure 3</em>. Linker-based control of laccase activity in CNCs in response to NaIO4. <em>(A)</em> Schematic representation of periodate-induced linker cleavage, activating in situ catalysis. Addition of NaIO<sub>4</sub> cleaves the linker and thereby unblocks the pore. In the open state, substrate enters the compartment where it is oxidized to a detectable product by the confined laccase. <em>(B)</em> An increase in absorbance at 470 nm reflects laccase-catalyzed DMP conversion in NaIO<sub>4</sub>-treated CNC-linker-OmpF-M. Laccase activity was minimal in CNCs lacking OmpF or in CNC-linker OmpF-M in the absence of NaIO<sub>4</sub> (closed pores). Measurements were carried out at pH 7.4 for 9 hours at RT.</p> <p><strong>4. Figure 4</strong>: Experimental data for <em>Figure 4</em>. Absorbance intensity of the laccase product was measured at 470 nm. Measurements were carried out in triplicate (SD) at pH 7.4 and RT. <em>(A)</em> Activity of free laccase in PBS compared to laccase encapsulated in CNC-linker-OmpF in the presence of NaIO<sub>4</sub> over 20 h. <em>(B)</em> Activity measured for one week of free laccase in PBS compared to CNCs with and without periodate-cleaved pores or CNCs lacking pores. Periodate treatment had no effect on the ultrastructural morphology of (C) CNClinker-OmpF-M compared to (D) CNC-no OmpF after 1 week nor after 3 weeks (<em>E</em> and <em>F</em>, respectively). Scale bars: 200 nm.</p> <p><strong>5. Figure 5</strong>: Experimental data for <em>Figure 5</em>. Longevity of CNC morphology. TEM micrographs of CNCs encapsulating laccase with <em>(A)</em> unmodified OmpF-M inserted in the compartment membrane, and <em>(B)</em> linker-OmpF-M reveal an intact morphology after 11 months at 4 1C. Scale bars: 500 nm.</p> <p><strong>6. Figure S5</strong>: Experimental data for <em>Figure S5</em>.</p> <p><strong>7. Figure S8</strong>: Experimental data for <em>Figure S8</em>.</p> <p><strong>8. Figure S9</strong>: Experimental data for <em>Figure S9</em>.</p> <p><strong>9. Figure S10</strong>: Experimental data for <em>Figure S10</em>.</p> <p><strong>10. Figure S12</strong>: Experimental data for <em>Figure S12</em>.</p> <p> </p>
Extended Data Figure 5 in A bizarre Jurassic maniraptoran theropod with preserved evidence of membranous wings
Extended Data Figure 5 | Photographs of preserved integumentary features of STM 31-2. a–c, Feathers over the neck (a), along the humerus (b) and along the humerus and ulna (c); d, isolated basally converging feathers; e, sheet-like soft tissue and feathers associated with the right forelimb and feathers along the right hindlimb; f, g, close-ups of sheet-like soft tissue associated with the right forelimb (f) and distal phalanges of manual digit IV (g).
Piezo1 as a force-through-membrane sensor in red blood cells
<p>Piezo1 is the stretch-activated Ca<sup>2+</sup> channel in red blood cells that mediates homeostatic volume control. Here we study the organization of Piezo1 in red blood cells using a combination of super-resolution microscopy techniques and electron microscopy. Piezo1 adopts a nonuniform distribution on the red blood cell surface, with a bias towards the biconcave "dimple". Trajectories of diffusing Piezo1 molecules, which exhibit confined Brownian diffusion on short timescales and hopping on long timescales, also reflect a bias towards the dimple. This bias can be explained by "curvature coupling" between the intrinsic curvature of the Piezo dome and the curvature of the red blood cell membrane. Piezo1 does not form clusters with itself, nor does it co-localize with F-actin, Spectrin or the Gardos channel. Thus, Piezo1 exhibits the properties of a force-through-membrane sensor of curvature and lateral tension in the red blood cell.</p>
Data for "Coordination of bacterial cell wall and outer membrane biosynthesis"
<p>Raw data used in the paper "Coordination of bacterial cell wall and outer membrane biosynthesis" by Katherine R. Hummels, Samuel P. Berry, Zhaoqi Li, Atsushi Taguchi, Joseph K. Min, Suzanne Walker, Debora S. Marks, and Thomas G. Bernhardt. These data were collected with the aim of understanding how the lipopolysaccharide biosynthetic enzyme LpxC is regulated in diverse gram-negative bacteria, particularly Pseudomonas aeruginosa. The dataset contains the following tarred directories:</p> <p><em><strong>Experimental data</strong></em></p> <ul> <li>Microscopy (microscopy.tar.gz)</li> <li>LC-MS/MS (lc-ms_ms.tar.gz)</li> </ul> <p><strong><em>Covariation analysis</em></strong></p> <ul> <li>Multiple sequence alignments (alignments.tar.gz)</li> <li>AlphaFold structures (alphafold.tar.gz)</li> <li>EVcomplex models and couplings (evcomplex.tar.gz)</li> <li>Phylogenetic trees (trees.tar.gz)</li> </ul> <p>For more detailed methods and file descriptions, please see README.md. Associated code for analysis can be found at https://github.com/samberry19/evcomplex-interaction-scoring.</p>
Code and data from: Influence of heat transfer and wetting angle on condensable fluid flow through nanoporous anodic alumina membranes
<p>Data and matlab code to compute all figures contained in a manuscript submitted to the linked journal.</p>
A novel mechanism that maintains outer membrane lipid asymmetry in Pseudomonas aeruginosa
<p>Newick file the PA2800 phylogenetic tree in "A novel mechanism that maintains outer membrane lipid asymmetry in Pseudomonas aeruginosa"</p>
Dataset of research about Potential of Purwoceng Extract (Pimpinella pruatjan Molkenb.) as Anti-Nicotine Therapy against Viability, Spermatozoa Membrane Integrity, and Organogenesis
<p>The dataset included:</p> <p>1. Ethical test certificate</p> <p>2. Description of ethical clearance</p> <p>3. List of figures of tools and goods used for this study</p> <p>4. Result of active ingredient purwoceng test certificates</p> <p>5. Results of Observation of Viability and Integrity of Spermatozoa Membranes appendices</p>
Quantification data for article entitled "ATG9 vesicles comprise the seed membrane of mammalian autophagosomes"
<p>Membrane fractionation, immunoprecipitation, and <em>in vitro</em> experiment densitometric quantification datasheets for quantified data presented in the research article entitled "ATG9 vesicles comprise the seed membrane of mammalian autophagosomes". Membrane fractions (Figures 3, 4, S4, and S5) were from WT cells (starvation + bafiomycin A1 and basal conditions), ATG2 DKO cells, FIP200 KO cells, ATG9A KO cells, ATG3 KO cells, and ATG4 QKO cells (all KO cells under basal conditions). Immunoprecipitations (Figures 6 and S5) were from WT cells (starvation + bafiomycin A1) and ATG2 DKO cells (basal). Guanidine hydrochloride (GdnHCl) sequential immunoprecipitations (Figure 6) were from WT cells (starvation + bafiomycin A1). <em>In vitro</em> experiments (Figure S5) were using recombinant proteins on reconstituted liposomes.</p>
MD simulations of FVa membrane binding 4/4
<p>For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo</p>
MD simulations of FVa membrane binding 3/4
<p>For details see the publication:<br> "Understanding the complex membrane binding of a protein with multiple anchoring domains"<br> By J. J. Madsen & Y. Z. Ohkubo</p>
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.