Biology subjects

Amin, B.

Publications and source records attributed to Amin, B..

10 recordsLinked to original sources

bioRxiv2026

Integrated Multiomics Reveals Intergenerational Brain Sensory System Remodeling Induced by Parental Intermittent Fasting

Intermittent fasting (IF) is increasingly recognized as a potent modulator of metabolic health, but its effects on brain function across generations remain poorly understood. Here, we show that parental IF, administered to both mothers and fathers before mating, is associated with coordinated molecular remodeling in the cerebral cortex of fathers and their offspring, with shared molecular signatures identified between these generations and a pronounced enrichment of sensory-associated pathways. Using whole-genome bisulfite sequencing, transcriptomic profiling, and proteomic analysis, we found that IF elicited widespread cortical epigenetic remodeling in fathers, accompanied by transcriptional and protein-level changes enriched for olfactory, taste, synaptic, and neurometabolic pathways. Strikingly, related molecular signatures were detected in F1 offspring that had never been directly exposed to fasting, consistent with intergenerational transmission of IF-associated cortical remodeling. Offspring responses were sex dependent, with female and male progeny exhibiting distinct patterns of DNA methylation, gene expression, and protein abundance. Integrated multiomic analyses identified conserved candidate networks involved in sensory perception, glutamatergic signaling, synaptic organization, intracellular trafficking, cytoskeletal regulation, and stress-response pathways. Together, these findings identify sensory-associated cortical remodeling as a prominent molecular feature associated with parental IF and reveal persistent, sex-dependent molecular alterations in the offspring brain.

genomics↗

bioRxiv2024

Random subsamples of animal populations can reveal intrinsic differences in sociality with key implications in ecology, conservation and disease transmission

Animal populations are under mounting stress from the dual threats of climate change and rapid global human population growth, raising significant concerns about declining wildlife and the rising risk of zoonotic diseases. In many species, social interactions can be a highly plastic suite of behaviours that are responsive to these disturbances and are consequential to other processes like disease transmission and population dynamics. Studying social interactions can be challenging in that researchers often rely on wildlife population subsamples due to practical constraints and costs, which can introduce biases in the reliability of social network metrics. We investigated the extent to which subsamples can depict intrinsic characteristics of wildlife populations using data from three distinct species: peri-urban fallow deer, Alpine ibex and Angolan giraffe. We showed that random subsamples of these populations could still reveal differences in their social behaviour, indicating that, as long as researchers have a reliable estimate of population size, subsampling animal populations can be an effective and precise method to infer their sociality and offer valuable empirical data for management, conservation and zoonotic disease ecology. Furthermore, we demonstrate that non-random sampling, influenced for instance by animal personality and related trappability, can introduce significant biases in social network estimates. These findings underscore the importance of accounting for sampling biases in social network analysis and offer a robust framework for using partial networks in ecological studies and conservation management.

ecology↗

bioRxiv2024

Fallow deer approaching humans are also more likely to be seropositive for Toxoplasma gondii.

Toxoplasma gondii (T. gondii) is a trophically-transmitted protozoan parasite that has been suggested to facilitate its transmission by altering intermediate hosts anti-predator behaviour, thus increasing the likelihood of completing the cycle inside its definitive host i.e. domestic and wild felines. T. gondii has been linked to reduced risk-aversion, slower reaction times, and more exploratory behaviours in intermediate hosts, including most famously weakened aversion to the scent of feline predators in mice. Studies examining this phenomenon, however, have almost exclusively been carried out in laboratory conditions with small mammals, whereas little is known about the role of T. gondii within more complex ecological contexts involving large mammals in the wild. Under such scenario, the goals of our study were three-fold. Firstly, to determine the prevalence of T. gondii infection in a population of free-living fallow deer (Dama dama) living in a park at the edge of a metropolis. Secondly, to find a link between deer seropositivity and space use in the park, namely proximity to buildings with domestic cats, where deer may have been more likely to contract the disease. Finally, to determine whether infection with T. gondii was linked to risk taking behaviour in these free ranging large mammals, namely likelihood to approach park visitors. To achieve our goals, we estimated seropositivity and combined it with spatial distribution and behavioural data of individually-recognizable deer ranging from those that avoid humans (risk-avoiders) to those who beg for food (risk-takers). We found T. gondii to be quite widespread in this population with a seropositive of 20% (24 out of 120 individuals). Contrary to our expectations, we found no correlation between T. gondii seropositivity and space use in the park, therefore not allowing us to engage with the dynamics of disease contraction. We did however find that fallow deer taking the risk of approaching humans were also more likely to be seropositive. Are risk taking individuals more likely to contract the disease? Or, alternatively, do they take more risk because they have contracted the disease? The causal mechanism behind our result has yet to be disentangled, opening new scenarios in research aimed at tackling host manipulation in this parasite. It is a fact, however, that those animals that were more likely to be in contact with the public were also those more likely to be seropositive, adding key empirical evidence to the study of zoonotic diseases. Our study is a significant contribution on the transmission and maintenance dynamics of T. gondii, offering new insights on the need to conduct longitudinal studies able to disentangle the causal mechanism and T. gondiis ability to manipulate its intermediate host.

animal behavior and cognition↗

bioRxiv2023

Best Paper awards lack transparency, inclusivity, and support for Open Science

Awards can propel academic careers. They also reflect the culture and values of the scientific community. But, do awards incentivise greater transparency, diversity, and openness in science? Our cross-disciplinary survey of 222 awards for the "best" journal articles across all 27 SCImago subject areas revealed that journals and learned societies administering such awards generally publish little detail on their procedures and criteria. Award descriptions are brief, rarely including contact details or information on the nominations pool. Nominations of underrepresented groups are not explicitly encouraged and concepts that align with Open Science are almost absent from the assessment criteria. Instead, such awards increasingly rely on article-level impact metrics. USA-affiliated researchers dominated the winners pool (48%), while researchers from the Global South and developing countries were uncommon (11%). Sixty-one-percent of individual winners were men. Thus, Best Paper awards miss the global calls for greater transparency and equitable access to academic recognition.

scientific communication and education↗

bioRxiv2023

Does fear of humans predict anti-predator strategies in an ungulate hider species during fawning?

Humans are a major evolutionary force on wildlife via artificial selection. While often explored through the lens of extractive interactions (e.g., hunting) able to favour certain behavioural traits over others, the implications of non-extractive ones, such as wildlife feeding, remain under-studied. Research has recently shown that people tend to feed (and sometimes favour) a limited subset of bolder individuals within natural populations, although its dynamics and consequences are not fully clear. Using fallow deer living in a peri-urban setting as a model population, we studied whether mother deer that display reduced fear of humans and consistently approach them for food adopt weaker anti-predator strategies by selecting for fawning bedsites that are less concealed and closer to human hotspots, allowing them to take advantage of additional artificial feeding opportunities in comparison to shier mothers in this population. Our dataset encompassed 171 fawns from 109 mothers across 4 years. Contrary to our expectations, we found that mothers that regularly accepted food from humans selected for more concealed bedsites farther away from them, giving their offspring better protection while also taking advantage of additional artificial food during lactating. Our results show marked behavioural adaptation by a subset of females, making this the first time that the link between tendency to approach humans and strategies to protect offspring is explored. Given previous findings that these begging females also deliver heavier fawns at birth, our research adds a piece to the complex puzzle describing human manipulation of behaviour in natural populations and its fitness consequences.

animal behavior and cognition↗

bioRxiv2023

Fawn bedsite selection by a large ungulate living in a peri-urban area

Human-wildlife conflict in expanding peri-urban and urban areas is of increasing concern, as a result of growing human populations along with the associated anthropogenic footprint on wildlife habitats. Empirical data from wildlife research carried out within human dominated landscapes are key to understanding the effects of human pressures on wildlife ecology and behaviour, exploring wildlife behavioural flexibility (or phenotypic plasticity), and informing wildlife management decisions. Here, we explored how female fallow deer (Dama dama) responded to human and dog presence during the birthing period in the largest walled urban park in Europe. We collected data on 477 bedsites utilised by 283 neonate fawns across three consecutive fawning seasons, gathered fine-scale data on humans and dogs space use, and built Resource Selection Functions at multiple spatial scales. We found that, when choosing bedsites to give birth and leave fawns unattended, fallow deer mothers significantly avoided hotspots of park visitors on foot (and their dogs) along the hiking trail routes. Bedsites were also unlikely to be in close proximity of paved roads used by vehicle traffic. Additionally, fallow deer mothers were found to select for dense understory vegetation for bedsites, providing low visibility to conceal their offspring. Our results provide detailed insights into bedsite spatial and habitat selection by a large herbivore in response to human activities, and we provide clear indications to wildlife managers to preserve established fawning sites and alleviate human-wildlife conflict during a critical period of the deer annual biological cycle.

animal behavior and cognition↗

bioRxiv2023

Curbing zoonotic disease spread in multi-host-species systems will require integrating novel data streams and analytical approaches: evidence from a scoping review of bovine tuberculosis

BackgroundZoonotic diseases represent a significant societal challenge in terms of their health and economic impacts. One Health approaches to managing zoonotic diseases are becoming more prevalent, but require novel thinking, tools and cross-disciplinary collaboration. Bovine tuberculosis (bTB) is one example of a costly One Health challenge with a complex epidemiology involving human, domestic animal, wildlife and environmental factors, which require sophisticated collaborative approaches. ObjectiveWe undertook a scoping review of multi-host bTB epidemiology to identify recent trends in species publication focus, methodologies, scales and One Health approaches. We aimed to identify research gaps where novel research could provide insights to inform control policy, for bTB and other zoonoses. ResultsThe review included 167 articles. We found different levels of research attention across episystems, with a significant proportion of the literature focusing on the badger-cattle-TB episystem, with far less attention given to the multi-host episystems of southern Africa. We found a limited number of studies focusing on management solutions and their efficacy, with very few studies looking at modelling exit strategies. Surprisingly, only a small number of studies looked at the effect of human disturbances on the spread of bTB involving wildlife hosts. Most of the studies we reviewed focused on the effect of badger vaccination and culling on bTB dynamics with few looking at how roads, human perturbations and habitat change may affect wildlife movement and disease spread. Finally, we observed a lack of studies considering the effect of weather variables on bTB spread, which is particularly relevant when studying zoonoses under climate change scenarios. ConclusionsSignificant technological and methodological advances have been applied to bTB episystems, providing explicit insights into its spread and maintenance across populations. We identified a prominent bias towards certain species and locations. Generating more high-quality empirical data on wildlife host distribution and abundance, high-resolution individual behaviours and greater use of mathematical models and simulations are key areas for future research. Integrating data sources across disciplines, and a "virtuous cycle" of well-designed empirical data collection linked with mathematical and simulation modelling could provide additional gains for policy-makers and managers, enabling optimised bTB management with broader insights for other zoonoses.

ecology↗

bioRxiv2023

Sex-specific relationship between maternal and neonate cortisol in a free-ranging large mammal

Maternal phenotypes can have long-term effects on offspring phenotypes. These maternal effects may begin during gestation, when maternal glucocorticoid (GC) levels may affect foetal GC levels, thereby having an organizational effect on the offspring phenotype. Recent studies have showed that maternal effects may be different between the sexes. However, how maternal GC levels relate to foetal levels is still not completely understood. Here we related, for the first time in a free-ranging large mammal, the fallow deer (Dama dama), maternal GC levels with foetal in utero GC levels. We did this in a non-invasive way by quantifying cortisol metabolites from faecal samples collected from pregnant does during late gestation, as proxy for maternal GC level. These were then related to GC levels from hair of their neonate offspring (n = 40). We have shown that maternal GC levels were positively associated with foetal GC levels, but only in female offspring. These findings highlight sex differences, which may have evolved to optimize male growth at the cost of survival.

ecology↗

bioRxiv2022

Patching Science - amending the literature through version control

The ideal of self-correction in science is not well served by the current culture and system surrounding amendments to published literature. Here we report on a survey (N = 132) that highlights academics dissatisfaction with the status quo and their support for an alternative approach. We then describe our view of how amendments could and should work by drawing on the idea of an author-led version control system. Here authors would include a link in their published manuscripts to an updatable website (e.g. a GitHub repository or similar) that could be disseminated in the event of any amendment. Such a system is already in place for computer code and, as such, requires nothing but buy-in from the scientific community - a community that is already evolving towards various open science frameworks. This would remove a number of frictions that discourage amendments thus leading to an improved scientific literature and a healthier academic climate.

scientific communication and education↗

bioRxiv2022

Neonate personality affects early-life resource acquisition in a large social mammal

Current debate in the field of animal personality revolves around whether personality is reflecting individual differences in resource allocation or acquisition. Despite the large body of literature, the proximate relationships between personality, resource allocation, and acquisition are still unclear, especially during early stages of development. Here we studied how among-individual differences in behaviour develop over the first 6 months of life, and their potential association with resource acquisition in a free-ranging population of fallow deer (Dama dama). We related proxies of neonate personality - i.e. neonate physiological (heart rate) and behavioural (latency to leave at release) anti-predator responses to human handling - to the proportion of time fawns allocated to scanning during their first summer and autumn of life. We then investigated whether there was a trade-off between scanning time and foraging time in these juveniles, and how it developed over their first 6 months of life. We found that neonates with longer latencies at capture (i.e. risk-takers) allocated less time scanning their environment, but that this relationship was only present when fawns were 3-6 months old during autumn, but not when fawns were only 1-2 months old during summer. We also found that time spent scanning was negatively related to time spent foraging - a relationship rarely tested in juveniles of large mammals - and that this relationship becomes stronger over time, as fawns gradually switch from a nutrition rich (milk) to a nutrition poor (grass) diet. Our results highlight a potential mechanistic pathway in which neonate personality may drive differences in early-life resource acquisition, through allocation, of a large social mammal.

ecology↗