Biology subjects

Hughes, A. E.

Publications and source records attributed to Hughes, A. E..

7 recordsLinked to original sources

bioRxiv2025

Recent breeding experience improves egg ejection behaviour

Recognizing ones own eggs is crucial for birds, especially for hosts of brood parasites that must identify and reject different-looking parasitic eggs. While birds seem to possess a template image of their eggs, whether it is innate or learnt remains unclear. We addressed this question by experimentally inserting either artificial mimetic eggs (ME) or non-mimetic eggs (NME) into the nests of barn swallows (Hirundo rustica) during pre-laying stage. Our individually marked population allowed a unique comparison between naive first-time breeders and experienced females, as well as females with old (from a previous season) and recent (from the previous breeding attempt within the same season) experience allowing to investigate the role of memory. We found that both naive and experienced females ejected ME and NME at similar rates, indicating that the template image is neither innate nor learnt and does not play a primary role in egg recognition. Instead, our findings suggest that awareness of own egg-laying is the crucial mechanism at play, and may facilitate nest sanitation behaviour. Finally, we provide the first evidence that this mechanism improves with recent breeding experience. Future studies should investigate the role of non-visual factors that may modulate nest sanitation, such as endocrine regulation.

animal behavior and cognition↗

bioRxiv2024

Machine learning outcompetes human assessment in identifying eggs of a conspecific brood parasite

Avian brood parasitism provides an exceptional system for studying coevolution. While conspecific brood parasitism (CBP) is more common than interspecific parasitism, it is less studied due to the challenge of detecting parasitic eggs, which closely resemble those of the host. Although molecular genotyping can accurately detect CBP, its high cost has led researchers to explore egg appearance as a more accessible alternative. Barn swallows (Hirundo rustica) are considered conspecific brood parasites, but identifying parasitic eggs has traditionally relied on human visual assessment. Here, we used UV-visible photographs of non-parasitized barn swallow clutches and simulated parasitism to compare the accuracy of human assessment with automated methods. In two games, participants and models identified parasitic eggs from six or two options. While humans performed better than chance (72% and 87% accuracy), they still made significant errors. In contrast, the automated supervised model was far more reliable, achieving 95% and 97% accuracy. We think that the model outperformed humans due to its ability to analyse a broader range of visual information, including UV reflectance, which humans cannot perceive. We recommend using supervised models over human assessment for identifying conspecific parasitic eggs and highlight their potential to advance research on evolution of egg colouration.

zoology↗

bioRxiv2020

Automatic identification of bird females using egg phenotype

O_LIIdentification of individuals greatly contributes to understanding animal ecology and evolution, and in many cases can only be achieved using expensive and invasive techniques. Advances in computing technology offer alternative cost-effective techniques which are less invasive and can discriminate between individuals based on visual and/or acoustic cues. Here, we employ human assessment and an automatic analytical approach to predict the identity of common cuckoo (Cuculus canorus) females based on the appearance of their eggs. The cuckoos secretive brood parasitic strategy makes studying its life history very challenging. Eggs were analysed using calibrated digital photography for quantifying spotting pattern, size and shape, and spectrometry for measuring colour. Cuckoo females were identified from genetic sampling of their nestlings, allowing us to determine the accuracy of human and automatic female assignment. Finally, we used a novel same-different approach that uses both genetic and phenotypic information to assign eggs that were not genetically analysed. C_LIO_LIOur results supported the constant egg-type hypothesis, showing that individual cuckoo females lay eggs with a relatively constant appearance and that eggs laid by different females differ more than eggs laid by the same female. The accuracy of unsupervised hierarchical clustering was comparable to assessments of experienced human observers. Supervised random forest analysis showed better results, with higher cluster accuracy. Same-different analysis was able to assign 22 of 87 unidentified cuckoo eggs to seven already known females. C_LIO_LIOur study showed that egg appearance on its own is not sufficient for identification of individual cuckoo females. We therefore advocate genetic analysis to be used for this purpose. However, supervised analytical methods reliably assigned a relatively high number of eggs without genetic data to their mothers which can be used in conjunction with genetic testing as a cost-effective method for increasing sample sizes for eggs where genetic samples could not be obtained. C_LI

ecology↗

bioRxiv2019

No evidence for motion dazzle in an evolutionary citizen science game

The motion dazzle hypothesis posits that high contrast geometric patterns can cause difficulties in tracking a moving target, and has been argued to explain the patterning of animals such as zebras. Research to date has only tested a small number of patterns, offering equivocal support for the hypothesis. Here, we take a genetic programming approach to allow patterns to evolve based on their fitness (time taken to capture) and thus find the optimal strategy for providing protection when moving. Our Dazzle Bug citizen science game tested over 1.5 million targets in a touch screen game at a popular visitor attraction. Surprisingly, we found that targets lost pattern elements during evolution and became closely background matching. Modelling results suggested that targets with lower motion energy were harder to catch. Our results indicate that low contrast, featureless targets offer the greatest protection against capture when in motion, challenging the motion dazzle hypothesis.

evolutionary biology↗

bioRxiv2019

Women with isolated fasting hyperglycemia in pregnancy are at a higher genetic risk for type 2 diabetes

BackgroundUsing genetic scores for fasting plasma glucose (FPG GS) and type 2 diabetes (T2D GS), we investigated whether the fasting, 1-hour and 2-hour glucose thresholds from the WHO 2013 criteria for gestational diabetes (GDM) have different implications for genetic susceptibility to raised fasting glucose and type 2 diabetes in women from the Hyperglycemia and Adverse Pregnancy Outcome (HAPO) and Atlantic Diabetes in Pregnancy (DIP) studies. MethodsCases were divided into three subgroups: (i) FPG [≥]5.1 mmol/L only, n=222; (ii) 1-hour glucose post 75 g oral glucose load [≥]10 mmol/L only, n=154 (iii) 2-hour glucose [≥]8.5 mmol/L only, n=73); and (iv) both FPG [≥]5.1 mmol/L and either of a 1-hour glucose [≥]10 mmol/L or 2-hour glucose [≥]8.5 mmol/L, n=172. We compared the FPG and T2D GS of these groups with controls (n=3,091) in HAPO and DIP separately. ResultsIn HAPO and DIP, the mean FPG GS in women with a FPG [≥]5.1 mmol/L, either on its own or with 1-hour glucose [≥]10 mmol/L or 2-hour glucose [≥]8.5 mmol/L, was higher than controls (all P <0.01). Mean T2D GS in women with a raised FPG alone or with either a raised 1-hour or 2-hour glucose was higher than controls (all P <0.05). GDM defined by 1-hour or 2-hour hyperglycaemia only was also associated with a higher T2D GS than controls (all P <0.05). ConclusionsThe different diagnostic categories that are part of the WHO 2013 criteria for GDM identify women with a genetic predisposition to type 2 diabetes as well as a risk for adverse pregnancy outcomes.

genetics↗

bioRxiv2019

A candidate causal variant underlying both higher intelligence and increased risk of bipolar disorder

Bipolar disorder is a highly heritable mental illness, but the relevant genetic variants and molecular mechanisms are largely unknown. Recent GWASs have identified an intergenic region associated with both cognitive performance and bipolar disorder. This region contains dozens of putative fetal brain-specific enhancers and is located [~]0.7 Mb upstream of the neuronal transcription factor POU3F2. We identified a candidate causal variant, rs77910749, that falls within a highly conserved putative enhancer, LC1. This human-specific variant is a single-base deletion in a PAX6 binding site and is predicted to be functional. We hypothesized that rs77910749 alters LC1 activity and hence POU3F2 expression during neurodevelopment. Indeed, transgenic reporter mice demonstrated LC1 activity in the developing cerebral cortex and amygdala. Furthermore, ex vivo reporter assays in embryonic mouse brain and human iPSC-derived cerebral organoids revealed increased enhancer activity conferred by the variant. To probe the in vivo function of LC1, we deleted the orthologous mouse region, which resulted in amygdala-specific changes in Pou3f2 expression. Lastly, humanized rs77910749 knock-in mice displayed behavioral defects in sensory gating, an amygdala-dependent endophenotype seen in patients with bipolar disorder. Our study suggests a molecular mechanism underlying the long-speculated link between enhanced cognitive performance and neuropsychiatric disease.

genetics↗

bioRxiv2018

Population receptive field estimates for motion-defined stimuli

The processing of motion changes throughout the visual hierarchy, from spatially restricted local motion in early visual cortex to more complex large-field global motion at later stages. Here we used functional magnetic resonance imaging (fMRI) to examine spatially selective responses in these areas related to the processing of random-dot stimuli defined by differences in motion. We used population receptive field (pRF) analyses to map retinotopic cortex using bar stimuli comprising coherently moving dots. In the first experiment, we used three separate background conditions: no background dots (dot-defined bar-only), dots moving coherently in the opposite direction to the bar (kinetic boundary) and dots moving incoherently in random directions (global motion). Clear retinotopic maps were obtained for the bar-only and kinetic-boundary conditions across visual areas V1-V3 and in higher dorsal areas. For the global-motion condition, retinotopic maps were much weaker in early areas and became clear only in higher areas, consistent with the emergence of global-motion processing throughout the visual hierarchy. However, in a second experiment we demonstrate that this pattern is not specific to motion-defined stimuli, with very similar results for a transparent-motion stimulus and a bar defined by a static low-level property (dot size) that should have driven responses particularly in V1. We further exclude explanations based on stimulus visibility by demonstrating that the observed differences in pRF properties do not follow the ability of observers to localise or attend to these bar elements. Rather, our findings indicate that dorsal extrastriate retinotopic maps may primarily be determined by the visibility of the neural responses to the bar relative to the background response (i.e. neural signal-to-noise ratios) and suggests that claims about stimulus selectivity from pRF experiments must be interpreted with caution.

neuroscience↗