nils-herrmann/clean_scirepeval huggingface dataset:
Biomimicry as a design tool for nanocontainers: The “shape of things to come” in drug delivery

Nanocontainers embody a “compartmentalized” structural archetype with the potential to operate on a dimensional scale that can either assimilate or be integrated within bio-driven processes. With expected improvements in sensitive diagnostic assays for early disease detection (e.g., CTCs or circulating tumor cells), this has important implications for developing drug delivery technologies to areas of small confinement in the body. Functionalized nanocontainers with tunable surface properties can help stabilize and release therapeutic chemical and biological drugs within nano- and sub-nano spaced cavities. Here, we discuss recent developments in the field of “nanocontainers” that show promise for addressing some of the more challenging aspects of drug therapeutics.
Inhibiting Freeze-Thaw Damage in Cement Paste and Concrete by Mimicking Nature’s Antifreeze
Venue: Cell Reports Physical Science

Since the 1930s, surfactant-based air-entraining admixtures (AEAs) have been used to mitigate freeze-thaw damage in cementitious materials. While effective, entrained air voids weaken concrete and increase its permeability, thereby increasing susceptibility to multiple other forms of in situ degradation. Inspired by nature, we report that a soluble biomimetic antifreeze polymer that displays ice recrystallization inhibition (IRI) and dynamic ice shaping (DIS) activities can prevent damage from ice crystal growth in cement paste and concrete. We first report that polyethylene glycol-graft-polyvinyl alcohol (PEG-PVA) mimics the explicit IRI and DIS activity of native ice-binding proteins in high-pH media characteristic of concrete pore solution. Second, we report that addition of PEG-PVA to cement paste and concrete prevents freeze-thaw damage without entraining air. Taken together, the findings demonstrate an alternative mechanistic approach to AEAs that can be leveraged to prevent damage from ice crystal growth in cementitious materials.
Structure and Mechanical Adaptability of a Modern Elasmoid Fish Scale from the Common Carp
Venue: Matter

The carp (Cyprinus carpio) has typical elasmoid scales commonly found on teleosts. They provide protection while retaining flexibility and maneuverability of the fish. The exterior surface of the scale consists of an ultrathin discontinuous mineral layer on top of mineralized woven collagen fibrils. The underlying foundation is composed of two collagenous components. The major one consists of a single-twisted “Bouligand” structure with a twisting angle of 36°. A secondary “sheet-like” structure, formed by thinner collagen fibrils oriented along the thickness direction, acts to increase the integrity of the scale. Here, we identify the deformation and failure mechanisms of the carp scale, revealing slight tensile anisotropy. Using in situ small-angle X-ray scattering during tensile testing, the toughening mechanisms of the scale, including the adaptive structural reorientation of lamellae as well as fibrillar sliding and elastic deformation, are quantified and compared with those of other fish scales.
Ogre-Faced, Net-Casting Spiders Use Auditory Cues to Detect Airborne Prey
Venue: Current Biology

Prey capture behavior among spiders varies greatly from passive entrapment in webs to running down prey items on foot. Somewhere in the middle are the ogre-faced, net-casting spiders  (Deinopidae: Deinopis) that actively capture prey while being suspended within a frame web [2-5]. Using a net held between their front four legs, these spiders lunge downward to ensnare prey from off the ground beneath them. This "forward strike" is sensorially mediated by a massive pair of hypersensitive, night-vision eyes [5-7]. Deinopids can also intercept flying insects with a "backward strike," a ballistically rapid, overhead back-twist, that seems not to rely on visual cues [4, 5, 8]. Past reports have hypothesized a role of acoustic detection in backward strike behavior [4, 5, 8]. Here, we report that the net-casting spider, Deinopis spinosa, can detect auditory stimuli from at least 2 m from the sound source, at or above 60 dB SPL, and that this acoustic sensitivity is sufficient to trigger backward strike behavior. We present neurophysiological recordings in response to acoustic stimulation, both from sound-sensitive areas in the brain and isolated forelegs, which demonstrate a broad range of auditory sensitivity (100-10,000 Hz). Moreover, we conducted behavioral assays of acoustic stimulation that confirm acoustic triggering of backward net-casting by frequencies in harmony with flight tones of known prey. However, acoustic stimulation using higher frequency sounds did not elicit predatory responses in D. spinosa. We hypothesize higher frequencies are emitted by avian predators and that detecting these auditory cues may aid in anti-predator behavior.
Evolution of the acoustic startle response of Mexican cavefish.
Venue: Journal of Experimental Zoology

The ability to detect threatening stimuli and initiate an escape response is essential for survival and under stringent evolutionary pressure. In diverse fish species, acoustic stimuli activate Mauthner neurons, which initiate a C-start escape response. This reflexive behavior is highly conserved across aquatic species and provides a model for investigating the neural mechanism underlying the evolution of escape behavior. Here, we characterize evolved differences in the C-start response between populations of the Mexican cavefish, Astyanax mexicanus. Cave populations of A. mexicanus inhabit an environment devoid of light and macroscopic predators, resulting in evolved differences in various morphological and behavioral traits. We find that the C-start is present in river-dwelling surface fish and multiple populations of cavefish, but that response kinematics and probability differ between populations. The Pachón population of cavefish exhibits an increased response probability, a slower response latency and speed, and reduction of the maximum bend angle, revealing evolved differences between surface and cave populations. Analysis of the responses of two other independently evolved populations of cavefish, revealed the repeated evolution of reduced angular speed. Investigation of surface-cave hybrids reveals a correlation between angular speed and peak angle, suggesting these two kinematic characteristics are related at the genetic or functional levels. Together, these findings provide support for the use of A. mexicanus as a model to investigate the evolution of escape behavior.
Molecular Basis of Chemotactile Sensation in Octopus
Venue: Cell

Animals display wide-ranging evolutionary adaptations based on their ecological niche. Octopuses explore the seafloor with their flexible arms using a specialized "taste by touch" system to locally sense and respond to prey-derived chemicals and movement. How the peripherally distributed octopus nervous system mediates relatively autonomous arm behavior is unknown. Here, we report that octopus arms use a family of cephalopod-specific chemotactile receptors (CRs) to detect poorly soluble natural products, thereby defining a form of contact-dependent, aquatic chemosensation. CRs form discrete ion channel complexes that mediate the detection of diverse stimuli and transduction of specific ionic signals. Furthermore, distinct chemo- and mechanosensory cells exhibit specific receptor expression and electrical activities to support peripheral information coding and complex chemotactile behaviors. These findings demonstrate that the peripherally distributed octopus nervous system is a key site for signal processing and highlight how molecular and anatomical features synergistically evolve to suit an animal's environmental context.
Nacre toughening due to cooperative plastic deformation of stacks of co-oriented aragonite platelets
Venue: Communications Materials

Nacre’s structure-property relationships have been a source of inspiration for designing advanced functional materials with both high strength and toughness. These outstanding mechanical properties have been mostly attributed to the interplay between aragonite platelets and organic matrices in the typical brick-and-mortar structure. Here, we show that crystallographically co-oriented stacks of aragonite platelets, in both columnar and sheet nacre, define another hierarchical level that contributes to the toughening of nacre. By correlating piezo-Raman and micro-indentation results, we quantify the residual strain energy associated with strain hardening capacity. Our findings suggest that the aragonite stacks, with characteristic dimensions of around 20 µm, effectively store energy through cooperative plastic deformation. The existence of a larger length scale beyond the brick-and-mortar structure offers an opportunity for a more efficient implementation of biomimetic design. The hierarchical structure of nacre is known to contribute to its high strength and toughness, providing inspiration for many biomimetic materials. Here, co-oriented 20 µm stacks of aragonite platelets are shown to contribute to the toughness of nacre, defining a new characteristic length scale.
A possible link between coral reef success, crustose coralline algae and the evolution of herbivory
Venue: Scientific Reports

Crustose coralline red algae (CCA) play a key role in the consolidation of many modern tropical coral reefs. It is unclear, however, if their function as reef consolidators was equally pronounced in the geological past. Using a comprehensive database on ancient reefs, we show a strong correlation between the presence of CCA and the formation of true coral reefs throughout the last 150 Ma. We investigated if repeated breakdowns in the potential capacity of CCA to spur reef development were associated with sea level, ocean temperature, CO2 concentration, CCA species diversity, and/or the evolution of major herbivore groups. Model results show that the correlation between the occurrence of CCA and the development of true coral reefs increased with CCA diversity and cooler ocean temperatures while the diversification of herbivores had a transient negative effect. The evolution of novel herbivore groups compromised the interaction between CCA and true reef growth at least three times in the investigated time interval. These crises have been overcome by morphological adaptations of CCA.
Natural hybrid silica/protein superstructure at atomic resolution
Venue: Proceedings of the National Academy of Sciences of the United States of America

Using hybrid silica/protein templates, nature has mastered the fabrication of extremely complex macroscopic glass assemblies. Highly symmetric skeletal elements in demosponges are formed following a unique biomineralization mechanism in which polycondensation of an inherently disordered amorphous silica is guided by highly ordered proteinaceous filaments. Here we provide a comprehensive three-dimensional atomistic view of this hybrid assembly. The structure, occurring in the crystalline form in vivo, was measured in situ using the serial crystallography method. Together with a high-resolution transmission electron microscopy and energy-dispersive X-ray spectroscopy study, we provide structural, chemical, and functional information on a naturally forming hybrid mineral/organic crystal. Formation of highly symmetric skeletal elements in demosponges, called spicules, follows a unique biomineralization mechanism in which polycondensation of an inherently disordered amorphous silica is guided by a highly ordered proteinaceous scaffold, the axial filament. The enzymatically active proteins, silicateins, are assembled into a slender hybrid silica/protein crystalline superstructure that directs the morphogenesis of the spicules. Furthermore, silicateins are known to catalyze the formation of a large variety of other technologically relevant organic and inorganic materials. However, despite the biological and biotechnological importance of this macromolecule, its tertiary structure was never determined. Here we report the atomic structure of silicatein and the entire mineral/organic hybrid assembly with a resolution of 2.4 Å. In this work, the serial X-ray crystallography method was successfully adopted to probe the 2-µm-thick filaments in situ, being embedded inside the skeletal elements. In combination with imaging and chemical analysis using high-resolution transmission electron microscopy, we provide detailed information on the enzymatic activity of silicatein, its crystallization, and the emergence of a functional three-dimensional silica/protein superstructure in vivo. Ultimately, we describe a naturally occurring mineral/protein crystalline assembly at atomic resolution.
Time cells in the human hippocampus and entorhinal cortex support episodic memory
Venue: Proceedings of the National Academy of Sciences of the United States of America

Time cells are neurons in the hippocampus and entorhinal cortex that fire at specific moments within a cognitive task or experience. While many prominent theories of memory encoding offer time cells as the source of the temporal component to memory, they have never been observed in human recordings. We identify time cell populations in the medial temporal lobe of humans during memory encoding and retrieval. Further, we demonstrate that the stability of the time signal provided by time cells during encoding influences the ability to temporally order memories at time of retrieval. The organization of temporal information is critical for the encoding and retrieval of episodic memories. In the rodent hippocampus and entorhinal cortex, evidence accumulated over the last decade suggests that populations of “time cells” in the hippocampus encode temporal information. We identify time cells in humans using intracranial microelectrode recordings obtained from 27 human epilepsy patients who performed an episodic memory task. We show that time cell activity predicts the temporal organization of retrieved memory items. We also uncover evidence of ramping cell activity in humans, which represents a complementary type of temporal information. These findings establish a cellular mechanism for the representation of temporal information in the human brain needed to form episodic memories.
High-capacity auditory memory for vocal communication in a social songbird
Venue: Science Advances

Zebra finches can quickly form long-term auditory memories of up to 50 conspecifics based on their song or distance call. Effective vocal communication often requires the listener to recognize the identity of a vocalizer, and this recognition is dependent on the listener’s ability to form auditory memories. We tested the memory capacity of a social songbird, the zebra finch, for vocalizer identities using conditioning experiments and found that male and female zebra finches can remember a large number of vocalizers (mean, 42) based solely on the individual signatures found in their songs and distance calls. These memories were formed within a few trials, were generalized to previously unheard renditions, and were maintained for up to a month. A fast and high-capacity auditory memory for vocalizer identity has not been demonstrated previously in any nonhuman animals and is an important component of vocal communication in social species.
Photonics in nature and bioinspired designs: sustainable approaches for a colourful world
Venue: Nanoscale Advances

Biological systems possess nanoarchitectures that have evolved for specific purposes and whose ability to modulate the flow of light creates an extraordinary diversity of natural photonic structures. In particular, the striking beauty of the structural colouration observed in nature has inspired technological innovation in many fields. Intense research has been devoted to mimicking the unique vivid colours with newly designed photonic structures presenting stimuli-responsive properties, with remarkable applications in health care, safety and security. This review highlights bioinspired photonic approaches in this context, starting by presenting many appealing examples of structural colours in nature, followed by describing the versatility of fabrication methods and designed coloured structures. A particular focus is given to optical sensing for medical diagnosis, food control and environmental monitoring, which has experienced a significant growth, especially considering the advances in obtaining inexpensive miniaturized systems, more reliability, fast responses, and the use of label-free layouts. Additionally, naturally derived biomaterials and synthetic polymers are versatile and fit many different structural designs that are underlined. Progress in bioinspired photonic polymers and their integration in novel devices is discussed since recent developments have emerged to lift the expectations of smart, flexible, wearable and portable sensors. The discussion is expanded to give emphasis on additional functionalities offered to related biomedical applications and the use of structural colours in new sustainable strategies that could meet the needs of technological development.
Bio-inspired cooling technologies and the applications in buildings
Venue: Energy and Buildings

In response to the growing demand for indoor environmental quality (IEQ) and energy efficiency, abundant innovative bio-inspired cooling technologies have been proposed and their applications in buildings have been greatly demonstrated in the previous decades to enhance the benefits of building occupants. IEQ is associated with human health and productivity but maintaining good IEQ requires continuous air-conditioning resulting in a high energy consumption, especially space cooling. Bio-inspired cooling technologies focus on the fundamental mechanisms of heat transfer used by animals or plants which are considered as the keys to create a harmony between buildings and the nature, whereby IEQ can be enhanced while achieving energy efficiency. This review provides a comprehensive summary on the current bio-inspired cooling technologies, including the concepts in the research stage and the well-developed products applied in buildings, and discusses some promising designs that have the most potential for future applications. This paper is structured according to building elements, in which technologies regarding HVAC system, building materials, opaque building envelope and transparent building envelope are reviewed. The heat transfer mechanisms behind each technology including conduction, convection, evaporation or phase change and radiation are discussed. Yet successful green buildings involve a smart thermal management system for which a section is dedicated to discussing various approaches in design optimization. In the last section, a case study simulation of implementation of bio-inspired cooling technologies in a house and its energy efficient performance are analyzed. The authors attempt to motivate the future research and development in energy efficient buildings.
Vibration‐mediated territoriality in the warty birch caterpillar Drepana bilineata
Venue: Physiological Entomology

The warty birch caterpillar Drepana bilineata produces two distinct types of vibrational signals (mandible drumming and anal scraping) during interactions with conspecifics. Vibrational signalling is characterized using standard and high‐speed videography synchronized with laser‐doppler vibrometry, and behavioural experiments test the hypothesis that signalling functions to advertise occupancy of birch (Betula) leaves. Drumming involves raising the head and striking the leaf with the sharp edges of the open mandibles. Anal scraping involves dragging a pair of specialized oar‐shaped setae against the leaf surface. Staged encounters between leaf residents and conspecific intruders result in the resident signalling, with rates increasing as the intruder moves closer. Intruders signal significantly less often than residents. Conflicts are typically resolved within a few minutes, with the resident winning in 61% of the trials, and the intruder winning in 6%. Contests that last more than 30 min are deemed ‘ties’ and comprise the remaining 33% of trials. The results support the hypothesis that vibrational signals function to advertise leaf occupancy. Vibrational communication is believed to be widespread in Drepanoidea caterpillars, but has only been described in two species to date: D. bilineata (present study) and Drepana arcuata. It is proposed that differences in territorial behaviour and signalling between these species are related to their relative investments in silk leaf mats and shelters. The proximate and ultimate bases for the evolution of vibrational communication in caterpillars are discussed.
Biologically inspired LED lens from cuticular nanostructures of firefly lantern
Venue: Proceedings of the National Academy of Sciences of the United States of America

Cuticular nanostructures found in insects effectively manage light for light polarization, structural color, or optical index matching within an ultrathin natural scale. These nanostructures are mainly dedicated to manage incoming light and recently inspired many imaging and display applications. A bioluminescent organ, such as a firefly lantern, helps to out-couple light from the body in a highly efficient fashion for delivering strong optical signals in sexual communication. However, the cuticular nanostructures, except the light-producing reactions, have not been well investigated for physical principles and engineering biomimetics. Here we report a unique observation of high-transmission nanostructures on a firefly lantern and its biological inspiration for highly efficient LED illumination. Both numerical and experimental results clearly reveal high transmission through the nanostructures inspired from the lantern cuticle. The nanostructures on an LED lens surface were fabricated by using a large-area nanotemplating and reconfigurable nanomolding with heat-induced shear thinning. The biologically inspired LED lens, distinct from a smooth surface lens, substantially increases light transmission over visible ranges, comparable to conventional antireflection coating. This biological inspiration can offer new opportunities for increasing the light extraction efficiency of high-power LED packages.
Scattering of ultraviolet light by avian eggshells.
Venue: Faraday Discussions

Eggshells are essential for the reproduction of birds since the optical properties of shells may have an impact on biological functions such as heating and UV protection, recognition by parents or camouflage. Whereas ultraviolet reflection by some bird eggshells has been recently described, its physical origin remains poorly understood. In this study, we identified a porous structure in eggshells. Using Mie scattering modelling, we found it was most likely responsible for reflectance peaks (intensities of ca. 20-50%) observed in the near-UV range. These peaks were observed by spectrophotometric measurements from eggshells of several breeds of hen, one breed of duck and one breed of quail. This optical response was interpreted in terms of the distinct visual perception of hens and humans: eggshells appearing achromatic for humans proved to be chromatic for hens. Fluorescence emission from these eggs was also characterised and attributed to the presence of protoporphyrin IX and biliverdin IXα in the shells. Electron microscopy observations revealed the presence of pores within the so-called calcified shell part (i.e., at depths between ca. 20 μm and ca. 240 μm from the eggshell's outer surface). Mercury intrusion porosimetry allowed us to quantify the pore size distribution. Simulations of the UV response of this porous structure using Mie scattering theory as well as an effective approach accounting for multiple scattering indicate that these pores are responsible for the backscattering peaks observed in the UV range, in the case of beige hen eggshells. Due to the similarities between the pore size distributions observed for beige hen eggshells and other investigated poultry eggshells, we expect Mie backscattering to be the origin of the UV response of the eggshells of many other bird species.