nils-herrmann/clean_scirepeval huggingface dataset:
SMALL-PREY PROFITABILITY: FIELD ANALYSIS OF SHOREBIRDS’ USE OF SURFACE TENSION OF WATER TO TRANSPORT PREY
Venue: The Auk

Previous laboratory studies have shown that Red-necked Phalarope (Phalaropus lobatus), Wilson’s Phalarope (P. tricolor), Western Sandpiper (Calidris mauri), and Least Sandpiper (C. minutilla) use the surface tension of water surrounding a prey item to transport it from bill tip to mouth. Although such experimental work suggests that many species of shorebird may be capable of surface-tension feeding, no field studies have been done that examine this possibility. We studied the occurrence and interspecific variation in the performance of surface-tension transport (STT) in wild shorebirds feeding on identical prey items in shallow water. All shorebirds videotaped—Little Stint (C. minuta), Dunlin (C. alpina), Sanderling (C. alba), Curlew Sandpiper (C. ferruginea), Common Redshank (Tringa totanus), and Black-winged Stilt (Himantopus himantopus)—used STT to feed on small prey items. Individuals employing STT used one or several cycles of jaw spreading to transport the prey contained in a drop of water upward along the bill cavity, an action indicative of STT. Two distinct types of prey transport were observed: (1) use of STT in isolation by calidridine species following the description given in previous studies (i.e., an absence of other feeding mechanisms such as tongue movements, suction, or inertial transport), and (2) STT aided by inertial transport (head jerks) as seen in Common Redshank and Black-winged Stilt. Measured prey-transport variables (number of cycles, total time, and speed of transport) varied among species. The absence of significant relationships between these variables and measures of external morphology (bill length, bill length-to-width ratio, and bill length-to-depth ratio) suggests that some interspecific variations in STT performance may be attributable to differences in internal bill morphology. We show that STT is a common feeding mechanism in small or medium- sized shorebird species that feed on small prey items in shallow water. Birds using STT transported ≤3.6× faster than the theoretical value predicted by a previous model and can achieve high intake rates when foraging on high densities of available small prey items. Ventajas de las Presas Pequeñas: Análisis de Campo del Uso de la Tensión Superficial del Agua por las Aves Playeras para Transportar las Presas
The attachment strategy of English ivy: a complex mechanism acting on several hierarchical levels
Venue: Journal of the Royal Society Interface

English ivy (Hedera helix L.) is able to grow on vertical substrates such as trees, rocks and house plaster, thereby attaching so firmly to the surface that when removed by force typically whole pieces of the climbing substrate are torn off. The structural details of the attachment process are not yet entirely understood. We studied the attachment process of English ivy in detail and suggest a four-phase process to describe the attachment strategy: (i) initial physical contact, (ii) form closure of the root with the substrate, (iii) chemical adhesion, and (iv) shape changes of the root hairs and form-closure with the substrate. These four phases and their variations play an important role in the attachment to differently structured surfaces. We demonstrate that, in English ivy, different mechanisms work together to allow the plant's attachment to various climbing substrates and reveal the importance of micro-fibril orientation in the root hairs for the attachment based on structural changes at the subcellular level.
The function of terpene natural products in the natural world.
Venue: Nature Chemical Biology

As the largest class of natural products, terpenes have a variety of roles in mediating antagonistic and beneficial interactions among organisms. They defend many species of plants, animals and microorganisms against predators, pathogens and competitors, and they are involved in conveying messages to conspecifics and mutualists regarding the presence of food, mates and enemies. Despite the diversity of terpenes known, it is striking how phylogenetically distant organisms have come to use similar structures for common purposes. New natural roles undoubtedly remain to be discovered for this large class of compounds, given that such a small percentage of terpenes has been investigated so far.
The ontogenetic changes in the thermal properties of blubber from Atlantic bottlenose dolphin Tursiops truncatus
Venue: The Journal of Experimental Biology

In Atlantic bottlenose dolphins Tursiops truncatus, both the thickness and lipid content of blubber vary across ontogeny and across individuals of differing reproductive and nutritional status. This study investigates how these changes in blubber morphology and composition influence its thermal properties. Thermal conductivity (W m–1 deg.–1, where deg. is °C) and thermal insulation (m2 deg. W–1) of dolphin blubber were measured in individuals across an ontogenetic series (fetus through adult, N=36), pregnant females (N=4) and emaciated animals (N=5). These thermal properties were determined by the simultaneous use of two common experimental approaches, the heat flux disc method and the standard material method. Thickness, lipid and water content were measured for each blubber sample. Thermal conductivity and insulation varied significantly across ontogeny. Blubber from fetuses through sub-adults was less conductive (range=0.11–0.13±0.02 W m–1 deg.–1) than that of adults (mean=0.18 W m–1 deg.–1). The conductivity of blubber from pregnant females was similar to non-adult categories, while that of emaciated animals was significantly higher (0.24 ± 0.04 W m deg.–1) than all other categories. Blubber from sub-adults and pregnant females had the highest insulation values while fetuses and emaciated animals had the lowest. In nutritionally dependant life history categories, changes in blubber's thermal insulation were characterized by stable blubber quality (i.e. conductivity) and increased blubber quantity (i.e. thickness). In nutritionally independent animals, blubber quantity remained stable while blubber quality varied. A final, unexpected observation was that heat flux measurements at the deep blubber surface were significantly higher than that at the superficial surface, a pattern not observed in control materials. This apparent ability to absorb heat, coupled with blubber's fatty acid composition, suggest that dolphin integument may function as a phase change material.
Evidence for wavelike energy transfer through quantum coherence in photosynthetic systems
Venue: Nature

Photosynthetic complexes are exquisitely tuned to capture solar light efficiently, and then transmit the excitation energy to reaction centres, where long term energy storage is initiated. The energy transfer mechanism is often described by semiclassical models that invoke ‘hopping’ of excited-state populations along discrete energy levels. Two-dimensional Fourier transform electronic spectroscopy has mapped these energy levels and their coupling in the Fenna–Matthews–Olson (FMO) bacteriochlorophyll complex, which is found in green sulphur bacteria and acts as an energy ‘wire’ connecting a large peripheral light-harvesting antenna, the chlorosome, to the reaction centre. The spectroscopic data clearly document the dependence of the dominant energy transport pathways on the spatial properties of the excited-state wavefunctions of the whole bacteriochlorophyll complex. But the intricate dynamics of quantum coherence, which has no classical analogue, was largely neglected in the analyses—even though electronic energy transfer involving oscillatory populations of donors and acceptors was first discussed more than 70 years ago, and electronic quantum beats arising from quantum coherence in photosynthetic complexes have been predicted and indirectly observed. Here we extend previous two-dimensional electronic spectroscopy investigations of the FMO bacteriochlorophyll complex, and obtain direct evidence for remarkably long-lived electronic quantum coherence playing an important part in energy transfer processes within this system. The quantum coherence manifests itself in characteristic, directly observable quantum beating signals among the excitons within the Chlorobium tepidum FMO complex at 77 K. This wavelike characteristic of the energy transfer within the photosynthetic complex can explain its extreme efficiency, in that it allows the complexes to sample vast areas of phase space to find the most efficient path.
Psammophily in Namib Desert spiders
Venue: Journal of Arid Environments

A community of psammophilous spiders was studied in the central Namib Desert. Of 20 species, 85% were cursorial. Complex setae, claws or keels facilitate digging, sweeping, carrying, and swimming in or walking on sand, while long spigots enable spiders to bind sand with silk when burrowing down to depths with amenable microclimate (10–120 cm). Sand is excavated either by sweeping it up an incline or carrying it vertically up. Other characteristics of dune spiders were large size, polyphagy, low metabolism, longevity, brood care and seasonal foraging and breeding patterns. The large, dominant heteropodid, Leucorchestris , may determine many characteristics of the Namib arthropod community.
Unusual coloration in scarabaeid beetles
Venue: Journal of Physics D

In this paper we investigate the reflection of circularly polarized light from the exocuticle of the scarabaeid beetle Gymnopleurus virens. Reflection spectra are deeply modulated, exhibiting a number of relatively narrow well-defined peaks, which differ from previously studied specimens. By comparing model calculations and electron microscopy work with the recorded spectra, we can propose the presence of specific structural defects responsible for the unusual spectra.
The sandfish’s skin: Morphology, chemistry and reconstruction
Venue: Journal of Bionic Engineering

The sandfish is a lizard having the remarkable ability to move in desert sand in a swimming-like fashion. The most outstanding adaptations to this mode of life are the low friction behaviour and the extensive abrasion resistance of the sandfish skin against sand, outperforming even steel. We investigated the topography, the composition and the mechanical properties of sandfish scales. These consist of glycosylated keratins with high amount of sulphur but no hard inorganic material, such as silicates or lime. Remarkably, atomic force microscopy shows an almost complete absence of attractive forces between the scale surface and a silicon tip, suggesting that this is responsible for the unusual tribological properties. The unusual glycosylation of the keratins was found to be absolutely necessary for the described phenomenon. The scales were dissolved and reconstituted on a polymer surface resulting in properties similar to the original scale. Thus, we provide a pathway towards exploitation of the reconstituted scale material for future engineering applications.
The Structure of the Water-Holding Feathers of the Namaqua Sandgrouse
Venue: African Zoology

The morphology and fine structure of the feather barbules of the Namaqua Sandgrouse Pterocles namaqua are investigated histologically and experimentally by means of light microscopy, scanning electron micrography and X-ray diffraction. Proximally the barbule is helically coiled for three and a half turns and has a kidney-shaped, concave/convex transverse section. The inner concave surface is pitted, the outer convex surface smooth. The barbule is solid, consisting of three layers, and bears a number of appendages at its distal end, where it is more rounded in transverse section. The uncoiling of barbules from the abdominal feathers on contact with water may be initiated by water uptake and further facilitated by the number of helical coils at the base of the barbules. The keratin is fairly crystalline when dry. This crystallinity is somewhat reduced on wetting. The uncoiling mechanism is related to the expansion of the polypeptide chains of Il-keratin in order to accommodate additional water bound to the side chains.
Hydrodynamic design of the humpback whale flipper
Venue: Journal of Morphology

The humpback whale (Megaptera novaeangliae) is reported to use its elongate pectoral flippers during swimming maneuvers. The morphology of the flipper from a 9.02‐m whale was evaluated with regard to this hydrodynamic function. The flipper had a wing‐like, high aspect ratio plan‐form. Rounded tubercles were regularly interspersed along the flipper's leading edge. The flipper was cut into 71 2.5‐cm cross‐sections and photographed. Except for sections near the distal tip, flipper sections were symmetrical with no camber. Flipper sections had a blunt, rounded leading edge and a highly tapered trailing edge. Placement of the maximum thickness placement for each cross‐section varied from 49% of chord at the tip to 19% at mid‐span. Section thickness ratio averaged 0.23 with a range of 0.20–0.28. The humpback whale flipper had a cross‐sectional design typical of manufactured aerodynamic foils for lift generation. The morphology and placement of leading edge tubercles sugges that they function as enhanced lift devices to control flow over the flipper and maintain lift at high angles of attack. The morphology of the humpback whale flipper suggests that it is adapted for high maneuverability associated with the whale's unique feeding behavior.
Distribution, abundances, and associations of the endophytic fungal community of Arizona fescue (Festuca arizonica)
Venue: Mycologia

We documented patterns of species diver- sity, relative abundances, and associations of the fun- gal endophyte community inhabiting Arizona fescue (Festuca arizonica), a dominant perennial bunchgrass in ponderosa pine-grassland communities of the Southwestern USA. We also determined spatial vari- ation in frequency of a vertically-transmitted and asexual fungus, Neotyphodium starrii, a dominant en- dophyte in Arizona fescue. To determine if Neoty- phodium frequency is affected by grazing, we com- pared frequency of infected grasses inside and out- side long-term grazing exclosures in four Arizona fes- cue populations. Likewise, we correlated soil nitrogen levels within and among these four, and an additional, population to determine if the frequency of Neotyphodium-infected plants is related to available soil nutrients. More than 400 different fungi were isolated from Arizona fescue. However, most of these were extremely rare and isolated only once. Neoty- phodium starrii and 13 other morphospecies com- prised the majority of fungal taxa. These results sug- gest that the fungal endophyte communities of pe- rennial grasses may be as diverse as fungal endophyte communities of woody shrubs and trees, despite high infection levels of the asexual and vertically-transmit- ted Neotyphodium. The diversity and dominance of non-Neotyphodium endophytes were highly variable among Arizona fescue populations and varied season- ally and yearly within and among populations. Most of these fungal species are probably opportunistic colonizers that increase in abundance in late summer with seasonal rains that promote spore transmission and germination and hyphal growth. Neotyphodium starrii also varied spatially within and among Arizona fescue populations, although always occurring at higher levels than other endophytic fungi. However, Neotyphodium frequencies were not greater outside grazing exclosures as expected if the endophyte con- fers increased resistance to vertebrate herbivores.
Spontaneous unraveling of hagfish slime thread skeins is mediated by a seawater-soluble protein adhesive
Venue: The Journal of Experimental Biology

Hagfishes are known for their ability to rapidly produce vast quantities of slime when provoked. The slime is formed via the interaction between seawater and two components released by the slime glands: mucin vesicles from gland mucous cells, which swell and rupture in seawater to form a network of mucus strands, and intermediate filament-rich threads, which are produced within gland thread cells as tightly coiled bundles called skeins. A previous study showed that the unraveling of skeins from Atlantic hagfish (Myxine glutinosa) requires both the presence of mucins and hydrodynamic mixing. In contrast, skeins from Pacific hagfish (Eptatretus stoutii) unravel in the absence of both mucins and mixing. We tested the hypothesis that spontaneous unraveling of E. stoutii skeins is triggered by the dissolution of a seawater-soluble protein adhesive and the release of stored strain energy within the coiled thread. Here we show that, as predicted by this hypothesis, unraveling can be initiated by a protease under conditions in which unraveling does not normally occur. We also demonstrate, using high resolution scanning electron microscopy, that the treatment of skeins with solutions that cause unraveling also leads to the disappearance of surface and inter-thread features that remain when skeins are washed with stabilizing solutions. Our study provides a mechanism for the deployment of thread skeins in Pacific hagfish slime, and raises the possibility of producing novel biomimetic protein adhesives that are salt, temperature and kosmotrope sensitive.
Thermoregulation during Flight: Body Temperature and Sensible Heat Transfer in Free-Ranging Brazilian Free-Tailed Bats (Tadarida brasiliensis)
Venue: Physiological and Biochemical Zoology

Bat wings are important for thermoregulation, but their role in heat balance during flight is largely unknown. More than 80% of the energy consumed during flight generates heat as a by-product, and thus it is expected that bat wings should dissipate large amounts of heat to prevent hyperthermia. We measured rectal (Tr) and surface (Ts) temperatures of Brazilian free-tailed bats (Tadarida brasiliensis) as they emerged from and returned to their daytime roosts and calculated sensible heat transfer for different body regions (head, body, wings, and tail membrane). Bats’ Tr decreased from 36.8°C during emergence flights to 34.4°C during returns, and Ts scaled positively with ambient temperature (Ta). Total radiative heat loss from bats was significantly greater for a radiative sink to the night sky than for a sink with temperature equal to Ta. We found that free-ranging Brazilian free-tailed bats, on average, do not dissipate heat from their wings by convection but instead dissipate radiative heat (L) to the cloudless night sky during flight ( W). However, within the range of Ta measured in this study, T. brasiliensis experienced net heat loss between evening emergence and return flights. Regional hypothermia reduces heat loss from wings that are exposed to potentially high convective fluxes. Additional research is needed to establish the role of wings in evaporative cooling during flight in bats.
Underwater attachment using hairs: the functioning of spatula and sucker setae from male diving beetles
Venue: Journal of the Royal Society Interface

Males of Dytiscinae beetles use specialized adhesive setae to adhere to female elytra during underwater courtship. This coevolution of male setae and female elytra has attracted much attention since Darwin. However, there has been little examination of their biomechanical functioning despite increasing knowledge on biofibrillar adhesion. Here, we report and compare, for the first time, the mechanisms of underwater attachment using two hair types, the primitive spatula and derived ‘passive’ sucker, found in male diving beetles. Results from interspecific scaling of protarsal palettes and adhesion by single seta suggest better performance in the later-evolved circular (sucker) setae. Spatula setae with a modified shallow sucker and channels use the combined mechanisms of suction and viscous resistance for adhesion. Velocity-dependent adhesion provides sufficient control for resisting the female's erratic movements while also detaching easily through slow peeling. Direction-dependent shear resistance helps reorient setae surfaces into a preferred direction for effective adhesion. Seta deformation using different mechanisms for circular and spatula setae reduces the force that is transmitted to the contact interface. A softer spring in spatula setae explains their adhesion at lower preloads and assists in complete substrate contact. Attachment mechanisms revealed in adhesive setae with modified spatula and passive suckers provide insights for bioinspired designs of underwater attachment devices.
Iridescence in the neck feathers of domestic pigeons.
Venue: Physical Review E

We conducted structural characterizations, reflection measurements, and theoretical simulations on the iridescent green and purple neck feathers of domestic pigeons (Columba livia domestica). We found that both green and purple barbules are composed of an outer keratin cortex layer surrounding a medullary layer. The thickness of the keratin cortex layer shows a distinct difference between green and purple barbules. Green barbules vary colors from green to purple with the observing angle changed from normal to oblique, while purple barbules from purple to green in an opposite way. Both the experimental and theoretical results suggest that structural colors in green and purple neck feathers should originate from the interference in the top keratin cortex layer, while the structure beyond acts as a poor mirror.
Comparison of the structure and mechanical properties of bovine femur bone and antler of the North American elk (Cervus elaphus canadensis).
Venue: Acta Biomaterialia

Antler and limb bone have a similar microstructure and chemical composition. Both are primarily composed of type I collagen and a mineral phase (carbonated apatite), arranged in osteons in compact (cortical bone) sections and a lamellar structure in the cancellous (spongy or trabecular bone) sections. The mineral content is lower in antler bone and it has a core of cancellous bone surrounded by compact bone running through the main beam and tines. The mineral content is higher in the compact compared with the cancellous bone, although there is no difference in ratios of the mineral elements with calcium. Mechanical tests (bend and compression) on longitudinal and transverse orientations of dry and rehydrated compact bone of North American elk (Cervus elaphus canadensis) antlers are compared with known data on other antlers as well as bovine femora. Both dry and rehydrated bones are highly anisotropic, with the bending and compressive strength and elastic modulus higher in the longitudinal than in the transverse direction. There is no significant difference between the bend strength and elastic modulus between dry and rehydrated samples tested in the transverse direction. The elastic modulus measured from the bending tests is compared with composite models. The elastic modulus and bend strengths are lower in the rehydrated condition, but the strain to failure and fracture toughness is much higher compared with dry samples. All antler bone mechanical properties are lower than that of bovine femora. The antler has a much higher fracture toughness compared with bovine femora, which correlates with their main function in intraspecific combat as a high impact resistant, energy absorbent material. A model of compression deformation is proposed, which is based on osteon sliding during shear.