Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Strain-dependent fractional molecular diffusion in humid spider silk fibres.

ABSTRACT: Spider silk is a material well known for its outstanding mechanical properties, combining elasticity and tensile strength. The molecular mobility within the silk's polymer structure on the nanometre length scale importantly contributes to these macroscopic properties. We have therefore investigated the ensemble-averaged single-particle self-dynamics of the prevailing hydrogen atoms in humid spider dragline silk fibres on picosecond time scales in situ as a function of an externally applied tensile strain. We find that the molecular diffusion in the amorphous fraction of the oriented fibres can be described by a generalized fractional diffusion coefficient K? that is independent of the observation length scale in the probed range from approximately 0.3-3.5 nm. K? increases towards a diffusion coefficient of the classical Fickian type with increasing tensile strain consistent with an increasing loss of memory or entropy in the polymer matrix.

SUBMITTER: Krasnov I

PROVIDER: S-EPMC5046950 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Strain-dependent fractional molecular diffusion in humid spider silk fibres.

Krasnov Igor I Seydel Tilo T Greving Imke I Blankenburg Malte M Vollrath Fritz F Müller Martin M

Journal of the Royal Society, Interface 20160901 122

Spider silk is a material well known for its outstanding mechanical properties, combining elasticity and tensile strength. The molecular mobility within the silk's polymer structure on the nanometre length scale importantly contributes to these macroscopic properties. We have therefore investigated the ensemble-averaged single-particle self-dynamics of the prevailing hydrogen atoms in humid spider dragline silk fibres on picosecond time scales in situ as a function of an externally applied tensi ...[more]

PMID: 27628174

Similar Datasets

Scrutinizing the datasets obtained from nanoscale features of spider silk fibres.

Project description:Spider silk fibres share unprecedented structural and mechanical properties which span from the macroscale to nanoscale and beyond. This is possible due to the molecular features of modular proteins termed spidroins. Thus, the investigation of the organizational scaffolds observed for spidroins in spider silk fibres is of paramount importance for reverse bioengineering. This dataset consists in describing a rational screening procedure to identify the nanoscale features of spider silk fibres. Using atomic force microscopy operated in multiple acquisition modes, we evaluated silk fibres from nine spider species. Here we present the complete results of the analyses and decrypted a number of novel features that could even rank the silk fibres according to desired mechanostructural features. This dataset will allow other researchers to select the most appropriate models for synthetic biology and also lead to better understanding of spider silk fibres extraordinary performance that is comparable to the best manmade materials.

| S-EPMC4411006 | biostudies-literature

Artificial spider silk from ion-doped and twisted core-sheath hydrogel fibres.

Project description:Spider silks show unique combinations of strength, toughness, extensibility, and energy absorption. To date, it has been difficult to obtain spider silk-like mechanical properties using non-protein approaches. Here, we report on an artificial spider silk produced by the water-evaporation-induced self-assembly of hydrogel fibre made from polyacrylic acid and silica nanoparticles. The artificial spider silk consists of hierarchical core-sheath structured hydrogel fibres, which are reinforced by ion doping and twist insertion. The fibre exhibits a tensile strength of 895?MPa and a stretchability of 44.3%, achieving mechanical properties comparable to spider silk. The material also presents a high toughness of 370?MJ?m-3 and a damping capacity of 95%. The hydrogel fibre shows only ~1/9 of the impact force of cotton yarn with negligible rebound when used for impact reduction applications. This work opens an avenue towards the fabrication of artificial spider silk with applications in kinetic energy buffering and shock-absorbing.

| S-EPMC6874677 | biostudies-literature

Spider silk gut: development and characterization of a novel strong spider silk fiber.

Project description:Spider silk fibers were produced through an alternative processing route that differs widely from natural spinning. The process follows a procedure traditionally used to obtain fibers directly from the glands of silkworms and requires exposure to an acid environment and subsequent stretching. The microstructure and mechanical behavior of the so-called spider silk gut fibers can be tailored to concur with those observed in naturally spun spider silk, except for effects related with the much larger cross-sectional area of the former. In particular spider silk gut has a proper ground state to which the material can revert independently from its previous loading history by supercontraction. A larger cross-sectional area implies that spider silk gut outperforms the natural material in terms of the loads that the fiber can sustain. This property suggests that it could substitute conventional spider silk fibers in some intended uses, such as sutures and scaffolds in tissue engineering.

| S-EPMC4256644 | biostudies-other

Two-step self-assembly of a spider silk molecular clamp.

Project description:Web spiders synthesize silk fibers of unique strength and extensibility through the controlled self-assembly of protein building blocks, so-called spidroins. The spidroin C-terminal domain is highly conserved and connects two polypeptide chains through formation of an all-helical, intertwined dimer. Here we use contact-induced fluorescence self-quenching and resonance energy transfer in combination with far-UV circular dichroism spectroscopy as three orthogonal structural probes to dissect the mechanism of folding and dimerization of a spidroin C-terminal domain from the major ampullate gland of the nursery web spider Euprosthenops australis. We show that helices forming the dimer core assemble very rapidly and fold on association. Subsequently, peripheral helices fold and dock slowly onto the preformed core. Lability of outer helices facilitates formation of a highly expanded, partially folded dimer. The high end-to-end distance of chain termini in the partially folded dimer suggests an extensibility module that contributes to elasticity of spider silk.

| S-EPMC6235870 | biostudies-literature

Rate-dependent behavior of the amorphous phase of spider dragline silk.

Project description:The time-dependent stress-strain behavior of spider dragline silk was already observed decades ago, and has been attributed to the disordered sequences in silk proteins, which compose the soft amorphous matrix. However, the actual molecular origin and magnitude of internal friction within the amorphous matrix has remained inaccessible, because experimentally decomposing the mechanical response of the amorphous matrix from the embedded crystalline units is challenging. Here, we used atomistic molecular dynamics simulations to obtain friction forces for the relative sliding of peptide chains of Araneus diadematus spider silk within bundles of these chains as a representative unit of the amorphous matrix in silk fibers. We computed the friction coefficient and coefficient of viscosity of the amorphous phase to be in the order of 10(-6) Ns/m and 10(4) Ns/m(2), respectively, by extrapolating our simulation data to the viscous limit. Finally, we used a finite element method for the amorphous phase, solely based on parameters derived from molecular dynamics simulations including the newly determined coefficient of viscosity. With this model the time scales of stress relaxation, creep, and hysteresis were assessed, and found to be in line with the macroscopic time-dependent response of silk fibers. Our results suggest the amorphous phase to be the primary source of viscosity in silk and open up the avenue for finite element method studies of silk fiber mechanics including viscous effects.

| S-EPMC4052242 | biostudies-literature

Hybrid Spider Silk with Inorganic Nanomaterials.

Project description:High-performance functional biomaterials are becoming increasingly requested. Numerous natural and artificial polymers have already demonstrated their ability to serve as a basis for bio-composites. Spider silk offers a unique combination of desirable aspects such as biocompatibility, extraordinary mechanical properties, and tunable biodegradability, which are superior to those of most natural and engineered materials. Modifying spider silk with various inorganic nanomaterials with specific properties has led to the development of the hybrid materials with improved functionality. The purpose of using these inorganic nanomaterials is primarily due to their chemical nature, enhanced by large surface areas and quantum size phenomena. Functional properties of nanoparticles can be implemented to macro-scale components to produce silk-based hybrid materials, while spider silk fibers can serve as a matrix to combine the benefits of the functional components. Therefore, it is not surprising that hybrid materials based on spider silk and inorganic nanomaterials are considered extremely promising for potentially attractive applications in various fields, from optics and photonics to tissue regeneration. This review summarizes and discusses evidence of the use of various kinds of inorganic compounds in spider silk modification intended for a multitude of applications. It also provides an insight into approaches for obtaining hybrid silk-based materials via 3D printing.

| S-EPMC7559941 | biostudies-literature

Antimicrobial functionalized genetically engineered spider silk.

Project description:Genetically engineered fusion proteins offer potential as multifunctional biomaterials for medical use. Fusion or chimeric proteins can be formed using recombinant DNA technology by combining nucleotide sequences encoding different peptides or proteins that are otherwise not found together in nature. In the present study, three new fusion proteins were designed, cloned and expressed and assessed for function, by combining the consensus sequence of dragline spider silk with three different antimicrobial peptides. The human antimicrobial peptides human neutrophil defensin 2 (HNP-2), human neutrophil defensins 4 (HNP-4) and hepcidin were fused to spider silk through bioengineering. The spider silk domain maintained its self-assembly features, a key aspect of these new polymeric protein biomaterials, allowing the formation of ?-sheets to lock in structures via physical interactions without the need for chemical cross-linking. These new functional silk proteins were assessed for antimicrobial activity against Gram - Escherichia coli and Gram + Staphylococcus aureus and microbicidal activity was demonstrated. Dynamic light scattering was used to assess protein aggregation to clarify the antimicrobial patterns observed. Attenuated-total reflectance Fourier transform infrared spectroscopy (ATR-FTIR) and circular dichroism (CD) were used to assess the secondary structure of the new recombinant proteins. In vitro cell studies with a human osteosarcoma cell line (SaOs-2) demonstrated the compatibility of these new proteins with mammalian cells.

| S-EPMC3081935 | biostudies-literature

Sensing fluctuating airflow with spider silk.

Project description:The ultimate aim of flow sensing is to represent the perturbations of the medium perfectly. Hundreds of millions of years of evolution resulted in hair-based flow sensors in terrestrial arthropods that stand out among the most sensitive biological sensors known, even better than photoreceptors which can detect a single photon (10-18-10-19 J) of visible light. These tiny sensory hairs can move with a velocity close to that of the surrounding air at frequencies near their mechanical resonance, despite the low viscosity and low density of air. No man-made technology to date demonstrates comparable efficiency. Here we show that nanodimensional spider silk captures fluctuating airflow with maximum physical efficiency (Vsilk/Vair ? 1) from 1 Hz to 50 kHz, providing an effective means for miniaturized flow sensing. Our mathematical model shows excellent agreement with experimental results for silk with various diameters: 500 nm, 1.6 µm, and 3 µm. When a fiber is sufficiently thin, it can move with the medium flow perfectly due to the domination of forces applied to it by the medium over those associated with its mechanical properties. These results suggest that the aerodynamic property of silk can provide an airborne acoustic signal to a spider directly, in addition to the well-known substrate-borne information. By modifying a spider silk to be conductive and transducing its motion using electromagnetic induction, we demonstrate a miniature, directional, broadband, passive, low-cost approach to detect airflow with full fidelity over a frequency bandwidth that easily spans the full range of human hearing, as well as that of many other mammals.

| S-EPMC5699058 | biostudies-literature

Recombinant Spider Silk: Promises and Bottlenecks.

Project description:Spider silk threads have exceptional mechanical properties such as toughness, elasticity and low density, which reach maximum values compared to other fibre materials. They are superior even compared to Kevlar and steel. These extraordinary properties stem from long length and specific protein structures. Spider silk proteins can consist of more than 20,000 amino acids. Polypeptide stretches account for more than 90% of the whole protein, and these domains can be repeated more than a hundred times. Each repeat unit has a specific function resulting in the final properties of the silk. These properties make them attractive for innovative material development for medical or technical products as well as cosmetics. However, with livestock breeding of spiders it is not possible to reach high volumes of silk due to the cannibalistic behaviour of these animals. In order to obtain spider silk proteins (spidroins) on a large scale, recombinant production is attempted in various expression systems such as plants, bacteria, yeasts, insects, silkworms, mammalian cells and animals. For viable large-scale production, cost-effective and efficient production systems are needed. This review describes the different types of spider silk, their proteins and structures and discusses the production of these difficult-to-express proteins in different host organisms with an emphasis on plant systems.

| S-EPMC8957953 | biostudies-literature

The myth of antibiotic spider silk.

Project description:Spider silk is frequently attributed antimicrobial properties. This notion is based on studies reporting antimicrobial activity (AMA) of spider silk; however, close inspection of these studies reveals that the evidence is conflicting, and at best anecdotal. We performed a systematic study of antimicrobial properties of different silk types from seven species across the spider phylogeny. We found no evidence of AMA of silk in direct contact and disc diffusion assays against Gram-negative Escherichia coli and Pseudomonas putida, and the Gram-positive Bacillus subtilis. Furthermore, staining experiments and fluorescence microscopy showed the presence of live bacteria on silk surfaces indicating no antimicrobial effect on direct contact. A critical evaluation of the literature reveals that published tests of AMA are scarce and that all the studies claiming positive results are compromised by methodological shortcomings. Our analysis demonstrates that the common notion that spider silk is antimicrobial is not supported by empirical data.

| S-EPMC8560547 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data