nils-herrmann/clean_scirepeval huggingface dataset:
Metabolic and regulatory responses involved in cold acclimation in Atlantic killifish, Fundulus heteroclitus
Venue: Journal of Comparative Physiology B

Ectotherms often respond to prolonged cold exposure by increasing mitochondrial capacity via elevated mitochondrial volume density [VV(mit,f)]. In fish, higher VV(mit,f) is typically associated with increased expression of nuclear respiratory factor 1 (Nrf1), a transcription factor that induces expression of nuclear-encoded respiratory genes. To examine if nrf1 expression or the expression of other genes that regulate mitochondrial biogenesis contribute to changes in whole-organism metabolic rate during cold acclimation, we examined the time course of changes in the expression of these genes and in metabolic rate in Atlantic killifish, Fundulus heteroclitus. Cold acclimation rapidly decreased metabolic rate, but increased the expression of nrf1 more gradually, with a time course that depended on how rapidly the fish were transitioned to low temperature. Cold-induced nrf1 expression was not associated with increases in biochemical indicators of mitochondrial respiratory capacity, suggesting that cold-induced mitochondrial biogenesis may occur without increases in oxidative capacity in this species. These observations imply that changes in nrf1 expression and metabolic rate due to cold acclimation occur through different physiological mechanisms, and that increases in VV(mit,f) are likely not directly related to changes in metabolic rate with cold acclimation in this species. However, nrf1 expression differed between northern and southern killifish subspecies regardless of acclimation temperature, consistent with observed differences in metabolic rate and VV(mit,f) at 5 °C between these subspecies. Taken together, these results reveal substantial complexity in the regulation of VV(mit,f) and mitochondrial capacity with temperature in fish and the relationship of these parameters to metabolic rate.
Behavioral responses of zebrafish depend on the type of threatening chemical cues
Venue: Journal of Comparative Physiology A

In fish, defensive reactions are induced by different chemical cues that emanate from sense-related stresses [physical, chemical, and visual (visual contact with predator)] or food stresses (acute fasting and chronic food restriction). Using a shuttle box with a two-chamber unmixed laminar flow that allowed fish to remain or flee from a chemical cue, we showed that the avoidance response depended on the type of the chemical cue. We show that zebrafish (Danio rerio) retreated from water conditioned with chemical cues released by chemically or physically stressed fish and acutely fasted fish, but not from water with cues from fish experiencing visual contact with predatory fish or fish suffering from chronic food restriction. Our data reinforced the hypothesis that fish use a combination of information and the context of the situation to determine their evasion strategy.
Comparative and developmental patterns of amphibious auditory function in salamanders
Venue: Journal of Comparative Physiology A

Early amphibious tetrapods may have detected aquatic sound pressure using sound-induced lung vibrations, but their lack of tympanic middle ears would have restricted aerial sensitivity. Sharing these characteristics, salamanders could be models for the carryover of auditory function across an aquatic–terrestrial boundary without tympanic middle ears. We measured amphibious auditory evoked potential audiograms in five phylogenetically and ecologically distinct salamanders (Amphiuma means, Notophthalmus viridescens, Ambystoma talpoideum, Eurycea spp., and Plethodon glutinosus) and tested whether metamorphosis and terrestrial niche were linked to aerial sensitivity. Threshold differences between media varied between species. A. means’ relative aerial sensitivity was greatest at 100 Hz and decreased with increasing frequency. In contrast, all other salamanders retained greater sensitivity up to 500 Hz, and in A. talpoideum and Eurycea, relative sensitivity at 500 Hz was higher than at 100 Hz. Aerial thresholds of terrestrial P. glutinosus above 200 Hz were similar to A. talpoideum and Eurycea, but lower than N. viridescens and A. means. Metamorphosis did not affect aerial sensitivity in N. viridescens or A. talpoideum. These results fail to support a hypothesis of terrestrial hearing specialization across ontogeny or phylogeny. We discuss methodological limitations to our amphibious comparisons and factors affecting variation in amphibious performance.
Mathematical analysis of the homing flights of pigeons based on GPS tracks
Venue: Journal of Comparative Physiology A

To analyse the effect of magnetic and olfactory deprivation on the homing flight of pigeons, we released birds from a familiar site with either their upper beak or their nostrils anaesthetized. The tracks were analysed by time lag embedding to calculate the short-term correlation dimension, a variable that reflects the degrees of freedom and thus the number of factors involved in a system. We found that higher natural fluctuations in the earth’s magnetic field characterized by AP-indices of 8 and above caused a reduction of the correlation dimension of the control birds. We thus separated the data into two groups according to whether they were recorded on magnetically quiet days or on days with higher magnetic fluctuations. Anaesthetizing the upper beak had no significant effect. Making pigeons anosmic reduced the correlation dimension on magnetically quiet days, but did not cause any reduction on days with higher fluctuations. Altogether, our data suggest an involvement of magnetic cues and olfactory factors during the homing flight and point to a robust, multi-factorial map.
Comparison of thermal traits of Polistes dominula and Polistes gallicus, two European paper wasps with strongly differing distribution ranges
Venue: Journal of Comparative Physiology B

The two paper wasps, Polistes dominula and Polistes gallicus, are related species with strongly differing distribution ranges. We investigated thermal tolerance traits (critical thermal limits and metabolic response to temperature) to gain knowledge about physiological adaptations to their local climate conditions and to get evidence for the reasons of P. dominula’s successful dispersion. Body and ambient temperature measurements at the nests revealed behavioural adaptations to microclimate. The species differed clearly in critical thermal minimum (P. dominula −1.4 °C, P. gallicus −0.4 °C), but not significantly in critical thermal maximum of activity (P. dominula 47.1 °C, P. gallicus 47.6 °C). The metabolic response did not reveal clear adaptations to climate conditions. At low and high temperatures, the metabolic rate of P. dominula was higher, and at intermediate temperatures, we determined higher values in P. gallicus. However, the species exhibited remarkably differing thermoregulatory behaviour at the nest. On average, P. gallicus tolerated a thoracic temperature up to ~41 °C, whereas P. dominula already tried at ~37 °C to keep the thorax below ambient temperature. We suggest this to be an adaptation to the higher mean ambient temperature we measured at the nest during a breeding season. Although we determined for P. dominula a 0.5 °C larger thermal tolerance range, we do not presume this parameter to be solely responsible for the successful distribution of P. dominula. Additional factors, such as the thermal tolerance of the queens could limit the overwintering success of P. gallicus in a harsher climate.
Establishing the thermal window for aerobic scope in New Zealand geoduck clams (Panopea zelandica)
Venue: Journal of Comparative Physiology B

Geoduck clams (Panopea spp.) are the longest-lived and largest deep burrowing bivalve. Their unique morphology allows them to live buried in the sediment at depths of up to 1 m. The endemic New Zealand geoduck (Panopea zelandica Quoy and Gaimard, 1835) has recently been identified as a potential species for aquaculture. However, very little is known about the biology and physiology of this entirely subtidal geoduck species. Currently, the New Zealand geoduck fishery relies entirely upon wild harvests, but farms are expected to emerge as cultivation protocols are established. A key step in the optimization of cultivation procedures is the identification of optimal temperature and food rations. One method for establishing thermal optima is to identify the temperature window that supports the widest aerobic scope: the degree to which metabolic rate can be increased to support elevated activity demands. Thus, we investigated the aerobic scope for activity at five different temperatures representative of typical environmental conditions (8, 11, 15, 19, and 23 °C) for juvenile and young adult P. zelandica. Clearance rate was also measured at all temperatures. Comparisons of aerobic scope for activity and clearance rates between size classes revealed that juvenile geoducks had a narrower thermal optimum than young adults (15–19 versus 11–19 °C, respectively). Temperatures higher than 19 °C resulted in a reduction of aerobic scope for activity and clearance rate for both juvenile and young adults, which may lead to reduced performance and elevated mortality. These findings provide the first measures of aerobic scope in P. zelandica, a key step towards a meaningful understanding of the ecophysiology of this unusual species.
Torpor and basking after a severe wildfire: mammalian survival strategies in a scorched landscape
Venue: Journal of Comparative Physiology B

Wildfires can completely obliterate above-ground vegetation, yet some small terrestrial mammals survive during and after fires. As knowledge about the physiological and behavioural adaptations that are crucial for post-wildfire survival is scant, we investigated the thermal biology of a small insectivorous marsupial (Antechinus flavipes) after a severe forest fire. Some populations of antechinus survived the fire in situ probably by hiding deep in rocky crevices, the only fire-proof sites near where they were trapped. We hypothesised that survival in the post-fire landscape was achieved by decreasing daytime activity and using torpor frequently to save energy. Indeed, daytime activity was less common and torpor expression was substantially higher (≥2-fold) at the post-fire site than observed in an unburnt control site and also in comparison to a laboratory study, both when food was provided ad libitum and withheld. Basking in the post-fire site was also recorded, which was likely used to further reduce energy expenditure. Our data suggest that torpor and basking are used by this terrestrial mammal to reduce energy and foraging requirements, which is important in a landscape where food and shelter are limited and predation pressure typically is increased.
Expression of VEGF111 and other VEGF-A variants in the rat uterus is correlated with stage of pregnancy
Venue: Journal of Comparative Physiology B

Vascular endothelial growth factor A is a major mediator of angiogenesis, a critically important process in vertebrate growth and development as well as pregnancy. Here we report for the first time the expression of a rare and unusually potent splice variant, VEGF111, in vivo in mammals. This variant has previously only been found in mammals in cultured human cells exposed to genotoxic agents. Our discovery of VEGF111 in the uterus of both a eutherian (rat) and a marsupial (fat-tailed dunnart) suggests that the splice variant may be common to all mammals. As VEGF111 is also expressed in the uterus of at least one lineage of lizards, the expression of this splice variant may be a widespread amniote phenomenon. We measured expression of VEGF111 and two major VEGF-A splice variants in the uterus of pregnant rats, showing that the three variants show different expression patterns across pregnancy. Our results suggest that viviparous mammals possess a precisely regulated milieu of VEGF isoforms producing the angiogenesis required for successful pregnancy. The discovery of VEGF111 in rat uterus paves the way for the development of in vivo models of VEGF111 activity in a highly tractable laboratory animal, and is particularly significant in the context of early pregnancy loss and cancer research.
Browning of subcutaneous fat and higher surface temperature in response to phenotype selection for advanced endurance exercise performance in male DUhTP mice
Venue: Journal of Comparative Physiology B

For the assessment of genetic or conditional factors of fat cell browning, novel and polygenic animal models are required. Therefore, the long-term selected polygenic mouse line DUhTP originally established in Dummerstorf for high treadmill performance is used. DUhTP mice are characterized by increased fat accumulation in the sedentary condition and elevated fat mobilization during mild voluntary physical activity. In the present study, the phenotype of fat cell browning of subcutaneous fat and a potential effect on oral glucose tolerance, an indicator of metabolic health, were addressed in DUhTP mice. Analysis of peripheral fat pads revealed increased brite (brown-in-white) subcutaneous adipose tissues and in subcutaneous fat from DUhTP mice higher levels of irisin and different markers of fat cell browning like T-box transcription factor (Tbx1), PPARα, and uncoupling protein (UCP1) (P < 0.05) when compared to unselected controls. UCP1 was further increased in subcutaneous fat from DUhTP mice in response to mild exercise (fourfold, P < 0.05). In addition, surface temperature of DUhTP mice was increased when compared to controls indicating a physiological effect of increased UCP1 expression. The present study suggests that DUhTP mice exhibit different markers of mitochondrial biogenesis and fat browning without external stimuli. At an age of 43 days, sedentary DUhTP mice have improved metabolic health as judged from lower levels of blood glucose after an oral glucose tolerance test. Consequently, the non-inbred mouse model DUhTP represents a novel model for the identification of fat cell browning mechanisms in white adipose tissues.
Modulation of digestive enzyme activities in the avian digestive tract in relation to diet composition and quality
Venue: Journal of Comparative Physiology B

In nature, birds are faced with variable food sources that may differ in composition (protein vs. carbohydrates) and quality (highly digestible material vs. indigestible fiber). Studies in passerine birds and some commercial poultry demonstrate that the gastrointestinal tract can respond to varying diet composition and quality by changing morphology and/or activities of digestive enzymes. However, studies in additional avian species are warranted to understand generalities of these trends. We first fed juvenile mallards (Anas platyrhynchos), chickens (Gallus gallus), and quails (Coturnix coturnix) on either high-carbohydrate or high-protein diets. For the most part, birds fed the high-carbohydrate diet had higher small intestinal and cecal disaccharidase activities (maltase and sucrase). However, only mallards exhibited higher small intestinal aminopeptidase-N (APN) activities when fed the high-protein diet. These results differ from passerine birds, which largely modulate small intestinal proteases, but not disaccharidases. In another trial, we fed Canada geese (Branta canadensis) diets that varied in both their protein and fiber concentrations for approximately 3.5 months. Birds fed the high-fiber diets had significantly longer small intestines and caeca compared to those fed low-fiber diets. Additionally, geese fed the high-fiber diets exhibited lower mass-specific activities of small intestinal sucrase, and higher activities of APN when summed across the small intestine and ceca. Similar to the avian species above, geese fed the high-protein diets did not exhibit flexibility in their small intestinal APN activities. Overall, these experiments demonstrate that responsiveness of the avian digestive tract to diet composition may have phylogenetic or ecological constraints. Studies on other avian taxa are needed to understand these patterns.
Physiological constraints and energetic costs of diving behaviour in marine mammals: a review of studies using trained Steller sea lions diving in the open ocean
Venue: Journal of Comparative Physiology B

Marine mammals are characterized as having physiological specializations that maximize the use of oxygen stores to prolong time spent under water. However, it has been difficult to undertake the requisite controlled studies to determine the physiological limitations and trade-offs that marine mammals face while diving in the wild under varying environmental and nutritional conditions. For the past decade, Steller sea lions (Eumetopias jubatus) trained to swim and dive in the open ocean away from the physical confines of pools participated in studies that investigated the interactions between diving behaviour, energetic costs, physiological constraints, and prey availability. Many of these studies measured the cost of diving to understand how it varies with behaviour and environmental and physiological conditions. Collectively, these studies show that the type of diving (dive bouts or single dives), the level of underwater activity, the depth and duration of dives, and the nutritional status and physical condition of the animal affect the cost of diving and foraging. They show that dive depth, dive and surface duration, and the type of dive result in physiological adjustments (heart rate, gas exchange) that may be independent of energy expenditure. They also demonstrate that changes in prey abundance and nutritional status cause sea lions to alter the balance between time spent at the surface acquiring oxygen (and offloading CO2 and other metabolic by-products) and time spent at depth acquiring prey. These new insights into the physiological basis of diving behaviour further our understanding of the potential scope for behavioural responses of marine mammals to environmental changes, the energetic significance of these adjustments, and the consequences of approaching physiological limits.
Characterization of the functional and anatomical differences in the atrial and ventricular myocardium from three species of elasmobranch fishes: smooth dogfish (Mustelus canis), sandbar shark (Carcharhinus plumbeus), and clearnose skate (Raja eglanteria)
Venue: Journal of Comparative Physiology B

We assessed the functional properties in atrial and ventricular myocardium (using isolated cardiac strips) of smooth dogfish (Mustelus canis), clearnose skate (Raja eglanteria), and sandbar shark (Carcharhinus plumbeus) by blocking Ca2+ release from the sarcoplasmic reticulum (SR) with ryanodine and thapsigargin and measuring the resultant changes in contraction–relaxation parameters and the force–frequency relationship at 20 °C and 30 °C. We also examined ultrastructural differences with electron microscopy. In tissues from smooth dogfish, net force (per cross-sectional area) and measures of the speeds of contraction and relaxation were all higher in atrial than ventricular myocardium at both temperatures. Atrial-ventricular differences were evident in the other two species primarily in measures of the rates of contraction and relaxation. Ryanodine-thapsigargin treatment reduced net force and its maximum positive first derivative (i.e., contractility), and increased time to 50 % relaxation in atrial tissue from smooth dogfish at 30 °C. It also increased times to peak force and half relaxation in clearnose skate atrial and ventricular tissue at both temperatures, but only in atrial tissue from sandbar shark at 30 °C; indicating that SR involvement in excitation–contraction (EC) coupling is species- and temperature-specific in elasmobranch fishes, as it is in teleost fishes. Atrial and ventricular myocardium from all three species displayed a negative force–frequency relationship, but there was no evidence that SR involvement in EC coupling was influenced by heart rate. SR was evident in electron micrographs, generally located in proximity to mitochondria and intercalated discs, and to a lesser extent between the myofibrils; with mitochondria being more numerous in ventricular than atrial myocardium in all three species.
Determinants of coronary blood flow in sandbar sharks, Carcharhinus plumbeus
Venue: Journal of Comparative Physiology B

The coronary circulation first appeared in the chordate lineage in cartilaginous fishes where, as in birds and mammals but unlike most teleost fishes, it supplies arterial blood to the entire myocardium. Despite the pivotal position of elasmobranch fishes in the evolution of the coronary circulation, the determinants of coronary blood flow have never been investigated in this group. Elasmobranch fishes are of special interest because of the morphological arrangement of their cardiomyocytes. Unlike teleosts, the majority of the ventricular myocardium in elasmobranch fishes is distant to the venous blood returning to the heart (i.e., the luminal blood). Also, the majority of the myocardium is in close association with the coronary circulation. To determine the relative contribution of the coronary and luminal blood supplies to cardiovascular function in sandbar sharks, Carcharhinus plumbeus, we measured coronary blood flow while manipulating cardiovascular status using acetylcholine and adrenaline. By exploring inter- and intra-individual variation in cardiovascular variables, we show that coronary blood flow is directly related to heart rate (R2 = 0.6; P < 0.001), as it is in mammalian hearts. Since coronary blood flow is inversely related to coronary resistance both in vivo and in vitro, we suggest that in elasmobranch fishes, changes in heart rate mediate changes in coronary vascular resistance, which adjust coronary blood flow appropriately.
Budgerigars (Melopsittacus undulatus) do not hear infrasound: the audiogram from 8 Hz to 10 kHz
Venue: Journal of Comparative Physiology A

The pure-tone thresholds of three budgerigars were determined from 8 Hz to 10 kHz. At a level of 60 dB sound pressure level (re 20 μN/m2), their hearing range extends 6.6 octaves from 77 Hz to 7.6 kHz, with a best sensitivity of 1.1 dB at 3 kHz. Unlike pigeons and chickens, budgerigars do not have better low-frequency hearing than humans. This difference implies anatomical, physiological, and ecological differences between birds that hear infrasound (so far, pigeons and chickens) and those that do not (budgerigars).