cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gg859
title: Data from: Learning and robustness to catch-and-release fishing in a shark social network

description: Individuals can play different roles in maintaining connectivity and
 social cohesion in animal populations and thereby influence population
 robustness to perturbations. We performed a social network analysis in a
 reef shark population to assess the vulnerability of the global network to
 node removal under different scenarios. We found that the network was
 generally robust to the removal of nodes with high centrality. The network
 appeared also highly robust to experimental fishing. Individual shark
 catchability decreased as a function of experience, as revealed by
 comparing capture frequency and site presence. Altogether, these features
 suggest that individuals learnt to avoid capture, which ultimately
 increased network robustness to experimental catch-and-release. Our
 results also suggest that some caution must be taken when using
 capture–recapture models often used to assess population size as
 assumptions (such as equal probabilities of capture and recapture) may be
 violated by individual learning to escape recapture.
description: Data_Network&AttributeThe DataZip file contains the following objects 1) “Attributes” gives the identity of all sighted individuals with attributes (ID, sex and size) followed by the number of time it was observed (Present), the number of times it was captured (Capture) and probability of capture (Pcap), 2) “group_by_individual” gives the matrix denoting which individuals were detected in which group at the selective survey site. The columns give the individuals, the rows give the number of the group.DataZip.zip
DOI: 10.5061/dryad.vr176
title: Data from: Evolution of plant growth and defense in a continental introduction

description: Substantial research has addressed adaptation of nonnative biota to novel
 environments, yet surprisingly little work has integrated population
 genetic structure and the mechanisms underlying phenotypic differentiation
 in ecologically important traits. We report on studies of the common
 milkweed Asclepias syriaca, which was introduced from North America to
 Europe over the past 400 years and which lacks most of its specialized
 herbivores in the introduced range. Using 10 populations from each
 continent grown in a common environment, we identified several growth and
 defense traits that have diverged, despite low neutral genetic
 differentiation between continents. We next developed a Bayesian modeling
 approach to account for relationships between molecular and phenotypic
 differences, confirming that continental trait differentiation was greater
 than expected from neutral genetic differentiation. We found evidence that
 growth-related traits adaptively diverged within and between continents.
 Inducible defenses triggered by monarch butterfly herbivory were
 substantially reduced in European populations, and this reduction in
 inducibility was concordant with altered phytohormonal dynamics, reduced
 plant growth, and a trade-off with constitutive investment. Freedom from
 the community of native and specialized herbivores may have favored
 constitutive over induced defense. Our replicated analysis of plant growth
 and defense, including phenotypically plastic traits, suggests adaptive
 evolution following a continental introduction.
description: Population means for
 traitspopulation means for all
 traits reported in this studyDryad.csv
DOI: 10.5061/dryad.5hf57
title: Data from: Back to the future: evolving bacteriophages to increase their effectiveness against the pathogen Pseudomonas aeruginosa PAO1

description: Antibiotic resistance is becoming increasingly problematic for the
 treatment of infectious disease in both humans and livestock. The
 bacterium Pseudomonas aeruginosa is often found to be resistant to
 multiple antibiotics and causes high patient mortality in hospitals.
 Bacteriophages represent a potential option to combat pathogenic bacteria
 through their application in phage therapy. Here we capitalize on previous
 studies showing how evolution may increase phage infection capacity
 relative to ancestral genotypes. We passaged four different phage isolates
 (podoviridae, myoviridae) through six serial transfers on the ancestral
 strain of Pseudomonas aeruginosa PAO1. We first demonstrate that repeated
 serial passage on the ancestral bacteria increases bacteriophage infection
 capacity on ancestral hosts and on those evolved for one transfer. This
 result is confirmed when examining the ability of evolved phage to reduce
 ancestral host population sizes. Second, through interaction with a single
 bacteriophage for 24 hours, P. aeruginosa can evolve resistance to the
 ancestor of that bacteriophage; this also provides these evolved bacteria
 with cross-resistance to the other three bacteriophages. We discuss how
 the evolutionary training of phages could be employed as effective means
 of combatting bacterial infections or disinfecting surfaces in hospital
 settings, with reduced risk of bacterial resistance compared to
 conventional methods.
description: Betts_1Contains data for analysis of resistance of naive (t0) and evolved (t1) bacteria against evolved (t6) and ancestral (t0) phages, as shown in Fig. 2 in the manuscript. Columns as follows: (1) phage isolate origin; (2) t0/t1 bacteria; (3) ancestral/evolved phage; (4) replicate ID; (5) number of resistant colonies; (6) number of total colonies.Betts_2Data set for analysis of cross-infection experiment, testing the resistance of evolved (t1) bacteria against the different ancestral phages (fig. 3 in manuscript). Columns as follows: (1) Phage isolate; (2) Bacterial origin (evolved with one of 4 phage isolates); (3) replicate ID; (4) number of resistant colonies; (5) number of total colonies.Betts_3Data set for analysis of capacity of evolved (t6) and ancestral (t0) phages to reduce bacterial density (fig. 4 in manuscript). Columns as follows: (1) Phage isolate identity; (2) t6 phage/t0 phage/control; (3) replicate ID; (4) mean log10 of number of bacterial cells.
DOI: 10.5061/dryad.vm766
title: Data from: Woody cover in wet and dry African savannas after six decades of experimental fires

description: 1. Fire is an integral process in savannas because it plays a crucial role
 in altering woody cover of this globally important biome. 2. In this study
 we examine the long term effects of varying fire frequencies over a 60
 year time period in South Africa. We analyse the effects of fire exclusion
 and of experimental burns every 1, 2 and 3 years on woody cover, tree
 abundance and stem structure on a wet and dry savanna. 3. Increased fire
 frequency did not display a consistent effect on woody cover. The presence
 of fire, irrespective of frequency, was much more influential in lowering
 tree abundance in the wet savanna than the dry savanna. In the dry
 savanna, fire was more effective in greatly increasing coppicing in trees,
 when compared to the wet savannas. 4. Synthesis: The effects of fire on
 three measures of savanna woody vegetation differed between wet and dry
 experimental sites. We suggest that vegetation responses to fire are
 dependent on local conditions, which are likely influenced by rainfall.
 Therefore we suggest that management strategies should take account of
 whether a savanna is a wet or dry system when implementing fire management
 regimes.
description: Woody vegetation cover
 at Experimental Burn Plots at Kruger National Park 2012Data was collected on
 the Pretoriuskop and Skukuza Experimental Burn Plots at Kruger National
 Park, South Africa in March-June 2012. Specific details of the headings
 are as follows: "Treatment" = fire frequency (0.3- triennial
 burning, 0.5 – biennial burning 1 – annual burning and 0 -control/fire
 exclusion). "Region" = savanna type (Pretoriuskop - wet savanna
 Skukuza - dry savanna). Dataset includes tree abundance, percentage of
 multi and single stemmed trees and woody cover calculated as a proportion
 of tree basal area density cm2. Please note the heading “Plot” refers to
 unique field id created by the author and not KNP’s plot
 codes.Pretoriuskop_and_Skukuza_EBP_woodydata.csv
DOI: 10.5061/dryad.0g843
title: Data from: “Darwin’s corollary” and cytoplasmic incompatibility induced by Cardinium may contribute to speciation in Encarsia wasps (Hymenoptera: Aphelinidae)

description: The potential importance of cytoplasmic incompatibility (CI) – inducing
 bacterial symbionts in speciation of their arthropod hosts has been
 debated. Theoretical advances have led to a consensus that a role is
 plausible when CI is combined with other isolating barriers. However, the
 insect model systems Nasonia and Drosophila are the only two experimental
 examples documented. Here we analyzed the components of reproductive
 isolation between the parasitoid wasp Encarsia suzannae, which is infected
 by the CI-inducing symbiont Cardinium, and its uninfected sibling species
 Encarsia gennaro. Laboratory crosses demonstrated that: 1) sexual
 isolation is incomplete; 2) hybrid offspring production is greatly reduced
 in the interspecific CI cross; 3) viable hybrids may be produced by curing
 E. suzannae males of Cardinium with antibiotics; 4) hybrid offspring
 production in the reciprocal cross is greatly reduced by hybrid
 inviability due to genetic incompatibilities; 5) hybrid sterility is
 nearly complete in both directions at the F1 stage. Thus, asymmetrical
 hybrid incompatibilities and CI act as complementary isolating mechanisms.
 We propose a new model for contributions of CI symbionts to speciation,
 with CI reducing gene flow between species in one direction, and in the
 other, a symbiont sweep resulting in accelerated mtDNA evolution, negative
 cytonuclear interactions and hybrid incompatibilities.
description: crossesData from laboratory crossing experiments, organized by blockMatingData from mating experiments, formatted for jMating usemating.txt
DOI: 10.5061/dryad.5f1t0
title: Data from: Selection on Polemonium brandegeei (Polemoniaceae) flowers under hummingbird pollination: in opposition, parallel, or independent of selection by hawkmoths?

description: Particular floral phenotypes are often associated with specific groups of
 pollinators. However, flowering plants are often visited, and may be
 effectively pollinated by more than one type of animal. Therefore, a major
 outstanding question in floral biology asks: what is the nature of
 selection on floral traits when pollinators are diverse? This study
 examined how hummingbirds selected on the floral traits of Polemonium
 brandegeei, a species pollinated by both hummingbirds and hawkmoths. In
 array populations of P. brandegeei, we measured pollen movement, and
 female (seeds set) and male (seeds sired) fitness under hummingbird
 pollination. We then compared the patterns of selection by hummingbirds
 with our previous study examining selection by hawkmoths. We documented
 contrasting selection on sex organ positioning through female function,
 with hummingbirds selecting for stigmas exserted beyond the anthers and
 hawkmoths selecting for stigmas recessed below the anthers. Furthermore,
 hummingbirds selected for longer and wider corolla tubes, and hawkmoths
 selected for narrower corolla tubes. Therefore, contrasting selection by
 hawkmoths and hummingbirds may account for variation in sex organ
 arrangements and corolla dimensions in P. brandegeei. We documented how
 floral traits under selection by multiple pollinators can result in either
 an intermediate “compromise” between selective pressures (sex organs) or
 apparent specialization (corolla tube length) to one pollinator.
description: Floral and fitness
 measures (seeds set and seeds sired) of Polemonium brandegeei pollinated
 by Ruby-Throated Hummingbirds (Archilochus colubris)Floral traits measured
 from greenhouse raised plants. Floral measurements are fully described in
 the methods of the manuscript.hummingbird_array_data.csv
DOI: 10.5061/dryad.64716
title: Data from: Thermoregulatory behavior limits local adaptation of thermal niches and confers sensitivity to climate change

description: 1. Thermoregulation buffers environmental variation, which enables a
 species to persist during climate change but ultimately hinders adaptation
 of thermal tolerance by weakening selective pressure. 2. We used a model
 of optimal thermal physiology to demonstrate how thermoregulatory
 behaviour limits local adaptation of thermal physiology in a widespread
 group of lizards, the Sceloporus undulatus complex. 3. Empirical data for
 seven populations demonstrates conservatism of thermal tolerance,
 consistent with the model's prediction in the case of effective
 thermoregulation. In an eighth population, from a region where
 thermoregulation should be less effective, we observed greater heat
 tolerance and poorer cold tolerance, as predicted by our model. 4.
 Biophysical modelling indicates that lizards can avoid heat stress through
 thermoregulation in the coming decades but will ultimately experience an
 abrupt decline in the effectiveness of thermoregulation. In this scenario,
 thermoregulators will suffer a greater loss of performance in future
 climates than thermoconformers will, unless heat tolerance can evolve in a
 few generations. 5. Our analyses raises a concern that behavioural
 plasticity, while beneficial in the short term, will ultimately limit the
 physiological adaptation required to endure a warming climate.
description: SceloporusThermalDataThermal data for lizards from the Sceloporus undulatus species complex. Data collection was led by Joseph Ehrenberger in the laboratory at Indiana State University as described in the manuscript. Columns are as follows: state corresponding to collection site, ID for data collection, sex (M: male, F: female, J:juvenile of unknown sex), snout vent length (mm), total length (mm), critical thermal maximum (C), critical thermal minima (C), morning preferred body temperature (C), and afternoon preferred body temperature (C).
DOI: 10.5061/dryad.0062v
title: Data from: Life-history strategy and behavioral type: risk-tolerance reflects growth rate and energy allocation in ant colonies

description: Despite the recent interest in animal personality and behavioral
 syndromes, there is a paucity of explanations for why distinct behavioral
 traits should evolve to correlate. We investigate whether such
 correlations across apparently distinct behavioral traits may be explained
 by variation in life history strategy among individual ant colonies. Life
 history theory predicts that the way in which individuals allocate energy
 towards somatic maintenance or reproduction drives several distinct traits
 in physiology, morphology, and energy use; it also predicts that an
 individual's willingness to engage in risky behaviors should depend
 on reproductive strategy. We use Temnothorax ants, which have been shown
 to exhibit ‘personalities’ and a syndrome that may reflect risk tolerance
 at the colony level. We measure colonies' relative investment in
 growth rate (new workers produced) compared to reproductive effort (males
 and queens produced). Comparing sterile worker production to reproductive
 alate production provides a direct measure of how colonies are investing
 their energy, analogous to investment in growth versus reproduction in a
 unitary organism. Consistently with this idea, we found that behavioral
 type of ant colonies was associated with their life history strategy:
 risk-tolerant colonies grew faster and invested more in reproduction,
 whereas risk-averse colonies had lower growth rate but invested relatively
 more in workers. This provides evidence that behavioral syndromes can be a
 consequence of life-history strategy variation, linking the two fields and
 supporting the use of an integrative approach.
description: growth rate
 long
DOI: 10.5061/dryad.qh61d
title: Data from: Genetic diversity, population structure and phylogeography of Myanmar goats

description: The diversity of goats in Myanmar is represented by three indigenous
 breeds, Jade Ni, Nyaung Oo and Waithar Li. This study aimed at
 characterizing the genetic diversity and relationship of Myanmar goat
 breeds using microsatellite and mitochondrial DNA variations. A total of
 147 goats from all three indigenous breeds were genotyped at 27
 microsatellite loci. Genetic diversity in terms of allelic polymorphisms,
 observed and expected heterozygosities were moderately high. The mean
 observed heterozygosity within breeds varied between 0.566 ± 0.183 (Nyaung
 Oo) and 0.595 ± 0.182 (Waithar Li) while the expected heterozygosity
 varied from 0.605 ± 0.181 (Jade Ni) to 0.647 ± 0.176 (Waithar Li).
 Considerable heterozygosity deficit ranging from 5.5% to 8.2% was observed
 in Myanmar goat breeds. Wright’s F statistics revealed most of the
 variations within breeds and only 1.9% of the total observed variation was
 explained by between breed differences. Principal components and Bayesian
 clustering analyses showed complete admixture of Nyaung Oo and Waithar Li
 goats indicating high rate of gene flow among these populations.
 Population stratification was observed in Jade Ni with a subset of
 individuals clustering distinctly. Variations in mitochondrial DNA control
 region revealed 22 distinct haplotypes belonging to two major haplogroups
 A and B. Haplogroup A was found to predominate Myanmar goats similar to
 other goat populations in Asia. Comparative analysis of mtDNA variations
 indicated possible Chinese origin of the maternal haplotypic lineages of
 Myanmar goats.
description: Allele count and Allele
 frequency data at 27 microsatellite marker loci in three breeds of Myanmar
 goatsThe file consists of two
 sheets; First sheet contains allele count data at 27 microsatellite marker
 loci in three breeds of Myanmar goats, Jade Ni (JNI), Nyaung Oo (NYO) and
 Waithar Li (WTL). Second sheet contains allele frequency data at 27
 microsatellite marker loci in three breeds of Myanmar goats, Jade Ni
 (JNI), Nyaung Oo (NYO) and Waithar Li (WTL).Pann Pwint et al-Allele count
 & Frequency Data.xls
DOI: 10.5061/dryad.6c8v6
title: Data from: Phoretic Poecilochirus mites specialise on their burying beetle hosts

description: Recurring species interactions can cause species to adapt to each other.
 Specialization will increase the fitness of symbionts in the coevolved
 association but may reduce the flexibility of symbiont choice as it will
 often decrease fitness in interactions with other than the main symbiont
 species. We analyzed the fitness interactions between a complex of two
 cryptic mite species and their sympatric burying beetle hosts in a
 European population. Poecilochirus mites (Mesostigmata, Parasitidae) are
 phoretic on burying beetles and reproduce alongside beetles, while these
 care for their offspring at vertebrate carcasses. While Poecilochirus
 carabi is typically found on Nicrophorus vespilloides beetles, P.
 necrophori is associated with N. vespillo. It has long been known that the
 mites discriminate between the two beetle species, but the fitness
 consequences of this choice remained unknown. We experimentally associated
 both mite species with both beetle species and found that mite fitness
 suffered when mites reproduced alongside a nonpreferred host. In turn,
 there is evidence that one of the beetle species is better able to cope
 with the mite species they are typically associated with. The overall
 fitness effect of mites on beetles was negative in our laboratory
 experiments. The Poecilochirus mites studied here are thus specialized
 competitors or parasites of burying beetles.
description: Fitness experiment raw
 dataMites and beetles were
 provided with a carcass; beetles were either N. vespilloides (Nvs) or N.
 vespillo (Nvo); mites were either P. carabi (Pvs), P. necrophori (Pvo) ore
 none; size refers to elytral width of males (m) and females (f); we
 measured when the beetles emerged from the crypt, the number and weight of
 the beetle offspring, and number of mites on beetle parents and elsewhere
 (beetle offspring).raw-data-fitness-exp.csv
DOI: 10.5061/dryad.d4752
title: Data from: The effect of locomotion on the mobilization of minerals from the maternal skeleton

description: Bone is a dynamic tissue from which minerals are deposited or withdrawn
 according to the body’s demand. During late pregnancy and lactation,
 female mammals mobilize mineral from bone to support the ossification of
 offspring skeleton(s). Conversely, in response to mechanical loading,
 minerals are deposited in bone enabling it to develop a stronger
 architecture. Despite their central importance to reproductive performance
 and skeletal integrity, the interactions between these potentially
 opposing forces remains poorly understood. It is possible that
 inter-individual differences in the loading imposed by different forms of
 locomotion may alter the amount of mineral mobilized during reproduction.
 Here, the impact of vertical versus horizontal locomotion on bone
 mobilization was examined during reproduction in the laboratory mouse. The
 vertical, or climbing, group had access to a 60-cm tower, increasing
 strain on their appendicular skeleton. The horizontal, or tunnel, group
 had access to a 100-cm tunnel, which encouraged movements within the
 horizontal plane. Form of locomotion did not impact the amount of bone
 females mobilized during reproduction or the amount of mineral females
 deposited in the litter, but maternal bone architecture differed between
 groups. The climbing group displayed more trabeculae than the tunnel
 group, whereas the tunnel group displayed greater cortical bone mineral
 density mid-shaft. Interestingly, pups born to mothers in the climbing
 group had a higher concentration of total body calcium at 16 days than
 pups of mothers in the tunnel group. As maternal total body calcium
 composition and the amount of calcium invested in the full litter were not
 different between groups, the difference in the relative calcium content
 of pups between groups is not suspected to reflect difference in mineral
 allocation. Future research should consider the impact of maternal
 activity on the efficiency of offspring skeletal ossification via hormones
 and other bioactive factors transferred in utero and in milk.
description: Mus climbing for PLoS
 Onecsv
 file
DOI: 10.5281/zenodo.17971736
title: SHM_415569_HST_3D

description: Photogrammetric 3D model of a Middle Neolithic pottery rim fragment in the Pitted Ware Culture/Fagervik II style collected from Fagervik in Östergötland and 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=667

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/733BFDA2-638D-44D4-A0DB-6A5708FD9856