cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.00000001v
title: Data from: Phenotypic, ecological and genomic variation in common bully (Gobiomorphus cotidianus) populations along depth gradients in New Zealand's Southern Great Lakes

description: Depth gradients in lakes are often key drivers of population divergence
 and speciation in fishes. New Zealand has many deep lakes but no known
 profundal specialist fishes or cases of intralacustrine speciation. We
 sampled a native benthic fish, the common bully, from 5–90 m depth in four
 South Island lakes, to test for morphological, ecological, or genetic
 differentiation associated with depth. Deeper fish consistently had
 narrower bodies, while other morphological traits showed variable
 relationships with depth. Carbon and nitrogen stable isotope values of
 fish increased with depth, largely tracking isotopic trends with depth of
 benthic invertebrate prey. Genotyping-by-sequencing showed some
 genome-wide differentiation between two of the lakes, but no evidence for
 within-lake genetic structuring along depth gradients. These results
 indicate that individual bullies associate with shallower or deeper
 habitats within their lifetimes, but we found no evidence of progress
 toward genetic divergence within lakes. The apparent lack of
 intralacustrine genetic divergence in New Zealand's fishes may be
 explained by a combination of environmental factors and constraints
 intrinsic to its marine-derived freshwater fish fauna.
description: Common bullies (<em>Gobiomorphus cotidianus</em>)
 were collected at five depths in four deep New Zealand lakes. Samples were
 used to compare population structure (size and sex), morphology, and diet
 (gut contents and stable isotopes) across depths. In two lakes
 genotyping-by-sequencing (GBS) was used to test for genomic variation
 across depths. 
description: README files provided for GBS analysis and for all other bully
 data, as well as R code for running analyses.
DOI: 10.15468/dl.ku74dv
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "CatalogNumber" : [
 "is one of (PDD 90182, PDD 90216, PDD 90256, PDD 90443, PDD 90450, PDD 90549, PDD 90674, PDD 90678, PDD 90691, PDD 90793, PDD 90847, PDD 91010, PDD 91179, PDD 91320, PDD 91401, PDD 91409)"
 ]
}

 The dataset includes 16 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002409-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.dr7sqv9w6
title: A metacommunity approach for detecting species influenced by mass effect

description: 1. Mass effect, allowing species to persist in unfavourable habitats, and
 dispersal limitation, preventing species from reaching favourable
 habitats, are the two major dispersal processes. While dispersal
 limitation can be detected by experimental or modeling techniques, mass
 effect is more challenging to evaluate, which hampers our ability to
 disentangle the influence of the environment vs. dispersal on species
 distribution. This is undesirable for biomonitoring programs built on
 known species-environment relationships. 2. We developed an approach for
 detection of species influenced by mass effect. We tested it on stream
 diatoms, a widely used taxonomic group for stream biomonitoring, from four
 French watersheds. This approach combined (1) an appropriate spatial
 framework, the Asymmetric Eigenvector Map (AEM), used in species
 distribution modeling to measure the relative influence of dispersal vs.
 niche processes, (2) an analysis of negative co-occurrence patterns to
 separate mass effect from dispersal limitation, and (3) a measurement of
 niche breadths to distinguish between non-spatially structured generalists
 and species influenced by mass effect. 3. We propose that species
 characterized by low negative co-occurrence values, a high correlation to
 spatial factors and average to low niche breadths are sensitive to mass
 effect. 4. Synthesis and applications: We suggest that the sensitivity of
 species towards mass effect should represent a new ecological trait to be
 considered for fundamental and applied issues concerning ecology and water
 quality assessment. Almost all of the species identified here as
 influenced by mass effect are contributing to the calculation of different
 diatom-based indices (e.g., Biological Diatom Index or Specific
 Pollution-sensitivity Index) and should be treated with caution when
 assigning ecological status classes to water bodies.
DOI: 10.5061/dryad.c866t1g4c
title: Existing well locations in Cebu and Mactan islands, Philippines (CSV format)

description: This dataset consist of comma-separated values files containing the
 coordinate location of wells in Cebu and Mactan islands, Philippines
 expressed as points x (longitude) and y (latitude) in decimal degrees. The
 dataset is partitioned between a training and test subset at a proportion
 of 70% and 30%, respectively. The sources of the data were two government
 agencies tasked to manage the water resources in the Philippines.
 Shapefiles can be generated directly from the dataset using appropriate
 GIS software. 
description: The data were gathered by the National Water Resources Board
 (NWRB), as of April 2019, and Local Water Utilities Administration (LWUA)
 of the Philippines, as of January 2020. The NWRB sent their primary data
 directly to the authors by e-mail, 26 July 2019. The LWUA databank is
 accessible (as of June 2020) through http://122.54.214.222/databank/. The CSV files consolidate the information originating from the NWRB and LWUA data. Duplicate samples in this consolidated dataset were removed. 
description: The information from the dataset can generate shapefiles (.shp)
 projected in WGS 1984.
DOI: 10.5061/dryad.1ns1rn8r7
title: Laminar-specific cortico-cortical loops in mouse visual cortex

description: Many theories propose recurrent interactions across the cortical
 hierarchy, but it is unclear if cortical circuits are selectively wired to
 implement looped computations. Using subcellular
 channelrhodopsin-2-assisted circuit mapping in mouse visual cortex, we
 compared feedforward (FF) or feedback (FB) cortico-cortical synaptic input
 to cells projecting back to the input source (looped neurons) with
 neighboring cells projecting to a different cortical or subcortical area
 (non-looped neurons). Despite having different laminar innervation
 patterns, FF and FB afferents showed similar cell-type selectivity, making
 stronger excitatory connections with looped neurons versus non-looped
 neurons in layer (L) 5 and L6, but not in L2/3. In most cases, these
 stronger connections in looped L5 neurons were located on their apical
 tufts, but not on their perisomatic dendrites. Our results reveal that
 cortico-cortical connections are selectively wired to form monosynaptic
 excitatory loops and support a differential role of supragranular and
 subgranular neurons in hierarchical recurrent computations.
description: The dataset consists of subcellular channelrhodopsin-assisted
 circuit maps (sCRACM) of cortico-cortical inputs to projection neurons in
 mouse visual cortex (areas V1, LM and AM). Electrophysiology traces
 and images of the recorded cells were collected using Ephus ( Suter et al,
 Frontiers in neural circuits 2010). Raw data is saved as a Matlab
 compatible structure (.xsg) containing all the relevant metadata. For each
 neurons, we also include analyzed sCRACM maps as a Matlab .m
 file. For a subset of the recorded cells, the dataset
 also includes manual reconstructions of biocytin-filled dendrites using
 Neurolucida software and saved in ASCII format (.ASC).
description: The dataset is organized in 16 folders containing sCRACM maps in
 pairs of neighboring cells of either L2/3, L5, or L6 obtained by
 photostimulation a given cortico-cortical projection. A text file is
 included that lists pairs that were recorded in the vicinity of each other
 and their projection pattern as determined by the presence of fluorescent
 traces in their cell bodies. Only a subset of the
 recorded neurons has data on dendritic morphology.
DOI: 10.5061/dryad.ns1rn8ppx
title: Data from: GPCR genes as activators of surface colonization pathways in a model marine diatom

description: Surface colonization allows diatoms, a dominant group of phytoplankton in
 oceans, to adapt to harsh marine environments while mediating biofoulings
 to human-made underwater facilities. The regulatory pathways underlying
 diatom surface colonization, which involves morphotype switching in some
 species, remain mostly unknown. Here, we describe the identifications of
 61 signaling genes, including G-protein-coupled receptors (GPCRs) and
 protein kinases, that are differentially regulated during surface
 colonization in the model diatom species, Phaeodactylum tricornutum. We
 show that the transformation of P. tricornutum with constructs expressing
 individual GPCR genes induces cells to adopt the surface colonization
 morphology. P. tricornutum cells transformed to express GPCR1A display 30%
 more resistance to UV light exposure than their non-biofouling wild type
 counterparts, consistent with increased silicification of cell walls
 associated with the oval-biofouling morphotype. Our results provide a
 mechanistic definition of morphological shifts during surface colonization
 and identify candidate target proteins for the screening of eco-friendly,
 anti-biofouling molecules.
description: Total RNA extraction was performed using the MagMAX-96 Total RNA
 Isolation kit AM1830 with all necessary reagents (Thermo Fisher Scientific
 Inc.) according to the manufacturer’s instruction. The complementary DNA
 (cDNA) libraries were prepared using the TruSeq RNA Library Preparation
 kit v2 (Illumina) according to the manufacturer’s instruction as
 previously described (Fu et al., 2017). After quality inspection, the
 library was quantified by quantitative PCR for cluster generation on the
 Bot system and then sequenced using paired-end sequencing of 2 × 100–base
 pair read length on an Illumina HiSeq 2500 system.
description: These are four groups of RNA-seq data with triplicates of
 biological samples for each group
DOI: 10.5061/dryad.p8cz8w9mt
title: Screening for simple sequences repeat markers in Hemileia vastatrix

description: Hemileia vastatrix is the most important fungal pathogen
 affecting Coffea arabica and has invaded nearly every
 coffee-growing region in the world and the causal agent of recurrent
 disease epidemics. The development of resistant varieties of coffee
 against H. vastatrix requires fundamental understanding
 of the biology of the fungus. However, the complete life cycle
 of H. vastatrix remains unknown and conflicting studies
 exist as to whether the fungus is capable of sexual reproduction or not.
 Here we used population genetics of H.
 vastatrix to determine the reproductive mode of the fungus across
 most of its current geographic range. The genetic relationships
 among H. vastatrix isolates were determined using eight
 simple sequence repeat markers (SSRs) developed for this
 study. The analyses of the standardized index of
 association (rbarD = 0.114 - 0.557, p = 0.001),
 Hardy Weinberg equilibrium (p ≤ 0.05), and clonal richness (0 - 0.19) all
 strongly support asexual reproduction of H. vastatrix in
 all sampled areas. Similarly, the Minimum Spanning
 Network reinforces the interpretation of clonal reproduction in
 the global H. vastatrix population. These findings may
 have profound implications for resistance breeding and other programs
 against H. vastatrix.
description: Screening of potential microsatellite loci was performed using a
 modified M13-tailed primer method (Schuelke, 2000), as previously
 described (Díaz-Valderrama & Aime, 2016; Koch & Aime,
 2018). We accomplished an initial screening of ~100 microsatellite markers
 (Table S2) located on separate scaffolds on a set of six <i>H.
 vastatrix</i> specimens collected from three geographical regions
 (Puerto Rico, Jamaica, and Cameroon). 
description: This is the file from SSR screening analysis.
DOI: 10.5281/zenodo.18388064
title: DIVINE: Andalusia Agroclimatic Information Network Historic Datasets - HUELVA - (June 24 - May 25)

description: This dataset contains high-resolution daily agroclimatic data from the RIA (Red de Información Agroclimática de Andalucía) the andalusian agroclimatic information network, managed by IFAPA. The data has been collected as part of the DIVINE project to support research in precision agriculture, water management, and climate adaptation in Southern Spain.

The dataset covers the period from June 1, 2024, to May 31, 2025, providing key parameters such as temperature (mean, max, min), humidity, wind speed, solar radiation, precipitation, and calculated ETo (Evapotranspiration) using the Penman-Monteith method.

Geographic Coverage and Station Distribution: The dataset includes part of the processed records from 123 monitoring stations distributed across the 8 provinces of Andalusia. In this case the data includes the ones in Huelva:

Data Format:





Format: JSON (JavaScript Object Notation).




Naming Convention: 34 [Province_ID] [Station_ID] DIVINE [Station_Name] ([Province]).json




Coordinate System: WGS84 (included within the metadata of individual station files).



Source: Data retrieved from the official IFAPA RIAWS API (Junta de Andalucía).
DOI: 10.5281/zenodo.18388065
title: DIVINE: Andalusia Agroclimatic Information Network Historic Datasets - HUELVA - (June 24 - May 25)

description: This dataset contains high-resolution daily agroclimatic data from the RIA (Red de Información Agroclimática de Andalucía) the andalusian agroclimatic information network, managed by IFAPA. The data has been collected as part of the DIVINE project to support research in precision agriculture, water management, and climate adaptation in Southern Spain.

The dataset covers the period from June 1, 2024, to May 31, 2025, providing key parameters such as temperature (mean, max, min), humidity, wind speed, solar radiation, precipitation, and calculated ETo (Evapotranspiration) using the Penman-Monteith method.

Geographic Coverage and Station Distribution: The dataset includes part of the processed records from 123 monitoring stations distributed across the 8 provinces of Andalusia. In this case the data includes the ones in Huelva:

Data Format:





Format: JSON (JavaScript Object Notation).




Naming Convention: 34 [Province_ID] [Station_ID] DIVINE [Station_Name] ([Province]).json




Coordinate System: WGS84 (included within the metadata of individual station files).



Source: Data retrieved from the official IFAPA RIAWS API (Junta de Andalucía).
DOI: 10.15468/dl.p5d4uj
title: Occurrence Download

description: A dataset containing 611 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Romania",
 "DatasetKey is one of (iNaturalist Research-grade Observations, Observation.org, Nature data from around the World)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Bombina variegata"
 ]
}

 The dataset includes 611 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002411-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9p8cz8wd3
title: Variation in susceptibility of Eucalyptus grandis and selected hybrid clones to two termite species Macrotermes bellicosus and M. subhyalinus in Uganda

description: The maximum productivity of plantation forestry and its role in climate
 change mitigation, adaptation and resilience cannot be met without proper
 management. Termites in the genus Macrotermes have been reported as a
 major challenge to Eucalyptus plantation forestry establishment. The
 current study evaluated the susceptibility of four Eucalyptus hybrid
 clones; GU 7, GC 796, GC 550 and GC 796/2 and E. grandis to the most
 damaging Macrotermes bellicosus (Smeathman) and Macrotermes
 subhyalinus (Rambur) to identify tolerant material that can be planted in
 high incidence areas. The study involved exposure of moisture dry pieces
 of wood from E. grandis and the four hybrid clones to damage by M.
 bellicosus and M. subhyalinus. Results confirmed that M. bellicosus is the
 most aggressive. Results further revealed that E. grandis and GC 550 are
 the most susceptible whereas GC 796 is the most tolerant clone. The
 findings from the study will contribute to improved management of termites
 by planting tolerant material in high risk areas.
description: The study
 involved exposure of moisture dry pieces of wood from <i>E.
 grandis</i> and the four hybrid clones to damage by <i>M.
 bellicosus</i> and <i>M.
 subhyalinus</i>.
DOI: 10.5061/dryad.9ghx3fffd
title: Data from: First record of organic-walled microfossils from the Tonian Shiwangzhuang Formation of the Tumen Group in western Shandong, North China

description: Organic-walled microfossils offer an important window onto the biospheric
 evolution in pre-Cryogenian and provide biostratigraphic implications for
 many Proterozoic fossiliferous sequences which are poorly age constrained
 for the lack of reliable radiometric date. Recently, macroscopic
 carbonaceous compression fossils have been reported for the first time
 from the Tonian Shiwangzhuang Formation of the Tumen Group in western
 Shandong, North China. However, organic-walled microfossils have never
 been discovered in the Shiwangzhuang Formation before. To improve our
 knowledge about Proterozoic biodiversity in North China, we conducted a
 micropaleontological survey on the argillaceous limestone samples of the
 Shiwangzhuang Formation, which also contain macroscopic carbonaceous
 compression fossils, from the Baishicun section in Anqiu, Western
 Shandong, North China. Our investigation shows that the Shiwangzhuang
 microfossil assemblage is dominated by smooth-walled sphaeromorphic
 acritarchs and cyanobacterium-like filaments and relatively low abundance
 of other acritarchs, including 15 taxa, such as Polysphaeroides
 filliformis, Ostiana microcystis, Simia annulare, ?Jacutianema sp.,
 Pellicularia tenera, Polythrichoides lineatus, and Navifusa actinomorpha.
 The Shiwangzhuang organic-walled microfossil assemblage, although
 consisting of long-ranging taxa and without age diagnostic taxa, is not
 contradictary with a Tonian age suggested by macroscopic carbonaceous
 compression fossils, including the Chuaria-Tawuia and
 Sinosabellidites-Protoarenicola-Pararenicola assemblages, revealed from
 the same horizon of the Shiwangzhuang Formation and organic-walled
 microfossil assemblage, including the late Mesoproterozoic to Tonian index
 fossils Trachyhystrichosphaera aimika, from the underlying Tongjiazhuang
 Formation. However, it is also worth noting that a Cryogenian or Ediacaran
 age cannot be completely excluded based just on the microfossils because
 of their limited biostratigraphic utility.
description: Specimens were measured by ImageJ 1.45.
DOI: 10.5061/dryad.kkwh70s2k
title: An effect size statistical framework for investigating sexual dimorphism in non-avian dinosaurs and other extinct taxa

description: Despite reports of sexual dimorphism in extinct taxa, such claims in
 non-avian dinosaurs have been underrepresented recently (~the last decade)
 and often criticized. Since dimorphism is widespread in sexually
 reproducing organisms today, underrepresentation might suggest either
 methodological shortcomings or that this diverse group exhibited highly
 unusual reproductive biology. Univariate significance testing, especially
 for bimodality, is ineffective and prone to false negatives. Species
 recognition and mutual sexual selection hypotheses, therefore, may not be
 required to explain supposed absence of sexual dimorphism across the
 grade, likely a type II error. Instead, multiple lines of evidence support
 sexual selection and variation of structures consistent with secondary
 sexual characteristics, strongly suggesting sexual dimorphism in non-avian
 dinosaurs. We propose a framework for studying sexual dimorphism in
 fossils, focusing on likely secondarily sexual traits and testing against
 all alternate hypotheses for variation in them using multiple lines of
 evidence. We use effect size statistics appropriate for low sample sizes,
 rather than significance testing, to analyze potential divergence of
 growth curves in traits and constrain estimates for dimorphism magnitude.
 In many cases, estimates of sexual variation can be reasonably accurate,
 and further developments in methods to improve sex assignments and account
 for intrasexual variation (e.g., mixture modelling) will improve accuracy.
 It is better to compare estimates for the magnitude of and support for
 dimorphism between datasets than to dichotomously reject or fail to reject
 monomorphism in a single species, enabling the study of sexual selection
 across phylogenies and time. We defend our approach with simulated and
 empirical data, including dinosaur data, showing that even simple
 approaches can yield fairly accurate estimates of sexual variation in many
 cases, allowing for comparison of species with high and low support for
 sexual variation.
DOI: 10.5061/dryad.1vhhmgqq8
title: Theoretical analysis of superadiabatic combustion for non-stationary filtration combustion by excess enthalpy function

description: The superadiabatic combustion for non-stationary filtration combustion is
 analytically studied. The non-dimensional excess enthalpy function (H)
 equation is theoretically derived based on a one-dimensional,
 two-temperature model. In contract to the H equation for the stationary
 filtration combustion, a new term, which takes into account the effect of
 non-dimensional combustion wave speed, is included in H equation for
 transient filtration combustion. The governing equations with boundary
 conditions are solved by commercial software Fluent. The predictions show
 that the maximum non-dimensional gas and solid temperatures in the flame
 zone are greater than 3 for equivalence ratio of 0.15. An examination of
 the four source terms in the H equation indicates that the thermal
 conductivity ratio (Γs) between the solid and gas phases is the dominative
 one among the four terms and basically determines H distribution. For lean
 premixed combustion in porous media, the superadiabatic combustion effect
 is more pronounced for the lower Γs.
description: See attached ReadmeTemplate.docx for additional information.
DOI: 10.5061/dryad.rv15dv45g
title: Data from: Dung beetle-megafauna trophic networks in Singapore’s fragmented forests

description: We investigated trophic networks between dung beetles and megafauna
 species in five forest fragments in Singapore varying in size and
 isolation. We found that Singapore’s dung beetle communities were
 attracted to extant and extinct dung types from different dietary groups.
 All forest fragment networks were similar, and displayed high generalism
 and high nestedness.
description: <strong>dung_beetle_community_data</strong>
 Dung beetle community composition data. Data was collected using
 dung-baited pitfall traps. Each row represents one trap, with name of
 study site, sampling round, transect number and dung type used. Dung
 beetle species and their abundances are listed.