Philosophical Transactions of the Royal Society B

ObjectivesEffective communication about genetics concepts is essential for collaborative anthropological genetics research. However, communication can be challenging because many ideas are abstract and may be especially unfamiliar to communities with limited access to formal education. Indeed, there are no widely adopted models for communicating such information, nor a clear understanding of the social factors that may shape participant engagement. Here, we conducted a qualitative and quantitative, community-driven study to understand how illustrations can be useful to support concept sharing with two Indigenous groups--the Orang Asli of Peninsular Malaysia and the Turkana of Kenya. MethodsWe used a two phase approach to create and evaluate how illustrations can bolster communication about genetics concepts. First, we created images illustrating answers to frequently asked questions about genetics, iteratively updating the illustrations based on participant feedback. Second, we conducted 92 interviews to evaluate the finalized illustrations effectiveness. Finally, we analyzed the interview data using thematic analyses, multivariable modeling, and multiple correspondence analyses to identify patterns in participant understanding and feedback, including age, sex, market integration, and schooling. ResultsParticipants reported high interest in genetics research (92%) and broadly positive perceptions of the illustrations. Familiar, locally-grounded imagery was preferred and associated with greater perceived clarity, while more technical illustrations were more frequently reported as confusing. Quantitative analyses showed strong internal consistency across measures of engagement and understanding, with modest variation by degree of market-integration, schooling, and sex. DiscussionOur findings demonstrate that community-specific visualizations, co-developed through iterative feedback, can effectively support engagement with genetics research in participant communities.

Trust is a critical component of human communication, providing a foundation for understanding, information exchange, and social coordination. Much of the research on trust in speech communication has focused on how vocal characteristics impact perceived trustworthiness. However, little is known about how trust in a speaker affects the neural processing of speech. Here, we demonstrate a two-stage experimental framework to study that question using non-invasive EEG. First, participants engage in a trust-building stage, where they play an investment game with fictional characters, each paired with a distinctive voice and trustworthiness level (i.e., frequency and magnitude of lies). Next, participants engage in a story-listening stage, in which they are presented with stories from the same characters. Data acquired from twenty young adults confirm a statistically significant correlation between the perceived and actual trustworthiness of the fictional characters. Cortical speech tracking was quantified using a temporal response function (TRF) analysis on the EEG data. We found that the trustworthiness established during the trust-building stage influenced the cortical tracking of speech in the subsequent story-listening stage, with lower trustworthiness corresponding to a stronger cortical tracking of speech. Interestingly, trustworthiness selectively modulated tracking strength, with no statistically significant changes in how language is represented across space and time.

Hackathons are collaborative, fast-paced events where participants from various fields work together to solve real-world problems. They are increasingly used in higher education to foster collaboration, problem-solving and applied computational skills, yet their role in interdisciplinary biological training remains under-documented. We report on the design and implementation of two computational biology summer schools in Kenya (2022, 2023), each culminating in a hackathon that integrated biological problems, quantitative methods, and coding. Both events targeted early-career researchers from multiple sub-Saharan countries and combined intensive teaching in programming and modelling with a time-bound group challenge using authentic marine conservation and synthetic epidemiological datasets. We describe the educational design, including its grounding in project-based learning, authentic learning, and Self-Determination Theory, and we document how performance-based assessment and structured participant feedback were used to evaluate learning outcomes. We present a critical reflective account of what worked, our teaching philosophy, and how hackathons can be embedded responsibly within biological curricula. We argue that, when embedded in sustained training and supported by appropriate mentoring, hackathons provide a practical and effective way to help biologists build computational skills, communicate across disciplines, and gain confidence in shaping their own research.

Recent large-scale bibliometric analyses suggest that individual AI use can increase productivity while reducing downstream engagement and topic diversity. Here we ask whether collective AI deployment is associated with shared engagement. Using an Audience Response Engagement (ARE) system at NGS Expo 2025 (N=110 biomedical researchers), we captured real-time consensus and generated updated visualizations within minutes. Our data reveal a substantial gap between adoption and transparency: 93.6% of researchers use AI at least weekly, yet only 5.5% consistently disclose this usage--a 17-fold disparity. This pattern is consistent with systemic policy uncertainty (39.1% report unclear guidelines). Behavioral clustering identifies a "High-Concern" group (31%) as a candidate for targeted interventions: highest productivity yet lowest disclosure. These findings suggest that collective AI deployment in physical settings is associated with shared engagement.

Debates about public trust in science often contrast deficit-based models, which emphasize the role of scientific knowledge, with constructivist perspectives that highlight the coexistence of multiple epistemologies. However, both approaches tend to overlook the mechanisms that link scientific knowledge, alternative epistemic orientations, and mistrust in science. To address this gap, the study applies a multilevel structural equation model within a multidimensional framework to examine conspiratorial reasoning as a key mechanism through which scientific knowledge influences science mistrust. Using cross-national survey data from Europe during the COVID-19 pandemic, the analysis also considers how this pathway is moderated by individual cognitive, motivational, and ideological traits, as well as macro-level political, cultural and economic factors. The findings reveal that conspiratorial reasoning significantly mediates the relationship between scientific knowledge and mistrust at both individual and regional levels. Moreover, the strength of these associations is conditioned by factors like informational engagement, regional value climates, and religiosity. Overall, the results suggest that scientific knowledge serves as a conditional epistemic resource, rather than a consistent buffer against mistrust in science.

This dataset arises from a multilingual survey of AI use among participants and community members in the DBCLS BioHackathon 2025 in Japan. The questionnaire, offered in English, Japanese, and Thai, asked about how often respondents use AI tools, what they use them for, obstacles they encounter, institutional support, satisfaction, and concerns. Additional items captured role, institution type, work country, and other demographics, totaling 105 responses. The dataset includes both raw anonymized responses and a cleaned, standardized English-only version suitable for quantitative analysis, along with the full questionnaire, a data dictionary for cleaned dataset, and a translation lookup table. Free-text answers were screened and redacted to remove URLs, names, and other potentially identifiable information. Together, these materials provide a community-level view of AI practice in genomics, bioinformatics, software development, and related areas, and can support work on AI adoption, policy, and methods for analyzing survey data on AI use in science.

If youve ever complained about a species name thats a mouthful--say, the soldier fly Parastratiosphecomyia stratiosphecomyioides or the myxobacterium Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis--youre in very good company. But could the readability of binomial scientific names cause more than complaints? Could it influence how much species are studied and talked about? We examined a random sample of 3,019 species names spanning 29 phyla/divisions. We tested whether name length and reading difficulty are associated with species representation in the scientific literature (measured via literature mentions) and their visibility to the public (measured via Wikipedia pageviews). Both species name traits showed significant negative relationships with literature mentions and Wikipedia reads. Increasing name length from 10 to 30 characters is associated with a 66% decrease in expected mentions and a 65% decrease in Wikipedia reads, while shifting from the most to the least readable name in the dataset corresponds to 53% and 76% decreases. These patterns are consistent with something familiar: the fickleness of human attention, responding to features of the world that are far from rational. While creativity in naming is a cherished part of taxonomy, a touch of orthographic restraint may ultimately benefit both science and the species themselves--especially among understudied uncharismatic taxa.

Genetic variation plays a central role in enabling organisms to adapt to ever-changing environments. Transposable elements (TEs) are key drivers of genetic variation and adaptation, partly due to their ability to respond to environmental changes, such as thermal variability, through transcriptional activation, potentially leading to insertion events. The new copies will eventually accumulate mutations, increasing the TE diversity in the genome. In this study, we investigated how the TE diversity varies across environments, contrasted by their average temperature and their thermal variability profile, using polychaete annelids as a model system. These primarily benthic organisms occupy a wide range of habitats, from polar waters to hydrothermal vents and temperate shores. TE diversity varied substantially among polychaete species, with significantly lower diversity observed in species inhabiting unstable habitats, such as those associated with hydrothermal vents. This link between TE diversity and environment was statistically consistent across the different TE orders, except for DIRS-like elements in Errantia polychaetes, that display a surprisingly high diversity. Our results suggest that TE diversity may be selected to balance the level of TE activation, linked to thermal variability, to maintain a sustainable mutation rate at the whole genome level. In unstable environments, high TE diversity may not be sustainable due to the accumulation of deleterious mutations, caused by a higher rate of stress-induced transposition compared to other habitats. These findings highlight the influence of environmental conditions on the long-term dynamics governing TE-host interactions and underscore the role of TEs in evolution.

Cannibalism is among the strongest and most widespread food taboos in human societies, yet archaeological, ethnographic, and historical evidence indicates that it has repeatedly emerged across diverse human populations. This coexistence of recurrent practice and persistent prohibition raises a fundamental question: when does cannibalism become adaptive, and why is it typically suppressed? We address this problem using a formal model that treats cannibalism as a potential food source subject to energetic benefits and multiple sources of cost. Nutritional gains are modelled using a saturating function of caloric intake, while costs arise from acquisition, digestion, and infection. Infection costs are represented as a stochastic process whose mean increases with the length of the trophic transmission chain, capturing the risks associated with repeated within-species consumption. Analysing the expected energetic balance across levels of food availability and cannibalism order reveals narrow ecological conditions in which cannibalism yields a positive expected balance and broader conditions in which it is strongly disfavoured. The model provides a framework for interpreting archaeological and ethnographic findings by specifying boundary conditions and identifying the most probable ecological scenarios under which different forms of cannibalism are expected to occur. The results predict that cannibalism is most likely under extreme resource scarcity, when acquisition costs are low and infection risks are constrained, while sustained or high-order cannibalism rapidly becomes unviable due to escalating infection costs. Overall, the findings suggest that cannibalism is best understood as a conditional trade-off rather than a behavioural anomaly, with cultural taboos functioning as adaptive responses to nonlinear epidemiological risks.

Plasmids play a key role in the spread of virulence and antimicrobial resistance genes to new genetic backgrounds. Genetic variation in the transfer operon, the genes responsible for conjugation, can lead to substantial differences in transfer potential even between closely related plasmids. However, it is not clear how much genetic diversity there is in transfer operons of natural bacterial populations. Here, we analyze the prevalence and transfer potential of F-like plasmids, a clinically important family of plasmids in Enterobacteriaceae. Using 1200 Escherichia coli genomes isolated from three livestock-associated environments, we find that the fraction of F-like transfer operons that are functionally complete was significantly higher in poultry than in bovine and swine associated bacteria. This difference was not captured in methods that use the presence of replication genes to estimate plasmid prevalence. Confounders such as the phylogenetic relatedness of E. coli or the presence of antibiotic resistance could not explain these significant differences in transfer potential. Instead, it seems the poultry environment selects for plasmids with high transfer potential, as it also contained more conjugative plasmid types per isolate. While we find environment specific differences in overall plasmid frequency, patterns of transfer gene presence/absence were similar across the three environments. Regulatory and exclusion genes are the exception to this pattern, suggesting environment specific modulation of transfer rates. This highlights the use of genomic data to uncover environment specific differences in plasmid prevalence and transfer potential, revealing the selection pressures shaping horizontal gene transfer in these environments.

Understanding relatedness in sharks is challenging due to uncertainty in distributions, low population densities and difficulties in sampling across life stages. In Fiji, bull sharks (Carcharhinus leucas), with an effective population size estimate of [~]258, aggregate at the Shark Reef Marine Reserve (SRMR), but gravid females disperse at the end of the year to give birth in adjacent rivers. Questions remain regarding reproductive connectivity, female returns across years, and kinship structure. Using population genomics on 296 bull sharks across age classes (neonates, young-of-the-year, juveniles, and adults) collected over a decade at the SRMR and in three adjacent rivers, we assessed familial connections. Direct genetic links, including first- and second-degree relationships, connected SRMR adults with young age classes in the Navua and Rewa rivers, providing evidence of reproductive connectivity. Within rivers, genetic similarities across cohorts revealed reproductive philopatry. Remarkably, several individuals sampled years apart were assigned to the same sire-dam pairs, indicating repeated pairings across breeding seasons. However, the few related links detected between the SRMR and the rivers may reflect incomplete sampling. Altogether, bull shark reproduction in Fiji seems influenced by reproductive philopatry and repeated pairings, suggesting added complexity in their reproductive behaviour.

Marine protected areas (MPAs) are widely implemented to protect and/or rebuild exploited populations, yet their population-level effectiveness remains highly variable. Key unresolved knowledge gaps include how the size and the spatial placement of no-take zones interacts with larval dispersal directionality, particularly in linear coastal systems where connectivity is asymmetric. For sedentary species with planktonic larvae, such as European lobster, it is unclear under which dispersal regimes spatial configuration of protection critically determines positive demographic outcomes. Here, we address this gap using a spatially explicit individual-based model parameterized for the European lobster. We ask (i) whether no-take zones consistently enhance abundance and size structure relative to fished areas, and (ii) whether the positioning of no-take and open areas affects spatial protection while holding total protected area constant and (iii) how the alignment between larval dispersal direction and the positioning of no-take areas influences protection outcome. We contrast local, symmetric long-distance, and strongly unidirectional larval dispersal across alternative MPA layouts with equal total protected area but with different spacing. We show that no-take zones reliably increase abundance and the prevalence of large individuals. However, when larval dispersal is strongly unidirectional, population recovery depends on reserve placement: downstream no-take zones benefit from both larval import and local retention, whereas upstream reserves primarily export reproductive output and show limited local recovery. These results indicate that reserve performance cannot be evaluated independently of connectivity structure and identify dispersal directionality as a key determinant of when and where spatial configuration matters for MPA effectiveness in linear coastal systems.

The Allee effect is a phenomenon where individual fitness is reduced in small populations, for example because of mate-finding difficulties or increased predation. Allee effects matter in conservation biology because they can drive small populations to extinction. The severity of Allee effects can depend on traits such as mate-search rate and defense against predators. Many natural populations exhibit considerable intraspecific trait variation (ITV) in such traits, but most studies so far assume these traits to be constant. Thus the impact of ITV on populations with Allee effect is largely unknown. Here we create two individual-based stochastic models that simulate a small population experiencing either a mate-finding Allee effect or a predator-driven Allee effect. We analyze how ITV, trait inheritance, and mutation affect the proportion of surviving populations. Under the mate-finding Allee effect, higher ITV hindered population survival and increased Allee thresholds. This can be explained by Jensens inequality and the negative curvature of the mate-finding function. Under the predator-driven Allee effect, ITV effects were weak, but higher mutation standard deviations were beneficial, likely because they provided more substrate for selection to act on. We thus recommend to take into account ITV when dealing with threatened populations with an Allee effect.

Young children acquire language in environments where speech is often acoustically degraded, yet little is known about how developing brains adapt to reduced speech intelligibility. Using a combination of eye-tracking and functional near-infrared spectroscopy (fNIRS), we investigated young childrens attentional allocation to a speaking face at varying levels of speech intelligibility and the brain activity supporting this behaviour during development. Infants (8-10 months) and toddlers (27-30 months) viewed videos of a speaker in three conditions: producing clear speech, spectrally degraded (vocoded) speech, and silent (audio muted) speech. Visual attention to the speakers mouth increased when speech was degraded relative to clear speech in both age groups, indicating an early-emerging compensatory strategy. However, this shared behavioural response was supported by brain activity that differed by age. Degraded speech elicited greater recruitment of prefrontal regions associated with effortful listening, particularly in infants, whereas toddlers showed stronger engagement of posterior temporal regions implicated in audiovisual integration. In response to silent speech, there was no evidence for increased visual attention to the mouth compared to the clear speech condition, but there was reduced temporal activation and increased prefrontal brain responses, especially in infants. Together, these findings suggest that experience with audiovisual correspondences and linguistic maturity contribute to a more efficient processing of speech, particularly relevant when speech is degraded. By combining behavioural and neuroimaging measures, this study advances mechanistic accounts of audiovisual speech processing and provides insights relevant to populations experiencing spectrally degraded input, such as children using cochlear implants.

Climate-smart agriculture (CSA) dominates African agricultural policy discourse, yet fifteen years post-conceptualization, its transformative potential remains unrealized. Bibliometric analysis of 161 Scopus-indexed publications (2014-2025) reveals exponential field growth (31.3% annually) coupled with on technical dimensions and systemic neglect of financial mechanisms. Network analysis (VOSviewer), semantic mapping and citation bibliometrics expose cognitive oligopolisation--wherein 1.8% of authors generate 45% of output--geographical fragmentation into weakly connected regional clusters, and critical underrepresentation of the vulnerable Sahel. Despite 46.6% of publications addressing economic themes, merely 5.6% rigorously integrate financial analysis with adoption variables; terms including investment, cost-benefit and climate finance remain absent from major semantic clusters. The concept of structural financial ambiguity is introduced to characterize the maintenance of CSA in operational indeterminacy through academic discourse that substitutes description for actionable financial theorization. Paradigmatic transformation conditions are identified through emerging scholarship employing discrete choice experiments and cost-benefit evaluations to construct requisite knowledge foundations. Findings indicate that without comprehensive theorization of microfinance, digital finance, index-based insurance and payments for environmental services, international climate commitments risk implementation failure due to absence of scientifically validated financial instruments rather than technical solutions.

Learning is crucial for humans and other animals to acquire knowledge, enhancing survival and reproduction. In particular, individual and social learning allow populations to accumulate knowledge across generations. Here, we examine how stochasticity in the production and social acquisition of knowledge influences the evolution of learning strategies and cumulative knowledge. Using a mathematical model where learning is stochastic, we show that learning stochasticity enhances cumulative knowledge by generating variability in knowledge levels. This allows selection to enhance population knowledge: individuals who acquire more knowledge by chance are more likely to survive and reproduce, and therefore to transmit their knowledge to the next generation. As knowledge accumulates, social learning exemplars tend to possess more of it, favoring greater time investment in social learning. Because social learning provides access to substantially more knowledge when learning is stochastic, selection also favors the evolution of greater investment into learning, at the expense of a fecundity cost. Moreover, when knowledge enhances fecundity but not survival, learning stochasticity favors learning from parents rather than other adults, because learning stochasticity increases uncertainty about exemplar knowledge, making parenthood a cue for possessing fecundity-enhancing knowledge. Finally, when learning occurs predominantly from parents, learning stochasticity itself is favored by selection.

Plasmid conjugation is central to plasmid maintenance and spread among bacteria. Conjugation assays in liquid or on solid media are commonly used to quantify plasmid conjugation rates. Plasmids with short, rigid conjugative pili are thought to conjugate more efficiently on surfaces, whereas plasmids encoding long, flexible pili can conjugate efficiently in liquid medium. However, this pattern has not been tested systematically. Here, we perform standardised conjugation assays on a collection of 13 conjugative plasmids belonging to families that play a key role in AMR transmission and encode different conjugative pili types. We confirm that only the plasmids encoding long flexible pili conjugate efficiently in liquid. Furthermore, most transconjugants that arise from liquid assays involving plasmids with short, rigid pili can be attributed to transfer happening after the assay itself, on the surface of selective plates. This effect is amplified when using auxotrophic rather than antibiotic resistance markers, and impacts measures of transfer and defence efficiency. Finally, most of the tested plasmids with short pili had very high conjugation rates on surfaces, suggesting their transfer is mostly limited by physical constraints.

In humans, the first year of life is characterized by rapid developmental changes, including substantial brain maturation. As a result, neural responses to auditory stimuli undergo marked changes during this period. In this study, we followed 69 infants across their first year of life and recorded high-density electroencephalography (hdEEG) at 2 weeks, 6 months, and 12 months postpartum. Infants were presented with pure beep tones to examine the development of neural responses to auditory stimulation. We analysed event-related potentials (ERPs), inter-trial phase coherence (ITPC), and time-frequency (TF) responses to the beep tones and controlled for arousal state during stimulus presentation. We found that with increasing age, neural responses became more pronounced and showed reduced trial-to-trial variability. Phase synchronization increased from 2 weeks to later developmental stages in a broad low-frequency range (0 to 11 Hz), indicating improved temporal alignment of brain responses over time. However, phase synchronization decreased from 6 to 12 months, suggesting a developmental transition towards more differentiated brain activity. Taken together, these findings demonstrate that auditory maturation during the first year of life follows a non-linear trajectory driven by dynamic changes in neural synchronization, reflecting the progressive refinement of functional neural circuits. Our results thus provide a critical benchmark for understanding the neural dynamics underlying sensory development during this period. Impact StatementLongitudinal high-density EEG recordings reveal that neural responses to auditory stimuli undergo non-linear developmental changes during the first year of life, driven by dynamic shifts in neural synchronization that reflect progressive refinement of auditory neural processing.

Plasmids reside within prokaryotic cells in multiple copies and can spread horizontally between hosts. Their multicopy nature enables intracellular allele diversity (heteroplasmy), and their segregation depends on the modes of plasmid replication and partition. Horizontal plasmid transfer has the potential to alter plasmid allele composition, however its impact on plasmid allele dynamics remains poorly understood. Here, we show that conjugative plasmid transfer accelerates the segregation of plasmid heteroplasmy by promoting the emergence of homoplasmic hosts. Using a quantitative experimental system to track plasmid allele dynamics in Acinetobacter baylyi under non-selective conditions, we followed the fate of a novel antibiotic resistance allele introduced into an ancestral donor population. While alleles in heteroplasmic donors segregated over time, conjugation produced almost only homoplasmic recipients whose allele composition closely mirrored that of the donor pool. Heteroplasmic recipients were rare and arose primarily from multiple plasmid transfer events prior to plasmid establishment. A mathematical model calibrated to the experimental setup predicts that conjugation accelerates plasmid allele segregation, with effects scaling with plasmid copy number and conjugation frequency. Our findings identify horizontal transfer as a previously unrecognized segregation pathway shaping the evolution of mobile genetic elements.

Conventional wisdom suggests that adaptive evolution proceeds more slowly in long-lived organisms than in short-lived ones due to longer generation times. As a result, long-lived organisms are often viewed as less capable of responding to rapid environmental change. However, empirical evidence challenges this view. Using mathematical models and demographic data from 322 wild animal populations, we show that long generation times slow adaptive evolution only under limited conditions, notably when selection acts on fecundity. When selection targets early survival, intermediate and long generation times can instead accelerate adaptive evolution. Remarkably, short-lived species tend to occupy demographic regimes in which fecundity is the dominant fitness component, whereas long-lived species occupy regimes in which early survival dominates. Therefore, both short- and long-lived species can potentially adapt rapidly, calling into question the widespread use of generation time as a general predictor of adaptive capacity to current environmental change.