nils-herrmann/clean_scirepeval huggingface dataset:
A review of the peripheral levels of regulation by thyroid hormone
Venue: Journal of Comparative Physiology B

Thyroid hormone (TH) regulates many physiological processes that differ between tissues, developmental stages and in response to specific environmental cues. It can therefore play very different signaling roles depending on specific physiological contexts. Much progress has been made in resolving mechanisms for TH signaling over the past 2 decades, and there has been increasing emphasis on the role of peripheral levels of regulation in determining ultimate TH action. This progress has revealed a complex regulatory network, where TH bioavailability and bioactivity are peripherally regulated by sometimes subtle mechanisms at various levels of organization, including membrane receptors and transporters on the cell surface, intracellular deiodinase enzymes, thyroid receptor isoforms and cytosolic thyroid hormone binding proteins, and via accessibility and subtypes of thyroid hormone response elements in the promoters of target genes. The majority of this research comes from disease models, and so the biological relevance of each of these regulatory levels has not been comprehensively explored. This review synthesizes what is known of these local levels of TH regulation, with particular focus on their functional roles in regulating animal response to environmental cues. While thorough analysis for all of these regulatory levels in any one study is currently unrealistic, an appreciation for their collective importance is necessary to frame comparative analyses in a relevant context. This is important because common biomarkers for TH action can have very different meanings, not only for different tissues, but also for individuals, populations and species from different developmental or environmental backgrounds.
Unidirectional pulmonary airflow in vertebrates: a review of structure, function, and evolution
Venue: Journal of Comparative Physiology B

Mechanisms explaining unidirectional pulmonary airflow in birds, a condition where lung gases flow in a consistent direction during both inspiration and expiration in some parts of the lung, were suggested as early as the first part of the twentieth century and unidirectional pulmonary airflow has been discovered recently in crocodilians and squamates. Our knowledge of the functional anatomy, fluid dynamics, and significance of this trait is reviewed. The preponderance of the data indicates that unidirectional airflow is maintained by means of convective inertia in inspiratory and expiratory aerodynamic valves in birds. The study of flow patterns in non-avian reptiles is just beginning, but inspiratory aerodynamic valving likely also plays an important role in controlling flow direction in these lungs. Although highly efficient counter and cross-current blood–gas exchange arrangements are possible in lungs with unidirectional airflow, very few experiments have investigated blood–gas exchange mechanisms in the bird lung and blood–gas arrangements in the lungs of non-avian reptiles are completely unknown. The presence of unidirectional airflow in non-volant ectotherms voids the traditional hypothesis that this trait evolved to supply the high aerobic demands of flight and endothermy, and there is a need for new scenarios in our understanding of lung evolution. The potential value of unidirectional pulmonary airflow for allowing economic lung gas mixing, facilitating lung gas washout, and providing for adequate gas exchange during hypoxic conditions is discussed.
Roles of catalase and glutathione peroxidase in the tolerance of a pulmonate gastropod to anoxia and reoxygenation
Venue: Journal of Comparative Physiology B

Humans and most mammals suffer severe damage when exposed to ischemia and reperfusion episodes due to an overproduction of reactive oxygen species (ROS). In contrast, several hypoxia/anoxia-tolerant animals survive very similar situations. We evaluated herein the redox metabolism in the anoxia-tolerant land snail Helix aspersa after catalase inhibition by 3-amino-1,2,4-triazole (ATZ) injection during a cycle of wide and abrupt change in oxygen availability. The exposure to anoxia for 5 h caused a change of only one of several parameters related to free radical metabolism: a rise in selenium-dependent glutathione peroxidase (Se-GPX) activity in muscle of both saline- and ATZ-injected animals (by 1.9- and 1.8-fold, respectively). Catalase suppression had no effect in animals under normoxia or anoxia. However, during reoxygenation catalase suppression kept high levels of muscle Se-GPX activity (twofold higher than in saline-injected snails up to 30 min reoxygenation) and induced the increase in hepatopancreas SOD activity (by 22 %), indicating higher levels of ROS in both organs than in saline-injected animals. Additionally, catalase-suppressed snails showed 12 % higher levels of carbonyl protein—a sign of mild oxidative stress—in muscle during reoxygenation than those animals with intact catalase. No changes were observed in glutathione parameters (GSH, GSSG and GSSG:GSH ratio), TBARS, and GST activity in any of the experimental groups, in both organs. These results indicate that catalase inhibition inflicts changes in the free radical metabolism during reoxygenation, prompting a stress-response that is a reorganization in other enzymatic antioxidant defenses to minimize alterations in the redox homeostasis in land snails.
The proximal gastric corpus is the most responsive site of motilin-induced contractions in the stomach of the Asian house shrew
Venue: Journal of Comparative Physiology B

The migrating motor complex (MMC) is responsible for emptying the stomach during the interdigestive period, in preparation for the next meal. It is known that gastric phase III of MMC starts from the proximal stomach and propagates the contraction downwards. We hypothesized that a certain region of the stomach must be more responsive to motilin than others, and that motilin-induced strong gastric contractions propagate from that site. Stomachs of the Suncus or Asian house shrew, a small insectivorous mammal, were dissected and the fundus, proximal corpus, distal corpus, and antrum were examined to study the effect of motilin using an organ bath experiment. Motilin-induced contractions differed in different parts of the stomach. Only the proximal corpus induced gastric contraction even at motilin 10−10 M, and strong contraction was induced by motilin 10−9 M in all parts of the stomach. The GPR38 mRNA expression was also higher in the proximal corpus than in the other sections, and the lowest expression was observed in the antrum. GPR38 mRNA expression varied with low expression in the mucosal layer and high expression in the muscle layer. Additionally, motilin-induced contractions in each dissected part of the stomach were inhibited by tetrodotoxin and atropine pretreatment. These results suggest that motilin reactivity is not consistent throughout the stomach, and an area of the proximal corpus including the cardia is the most sensitive to motilin.
Improved ROS defense in the swimbladder of a facultative air-breathing erythrinid fish, jeju, compared to a non-air-breathing close relative, traira
Venue: Journal of Comparative Physiology B

The jeju Hoplerythrinus unitaeniatus and the traira Hoplias malabaricus are two closely related erythrinid fish, both possessing a two-chambered physostomous swimbladder. In the jeju the anterior section of the posterior bladder is highly vascularized and the swimbladder is used for aerial respiration; the traira, in turn, is a water-breather that uses the swimbladder as a buoyancy organ and not for aerial oxygen uptake. Observation of the breathing behavior under different levels of water oxygenation revealed that the traira started aquatic surface respiration only under severe hypoxic conditions and did not breathe air. In the jeju air-breathing behavior was observed under normoxic conditions, and the frequency of air-breathing was significantly increased under hypoxic conditions. Unexpectedly, even under hyperoxic conditions (30 mg O2 L−1) the jeju continued to take air breaths, and compared with normoxic conditions the frequency was not reduced. Because the frequently air-exposed swimbladder tissue faces higher oxygen partial pressures than normally experienced by other fish tissues, it was hypothesized that in the facultative air-breathing jeju, swimbladder tissue would have a higher antioxidative capacity than the swimbladder tissue of the water breathing traira. Measurement of total glutathione (GSSG/GSH) concentration in anterior and posterior swimbladder tissue revealed a higher concentration of this antioxidant in swimbladder tissue as compared to muscle tissue in the jeju. Furthermore, the GSSG/GSH concentration in jeju tissues was significantly higher than in traira tissues. Similarly, activities of enzymes involved in the breakdown of reactive oxygen species were significantly higher in the jeju swimbladder as compared to the traira swimbladder. The results show that the jeju, using the swimbladder as an additional breathing organ, has an enhanced antioxidative capacity in the swimbladder as compared to the traira, using the swimbladder only as a buoyancy organ.
Target shape perception and clutter rejection use the same mechanism in bat sonar
Venue: Journal of Comparative Physiology A

Big brown bats (Eptesicus fuscus) emit frequency-modulated (FM) biosonar sounds containing two or more harmonic sweeps. Echoes from frontally located targets arrive with first and second harmonics intact, leading to focused delay images. Echoes from offside or distant objects arrive with the second harmonic relatively weaker (lowpass-filtered), leading to defocused images, which prevents their clutter interference effects (Bates et al.  2011). Realistic targets contain several glints at slightly different distances and reflect several echoes at correspondingly different delays. The bat registers the delay of the nearest glint’s echoes in the time domain. The delays of echoes from the farther glints are registered in the frequency domain, from interference nulls in the spectrum. Lowpass-filtering of echoes directly affects the image of the nearest glint by defocusing the delay image. However, lowpass-filtering also is superimposed on the interference spectrum used to register the farther glints, which distorts the pattern of interference nulls, defocusing the farther glints inversely, in the spectral domain, before they are perceived as delays. Differences in blurring between time-domain and frequency-domain parts of images identifies separate computational paths to perceptually reconstruct objects and prevent interference from off-side or distant clutter.
Difference between the vocalizations of two sister species of pigeons explained in dynamical terms
Venue: Journal of Comparative Physiology A

Vocal communication is an unique example, where the nonlinear nature of the periphery can give rise to complex sounds even when driven by simple neural instructions. In this work we studied the case of two close-related bird species, Patagioenasmaculosa and Patagioenaspicazuro, whose vocalizations differ only in the timbre. The temporal modulation of the fundamental frequency is similar in both cases, differing only in the existence of sidebands around the fundamental frequency in the P. maculosa. We tested the hypothesis that the qualitative difference between these vocalizations lies in the nonlinear nature of the syrinx. In particular, we propose that the roughness of maculosa’s vocalizations is due to an asymmetry between the right and left vibratory membranes, whose nonlinear dynamics generate the sound. To test the hypothesis, we generated a biomechanical model for vocal production with an asymmetric parameter Q with which we can control the level of asymmetry between these membranes. Using this model we generated synthetic vocalizations with the principal acoustic features of both species. In addition, we confirmed the anatomical predictions by making post mortem inspection of the syrinxes, showing that the species with tonal song (picazuro) has a more symmetrical pair of membranes compared to maculosa.
Divergence in male cricket song and female preference functions in three allopatric sister species
Venue: Journal of Comparative Physiology A

Multivariate female preference functions for male sexual signals have rarely been investigated, especially in a comparative context among sister species. Here we examined male signal and female preference co-variation in three closely related, but allopatric species of Gryllus crickets and quantified male song traits as well as female preferences. We show that males differ conspicuously in either one of two relatively static song traits, carrier frequency or pulse rate; female preference functions for these traits also differed, and would in combination enhance species discrimination. In contrast, the relatively dynamic song traits, chirp rate and chirp duty cycle, show minimal divergence among species and relatively greater conservation of female preference functions. Notably, among species we demonstrate similar mechanistic rules for the integration of pulse and chirp time scales, despite divergence in pulse rate preferences. As these are allopatric taxa, selection for species recognition per se is unlikely. More likely sexual selection combined with conserved properties of preference filters enabled divergent coevolution of male song and female preferences.
Change of ultraviolet light transmittance in growing chicken and quail eyes
Venue: Journal of Comparative Physiology A

The ocular media transmittance (OMT), the amount of light transmitted by the ocular media (the cornea, aqueous humour, lens and vitreous humour) to the retina, determines the sensitivity of vertebrate eyes to short-wavelength light, such as ultraviolet (UV). Earlier, we have measured the OMT of adult birds from a range of species and found that smaller eyes transmitted more UV-light to the retina than larger eyes. In the current study we measured OMT during post-hatch development in Japanese quails and domestic chickens. We show that in both species, OMT decreases as the eye size increases similarly to that what was found across various species, but that quails have lower OMT than expected from eye size. In both species, lens transmittance decreases linearly with lens thickness suggesting that UV-transmittance through the lenses is not actively controlled, but instead determined by UV-absorbance and scattering that occur in all biological tissues. Contrary to earlier assumptions of high cornea transmittance, we found that cornea transmittance is more variable, substantially influencing whole eye transmittance in all age groups of quail and in young chickens. It seems that additional absorbing pigments are used to more actively control cornea transmittance and thereby also overall OMT.
Chemical cues from females trigger male courtship behaviour in grasshoppers
Venue: Journal of Comparative Physiology A

Gomphocerine grasshoppers use species-specific calling songs for sex recognition and mate attraction. In two closely related species, Chorthippus biguttulus and C. mollis, acoustic communication is the only experimentally characterized communication channel that elicits male courtship behaviour. However, courtship in these species involves extensive close-range interactions that are likely to be mediated by other signalling modalities, in particular chemical cues. We developed a bioassay to determine if female cuticular hydrocarbons (CHCs) act as chemical cues that induce courtship behaviour, and if males assess variation in CHCs to determine whether or not to court a female. The results of this approach provide evidence that grasshopper males use species- and sex-specific information from CHC signals and respond with a courtship song to the CHC profile of conspecific females but not to the CHC profile of heterospecific females and conspecific males. We conclude that males of C. biguttulus and C. mollis use multimodal channels for mating decisions, based on both acoustic and olfactory cues. We discuss various factors that might favour the evolution of male choosiness in grasshoppers.
The response of claudin-like transmembrane septate junction proteins to altered environmental ion levels in the larval mosquito Aedes aegypti
Venue: Journal of Comparative Physiology B

Septate junctions (SJs) occlude the paracellular pathway and function as paracellular diffusion barriers within invertebrate epithelia. However, integral components of SJs and their contribution to barrier properties have received considerably less attention than those of vertebrate occluding junctions. In arthropods, SJ proteins have only been identified in Drosophila and among these are three integral claudin-like proteins, Megatrachea (Mega), Sinuous (Sinu) and Kune-kune (Kune), as well as a receptor-like transmembrane SJ protein known as Neurexin IV (Nrx IV). In this study, mega, sinu, kune and nrx IV are identified and characterized in aquatic larvae of the mosquito Aedes aegypti and a role for these proteins in ionoregulatory homeostasis is considered. Transcripts encoding Mega, Sinu, Kune and Nrx IV were found in iono/osmoregulatory tissues such as the midgut, Malpighian tubules, hindgut and anal papillae, but abundance was greater in the hindgut and anal papillae. Using immunohistochemical and western blot analysis it was found that Kune localized to the regions of intercellular contact between epithelial cells of the rectum and posterior midgut and in the apical membrane domain of the syncytial epithelium of anal papillae. To investigate a potential role for integral SJ proteins in larval A. aegypti iono/osmoregulation, abundance was examined in animals reared in freshwater or brackish water (30 % seawater). In iono/osmoregulatory epithelia, larvae exhibited tissue-specific alterations in mega mRNA and Kune protein abundance, but not sinu or nrxIV mRNA. These studies provide a first look at the potential contribution of integral SJ components to iono/osmoregulatory homeostasis in an aquatic invertebrate.
The 12-day thermoregulatory metamorphosis of Red-winged Blackbirds (Agelaius phoeniceus)
Venue: Journal of Comparative Physiology B

We examined development of endothermy in altricial Red-winged Blackbirds (Agelaius phoeniceus) by measuring oxygen consumption $$(\dot{V}{\text{o}}_{2} )$$(V˙o2), body temperature and ventilation at ambient temperatures from 35 to 15 °C. Mitochondrial respiration of permeabilized skeletal muscle was also measured from breast (pectoralis) and thigh (femorotibialis) muscles. Animals were studied from the first day of hatching through fledging (12 days post-hatch, dph). Nestling whole-body metabolic rate began to show an endothermic response to cold temperature midway between hatching and fledging. Nestlings less than 5 dph were unable to maintain elevated $$\dot{V}{\text{o}}_{2}$$V˙o2 and body temperature when exposed to gradually decreasing temperature, whereas 7 dph nestlings maintained $$\dot{V}{\text{o}}_{2}$$V˙o2 until ~25 °C, after which $$\dot{V}{\text{o}}_{2}$$V˙o2 decreased. From 10 dph to fledging, animals maintained elevated $$\dot{V}{\text{o}}_{2}$$V˙o2 and body temperature when exposed to gradual cooling; full endothermic capacity was achieved. Ventilation followed a similar developmental trend to that of $$\dot{V}{\text{o}}_{2}$$V˙o2, with increases in 10 dph fledglings occurring in tidal volume rather than ventilation frequency. LEAK respiration and oxidative phosphorylation (OXPHOS) through complex I of breast muscle mitochondria increased significantly after 3 dph. Expression of avUCP and PCG-1α mRNA increased significantly at 3 dph and remained elevated in both skeletal muscle types. Increased metabolic capacity at the cellular level occurred prior to that of the whole animal. This change in whole animal metabolic capacity increased steadily upon hatching as evidenced by the shift of metabolic rate from an ectothermic to endothermic phenotype and the increase of mitochondrial OXPHOS activity of the shivering muscles of this altricial avian species.
Thermal tolerance and survival responses to scenarios of experimental climatic change: changing thermal variability reduces the heat and cold tolerance in a fly
Venue: Journal of Comparative Physiology B

Climate change poses one of the greatest threats to biodiversity. Most analyses of the impacts have focused on changes in mean temperature, but increasing variance will also impact organisms and populations. We assessed the combined effects of the mean and the variance of temperature on thermal tolerances—i.e., critical thermal maxima, critical thermal minima, scope of thermal tolerance, and survival in Drosophilamelanogaster. Our six experimental climatic scenarios were: constant mean with zero variance or constant variance or increasing variance; changing mean with zero variance or constant variance or increasing variance. Our key result was that environments with changing thermal variance reduce the scope of thermal tolerance and survival. Heat tolerance seems to be conserved, but cold tolerance decreases significantly with mean low as well as changing environmental temperatures. Flies acclimated to scenarios of changing variance—with either constant or changing mean temperatures—exhibited significantly lower survival rate. Our results imply that changing and constant variances would be just as important in future scenarios of climate change under greenhouse warming as increases in mean annual temperature. To develop more realistic predictions about the biological impacts of climate change, such interactions between the mean and variance of environmental temperature should be considered.
Effects of hypoxia and reoxygenation on the antioxidant defense system of the locomotor muscle of the crab Neohelice granulata (Decapoda, Varunidae)
Venue: Journal of Comparative Physiology B

Crustaceans often occur in areas with variations in oxygen and experience situations known as hypoxia and reoxygenation. Consequences of such situations are increased levels of reactive oxygen species. To avoid oxidative damage intertidal crabs appear to possess an efficient antioxidant defense system (ADS). However, to date, studies have not addressed the strategies that are adopted by the crabs when exposed to hypoxia/reoxygenation cycles. Towards this end we evaluated the ADS and the role of melatonin as an antioxidant in the locomotor muscle of the crab Neohelice granulata under conditions of severe hypoxia and reoxygenation. Total antioxidant capacity against peroxyl radicals and the enzymes superoxide dismutase, catalase, glutathione peroxidase (GPx), and glutathione-S-transferase as well as the key enzyme of glutathione synthesis, glutamate cysteine ligase (GCL), were evaluated. Furthermore, GSH, GSH/GSSG index as well as hemolymph and cellular melatonin levels were evaluated. During hypoxia, increased GPx and GCL activity and decreased GSH and mitochondrial melatonin levels were observed, but during reoxygenation catalase activity increased and cytosolic melatonin levels decreased. It appears that the ADS in the locomotor muscle of N. granulata exert a modulating effect when being confronted with hypoxia and reoxygenation to avoid oxidative stress. During hypoxia, the ADS appear to target GPX activity as well as GSH and mitochondrial melatonin. During reoxygenation, however, evidence suggests that catalase and cytosolic melatonin are involved in the recovery of the locomotor muscle from oxidative damage and the suppression of further damage.