cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.x95x69pk5
title: Challenges and opportunities of species distribution modelling of terrestrial arthropod predators

description: Aim. Species distribution models (SDMs) have emerged as essential tools in
 the equipment of many ecologists, useful to explore species distributions
 in space and time and answering an assortment of questions related to
 biogeography, climate change biology and conservation biology.
 Historically, most SDM research concentrated on well-known organisms,
 especially vertebrates. In recent years, these tools are becoming
 increasingly important for predicting the distribution of understudied
 invertebrate taxa. Here, we reviewed the literature published on main
 terrestrial arthropod predators (ants, ground beetles and spiders) to
 explore some of the challenges and opportunities of species distribution
 modelling in mega-diverse arthropod groups. Location. Global. Methods.
 Systematic mapping of the literature and bibliometric analysis. Results.
 Most SDM studies of animals to date have focused either on broad samples
 of vertebrates or on arthropod species that are charismatic (e.g.
 butterflies) or economically important (e.g. vectors of disease, crop
 pests and pollinators). We show that the use of SDMs to map the geography
 of terrestrial arthropod predators is a nascent phenomenon, with a
 near-exponential growth in the number of studies over the past 10 years
 and still limited collaborative networks among researchers. There is a
 bias in studies towards charismatic species and geographical areas that
 hold lower levels of diversity but greater availability of data, such as
 Europe and North America. Conclusions. Arthropods pose particular
 modelling challenges that add to the ones already present for vertebrates,
 but they should also offer opportunities for future SDM research as data
 and new methods are made available. To overcome data limitations, we
 illustrate the potential of modern data sources and new modelling
 approaches. We discuss areas of research where SDMs may be combined with
 dispersal models and increasingly available phylogenetic and functional
 data to understand evolutionary changes in ranges and range-limiting
 traits over past and contemporary time scales.
description: See read_me.pdf file. In re-using the data, please cite the
 original publication in Diversity and Distribution. The R code used for reproducing the analyses is available on GitLab (https://gitlab.com/DenisLafage/sdm_review).
DOI: 10.5061/dryad.qrfj6q5h6
title: Designing industry 4.0 implementation from the initial background and context of companies

description: Industry 4.0 is a promising concept that allows industries to meet
 customers’ demands with flexible and resilient processes, and highly
 personalised products. This concept is made up of different dimensions.
 For a long time, innovative digital technology has been thought of as the
 only dimension to succeed in digital transformation projects. Next, other
 dimensions have been identified such as organisation, strategy, and human
 resources as being key while rolling out digital technology in factories.
 From these findings, researchers have designed industry 4.0 theoretical
 models and then, built readiness models that allow for analysing the gap
 between the company initial situation and the theoretical model.
 Nevertheless, this purely deductive approach does not take into
 consideration a company’s background and context, and eventually favours
 one single digital transformation model. This article aims at analysing
 four actual digital transformation projects and demonstrating that the
 digital transformation’s success or failure depends on the combination of
 two variables related to a company’s background and context. This research
 is based on a double approach: deductive and inductive. First, a
 literature review has been carried out to define industry 4.0 concept and
 its main dimensions and digital transformation success factors, as well as
 barriers, have been investigated. Second, a qualitative survey has been
 designed to study in-depth four actual industry digital transformation
 projects, their genesis as well as their execution, to analyse the key
 variables in succeeding or failing. 46 semi-structured interviews were
 carried out with projects’ members. The interviews have been analysed with
 thematic content analysis. Then, each digital transformation project has
 been modelled regarding the key variables and analysed with regards to
 succeeding or failing. Investigated projects have consolidated the models
 of digital transformation. Finally, nine digital transformation models
 have been identified. Industry practitioners could design their digital
 transformation project organisation and strategy according to the right
 model.
description: This study relies on a qualitative survey carried on four french
 industries based on semi-structured interviews. The
 method used to analyse the collected data is the analysis content and
 especially thematic analysis.
description: The study addressed strategic activities within companies and all
 interviews are confidential. Only a synthesis of case
 studies is provided.
DOI: 10.5061/dryad.zs7h44j9v
title: Comparing the appetitive learning performance of six European honeybee subspecies in a common apiary

description: Raw data on gustatory response scores and learning performance of
 individual worker bees belonging to one of six subspecies of the Western
 honeybee (A. mellifera). All study colonies were kept together in a common
 apiary to ensure a uniform environment. Individual bees were tested in
 standardized protocols for classical olfactory learning and gustatory
 responsiveness.
description: Worker offspring from the different subspecies were compared in
 classical olfactory learning performance using the proboscis extension
 response. Prior to conditioning, individual sucrose responsiveness was
 measured to investigate whether possible differences in learning
 performances were due to differential responsiveness to the sugar water
 reward.
description: Data is given in a long format with each row representing an
 individual bee. Response counts are coded binary with "1"
 representing a response and "0" representing no
 response.
DOI: 10.5061/dryad.crjdfn357
title: A single intronic SNP in splicing site of steroidogenic enzyme hsd17b1 is associated with phenotypic sex in oyster pompano, Trachinotus anak

description: Teleosts show varied master sex determining (MSD) genes and sex
 determination (SD) mechanisms, with frequent turnovers of sex chromosomes.
 Tracing the origins of MSD genes and turnovers of sex chromosomes in a
 taxonomic group is of particular interest in evolutionary biology. Oyster
 pompano (Trachinotus anak), a marine fish, belongs to the family
 Carangidae, in which 17b-hydroxysteroid dehydrogenase 1 (hsd17b1) has
 repeatedly evolved to a MSD gene. Using whole genome resequencing, a
 single SNP at Chromosome 24 was identified to be strictly associated with
 phenotypic sex, with females being the heterozygous sex. This SNP is
 located in a splicing site at the first exon/intron boundary of hsd17b1.
 The Z-linked SNP results in malfunction of all spliced isoforms, whereas
 the W-linked isoforms were predicted to have open reading frames (ORF)
 that are conserved among vertebrates, suggesting that hsd17b1 is a female
 determining gene. The differential alternative splicing patterns of ZZ and
 ZW genotypes were consistently observed both in undifferentiated stages
 and differentiated gonads. We observed elevated recombination around the
 SD locus and no differentiation between Z and W chromosomes. The extreme
 diversity of mutational mechanisms that hsd17b1 evolves to a MSD gene
 highlights frequent in situ turnovers between sex chromosomes in the
 Carangidae.
DOI: 10.5061/dryad.x95x69pk6
title: Thirty-six consecutive months of bird point count data from twenty count sites in a Mexican wetland

description: This data comprises point count abundance values for birds recorded over
 36 consecutive months at 20 point count sites in a coastal lagoon in
 Oaxaca, southwest Mexico (15°49′26″ N–56 96°34′53″ W). Twenty-four months
 of point counts were done prior to Hurricane Carlotta (June 2010 to May
 2012) and 12 months post-hurricane (June 2012 to May 2013).
description:  Birds were identified by sight and/or by their vocalizations,
 with the aid of binoculars and field guides. Sites were accessed on foot
 or by paddle boat, during the first two hours of daylight.
description: Column headers are bird species names, row 2 contains a grouping
 variable for trophic guilds, and row names give the month, year, count
 site and study year. Please refer to the file READ
 ME_Ruiz&Rangel.txt for details.
DOI: 10.5061/dryad.pnvx0k6np
title: Alternative reproductive tactic in male Drosophila prolongata

description: Species with intense male-male competition for access to
 females often show alternative reproductive
 tactics (ARTs) where males of lower competitive ability adopt
 a sneaky behavior to gain access to
 mates. These
 ARTs are usually associated with intrasexual dimorphisms, in that males with distinct morphologies show different tactics. In some cases, however, males adopt different tactics without being dimorphic. Male Drosophila prolongata exhibit continuous variation in body size and shape, with enlarged forelegs that they use in male-male contests and in courtship, including stimulation of the female’s abdomen. During this ‘leg vibration’, however, nearby males can intercept the courted female and mate without their own courtship. Here, we studied the causes and consequences of these different mating tactics in competitive mating trials between males varying in their size and shape. We found that male mating tactics were condition-dependent. Whereas large, high-condition males were more likely to show leg vibration in their courtship, smaller, lower-condition males were more likely to intercept. However, the number of offspring produced was independent of male condition and reproductive tactic. We discuss possible scenarios for the evolution and maintenance of the ARTs and some future directions for the study of ARTs in this species and in general.
description: Data were collected as described in paper.
DOI: 10.5061/dryad.x95x69pk7
title: Lake water and sediments chemistry data along with temporal data on environmental drivers

description: Increasing iron (Fe) concentrations are found in lakes on a wide
 geographical scale but exact causes are still debated. The observed trends
 might result from increased Fe loading from the terrestrial catchment, but
 also from changes in how Fe distributes between the water column and the
 sediments. To get a better understanding of the causes we investigated
 whether there has been any change in the sediment formation of Fe sulfides
 (FeS) as an Fe sink in response to declining atmospheric sulfur (S)
 deposition during recent decades. For our study, we chose Lake Bolmen in
 southern Sweden, a lake for which we confirmed that Fe concentrations in
 the water column have strongly increased along with water color during
 1966 to 2018. Our investigations showed that Fe accumulation and
 speciation varied independently of S accumulation patterns in the Lake
 Bolmen sediment record. Thus, we were not able to relate the positive
 trend in Fe concentrations to reduced FeS binding in the sediments.
 Furthermore, we found that Fe accumulation rates increased along with lake
 Fe concentrations, indicating that increased catchment loading rather than
 a change in the distribution between the sediments and the water column
 has driven the increase in Fe concentrations. The increased loading may be
 due to land-use change in the form of an extensive expansion of coniferous
 forest during the past century. Altered forest management practices and
 increased precipitation may have led to enhanced weathering and erosion of
 organic soil layers under aging coniferous forest.
description: The dataset contains data on water chemistry and the chemical
 composition of sediments in Lake Bolmen, southern Sweden. The water
 chemistry data that was used to analyze temporal changes in iron, water
 color, sulfate and pH in the three main inflows to Lake Bolmen and in the
 lake outflow was collected by two monitoring initiatives. Samples were
 analyzed by standard limnological methods. Sediment samples were collected
 in 2015 using a gravity corer in the deepest lake basin at 35 m depth. One
 sediment core was sliced and the freezedried subsamples were used for
 <sup>210</sup>Pb dating and analyzed for several elements. An
 intact frozen sediment core was scanned with a XRF analyzer and subsamples
 were analyzed with X-ray absorption spectroscopy (XAS). The iron K-edge
 X-ray absorption spectra were further analyzed with linear combination
 fitting and first shell analyses to receive information on iron speciation
 in the lake sediments.
description: A more detailed description of the dataset can be found in the
 uploaded README file.
DOI: 10.5061/dryad.dfn2z3530
title: Native ants help to spread an invasive African grass in the Cerrado

description: Plant-animal interactions may facilitate biological invasions. The African
 grass Urochloa decumbens is an aggressive invader in the Cerrado. We
 demonstrate that native ants are dispersing the seeds to short distances,
 allowing the gradual spread of the invasive to sites without the need of
 great anthropogenic soil disturbances.
description: We retrieved seeds of the invasive African grass Urochloa
 decumbens from ant nests (N = 21) and paired-control plots found at three
 transects in a Cerrado. Seeds were inspected and classified as filled,
 damaged or empty. Filled seeds were further used in seed germination and
 seed viability trials.
description: No missing values.
DOI: 10.5061/dryad.95x69p8mf
title: Sabal minor fruit floatability data

description: Sabal minor is a member of Arecaceae, the palm family, and is confined to
 lower latitudes in both western hemispheres. Diaspore viability,
 approximated by the floatability of fruits, was used to evaluate
 distribution by hydrochory. Fruits were harvested from a single population
 in late winter 2018-2019. A diaspore buoyancy test was conducted. Fruits
 were subjected to three distilled water-based salinity regimes of 0%, 1%,
 and 5%. In addition, a single ambient water solution, measured at 1%
 salinity, was obtained from the open waters of Back Bay, VA constituting a
 fourth treatment. Three replicates of each salinity treatment were
 established. For each replicate, 50 fruits were randomly selected and
 placed in a beaker filled with 500 ml of treatment solution. Observations
 were recorded daily over a 32-day period as the number of fruits that
 sank. Statistical analyses were performed using two-sample t-tests with 0%
 NaCl concentration as the control. Results indicate no significant
 difference between treatment groups at the ⍺=0.05 level: 1% NaCl
 p=0.11643, 1% NaCl BBW p= 0.265754 and 5% NaCl p=0.710503.
description: The concentration level data provided for each of the four
 treatment levels is the average of three replicates. 0%
 NaCl was used as statistical control.
DOI: 10.5061/dryad.3xsj3txhj
title: De novo genome assembly of Kallima inachus

description: Oakleaf butterflies in the genus Kallima have a polymorphic wing
 phenotype, enabling these insects to masquerade as dead leaves. By
 studying mechanisms that shape the genetic and species diversity of these
 butterflies, a new perspective can be provided to understand the
 evolutionary innovation driven by geographic changes and natural
 selection. We found that leaf wing polymorphism in Kallima butterflies is
 controlled by the wing patterning gene cortex. We hypothesized that
 multiple mechanisms may independently lead to the reduction or suppression
 of recombination among different cortex haplotypes. To test this
 hypothesis, we performed Nanopore re-sequencing and de novo genome
 assembly for 4 Kallima inachus individuals and obtained 4 individual
 genomes. We identified two chromosomal inversions spanning these
 haplotypes.
description: For Nanopore sequencing,
 genomic DNA was isolated from adult butterfly thoracic tissues from
 individuals representing the <em>veined</em>,
 <em>scrambled</em>, <em>rippled</em>,
 and <em>moldy</em> wing forms. The long-read Nanopore
 sequencing library was prepared using a SQK-LSK109 Ligation Sequencing Kit
 and sequenced on the Nanopore promethION platform at GrandOmics.
 Low-quality Nanopore
 sequencing data were filtered from raw reads using Nanofit v2.3.0. De novo
 genome assembly was performed using NextDenovo v2.2-beta.0 (https://github.com/Nextomics/NextDenovo), and base errors were further corrected with Illumina sequencing data using NextPolish v1.1.0
description: Sample Taxon Morph Genotype Sex Location Y2
 <em> Kallima inachus
 chinensis</em> <em>scrambled</em> <em>SS</em> male Leshan
 M2 <em>moldy</em> <em>MP</em> female Leshan
 I1 <em>veined</em> <em>VP</em> male Leshan
 R1 <em>rippled</em> <em>RP</em> male Leshan
 
 Here
 shows the sample information of the 4 <em>Kallima inachus</em>
 individuals. The raw sequence data are available from the NCBI Short-Read
 Archive (SRA) database (accession numbers
 PRJNA698433).
DOI: 10.5061/dryad.w0vt4b8sm
title: A hotspot of groundwater amphipod diversity on a crossroad of evolutionary radiations

description: Supplementary data to article entitled A hotspot of groundwater
 amphipod diversity on a crossroad of evolutionary radiations Groundwater
 harbours an exceptional fauna and provides invaluable ecosystem services,
 yet is among the least explored and consequently least protected
 ecosystems. Successful protection of its biodiversity depends on complete
 species inventories, knowledge of species spatial distribution, and
 quantification of biodiversity patterns, as well as disentanglement of the
 processes that shaped biodiversity patterns. We studied the hyper-speciose
 amphipod genus Niphargus as a model system within a global
 subterranean biodiversity hotspot, the Western Balkans (Europe). We linked
 the biodiversity patterns with possible underlying processes and discuss
 the needs to include information on different origins of biodiversity into
 conservation approaches. We analysed biodiversity patterns
 of Niphargus using two biodiversity metrics, species
 richness and phylogenetic diversity, on a grid-based approach. To account
 for high cryptic diversity, we replaced nominal species with taxonomic
 units identified in unilocus delimitations (MOTUs). We built a
 time-calibrated multilocus phylogeny of 512 Niphargus MOTUs from
 within and outside the study area, and calculated Faith's
 phylogenetic diversity, standardized effect sizes of phylogenetic
 diversity, and residual of phylogenetic diversity regressed onto species
 richness. Within the study area, we recognized 245 MOTUs, belonging to
 different Niphargus clades. Species richness is highest in a
 north-western hotspot, although some species-rich cells were detected also
 in the south-east. High phylogenetic diversity coincides with high species
 richness in the north-west, while in the south-east it is lower than
 expected. We have shown that species richness does not predictably
 correlate with phylogenetic diversity. This difference suggests that
 different processes have led to the formation of species-rich areas in the
 Western Balkans: through a combination of dispersal and speciation in the
 north-west, and local radiation in the south-east, respectively. This
 calls for caution in conservation strategies relying solely on number of
 species and may change the view on conservation priorities within this
 region. The dataset includes R-script, together with all raw data needed
 to reproduce the analyses: File "beast_analysis.xml" includes
 alignments and settings used for BEAST2 analysis. R script
 "20220124_niphargus_wbalkans.R" includes the code used in
 production of diversity pattern analyses. To run the script set working
 directory (commented) and unzip the "data" folder in the working
 directory. Folder "data.zip" includes raw data needed to run the
 script: species_occurence.csv, map shape files and beast.tree
 file.
DOI: 10.25338/b85637
title: Variation in immunity and health in response to introduced avian malaria in an endemic Hawaiian songbird

description: Emerging infectious diseases are spreading at unprecedented rates and
 affecting wildlife worldwide, with particularly strong effects on islands.
 Since the introduction of avian malaria to Hawaii a century ago, the
 disease has contributed to the decline and extinction of several endemic
 Hawaiian honeycreeper species. At low elevation, where avian malaria is
 prevalent, Hawaii Amakihi (Chlorodrepanis virens) honeycreeper populations
 have experienced strong selection by the disease and have evolved
 increased malaria resilience, the ability to recover from infection. The
 goals of this study were to describe malaria infection rates across Hawaii
 Island, to examine the role of innate immunity in malaria resilience, and
 to determine the effects of resilience and chronic infection on Amakihi
 health. We measured malaria infection and metrics of innate immunity and
 health in low elevation Amakihi populations, which are more resilient to
 malaria, and high elevation populations, which have experienced weak
 malaria selection and are less resilient to malaria. Avian malaria
 infection was higher at low than high elevation. Measures of innate
 immunity were higher in low than high elevation Amakihi, but also depended
 on whether the birds were from the leeward side of the island (low
 rainfall) or windward side of the island (high rainfall) and whether they
 were free-living or captive. Regarding measures of health, body condition
 was better in malaria-infected than uninfected Amakihi, while hematocrit
 did not vary by malaria infection but was higher in high than low
 elevation birds. These are among the first results to describe variation
 in immunity and health according to avian malaria selection and infection
 in Hawaiian honeycreepers. Understanding the impacts of introduced
 diseases on island species, which are particularly susceptible to novel
 pathogens, will provide critical insight into how introduced disease may
 affect endangered species.
description: The corresponding AMAKIHI_IMMUNITY_HEALTH_readme.txt file
 contains information about each variable included in the
 dataset, including units, how it was obtained and/or how it was
 calculated. NA represents data that is not available. Additional
 information about how data was obtained can be found in the corresponding
 manuscript.