Back

American Journal of Biological Anthropology

Wiley

Preprints posted in the last 30 days, ranked by how well they match American Journal of Biological Anthropology's content profile, based on 11 papers previously published here. The average preprint has a 0.01% match score for this journal, so anything above that is already an above-average fit.

1
South Asian Maternal Lineage haplogroup R30 Provides Phylogenetic Evidence of human dispersal across South Asia

Desai, S.; Adhikary, V.; Bhattacharyya, M.; Tharu, M. K.; Sharma, A.; Sequeira, J. J.; Pandey, R. k.; Pandey, P.; Shendre, S. S.; Tayyeh, A. M.; S, S. L.; Mustak, M. S.; Petraglia, M.; Chaubey, G.

2026-05-04 evolutionary biology 10.64898/2026.04.29.721543 medRxiv
Top 0.1%
11.9%
Show abstract

South Asia is central to debates on early human dispersals, particularly the Out of Africa model and Eurasian colonization. Studies of M haplogroups have been used to support both Northern and Southern route hypotheses, but current archaeological and genetic evidence in the region remains contradictory. In the present work, we find that in addition to haplogroup M lineages, a few R lineages exhibit ancient, locally rooted variation, with R30 being one of the widespread haplogroup of R lineages across South Asia. To better understand South Asian demographic history, we investigated the phylogeographic distribution of haplogroup R30, an indigenous lineage. We used 190 complete modern and ancient sequences from diverse mainland and island populations including incorporation of 44 newly generated sequences which enabled the refinement of the R30 phylogeny and the identification of a novel basal lineage, R30c. Bayesian and {rho}-based age estimates suggest that R30 originated in the Indian subcontinent ~50 kya. Early diversification likely occurred in Northern India, giving rise to R30b (~44 kya), while R30a and R30c differentiated primarily in Southern India. Several subclades of haplogroup R30 exhibit strong signatures of founder effects, particularly among the language isolate Vedda of Sri Lanka, Uru Kurumban of Southern India, and the populations of the Lakshadweep archipelago. Bayesian skyline analyses indicate long-term demographic stability followed by rapid lineage expansion ~20 kya and more recent declines consistent with localised drift and relatively recent founder events. The presence of early-diverging R30 lineages in Thailand and Indonesia further supports long-term connections between South and Southeast Asia. Overall, archaeological and genetic evidence point towards the multiple migrations for South Asia colonizations.

2
Fine-scale population structure within and among Malagasy societies

Rakotoarivony, R.; Carter, E. J.; Racimo, F.; Regnier, D.; Ranaivoarisoa, J. F.; Shriver, M.; Perry, G.; Manica, A.; Hodgson, J. A.

2026-05-07 genetics 10.64898/2026.05.04.722645 medRxiv
Top 0.1%
10.0%
Show abstract

The population of Madagascar exhibits a globally unique combination of African and Asian genetic ancestries. Previous studies have described the admixture history of Madagascar at island-wide scales [1,2], but less focus has been paid to fine-scale population structure across the island. We present new genome-wide genetic data from 192 individuals sampled across five regions of Madagascar. We identify population structure at extremely fine spatial scales ([~]10 km) among the Merina of the central highlands. By analysing subpopulations separately, we found one Merina group exhibited similarity to coastal populations in f4 ratios, estimated admixture dates, and pairwise FST distances, while another group was similar to other highland individuals in the same measures. This fine-scale substructure is likely associated with historical coastal-to-highland migration during the 18th and 19th centuries. In contrast, we also observe macro-scale structure in estimated timing of admixture across the island, with southeastern coastal groups exhibiting the earliest estimated admixture timings, and northern groups exhibiting the latest. This pattern corroborates previous results [1,2], and may suggest differing histories of admixture timing among Malagasy populations. Our results emphasise the importance of deep micro-geographic sampling to complement macro-scale analysis when characterising demographic history.

3
Scaling and ecomorphology of lagomorph body shape and appendicular skeleton

Huizenga, C.; Brice, N.; Law, C. J.

2026-05-12 evolutionary biology 10.64898/2026.05.07.723560 medRxiv
Top 0.1%
4.0%
Show abstract

The diversity of body shapes is one of the most prominent features of phenotypic variation in mammals. Yet, mammalian body shapes are poorly quantified and the underlying components contributing to its diversity as well as its relationship to other components of the skeleton are rarely tested. Here, we use lagomorphs (hares, rabbits and pikas) as a model system to (1) investigate which components of the skeleton contributed the most to body shape diversity, (2) examine the relationships between body shape and relative limb lengths, and (3) test how body size, ecotype, burrowing behavior, and locomotor mode influenced variation in lagomorph body shape and appendicular morphology. We quantified the body shape and functional proxies of the appendicular skeleton in 40 lagomorph species from osteological specimens held at museum collections. Using phylogenetic comparative methods, we found the relative length of the ribs and elongation or shortening of the thoracic and lumbar regions contributed the most to body shape evolution across lagomorphs. Second, we found that only leporids (hares and rabbits) exhibited a significant relationship between limb length and body shape, where more elongate species exhibit relatively shorter forelimbs and hindlimbs. Lastly, we found that models incorporating body size were the best predictors of lagomorph body shape and the majority of the appendicular traits, whereas models incorporating burrowing behavior and locomotor mode were largely poor fits. Broadly, these results indicate that larger lagomorphs tend to exhibit more robust body shapes with longer, more gracile forelimbs, whereas smaller lagomorphs tend to exhibit more elongate body shapes with shorter, more robust forelimbs. Overall, this work contributes to the growing understanding of mammalian body shape evolution and demonstrates the importance of not omitting body size in ecomorphological analyses.

4
Activity budgets, social behavior, and fitness outcomes associated with a baboon group fusion

Lerch, B. A.; Creighton, M. J. A.; Warutere, J. K.; Tung, J.; Archie, E. A.; Alberts, S. C.

2026-05-05 animal behavior and cognition 10.64898/2026.04.30.721977 medRxiv
Top 0.1%
1.7%
Show abstract

Many primates exhibit female philopatry and live in stable, female-bonded social groups. Permanent group fusions are rarely documented in these populations. We present a case study on a fusion of two social groups from a hybrid population of baboons (Papio cynocephalus x P. anubis) living in the Amboseli basin of Kenya. The fusion occurred following a period of increased human-induced mortality in one of the two social groups. After the fusion, females from the smaller group became the lowest ranking. We compared female behavior in the months following the fusion to the behavior of females in groups that had not fused and also compared pre- and post-fusion fitness outcomes. Following the fusion, the groups activity budget and patterns of agonistic interactions were typical for the study population. Females preferred familiar grooming partners for a short period following the fusion; however, after three months, patterns in female grooming were comparable to other groups, indicating rapid social integration. With the caveat that our sample size was limited, we observed no detectable fitness-related costs of group fusion in terms of birth rates or offspring survival, and adult female mortality was low following the fusion. These results demonstrate the flexibility of female baboons in navigating exposure to novel same-sex conspecifics despite a species-typic pattern of female philopatry. Based on this and previous examples of group fusions, we propose that group fusions may be most likely to occur when groups are too small to retain adult males, defend against predators, or compete with other groups.

5
Cephalo-pelvic covariation and sexual dimorphism are disrupted in hybrid mice: implications for the human obstetrical dilemma

Zaffarini, E.; Warren, K.; Vidal-Garcia, M.; Rogers Ackermann, R.; Fischer, B.; Mitteroecker, P.; Hallgrimsson, B.

2026-05-12 evolutionary biology 10.64898/2026.05.11.724362 medRxiv
Top 0.1%
1.6%
Show abstract

Cephalo-pelvic disproportion in humans has traditionally been interpreted through the obstetrical dilemma framework, assuming a trade-off between bipedal locomotion and childbirth. However, cephalo-pelvic covariation and pelvic sexual dimorphism might be common adaptations to parturition among mammals. We use a controlled hybridization model in mice to test whether cephalo-pelvic covariation and pelvic sexual dimorphism are population-specific, genetically structured, and sensitive to hybridization. We analyzed skull-pelvis variation and covariation, as well as sexual dimorphism of pelvic morphology across four divergent wild-derived mouse strains and their hybrids. Hybridization induced consistent cranial and pelvic size enlargement. Females exhibited significant cephalo-pelvic shape covariation, characterized by an association between rounder, wider birth canals and larger neurocrania, consistent with functional integration under obstetric selection. Hybrids showed disrupted size covariation, increased pelvis shape variance, and reduced cephalo-pelvic integration. Pelvic sexual dimorphism was systematically reduced in hybrids. Cephalo-pelvic covariation and pelvic sexual dimorphism are not exclusive to bipedal or encephalized species. They likely reflect widespread selection on birth canal morphology in mammals and have a complex genetic basis sensitive to hybridization. These findings weaken a human-exclusive interpretation of the obstetrical dilemma and highlight genetic introgression as an understudied factor shaping cephalo-pelvic integration and disproportion risk in mammals, including humans.

6
Rethinking the movement ecology of Andean bears: temperature-driven cathemerality and seasonal space-use cycles

Castellanos, F. X.; Jackson, D.; Mezzini, S.; Brito, J.; Castellanos, A.

2026-05-14 ecology 10.64898/2026.05.11.720697 medRxiv
Top 0.2%
1.2%
Show abstract

BackgroundThe Andean bear (Tremarctos ornatus), South Americas only ursid, is one of the worlds most elusive large mammals, making movement data collection exceptionally rare. Addressing this gap, we present the largest telemetry dataset ever assembled, spanning 19 individuals tracked across three Ecuadorian National Parks over two decades, paired with a novel analytical approach. MethodsWe integrated Continuous-Time Movement Models (CTMM), Auto-correlated Kernel Density Estimators (AKDEs), Hidden Markov Models (HMM) and a diel niche theoretical framework to mitigate biases previously unaccounted for the species in telemetry studies. Fine-scale AKDEs and non-linear movement metrics were calculated to understand seasonal space use and movement behaviors. Speed and diffusion from CTMM and behavioral states from HMM were modelled with environmental covariates to investigate which conditions shape diel and seasonal activity. ResultsPopulation mean home range was 138.2 km2 (95% Confidence Intervals 78.7-225.5), with males (239.8 km2; 182.8-307.5), significantly exceeding females (58.5 km2; 35.5-90.3). Notably, three females exhibited ranges comparable to some males. Weekly and monthly AKDEs uncovered cyclic home range dynamics potentially driven by resource availability, with contractions around corn harvests, mortino and achupalla fruiting, and expansions during paramo transitions. Decoupling speed from diffusion rates showed region-specific behaviors: intensive patch exploitation in Llanganates, broad exploratory ranging in Cayambe-Coca, and suppressed female locomotion in Cotacachi-Cayapas. Statistical analyses identified temperature as a key diel modulator and precipitation as the seasonal driver. Foraging probability increased between 2:00-6:00, large displacements between 7:00-14:00, and nocturnal movement rose significantly under colder conditions. Across diel hypothesis frameworks, bears were classified as cathemeral rather than strictly diurnal, corroborated by camera-trap records from Colombia, Ecuador, and Peru. ConclusionsWe propose a cathemeral diel phenotype that responds to thermal fluctuations and situates Andean bears within a broader ursid context of thermoregulatory niche plasticity. This dataset reveals unprecedented resolution of regional and sex specific behaviors that will facilitate and accelerate comparative studies in rapidly changing Andean landscapes. By releasing this long-term dataset as an open resource, we provide a foundation for climate-resilient conservation strategies. More broadly, we advocate for data democratization and invite collaboration.

7
Body size and cranial shape differentiation in urban and rural house mice (Mus musculus domesticus)

Kupchella, S. C.; Kort, A. E.; Phifer-Rixey, M.

2026-05-16 zoology 10.64898/2026.05.16.725634 medRxiv
Top 0.2%
1.0%
Show abstract

Cities are characterized by elevated temperatures, increased pollution, and high-density human populations which often are accompanied by changes in available resources, like food. These shifts have the potential to drive phenotypic divergence in urban wildlife. Functional morphological traits, like body size, can mediate interactions between wildlife and habitat and are closely tied to life history and fitness. While examples of functional morphological variation associated with urbanization are increasing, variation in such traits as a response to urbanization remains unexplored for most taxa. Here, we investigated morphological divergence between urban and rural populations of house mice (Mus musculus domesticus). House mice are globally distributed in diverse habitats and are a model system with a wealth of phenotypic data, making them useful for the study of the impacts of urbanization on morphology. Using a paired replicate design, we sampled urban and rural populations in three distinct metropolitan regions in the eastern United States. We found that body size was smaller in urban populations. Using 3D geometric morphometrics, we also analyzed variation in cranial shape across habitats. Differences in cranial shape were largely allometric, that is, driven by differences in body size. However, we also uncovered evidence of cranial shape variation between habitats not explained by size. In contrast, we did not find evidence for habitat-driven differences in cranial capacity independent of size. Overall, our results suggest a key role for body size in mediating morphological responses to urbanization and highlight the potential of house mice as a globally-distributed model for urbanization.

8
Multimodal fertility cues in chimpanzees: How body odours complement sexual swellings

Kuecklich, M.; Zetzsche, M.; Dolotovskaya, S.; Siepmann, J. W.; Schmidt, L.; Wiesner, C.; Weiss, B. M.; Widdig, A.

2026-05-21 animal behavior and cognition 10.64898/2026.05.21.726750 medRxiv
Top 0.2%
0.9%
Show abstract

To attract mating partners, female mammals communicate their reproductive status through one or multiple sensory modalities, providing redundant or complementary information. Chimpanzees (Pan troglodytes) are an excellent model for studying multimodal communication. Exaggerated sexual swellings of females serve as a visual proxy for ovulation but increased male mating interest during maximum swelling suggests that olfactory cues may pinpoint fertility more accurately than the swelling alone. Here, we combined gas chromatography-mass spectrometry, hormonal analyses, and bioassays to examine (1) whether chemical composition of female anogenital odours changes during the fertile period, and (2) whether males are able to detect these changes. Our results suggest that, in addition to prominent olfactory changes associated with swelling stages, chemical cues provide complementary information regarding the timing of the fertile window. These changes, however, are minor compared to those related to swelling stages. Male behavioural responsiveness in bioassays was too low to draw conclusions regarding their ability to detect these subtle shifts when presented with a chemical cue only. Overall, our findings support the existence of a multimodal fertility cue in chimpanzees, wherein visual signals are complemented by subtle olfactory changes indicating the timing of the fertile period.

9
Sex-specific associations between education-related genetic factors and fertility extend beyond educational attainment

Kuznetsov, I. A.; Giannelis, A.; Estonian Biobank Research Team, ; Lehto, K.; Laisk, T.; Rietveld, C. A.; Vainik, U.; Pankratov, V.

2026-05-03 genetics 10.64898/2026.04.29.721701 medRxiv
Top 0.2%
0.9%
Show abstract

Population fertility patterns are closely linked to socioeconomic inequality, with educational attainment (EA) being a key predictor of completed fertility. While EA is partially heritable, the extent to which EA-associated genetic variation relates to fertility independently of education remains unclear, particularly outside Western European and North American populations. Using data from [~]40,000 women and [~]10,000 men in the Estonian Biobank, we examine sex-specific associations between EA polygenic scores (PGSEA) and completed fertility. We extend prior work by distinguishing cognitive and non-cognitive EA components, accounting for age at first pregnancy (AFP), and applying within-family analyses to assess the role of direct genetic effects. Among women, PGSEA is negatively associated with fertility, with a significantly stronger association for the non-cognitive than the cognitive EA polygenic score. The association between PGSEAand fertility is moderated by EA and changes sign across AFP strata, from negative among women with earlier AFP to positive among those with later AFP. Importantly, this association is not attenuated in within-family models, consistent with a predominant role of direct genetic effects. Among men, associations are weak or slightly positive and stable across education groups. Overall, EA-related genetic variation is associated with fertility through pathways that appear largely independent of educational attainment, suggesting that shared genetic influences operate through multiple mechanisms that differ by sex and reproductive timing. SignificanceEducational attainment is closely linked to completed fertility, yet the mechanisms behind this relationship remain not fully understood. Using a population-based cohort from Estonia, we show that genetic variants associated with education relate to fertility in markedly different ways for women and men and that these associations cannot be explained by education level alone. Differences between cognitive and non-cognitive education-related genetic components further point to multiple life-course pathways linking genetics and reproduction. Family-based analyses suggest that these associations are largely consistent with direct genetic effects and not driven by correlated family environments. Together, our findings suggest that education-related genetic variation shapes fertility through multiple sex-specific and life-course-dependent pathways, rather than acting solely through educational attainment.

10
Wolves in black: multiple introgressions and natural selection may explain melanism in Italian wolves

Fabbri, G.; Battilani, D.; Mattucci, F.; Galaverni, M.; Stronen, A. V.; Musiani, M.; Godinho, R.; Lobo, D.; Scandura, M.; Randi, E.; Fabbri, E.; Caniglia, R.

2026-05-09 genomics 10.64898/2026.05.08.723698 medRxiv
Top 0.3%
0.7%
Show abstract

Hybridisation between wild and domestic taxa can favour the spread of domestic alleles into wild populations through backcrossing. The complex interplay of random genetic drift, recombination, and selection can shape the fate of introgressed alleles. Maladaptive domestic variants are likely to be purged by natural selection, but others may persist across generations. It has long been known that the Apennine Italian wolf population, exposed to large numbers of free-ranging dogs, has experienced extensive introgression. The unusually high frequency of black wolves observed in Italy, compared to other European populations, may parallel patterns documented in North American wolves, where the melanistic KB allele at the CBD103 gene, of domestic origin, has spread over thousands of years of introgression. We tested whether the KB mutation entered the peninsular Italian wolf population via hybridisation and spread through adaptive introgression. Genome-wide analyses of black and wild-type (grey-coated) Apennine wolves showed no clear signatures of recent dog ancestry in most melanistic animals. Our ancestry reconstruction approaches identified two distinct KB haplogroups of domestic origin, suggesting multiple introgression events. Notably, we found molecular evidence consistent with balancing selection on the KB haplotypes, whose functional role, nonetheless, warrants further research. Therefore, the microevolutionary genomic and ecological consequences of wolf-dog hybridisation in Italy should be carefully investigated to inform appropriate science-based conservation management strategies.

11
A phylogenetically informed comparative analysis of sexual testosterone dimorphism across mammals in relation to paternal care and sexual size dimorphism

Laubi, B. N.; Burkart, J. M.; Willems, E. P.; van Schaik, C. P.

2026-05-21 evolutionary biology 10.64898/2026.05.20.726499 medRxiv
Top 0.3%
0.7%
Show abstract

Within species, male testosterone is often linked to mating competition and paternal care, suggesting that sex differences in endogenous testosterone values across mammals may covary with broader reproductive strategies. Using a structured literature search, we compiled 63 studies, spanning 31 non-human species and 9 human populations, reporting endogenous, non-experimentally manipulated testosterone values for both adult males and females within the same population and context. From these studies, we calculated male-to-female testosterone ratios, and analysed these data using Bayesian phylogenetic multilevel models. We tested whether testosterone dimorphism was associated with paternal care and sexual size dimorphism while accounting for sampling matrix, assay method, breeding context, and wild versus captive setting. Across non-human mammals, neither paternal care nor sexual size dimorphism (indexing competition) showed a clear association with testosterone ratios, and the same pattern emerged in the primate-only subset. By contrast, sampling matrix was consistently associated with testosterone dimorphism across all analyses, with lower male-to-female ratios in non-blood than in blood-based measures. In primates, testosterone ratios were also lower in captive than in wild populations, although this pattern was not clearly supported in the broader non-human dataset. In the human-only analysis, testosterone ratios did not clearly differ between industrialized and small-scale societies, whereas the matrix effect remained evident. Overall, our results suggest that sampling matrix is a major source of variation even for ratio-based measures, highlighting the need for caution when inferring between-species endocrine differences from studies using different substrates. More broadly, directly comparable, non-experimentally manipulated testosterone data for both sexes remain rare across mammals, limiting comparative inference.

12
Haplotype-based models improve sweep detection in ancient populations with complex demography

Sequeira, A. N.; Szpiech, Z. A.; Huber, C. D.

2026-05-11 genetics 10.64898/2026.05.08.723766 medRxiv
Top 0.3%
0.7%
Show abstract

Identifying signatures of positive selection in humans is complicated by demographic processes such as bottlenecks, migration and admixture, all of which can distort or obscure the genomic patterns produced by selective sweeps. Ancient DNA offers a direct window into past allele and haplotype frequencies, yet most sweep scans in ancient populations rely on allele-frequency or site frequency spectrum (SFS) summaries, with limited use of haplotype-based approaches. Here, we evaluate the performance of haplotype and SFS-based methods for detecting selective sweeps under demographic scenarios that reflect the complex history of ancient and modern Europeans. We extend the haplotype-based likelihood framework saltiLASSI to accommodate pseudohaploid ancient genomes, enabling the use of truncated haplotype frequency spectra and their spatial decay to detect sweeps without requiring phased data. Using forward-in-time simulations, we examine sweeps of varying ages, two pulses of admixture with different source proportions, and cases where selection continues or ceases after admixture. We compare saltiLASSI to a widely used SFS-based approach (SweepFinder2). Our results show that haplotype-based likelihood models retain higher power than SFS methods in admixed populations, particularly when sweep haplotypes are introduced through migration or when selection has not had sufficient time to regenerate a clear SFS signature after admixture. These findings highlight the promise of haplotype-based inference for ancient DNA and demonstrate how model-based approaches can improve the detection of historical selective sweeps in populations with complex demographic histories.

13
Dietary specializations are captured by jaw muscle proportions in mammals

Brocklehurst, R. J.; Grossnickle, D. M.; Bechara, J.; Cohen, W.; Santana, S. E.; Vinyard, C. J.; Taylor, A. B.; Konow, N.

2026-05-21 zoology 10.64898/2026.05.19.725803 medRxiv
Top 0.3%
0.7%
Show abstract

Mammalian diet and feeding ecology are often reflected by craniofacial skeleton specializations, but feeding requires skeletal actuation by a complex suite of muscles with varying sizes, lines of action, and mechanical function. While muscles play a critical role in feeding mechanics, and hence diet, it remains unclear how well variation in jaw muscle morphology predicts diet in mammals. We quantified the evolutionary interplay between mammalian muscle morphology and diet using a large and taxonomically broad sample. We measured the relative proportions and putative force production capacity, quantified as muscle physiological cross-sectional area (PCSA), for the major adductor complexes, along with a key jaw depressor, in 91 mammalian species (30 chiropterans, 33 primates, and 28 ungulates, carnivorans, rodents, and marsupials). We recovered clear dietary signals for several muscle complexes, with the medial pterygoid (larger in herbivores) and temporalis (larger in carnivores) performing best as dietary predictors. The medial pterygoid is particularly relevant for the mechanical innovation in mammals of moving the mandible along non-orthal, medio-lateral trajectories during mastication. Our findings underscore the intuitive, yet previously unquantified, importance of muscles in the evolution of mandibular roll, yaw, and lateral translation, all mammalian hallmarks of processing diverse types of food.

14
Genomic Footprints of Bottlenecks, Isolation, and Inbreeding: A Case Study of Two Vulture Cohorts in India

Shukla, M.; Bohra, D. L.; Rao, B.; Narayan, L.; Kiran, S.; Thakur, V.

2026-05-05 genomics 10.64898/2026.04.30.721611 medRxiv
Top 0.3%
0.6%
Show abstract

Genomic erosion as a manifestation of small effective population size (Ne) and consanguinity subverts long-term perpetuation of threatened species by compromising their adaptive potential; however, the integration of genomics remains limited in applied conservation efforts to guide priorities. This study combines non-invasive sampling, double-digest Restriction site-associated DNA sequencing (ddRAD), and population-genomic analyses to assess genetic health in two vulture assemblages-mixed wild enclosure and captive breeding cohorts. Both the geographical locations exhibit signs of populations in distress: low genetic diversity and abundant intermediate-length runs of homozygosity (RoH), consistent with long-term reduced Ne plus recent demographic isolation. Our demographic model runs favoured ancient migration (AM) topology characterised by an ephemeral window of gene flow, taken over by a prolonged population separation period. The mutation quantification results from approximately 59,000 outgroup-polarised SNPs reveal higher additive burden and more homozygous-derived sites in BKN. However, this was later traced to low-impact and non-coding variants rather than a surge in the loss-of-function (LoF) alleles. The data support a genomic profile that carries an elevated risk from polygenic/aggregate deleterious burden in BKN despite a scarcity of high-impact mutations. By highlighting the disconnect between genetic resilience and demographic recovery, our results accentuate the need to incorporate genomics-informed inbreeding and monitoring programs, while also focusing on reducing anthropogenic mortality with genetic augmentation.

15
Eleven deep-sea coral genome assemblies unveil insights into evolution, adaptation, and coral biodiversity

Zhang, N.; Li, L.; Ta, K.; Shi, C.; Seim, I.; Zhang, Y.; Zhang, W.; Cui, Z.; Xiang, X.; Jia, L.; Ge, Q.; Du, M.; Xie, T.; Ji, Q.; Yue, Z.; Fan, G.; Liu, S.; Meng, L.

2026-05-07 genomics 10.64898/2026.05.06.723128 medRxiv
Top 0.4%
0.5%
Show abstract

Deep-sea corals are vital in maintaining coral ecosystem biodiversity, yet their genetic characteristics remain largely unexplored. Here, we present 11 deep-sea coral genome assemblies, including four Hexacorallia and seven Octocorallia species, significantly contributing new genomic information across two orders. Our analysis reveals the historical dynamics of coral speciation and the influence of environmental factors on the evolution of coral reef ecosystems.Total of 126 horizontal gene transfer (HGT) events were detected, among which genes from the ancestor of symbiodiniaceae indicate that the ancestors of deep-sea corals may have inhabited shallow-sea environments. Notably, several of these HGTs are involved in phosphorus (PhnX/PhnW) and cholesterol (DHCR7) metabolisms within corals, indicating that HGTs may serve as an adaptive survival strategy for the coral holobionts. Deep-sea corals also rely on symbiotic bacteria to synthesize 10 essential amino acids (such as valine and tyrosine), retaining only partial amino acid synthesis capacity. In addition, we investigated the evolution of key biological rhythm genes and temperature adaptation in corals. The loss of key rhythm genes (e.g., clock and cry) in deep-sea corals and copy number difference of genes related to heat stress (e.g., Cbl-b and Rchy) revealed genetic difference between deep-sea and shallow-sea corals. Our new genome assemblies enhance the understanding of deep-sea coral evolution, biodiversity, and adaptation, providing a genetic foundation for coral conservation.

16
Patterns of association between mothers and offspring and their outcomes in a polygynous ungulate

Hasik, A. Z.; Robinson, N.; Guinness, F.; Morris, S.; Morris, A.; Clutton-Brock, T.; Pemberton, J. M.

2026-05-11 animal behavior and cognition 10.64898/2026.05.07.723517 medRxiv
Top 0.5%
0.4%
Show abstract

Prolonged association between mothers and their offspring is common in ungulates, with the level of maternal investment likely to play a central role in shaping this trait. Here we examined patterns of association between mothers and offspring over time, the apparent benefits of association to offspring, and costs to mothers. We analyzed 40 years worth of census data from an individually-monitored, food-limited population of red deer (Cervus elaphus) on the Isle of Rum, Scotland. Starting from birth, female calves associated more frequently with their mothers than male calves in their first year. Calves also associated less with their mothers if the mother did not conceive a new calf. Association frequency decreased with mothers age and population density, and survival over the first year was not related to mother-calf association. Yearlings, now in their second year, were more often associated with their mothers if they were female, if there was no subsequent calf (or the subsequent calf died as a neonate), and if they were still being suckled. Increased association between mothers and yearlings was associated with increased survival to adulthood at 28 months, but suckling a yearling did not improve its probability of survival. For individuals that reached maturity, increased association in the yearling year was associated with slightly shorter adult life spans. The level of association between a calf and mother was not associated with the mothers immediate survival or fecundity. Our findings suggest that juveniles born to poor-condition mothers benefit from prolonged association through improved yearling survival.

17
The centrality of ecotones: How scale, sex, and ontogeny shape the spatial ecology of a solitary carnivore

Glover-Kapfer, P.; Song, Q.; Erb, J.

2026-05-05 ecology 10.64898/2026.05.01.722308 medRxiv
Top 0.5%
0.4%
Show abstract

ContextAnimals balance resource acquisition with risk mitigation. These trade-offs are rarely uniform, being mediated by spatial scale, demographic traits, and environmental constraints. Understanding these divergent spatial behaviors is critical for management across human-dominated landscapes. ObjectivesWe investigated how sexual dimorphism and ontogeny interact with landscape structure to influence scale-dependent resource selection. Specifically, we sought to determine how these demographic factors mediate spatial trade-offs between optimal foraging habitats, top-down intraguild predation risk, and bottom-up severe winter weather. MethodsWe examined the spatial ecology of a solitary carnivore, the bobcat (Lynx rufus), across a heterogeneous, human-modified landscape in northern Minnesota, USA. Using spatial data derived from harvested adult and juvenile individuals, we evaluated multi-scale selection relative to land cover, structural ecotones, intraguild predator activity, and winter severity. ResultsHabitat selection was scale-dependent and partitioned demographically. Whereas bobcats universally selected for ecotones and avoided homogeneous open habitats at fine scales, responses to other features diverged by sex and age. Females actively avoided areas with high coyote activity and freezing temperatures; males exhibited high risk tolerance, apparently indifferent to coyote activity and tolerant of freezing temperatures. We identified a distinct ontogenetic spatial shift among females. Subordinate juveniles were competitively excluded from optimal natural ecotones, forcing them into riskier, anthropogenic agricultural edges. In contrast, adult females optimized foraging opportunities by selecting productive ecotones at the intersection of woody vegetation and semi-natural grasslands. ConclusionsOur findings demonstrate that habitat selection is not a static species-level trait, but instead a dynamic process resulting from the interaction between ontogeny, sex, and landscape heterogeneity. The reliance of vulnerable demographic groups on marginal or anthropogenic habitats highlights how human land-use changes can inadvertently produce ecological winners and losers within the same species. Consequently, landscape management and conservation planning for solitary carnivores must shift from broad, population-wide habitat prescriptions to strategies that explicitly accommodate the divergent spatial requirements of specific demographic cohorts.

18
Interpreting GC content differences across populations at polymorphic sites

Chandra, S.; Gao, Z.

2026-05-18 evolutionary biology 10.64898/2026.05.16.725686 medRxiv
Top 0.5%
0.3%
Show abstract

Recent studies have reported consistent inter-population differences in GC content at polymorphic sites in multiple species, including humans. Specifically, populations that experienced recent bottlenecks exhibit lower average GC content (GC%) at common polymorphic sites compared to non-bottlenecked groups--an observation previously interpreted as indication of rapid evolution of base composition. In this study, we investigate the evolutionary and technical factors driving these patterns across humans, mice, maize, and silkworm. We find that GC% at polymorphic sites is highly sensitive to the allele frequency threshold applied. Relaxing this threshold reduces inter-population differences to negligible levels in humans and significantly attenuates similar signals in other species. We further observe substantial GC% variation across allele frequency bins, a pattern driven by the differential abundance of different mutation types. We demonstrate that these observations are collectively driven by an interaction between demographic history and a universal excess of strong-to-weak mutations relative to weak-to-strong mutations, which is counteracted by GC-biased gene conversion (gBGC) over long evolutionary timescales. Forward-in-time simulations with realistic parameters recapitulate observed patterns of GC% variation across both populations and allele frequency bins. Overall, our findings reveal that the base composition at polymorphic sites is strongly shaped by the interaction between demographic history, mutation bias, and gBGC, and does not represent stable, genome-wide trends. Consequently, inter-population differences in GC content--especially at common variants--should not be interpreted as evidence of ongoing divergence in base composition or shifts in mutation patterns.

19
The enigma of persistent left-handedness in humans: A potential solution

Gur, R.; Sha, Z.; Moore, T. M.; Calkins, M.; Roalf, D.; Ruparel, K.; Scott, J. C.; Watters, A.; Harris, L.; Alexander-Bloch, A.; Gur, R.

2026-05-22 psychiatry and clinical psychology 10.64898/2026.05.20.26353697 medRxiv
Top 0.6%
0.3%
Show abstract

The persistence of a left-handed minority of slightly over 10% of the population is enigmatic because it is associated with stigma, increased psychopathology, and cognitive deficits. In a community sample of 9,352 individuals (age range 8-21 years) with neurobehavioral assessments, left-handers (N=1,281, 673 male) indeed showed greater psychopathology and performed more poorly than right-handers (N=8,076, 3,839 male) on tests of executive function, memory, complex cognition, and social cognition, while excelling in motor speed. Furthermore, the variance was higher and within-individual variability (WIV) - the extent to which scores in the different domains varied within individuals - was higher in left-handers. Since low WIV indicates even distribution of abilities while high WIV reflects specialization in circumscribed areas, the finding indicates that left-handers are "neurocognitive specialists". This combination of behavioral traits could confer resilience against natural selection pressures and help explain preponderance of left-handers in highly specialized professions requiring specific talents. Our findings encourage more research on left-handers, who are currently excluded from multiple brain behavior studies.

20
Evolutionary history and genomic vulnerability of the extinct giant deer Megaloceros giganteus

Sinding, M.-H. S.; Gargano, M.; Li, Z.; Trucchi, E.; Arnold, P.; Daly, K. G.; Mattiangeli, V.; Kliver, S.; Duchene, D.; Wegmann, D.; Fueglistaler, A.; Alberti, F.; Gedman, G.; Morrill, K.; Cantarel, B.; Kovacic, I.; Nesme, J.; Li, L.; Heckeberg, N.; Monaghan, N. T.; Rosendahl, W.; Doeppes, D.; Mullin, V. E.; Pecnerova, P.; Kaur, R.; Caroe, C.; Mak, S. S.; Dalen, L.; Wang, W.; Lorenzen, E.; Shapiro, B.; Bradley, D. G.; Hofreiter, M.; Gilbert, M. T. P.; Westbury, M. V.

2026-05-14 evolutionary biology 10.64898/2026.05.13.724764 medRxiv
Top 0.6%
0.3%
Show abstract

The extinct giant deer (Megaloceros giganteus) was one of the most striking megafaunal species of the Late Quaternary, distinguished by its enormous palmated antlers reaching up to 3.5 m across, the largest known among both living and extinct cervids. Despite its iconic status, little is known about its genomic history prior to extinction [~]8 thousand years ago (kya). We generated the first nuclear palaeogenomes for Megaloceros, represented by nine individuals from Germany ([~]40 kya) and Ireland ([~]11 kya), mapped to a new chromosome-level reference genome of the fallow deer (Dama dama). Phylogenomic analyses placed Megaloceros as sister to Dama (divergence [~]3.5 Ma) and revealed evidence of gene flow with ancestral Cervus lineages. Population analyses identified clear differentiation between German and Irish lineages, with higher genetic diversity in the German individuals. Two genes under strong positive selection, BNIPL and SLC10A7, are associated with apoptosis regulation and skeletal development/bone mineralisation, respectively, and may relate to the species large body and antler size. Demographic reconstructions indicate a long-term decline in effective population size, extremely low heterozygosity, little evidence of extensive runs of homozygosity, and an elevated burden of predicted deleterious alleles. Together, these results suggest that Megaloceros entered the terminal Pleistocene in a genomically fragile state, offering new insight into the biology and evolutionary legacy of one of the largest and most distinctive cervids that ever lived.