cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.vt4b8gttk
title: Data from: Increased signal complexity is associated with increased mating success

description: The evolution of complex signaling has often been explored by testing
 multiple functional hypotheses that vary in their underlying assumptions
 about how independent signal components provide selective benefits to
 offset the costs of their production. In the present study, we take a
 different approach to exploring the function of complexity per se. We test
 the hypothesis that increased vibratory signal complexity – based on both
 proportional and temporal patterning - provides selective benefits to
 courting male Schizocosa stridulans wolf spiders. In support of this
 hypothesis, all of our quantified metrics of vibratory signal complexity
 predicted the copulation success of male S. stridulans. The rate of visual
 signaling, which is mechanistically tied to vibratory signal production,
 was also associated with mating success. We additionally found evidence
 that males can dynamically adjust the complexity of their signaling.
 Together, our results suggest that complexity per se may be a target of
 female choice.
DOI: 10.5061/dryad.dfn2z353s
title: Population genomic consequences of life history and mating system adaptation to a geothermal soil mosaic in yellow monkeyflowers (common garden phenotype data)

description: Local selection can promote phenotypic divergence despite gene flow across
 habitat mosaics, but adaptation itself may generate substantial barriers
 to genetic exchange. In plants, life-history, phenology, and mating system
 divergence have been proposed to promote genetic differentiation in
 sympatry. In this study, we investigate phenotypic and genetic variation
 in Mimulus guttatus (yellow monkeyflowers) across a geothermal soil mosaic
 in Yellowstone National Park (YNP). Plants from thermal annual and
 nonthermal perennial habitats were heritably differentiated for life
 history and mating system traits, consistent with local adaptation to the
 ephemeral thermal-soil growing season. However, genome-wide genetic
 variation primarily clustered plants by geographic region, with little
 variation sorting by habitat. The one exception was an extreme thermal
 population also isolated by a 200m geographical gap of no intermediate
 habitat. Individual inbreeding coefficients (FIS) were higher (and
 predicted by trait variation) in annual plants and annual pairs showed
 greater isolation by distance at local (&lt;1km) scales. Finally, YNP
 adaptation does not re-use a widespread inversion that underlies M.
 guttatus life-history ecotypes range-wide, suggesting a novel genetic
 mechanism. Overall, this work suggests that life history and mating system
 adaptation strong enough to shape individual mating patterns does not
 necessarily generate incipient speciation without geographical barriers.
description: This dataset was collected by first author Kory Kolis, as
 described in the paper and readme file. Plants are labelled by parental ID
 (see Table S1 in paper for more infomration on parental collection
 locations), and progeny number (last digit), and their parental collection
 sites were assigned to annual (A) vs. perennial (P) habitat categories. 
 Most families consist of 2 selfed full siblings, but a few families have
 just 1 member.  
description: The column headers are defined in the readme file.
 Missing data for a given trait set (e.g. pollen traits,  floral
 traits, vegetative traits) generally reflect accidents that happened
 during course of the experiment. Examples include the main stem breaking
 off, which would cause us not to collect the final vegetative data (plant
 height, stolon number, branch number), loss of pollen collection tubes (no
 pollen number or pollen viability), or obvious deformity of the first
 flower (in which case floral measures and pollen traits would be
 missing). Empty cells in the data matrix indicate
 missing values.
DOI: 10.5061/dryad.z34tmpgg4
title: Data from: Genotyping-in-Thousands by Sequencing panel development and application for high-resolution monitoring of introgressive hybridization within sockeye salmon

description: Stocking programs have been widely implemented to re-establish extirpated
 fish species to their historical ranges; when employed in species with
 complex life histories, such management activities should include careful
 consideration of resulting hybridization dynamics with resident stocks and
 corresponding outcomes on recovery initiatives. Genetic monitoring can be
 instrumental for quantifying the extent of introgression over time,
 however, conventional markers typically have limited power for the
 identification of advanced hybrid classes, especially at the
 intra-specific level. Here, we demonstrate a workflow for developing,
 evaluating, and deploying a Genotyping-in-Thousands by Sequencing (GT-seq)
 SNP panel with the power to detect advanced hybrid classes to assess the
 extent and trajectory of intra-specific hybridization, using the sockeye
 salmon (Oncorhynchus nerka) stocking program in Skaha Lake, British
 Columbia, as a case study. Previous analyses detected significant levels
 of hybridization between the anadromous (sockeye) and freshwater resident
 (kokanee) forms of O. nerka, but were restricted to assigning individuals
 to pure-stock or “hybrid”. Simulation analyses indicated our GT-seq panel
 had high accuracy, efficiency and power (&gt; 94.5%) of assignment to
 pure-stock sockeye salmon/kokanee, F1, F2, and B2
 backcross-sockeye/kokanee. Re-analysis of 2016/2017 spawners previously
 analyzed using TaqMan assays and otolith microchemistry revealed shifts in
 assignment of some hybrids to adjacent pure-stock or B2-backcross classes,
 while new assignment of 2019 spawners revealed hybrids comprised 31% of
 the population, ~74% of which were B2-backcross or F2. Overall, the GT-seq
 panel development workflow presented here could be applied to virtually
 any system where genetic stock identification and intra-specific
 hybridization are important management parameters.
description: Genotyping-in-Thousands by sequencing (GT-seq) following Campbell
 et al. (2015) <em>Molecular Ecology Resources</em> as modified
 in Schmidt et al. (2020) <em>Molecular Ecology
 Resources.</em>
description: 342_RADseq_baseline.vcf: vcf file of genotypic data at 342 SNPs
 for all baseline individuals used for panel development 
 2016_and_2017_OKR_Onco.vcf: vcf file of genotypic data at 341
 SNPs collected with GT-seq for 2016 and 2017 samples used for comparison
 with previous sequencing methods. 2019_OKR_Onco.vcf:
 vcf file of genotypic data at 341 SNPs collected with GT-seq for 2019
 samples. 342_probeseqs_locusinfo.csv: text file
 containing sequences for the 342 loci where the retained SNPs are located,
 GT-seq genotyping input file Onco_biodata.xlsx:
 spreadsheet containing individual metadata for all samples used including
 sample identifiers, date of sample collection, body length, and
 sex
DOI: 10.5061/dryad.3xsj3txj3
title: Data from: A longitudinal analysis of the growth rate and mass of tail feathers in a great tit population: ontogeny, genetic effects and relationship between traits

description: Feathers have a diversity of functions in birds and are costly to produce,
 so their growth rate and mass can be reliable indicators of nutritional
 condition at the time of production. Despite the potential for feather
 metrics to advance our understanding of foraging, they are underused in
 avian ecology. One reason for this is the difficulty of interpreting
 whether individual variation is driven by ontogenetic, genetic, or
 environmental effects, which is exacerbated by the fact that most analyses
 have been done on cross-sectional data. We addressed this deficit using a
 longitudinal dataset of tail feathers collected from Great tits Parus
 major to test for ontogenetic and genetic effects on growth rate, mass and
 length, while controlling for body/feather size differences and other
 confounding factors. First, we found that the type of moult episode and
 experimentally-induced replacement differentially affected the length,
 mass and growth of feathers, providing evidence of an ontogenetic effect
 that should be considered when comparing these feather traits across
 individuals as a measure of condition. Second, we detected moderate to
 high repeatability and heritability values from parent-offspring
 regression for these three feather traits, which are suggestive of an
 underlying genetic component of variation. Third, we used a mean centring
 within-individual approach to test whether feather growth rate and feather
 mass (length-corrected) are indeed positively correlated with each other
 as overlapping indicators of body condition in birds, and found that this
 association, although positive, is weak and only significant between
 individuals. This suggests that both metrics are not so intimately linked
 as originally thought, and probably have different sensitivities to
 variation in foraging performance and ecological conditions. Together with
 the higher plasticity of feather growth rate compared to feather mass, our
 results support the idea that feather growth rate is better suited for
 examining short-term responses to environmental variation.
DOI: 10.5061/dryad.qv9s4mwgd
title: Dataset: Sanctions and international interaction improve cooperation to avert climate change

description: Imposing sanctions on non-compliant parties to international agreements is
 advocated as a remedy for international cooperation failure. Nevertheless,
 sanctions are costly, and rational choice theory predicts their
 ineffectiveness in improving cooperation. We test sanctions effectiveness
 experimentally in international collective-risk social dilemmas simulating
 efforts to avoid catastrophic climate change. We involve individuals from
 countries where sanctions were shown to be effective (Germany) or
 ineffective (Russia) in increasing cooperation. Here we show that, while
 this result still holds nationally, international interaction backed by
 sanctions is beneficial. Cooperation by low cooperator groups increases
 relative to national cooperation and converges to the levels of high
 cooperators. This result holds regardless of revealing other group
 members' nationality, suggesting that participants' specific
 attitudes or stereotypes over the other country were irrelevant. Groups
 interacting under sanctions contribute more to catastrophe prevention than
 what would maximise expected group payoffs. This behaviour signals a
 strong propensity for protection against collective risks.
description: The dataset was collected in lab experiments conducted with the
 Ztree software (Fischbacher, U. 2007
 z-Tree: Zurich toolbox for ready-made economic experiments. <em>Exp.
 Econ. </em><strong>10</strong>, 171-178.) Raw data have
 been assembled in csv format and analysed with Stata17.
description: Analyses have been conducted with Stata 17. A codebook for the
 variables included in the dataset is uploaded. Raw data
 are provided in csv format. Missing observations are identified with a
 dot, namely with a . sign. Codes to reproduce
 econometrics results, computation of effect sizes and figures
 can be found in the file "Analyses codes for
 reproduction.do",  of which a text version has
 also been uploaded.   A pdf version
 of the stata output has been uploaded.  
 The file Codebook.xlsx includes a description/definition of the
 variables  included in the dataset.  
   The codes in the file "Analyses codes
 for reproduction.do" are organized as follows:
   - From line 106: REGRESSIONS USED IN TABLE 2
 OF MAIN PAPER AND TABLE S11 IN    Supplementary
 Informatio (SI) (Analysis of impact of sanctions - expressed as 
   number of tokens deducted -on cooperation)
   - From line 244: REGRESSIONS REPORTED IN
 TABLE S12 IN SM  (Analysis of impact of sanctions -
 expressed as dichotomous variable    identifying
 whether somone has been sanctioned or not - on cooperation)
   - From line 325: SANCTION AS DEP VAR: TABLE
 S14   (Analysis of determinants sanctions)
    - From line 367: SANCTION AS DEP VAR: TABLE
 S13   (Analysis of determinants sanctions)
    - From line 539: EFFECT SIZES AND
 TESTS   - From line 1029: FIGURES 2
 and 3   The dataset is to be
 intended as property of the authors and  the only
 allowed use is for reproduction of the results included in the
 paper. No other use is allowed.
DOI: 10.5061/dryad.vx0k6djtb
title: Experimental realization of the 1D random field Ising model

description: We have measured magnetic-field-induced avalanches in a square artificial
 spin ice array of interacting nanomagnets. Starting from the ground state
 ordered configuration, we imaged the individual nanomagnet moments after
 each successive application of an incrementally increasing field. The
 statistics of the evolution of the moment configuration show good
 agreement with the canonical one-dimensional random field Ising model. We
 extract information about the microscopic structure of the arrays from our
 macroscopic measurements of their collective behavior, demonstrating a
 process that could be applied to other systems exhibiting avalanches.
description: All image collected with magnetic force microscopy
DOI: 10.5061/dryad.2jm63xsr2
title: Restoration and fuel hazard reduction result in equivalent reductions in Crown fire behavior in dry conifer forests

description: Over the past several decades, the management of historically
 frequent-fire forests in the western U.S. has received significant
 attention due to the linked ecological and social risks posed by the
 increased occurrence of large, contiguous patches of high-severity fire.
 As a result, efforts are underway to simultaneously reduce potential fire
 and fuel hazards and restore characteristics indicative of historical
 forest structures and ecological processes that enhance the diversity and
 quality of wildlife habitat across landscapes. Despite widespread
 agreement on the need for action, there is a perceived tension among
 scientists concerning silvicultural treatments that modify stands to
 optimally reduce potential fire behavior (fuel hazard reduction) versus
 those that aim to emulate historical forest structures and create
 structurally complex stands (restoration). In this work, we evaluated
 thinning treatments in the Black Hills National Forest that exemplify the
 extremes of a treatment continuum that ranges from fuel hazard reduction
 to restoration. The goal of this work was to understand how the differing
 3-dimensional stand structures created by these treatment approaches
 altered potential fire behavior. Our results indicate that restoration
 treatments created higher levels of vertical and horizontal structural
 complexity than the fuel hazard reduction treatments but resulted in
 similar reductions to potential crown fire behavior. There were some
 tradeoffs identified as the restoration treatments created larger openings
 which generated faster mean rates of fire spread; however, these increased
 spread rates did not translate to higher levels of canopy consumption.
 Overall, our results suggest that treatments can create vertical and
 horizontal complexity desired for restoration and wildlife habitat
 management while reducing fire hazard and that they can be used in concert
 with traditional fuel hazard reduction treatments to reduce landscape
 scale fire risk. We also provide some suggestions to land managers seeking
 to design and implement prescriptions that emulate historical structures
 and enhance forest complexity.
DOI: 10.5061/dryad.q573n5tkm
title: Camera traps for monitoring insects - supporting information

description: Insect and pollinator populations are vitally important to the health of
 ecosystems, food production, and economic stability, but are declining
 worldwide. New, cheap, and simple monitoring methods are necessary to
 inform management actions and should be available to researchers around
 the world. Here we evaluate the efficacy of commercially available,
 close-focus automated camera traps to monitor insect-plant interactions.
 We compared two video settings—scheduled and motion-activated—to a
 traditional human observation method. Our results show that camera traps
 with scheduled video settings detected more insects overall than humans,
 but relative performance varied by insect order. Scheduled cameras
 significantly outperformed motion-activated cameras, detecting more
 insects of all orders and size classes. We conclude that scheduled camera
 traps are an effective and relatively inexpensive tool for monitoring
 interactions between plants and insects of all size classes, and their
 ease of accessibility and set-up allows for the potential of widespread
 use. The digital format of video also offers the benefits of recording,
 sharing, and verifying observations.
DOI: 10.5061/dryad.280gb5mrk
title: Supporting Data for: Assessing the potential of amino acid δ13C and δ15N analysis in terrestrial and freshwater ecosystems

description: Understanding the structure and dynamics of food webs requires accurate
 estimates of energy flow among organisms. Bulk tissue carbon (δ13C) and
 nitrogen (δ15N) isotope analysis is often used to this end, however, the
 limitations of this technique can outweigh the benefits. The isotope
 analysis of individual amino acids is being increasingly employed to trace
 energy flow and estimate consumer trophic level. Central to this
 compound-specific approach are the concepts of essential amino acid
 (AAESS) δ13C fingerprinting and amino acid (AA) δ15N
 beta-values, both of which have been understudied and are poorly
 constrained in terrestrial and freshwater producers. We present
 AAESS δ13C data for 112 terrestrial and freshwater producers
 collected from two aridland habitats in the northern Chihuahuan Desert
 (New Mexico, USA) and AA δ15N data for a subset (n=28) of these
 samples. We characterized AAESS δ13C fingerprints by performing
 linear discriminant analysis on the δ13C values of isoleucine,
 leucine, lysine, phenylalanine, threonine, and valine for four producer
 groups – C3 plants, C4 plants, CAM plants, and
 filamentous green algae. We explored potential biochemical mechanisms
 underlying these AAESS δ13C fingerprints by calculating
 differences between the δ13C values of AAESS products
 and their AA precursors. This allowed us to estimate and compare isotopic
 discrimination for specific AAESS synthesis pathways across
 producer groups. We found near perfect separation of AAESS δ13C
 fingerprints among producer groups; all groups reclassified with
 &gt;95% success within our multivariate framework. We also found
 varied isotopic discrimination for specific AAESS synthesis
 pathways among producer groups. Contrary to previous studies, we found no
 differences in beta-values between terrestrial C3 and
 C4 plants for any trophic-source AA pairing. Furthermore, we
 found that Lys δ15N values were less variable and more closely
 related to bulk tissue δ15N values than Phe δ15N values
 in terrestrial and freshwater producers. We conclude that
 AAESS δ13C fingerprints are a higher-resolution tracer for
 freshwater food webs where instream algae have overlapping bulk
 tissue δ13C values with terrestrial C3 plants.
 Additionally, betaGlx-Lys and betaPro-Lys are the best for AA δ15N-based consumer trophic level estimates in freshwater food webs containing both terrestrial and aquatic resources.
DOI: 10.5061/dryad.xpnvx0khd
title: Small fish eat smaller fish: a model of interaction strength in early life stages of two tuna species

description: Fish larvae are rarely a major driver of fish mortality, but tunas can
 produce large batches of larvae that rapidly develop the capacity to kill
 other fish. We combine a model for the killing potential from Atlantic
 bluefin tuna (BFT) larvae on larval albacore (ALB) with field observations
 at a major spawning ground. Both species spawn from June to August, but
 BFT has a narrow spawning peak at the beginning of the season that results
 in priority effects. Our model shows that, following a recent stock
 recovery, BFT larvae have increased their killing pressure, leaving areas
 of up to 1000km2 with &lt;1% chance of ALB daily survival. Such
 increase in killing pressure suggests larval ALB has reduced chances to
 survive, yet in large areas with few BFT other drivers of early survival
 prevail over BFT predation. This shows that strong predatory interactions
 can occur during larval stages in some fishes.
description: <em>Research cruises onboard oceanographic vessels
 collecting plankton samples at a 10-nautical mile
 grid.</em> <em>Plankton samples were
 collected with bongo nets of 90-cm mouth diameter and 500-micron
 mesh-size.</em> <em>Larval tuna were sorted
 and measured in the lab with a camera-attached dissecting microscope and
 an image-analysis software.</em>
description: Data and R code are
 available in Github repository
 https://github.com/dottmann/bluefin_tuna_albacore_piscivory
DOI: 10.5061/dryad.c59zw3r92
title: RNA seq of SiHa WT vs IFITM1/3 KO

description: IFITM proteins play a role in cancer cell progression through
 undefined mechanisms. Here, we propose an emergent role of
 IFITM1/3 regulating protein synthesis. SBP tagged IFITM1 protein
 was used to identify an association of IFITM1 protein with the
 cytosolic isoform of SRSF1 that transports mRNA to the ribosome.
 This cytosolic association was confirmed in situ using proximity
 ligation assays for SRSF1 and IFITM1/3, suggesting a role associated with
 translation. Accordingly, IFITM1/3 were shown to interact with HLA-B mRNA
 in response to IFNγ stimulation using RNA-protein proximity ligation
 assays. In addition, shotgun RNA sequencing in IFITM1/IFITM3 null cells
 and wt-SiHa cells indicated that reduced HLA-B gene expression does
 not account for lowered HLA-B protein synthesis in response to
 IFNγ. Furthermore, ribosome profiling using sucrose gradient sedimentation
 identified a reduction in 80S ribosomal fraction an IFITM1/IFITM3
 null cells compared to their wild-type counterpart, partially reverted by
 IFITM1/3 complementation. Our data all together link the binding
 of IFITM1/3 proteins to HLA-B mRNA and SRSF1 as a mechanism to
 catalyze the synthesis of target proteins, suggesting an RNA
 chaperonin role for IFITM1/3 proteins.
DOI: 10.5061/dryad.h9w0vt4kj
title: Species interactions in three Lemnaceae species growing along a gradient of zinc pollution

description: We tested whether the presence of a second species influenced the growth
 rate of the three duckweed species Lemna minor, Lemna gibba, and Lemna
 turionifera. We used four different Zn concentrations in a replicated
 microcosm experiment under sterile conditions, either growing the species
 in isolation or in a 2-species mixture. The cultures were kept in an
 incubator 20 °C with a light regime of 16/8h light/dark for 17 days. There
 is one data set with the number of fronds (individuals) counted over 8
 times over a period of 17 days. The metadata is contained in the data
 file. 
description: There were six different compositions (three isolated, three
 mixed), four Zn concentration levels, and every treatment was replicated
 three times, thus in total, there were 72 cultures.  The number of fronds were counted
 8 times over the course of 17 days. Completely white (dead) fronds were
 not included in the total number of fronds. During the experiment, the
 species got mixed in a small number of bottles. Due to their morphological
 similarity, the species could not be reliably distinguished anymore and
 consequently any data from these bottles post the mixing event were
 excluded from the data analyses (listed as "NA" in the data
 file). The data
 was collected in 2021.