cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gm627
title: Data from: Geographic distribution and adaptive significance of genomic structural variants: an anthropological genetics perspective

description: Anthropological geneticists have successfully used single nucleotide and
 short tandem repeat variations across human genomes to reconstruct human
 history. These markers have also been used extensively to identify
 adaptive and phenotypic variation. The recent advent of high-throughput
 genomic technologies revealed an overlooked type of genomic variation,
 namely structural variants (SVs). In fact, some SVs may contribute to
 human adaptation in substantial and previously unexplored ways. SVs
 include deletions, insertions, duplications, inversions and translocations
 of genomic segments that vary among individuals from the same species. SVs
 are much less numerous than single nucleotide variants, but account for at
 least seven times more variable base pairs than do single nucleotide
 variants when two human genomes are compared. Moreover, recent studies
 have shown that SVs have higher mutation rates than single nucleotide
 variants when the affected base pairs are considered, especially in
 certain parts of the genome. The null hypothesis for the evolution of SVs,
 like single nucleotide variants, is neutrality. Hence, drift is the
 primary force that shapes the current allelic distribution of most SVs.
 However, due to their size, a larger proportion of SVs appear to evolve
 under non-neutral forces (mostly purifying selection) than single
 nucleotide variants. In fact, as exemplified by several groundbreaking
 studies, SVs contribute to anthropologically relevant phenotypic variation
 and local adaption among humans. In this review, we argue that with the
 advent of affordable genomic technologies, anthropological scrutiny of
 genomic structural variation emerges as a fertile area of inquiry to
 better understand human phenotypic variation. To motivate potential
 studies, we discuss scenarios through which SVs affect phenotypic
 variation among humans within an anthropological context. We further
 provide a methodological workflow in which we analyzed 1000 Genomes
 deletion variants and identified 16 exonic deletions that are specific to
 the African continent. We analyzed two of these deletion variants
 affecting the keratin-associated protein (KAP) cluster in a locus-specific
 manner. Our analysis revealed that these deletions may indeed affect
 phenotype and likely evolved under geography-specific positive selection.
 We outline all the major software and datasets for these analyses and also
 provide the basic R and perl codes we used for this example workflow
 analysis. Overall, we hope that this review will encourage and facilitate
 incorporation of genomic structural variation in anthropological research
 programs.
description: R codes for generating
 graphsEaaswarkhanth_et_al.Rvcf_fastaPerl script for creating FASTA file from vcf file.
DOI: 10.5061/dryad.35tv6rs
title: Data from: Survival costs of within‐ and between‐season mate change in the European Blackbird (Turdus merula)

description: Many studies of socially monogamous birds discuss the adaptive role of
 between-season partner change, but only a handful of them refer to the
 benefits of pair fidelity in terms of increased survival. Moreover, there
 are no studies describing the benefits of within-season mate retention.
 Our data relating to an urban population of European Blackbirds (Turdus
 merula) enabled us to test the dependence of survival on pair
 faithfulness. Because Blackbirds divorce within and between seasons, we
 were able to test the influence of pair faithfulness on their within- and
 between-season survival and mate fidelity. For this purpose, we used a
 multievent capture-mark-recapture (MECMR) statistical model, which is
 based on recapture rates and different pair states (faithful to mate,
 paired with new partner, or dead). Our study indicated that between- and
 within-season survival depends on pair states: pair-bond duration
 increases survival to the next capture occasion in both sexes. We found
 that the pair-bond duration to the current partner increased the chances
 of being with the same partner during the next breeding occasion, although
 we failed to find any within-season pair-bond influence for females. Our
 results showed sex differences in mating at the end of the season: females
 had a much smaller chance of breeding with the current new partner in the
 next year. This study has demonstrated that within- and between-season
 survival is dependent on mate retention, and we discuss this in the
 context of how searching for a new partner could affect the birds’
 survival.
description: Data files of capture
 histories used in E-Surge softwareData files
 “histories_males” and “histories_females” include capture histories
 (column 'H:') of males and females respectively, for European
 Blackbird from the Żeromski Park in Szczecin. For both dataset, the
 capture history is followed by the column 'S:' (denotes number
 of individuals with the capture history), the column '$COV:Mgp'
 (covariate coding for age, Ad = adult birds older than 2 years, Juv =
 immature birds in their second year, Juv2 = new adults; immatures in their
 second year of live capture in the second part of season). These capture
 histories were used to model pair fidelity and survival in E-Surge
 software. The life histories are coded using 6 different codes events, and
 each code shows the observed event for each individual on each capture
 occasion. For details see Method from Jankowiak et al.
 2018.turdus_data.zip
DOI: 10.5061/dryad.3f1647m
title: Data from: Do rivers influence fine-scale population genetic structure of tigers in the Sundarbans?

description: Global tiger Panthera tigris populations mostly survive within the
 geographically fragmented forest patches, thereby limited genetic exchange
 between isolated populations. Assessing the genetic status of these
 populations can reveal the effects of dispersal barriers and provide
 critical insights to guide future conservation actions. Using
 non-invasively collected biological samples, we investigated fine-scale
 genetic structure of tigers in the Sundarbans mangrove forests intersected
 by the complex river systems, and which holds one of the largest global
 tiger populations. We genotyped 52 tiger samples at 10 polymorphic
 microsatellite loci, and sequenced 33 of them for a total of 1,263
 base-pairs at four mitochondrial gene fragments. Microsatellite analyses
 exhibit a signature of fine-scale genetic structure, which might have been
 the consequence of limited tiger dispersal due to wide rivers across the
 Sundarbans. Similarly, mitochondrial data show a historic pattern of
 population isolation that might be due to wider rivers across the entire
 Sundarbans shared by Bangladesh and India. Given the intrinsic nature of
 the mangrove habitat embedded with numerous rivers, increased commercial
 traffic and human activities may further impede tiger dispersal across
 wide rivers, escalating further genetic isolation of the Sundarbans
 tigers.
description: Geotyped data of Bengal
 tigers of the Bangladesh Sundarbans
DOI: 10.5061/dryad.4m518
title: Data from: Cultural transmission in an ever-changing world: trial-and-error copying may be more robust than precise imitation

description: Cultural transmission facilitates the spread of behaviours within social
 groups and may lead to the establishment of stable traditions in both
 human and non-human animals. The fidelity of transmission is frequently
 emphasized as a core component of cultural evolution and as a prerequisite
 for cumulative culture. Fidelity is often considered a synonym of precise
 copying of observed behaviours. However, while precise copying guarantees
 reliable transmission in an ideal static world, it may be vulnerable to
 realistic variability in the actual environment. Here, we argue that
 fidelity may be more naturally achieved when the social learning
 mechanisms incorporate trial-and-error; and that the robustness of social
 transmission is thereby increased. We employed a simple model to
 demonstrate how culture that is produced through exact copying is fragile
 in an (even slightly) noisy world. When incorporating a certain degree of
 trial-and-error, however, cultures are more readily formed in a stochastic
 environment and are less vulnerable to rare ecological changes. We suggest
 that considering trial-and-error learning as a stabilizing component of
 social transmission may provide insights into cultural evolution in a
 realistic, variable, world.
description: Simulation of trial and
 error learningAn example Matlab code
 for simulating a trial and error learning process.TrialAndErrorLearning.m
DOI: 10.5281/zenodo.18257193
title: Datasets and code associated with "Infanticide in a colonial cooperative bird is not associated with direct reproductive benefits"

description: This Zenodo record contains two datasets used in the study “Infanticide in a colonial cooperative bird is not associated with direct reproductive benefits", found here https://www.biorxiv.org/content/10.1101/2025.05.27.656097v5.article-info

The datasets describe, for a population of sociable weavers, i) observations of ejection attempts (and infanticide events) and ii) description of video recording effort per nestling age day. One dataset is structured with one row per attacker, and the second with one row per nestling age, respectively. A README file provides detailed descriptions of all variables, data structure, and special cases.

Keywords: infanticide, behavioural ecology, cooperatively breeding, sociable weaver, bird, long-term project, dataset
DOI: 10.5281/zenodo.18385267
title: Datasets and code associated with "Infanticide in a colonial cooperative bird is not associated with direct reproductive benefits"

description: This Zenodo record contains two datasets used in the study “Infanticide in a colonial cooperative bird is not associated with direct reproductive benefits", found here https://www.biorxiv.org/content/10.1101/2025.05.27.656097v5.article-info

The datasets describe, for a population of sociable weavers, i) observations of ejection attempts (and infanticide events) and ii) description of video recording effort per nestling age day. One dataset is structured with one row per attacker, and the second with one row per nestling age, respectively. A README file provides detailed descriptions of all variables, data structure, and special cases.

Keywords: infanticide, behavioural ecology, cooperatively breeding, sociable weaver, bird, long-term project, dataset
DOI: 10.5281/zenodo.17980457
title: SHM_415392_HST_3D

description: Photogrammetric 3D model of the preparatory work for a Middle Neolithic boat axe collected from Bo parish in Örebro and currently held in the collections of the National Historical Museums in Stockholm.

Link to the Dynamic Collection platform  

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=692

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/20785AE1-5100-4094-8DBC-C7B5094B58CA
DOI: 10.5281/zenodo.17980458
title: SHM_415392_HST_3D

description: Photogrammetric 3D model of the preparatory work for a Middle Neolithic boat axe collected from Bo parish in Örebro and currently held in the collections of the National Historical Museums in Stockholm.

Link to the Dynamic Collection platform  

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=692

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/20785AE1-5100-4094-8DBC-C7B5094B58CA
DOI: 10.25549/usctheses-ouc11399nc0w
title: Outlaws of Culture: How BeyoncÃ© and the "COWBOY CARTER" Experience Fed My Chicano Roots
DOI: 10.5061/dryad.56sq32k
title: Data from: The influence of environmental variance on the evolution of signalling behavior

description: A recent meta-analysis has indicated that environmental quality and
 variability can influence whether offspring begging and parental responses
 to these signals are motivated by offspring need or offspring quality. We
 create a model to verify and apply evolutionary logic to this hypothesis.
 We determine the ecological and social conditions under which species
 signal and respond to need in favorable environments, and to quality in
 poor environments. The environmental conditions that favor this shift are
 widest when signalling costs and differences in quality between offspring
 are moderate. Low relatedness between siblings coupled with high
 signalling costs, as well as moderate relatedness between siblings coupled
 with low signalling costs, allow for the shift between signals of need and
 signals of quality to occur in more volatile environments. Further, only
 species whose offspring are highly dependent on parents for survival are
 not expected to use both signals of need and of quality. Ultimately, this
 shift between signalling need and signalling quality is the result of
 high-quality offspring benefiting more from meagre amounts of parental
 provisioning, while low-quality offspring have most to gain when parents
 can contribute more substantially. We show that this differential benefit
 of resources depends substantially upon offspring fitness as functions of
 parental investments, a variable which has lacked both diversity and
 biological realism in previous theoretical approaches. We then use this
 work to reassess previous theory on signals of need and of quality.
description: Matlab
 CodeThis Matlab script finds
 the minimum and maximum resources necessary in both good and poor
 environments necessary for the stability of the equilibrium of interest
 for a given set of parameter conditions. It plots the relevant region of
 stability.WithoutCues_DivisbleResources3.m
DOI: 10.5061/dryad.8qf122m
title: Data from: Context-dependent colonisation of terrestrial habitat 'islands' by a long-distance migrant bird

description: Landscape context can affect how individuals perceive patch quality during
 colonisation. However, although context-dependent colonisation has been
 observed in aquatic environments it has rarely been studied in terrestrial
 environments or at large spatial scales. Here, we assessed how landscape
 context influenced colonisation rates in a large-scale (c.7000 km2)
 terrestrial system where colonisers (Willow Warbler Phylloscopus
 trochilus) are capable of rapid, long-distance movements. Bioacoustic
 recorders were used to detect first song dates (an indicator of
 colonisation or re-colonisation) and settlement in 23 naturally replicated
 habitat patches. We compared support for three competing hypotheses
 describing colonisation patterns that depend on landscape context
 (‘redirection’, ‘landscape-selection’ and ‘relative patch size’) with two
 patch-level hypotheses (patch ‘quality’ and ‘heterospecific attraction’).
 First song was earlier when habitat availability in the landscape was low,
 supporting the ‘redirection’ hypothesis. Settlement probability was best
 predicted by patch ‘quality’ and was lower in woodlands with a dense
 understorey. Results suggest that colonisation of habitat patches by male
 P. trochilus after spring migration is spatially hierarchical. First,
 initial colonisation depends on landscape context, and settlement is then
 determined by fine-scale vegetation characteristics. More broadly, we
 suggest that patterns observed in fragmented aquatic environments (e.g.
 ‘redirection’) can, in some circumstances, be extended to large-scale
 terrestrial environments.
description: Context-dependent
 colonisationPlease see README.txt
 and further information in electronic supplementary material accompanying
 the paper.DryadDataV1.csv
DOI: 10.5061/dryad.1c5k9
title: Data from: Exceptional preservation and the fossil record of tetrapod integument

description: The fossil record of exceptionally preserved soft tissues in
 Konservat-Lagerstätten provides rare yet significant insight into past
 behaviours and ecologies. Such deposits are known to occur in bursts
 rather than evenly through time, but reasons for this pattern and
 implications for the origins of novel structures remain unclear. Previous
 assessments of these records focused on marine environments preserving
 chemically heterogeneous tissues from across animals. Here, we investigate
 the preservation of skin and keratinous integumentary structures in
 land-dwelling vertebrates (tetrapods) through time, and in distinct
 terrestrial and marine depositional environments. We also evaluate
 previously proposed biotic and abiotic controls on the distribution of 143
 tetrapod Konservat-Lagerstätten from the Permian to the Pleistocene in a
 multivariate framework. Gap analyses taking into account sampling
 intensity and distribution indicate that feathers probably evolved close
 to their first appearance in the fossil record. By contrast, hair and
 archosaur filaments are weakly sampled (five times less common than
 feathers), and their origins may significantly pre-date earliest known
 occurrences in the fossil record. This work suggests that among-integument
 variation in preservation can bias the reconstructed first origins of
 integumentary novelties and has implications for predicting where, and in
 what depositional environments, to expect further discoveries of
 exquisitely preserved tetrapod integument.
description: R functions for
 integrating fossil uncertaintyR functions for
 integrating fossil uncertainty over time bins of various
 widthslagerstatten_dryad_R_functions.RLagerstatten dataset used in analysesBinned (10-My) Lagerstatten dataset used in all statistical analysesfinal_dataset.csv
DOI: 10.5061/dryad.800h8
title: Data from: Historical contingency and behavioural divergence in territorial Anolis lizards

description: The extent that evolution—including adaptation—is historically contingent
 (dependent on past events) has often been hotly debated, but is still
 poorly understood. In particular, there is little data on the degree that
 behaviour, an aspect of the phenotype that is strongly linked to
 contemporary environments (social or physical), retains the imprint of
 evolutionary history. In this study, I examined whether differences in the
 design of the territorial displays among species of Caribbean Anolis
 lizards reflect island specific selection regimes, or historically
 contingent predispositions associated with different clade histories.
 Adult males advertise territory ownership using a series of headbobs and
 dewlap extensions, bouts of which vary in duration among species. When
 display durations were mapped onto the Anolis phylogeny, prominent
 differences between species belonging to the Western and Eastern Caribbean
 radiations were apparent. Statistical analyses confirmed that species
 differences in the duration of headbob displays, and to some extent the
 duration of dewlap extensions, were historically contingent. The unique
 evolutionary histories of each clade have seemingly had a profound effect
 on the subsequent direction of display evolution among descendent taxa.
 These results combined with those from previous studies on these lizards
 show that past history can have an important impact on the type of
 behaviour exhibited by species today, to the point that adaptive evolution
 can proceed quite differently in lineages originating from different
 evolutionary starting points.
description: Ord_TJ-JEB-2012-00244R1_dataAll data used in study, including sample sizes, variance and sources
DOI: 10.5061/dryad.6t0m6
title: Data from: Exaggerated sexual swellings and male mate choice in primates: testing the reliable indicator hypothesis in the Amboseli baboons

description: The paradigm of competitive males vying to influence female mate choice
 has been repeatedly upheld, but, increasingly, studies also report
 competitive females and choosy males. One female trait that is commonly
 proposed to influence male mate choice is the exaggerated sexual swelling
 displayed by females of many Old World primate species. The reliable
 indicator hypothesis posits that females use the exaggerated swellings to
 compete for access to mates, and that the swellings advertise variation in
 female fitness. We tested the two main predictions of this hypothesis in a
 wild population of baboons (Papio cynocephalus). First, we examined the
 effect of swelling size on the probability of mate guarding
 (‘consortship’) by the highest-ranking male and the behaviour of those
 males that trailed consortships (‘follower males’). Second, we asked
 whether a female's swelling size predicted several fitness measures.
 We found that high-ranking males did not prefer females with larger
 swellings (when controlling for cycle number and conception) and that
 females with larger swellings did not have higher reproductive success.
 Our study, the only complete test of the reliable indicator hypothesis in
 a primate population, rejects the idea that female baboons compete for
 mates by advertising heritable fitness differences. Furthermore, we found
 unambiguous evidence that males biased their mating decisions in favour of
 females who had experienced more sexual cycles since their most recent
 pregnancy. Thus, rather than tracking the potential differences in fitness
 between females, male baboons appear to track and target the potential for
 a given reproductive opportunity to result in fertilization.
description: Maximal swelling sizes,
 male mate choice, and female fitness proxiesdf_MaleMateChoice_forDRYAD.csv
DOI: 10.5061/dryad.36b25
title: Data from: Fire may mediate effects of landscape connectivity on plant community richness in prairie remnants

description: Following the predictions of island biogeography and metapopulation
 theory, efforts to understand and maintain plant communities have focused
 on spatial attributes such as patch size and connectivity. However,
 despite a large body of literature, the effects of these spatial
 attributes remain uncertain, and accumulating evidence suggests that they
 may interact with local patch characteristics. Here, we assess the role of
 spatial attributes (patch size and connectivity at two time periods) and
 of patch quality (indicated by number of years since last fire, as this is
 a fire-dependent system) in determining plant species richness at 63
 remnant prairie sites in Wisconsin, USA. Our results demonstrate
 significant main effects of patch size, with larger patches being richer
 than small patches, and of fire, with recent-fire sites being richer than
 fire-excluded sites. We also report a novel interaction between number of
 years since fire and patch connectivity. Historical (1950) connectivity
 was negatively related to species richness at recent-fire sites, but
 positively related to species richness at fire-excluded sites, while
 current (2000) connectivity and species richness were positively
 correlated at recent-fire sites, but unrelated at fire-excluded sites. Our
 findings indicate that measures of patch quality such as time since last
 fire can alter the association between spatial attributes such as patch
 size or connectivity and species richness.
description: Alstad&Damschen2015_DATAThe file Alstad&Damschen2015_DATA includes all data used for analysis in the 2015 Ecography paper. This includes, for each of 63 prairie remnant patches in Wisconsin, USA, total plant species richness, historical and contemporary measures of both patch area and patch connectivity, as well as the number of fires documented in the past 60 years.