cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3j9kd51jz
title: Impacts of oil well drilling and operating noise on abundance and productivity of grassland songbirds

description: Anthropogenic noise from natural resource extraction may negatively impact
 many species, particularly those reliant on acoustic communication. To
 compare impacts of several types of noise resulting from oil extraction
 operations on habitat use and productivity of grassland songbirds, we
 designed and implemented a novel large-scale, spatially and temporally
 replicated experiment. We recreated soundscapes produced by
 drilling and operating oil well noise, and compared impacts of
 noise-producing and quiet playback infrastructure, in twenty-nine 64.7-ha
 native prairie sites in Alberta, Canada, from 2013–2015. Drilling noise
 recordings played 24 hours/day for 10 days, twice during each breeding
 season, while oil well operating noise played continuously, 24 hours/day,
 throughout each ~90-day breeding season. Despite the much shorter
 duration of drilling noise playbacks, drilling noise negatively impacted
 three of our four focal species, and had a much greater impact on habitat
 use and productivity than did well operating noise. Infrastructure also
 impacted Vesper Sparrows and Sprague’s Pipits, even in the absence of
 noise. Synthesis and applications: Acute oil drilling noise had a
 greater negative impact on breeding migratory birds when compared to
 chronic oil well noise, perhaps because drilling noise is unpredictable.
 While this study demonstrates that noise alone can negatively impact
 habitat use, nesting success, and nestling quality, it is also clear that
 effective mitigation strategies require both noise and above-ground
 infrastructure management to reduce impacts on wildlife.
DOI: 10.5061/dryad.b5mkkwhf1
title: Assessing candidate DNA barcodes for Chinese and internationally traded timber species

description: Accurate identification of species from timber is an essential step to
 help control illegal logging and forest loss. However, current approaches
 to timber identification based on morphological and anatomical
 characteristics have limited species resolution. DNA barcoding is a proven
 tool for plant species identification, but there is a need to build
 reliable reference data across broad taxonomic and spatial scales. Here,
 we construct a species barcoding library consisting of 1,550 taxonomically
 diverse timber species from 656 genera and 124 families, representing a
 comprehensive genetic reference data set for Chinese timber species and
 international commercial traded timber species, using four barcodes (rbcL,
 matK, trnH–psbA, and ITS2). The ITS2 fragment was found to be the most
 efficient locus for Chinese timber species identification among the four
 barcodes tested, both at the species and genus level, despite its low
 recovery rate. Nevertheless, the barcode combination matK+trnH–psbA+ITS2
 was required as a complementary barcode to distinguish closely related
 species in complex datasets involving internationally traded timber
 species. Comparative analyses of family-level discrimination and
 species/genus ratios indicated that the inclusion of closely related
 species is an important factor affecting the resolution ability of
 barcodes for timber species verification. Our study indicates that
 although nuclear ITS2 is the most efficient single barcode for timber
 species authentication in China, complementary combinations like
 matK+trnH–psbA+ITS2 are required to provide broader discrimination power.
 These newly-generated sequences enrich the existing publicly available
 databases, especially for tropical and subtropical evergreen timber trees
 and this current timber species barcode reference library can serve as an
 important genetic resource for forestry monitoring, illegal logging
 prosecution and biodiversity projects.
DOI: 10.5061/dryad.x3ffbg7kw
title: Data from: Ephemeral forest regeneration limits carbon sequestration potential in the Brazilian Atlantic Forest

description: This dataset contains native forest cover and planted forests data for
 3014 municipalities in the Brazilian Atlantic Forest, Brazil, used in the
 paper: “Piffer, P.R., Calaboni, A., Rosa, M.R., Schwartz, N.B., Tambosi,
 L.R., & Uriarte, M. (2021) Ephemeral forest regeneration
 limits carbon sequestration potential in the Brazilian Atlantic Forest.
 Global Change Biology”. The land cover data was obtained from the
 Mapbiomas Collection 5 products and is publicly available
 at https://mapbiomas.org/ for download. Socioeconomic
 data was obtained from the Brazilian Institute of Geography and
 Statistics, available at https://sidra.ibge.gov.br. More information on
 the dataset, analysis and results can be found in the
 associated manuscript referenced above.
description: The readme file contains an explanation of each of the variables
 in the dataset and its measurement units. More information can be found in
 the associated manuscript referenced above.
DOI: 10.6084/m9.figshare.31167700
title: <b>Emergence of Ceftazidime-Avibactam Resistance Mediated by KPC Variants KPC-71 and KPC-78 in ST463 </b><b><i>Pseudomonas aeruginosa</i></b>

description: <i>Pseudomonas aeruginosa</i> has long been a model organism in microbiological research and a prevalent opportunistic pathogen in clinical settings. The limitations of current antimicrobial regimens have exacerbated the global threat of carbapenem-resistant P. aeruginosa (CRPA). Here, we elucidate the mechanisms of ceftazidime-avibactam (CZA) resistance mediated by two novel KPC variants, KPC-71 and KPC-78, identified during the treatment of CRPA infections. Two CZA-resistant P. aeruginosa strains, SY-206885 and HZ-231016032, were isolated from critically ill male patients with severe pneumonia. Whole-genome sequencing assigned both isolates to the high-risk sequence type 463 (ST463). Isolate SY-206885 harbors the blaKPC-71 gene, while HZ-231016032 carries blaKPC-78. Cloning and expression of these genes in P. aeruginosa PAO1 conferred a 16-fold increase in the minimum inhibitory concentration (MIC) of CZA. Structural analysis and kinetic profiling revealed that, compared to wild-type KPC-2, both KPC-71 and KPC-78 exhibit reduced hydrolytic efficiency (<i>kcat</i>) but higher affinity (lower <i>Km</i>) for ceftazidime, alongside significantly weakened binding affinity for the inhibitor avibactam. These findings underscore the clinical risk of ST463 CRPA strains evolving CZA resistance via KPC mutations under therapeutic pressure.
DOI: 10.6084/m9.figshare.31167700.v1
title: <b>Emergence of Ceftazidime-Avibactam Resistance Mediated by KPC Variants KPC-71 and KPC-78 in ST463 </b><b><i>Pseudomonas aeruginosa</i></b>

description: <i>Pseudomonas aeruginosa</i> has long been a model organism in microbiological research and a prevalent opportunistic pathogen in clinical settings. The limitations of current antimicrobial regimens have exacerbated the global threat of carbapenem-resistant P. aeruginosa (CRPA). Here, we elucidate the mechanisms of ceftazidime-avibactam (CZA) resistance mediated by two novel KPC variants, KPC-71 and KPC-78, identified during the treatment of CRPA infections. Two CZA-resistant P. aeruginosa strains, SY-206885 and HZ-231016032, were isolated from critically ill male patients with severe pneumonia. Whole-genome sequencing assigned both isolates to the high-risk sequence type 463 (ST463). Isolate SY-206885 harbors the blaKPC-71 gene, while HZ-231016032 carries blaKPC-78. Cloning and expression of these genes in P. aeruginosa PAO1 conferred a 16-fold increase in the minimum inhibitory concentration (MIC) of CZA. Structural analysis and kinetic profiling revealed that, compared to wild-type KPC-2, both KPC-71 and KPC-78 exhibit reduced hydrolytic efficiency (<i>kcat</i>) but higher affinity (lower <i>Km</i>) for ceftazidime, alongside significantly weakened binding affinity for the inhibitor avibactam. These findings underscore the clinical risk of ST463 CRPA strains evolving CZA resistance via KPC mutations under therapeutic pressure.
DOI: 10.5061/dryad.pzgmsbcnb
title: Confocal images from: Cell density, alignment, and orientation correlate with C-signal-dependent gene expression during Myxococcus xanthus development

description: Starving Myxococcus xanthus bacteria use short-range C-signaling to
 coordinate their movements and construct multicellular mounds,
 which mature into fruiting bodies as rods differentiate into
 spherical spores. Differentiation requires efficient C-signaling to drive
 the expression of developmental genes, but how the arrangement of
 cells within nascent fruiting bodies (NFBs) affects C-signaling
 is not fully understood. Here, we used confocal microscopy and
 cell segmentation to visualize and quantify the arrangement, morphology,
 and gene expression of cells near the bottom of NFBs at much
 higher resolution than previously achieved. We discovered that
 “transitioning cells” (TCs), intermediate in morphology between rods
 and spores, comprised 10 to 15% of the total population. Spores
 appeared midway between the center and the edge of NFBs early in
 their development and near the center as maturation progressed.
 The developmental pattern as well as C-signal-dependent gene expression in
 TCs and spores were correlated with cell density, the alignment
 of neighboring rods, and the tangential orientation of rods early
 in the development of NFBs. These dynamic radial patterns support
 a model in which the arrangement of cells within the NFBs affects
 C-signaling efficiency to regulate precisely the expression of
 developmental genes and cellular differentiation in space and
 time. Developmental patterns in other bacterial biofilms may likewise rely
 on short-range signaling to communicate multiple aspects of
 cellular arrangement, analogous to juxtacrine and paracrine
 signaling during animal development.
description: Images of nascent fruiting bodies were acquired with a Nikon A1 Laser Scanning Confocal Microscope, which was configured on a Nikon Ti inverted platform with an XY automated stage and a 100X objective.  Fluorescence from tdTomato were examined using a 560-nm laser for excitation and a 595/50 band pass emission filter.  Fluorescence from mNeonGreen was examined using a 488 nm laser for excitation and a 525/50 band pass emission filter.  Time-lapse confocal images were taken every 15 min.  Images near the bottom of NFBs were the first optical section above the bottom of the well, in which cells could be clearly visualized, so ~0.25 to 0.5 μm above the bottom of the well.
DOI: 10.5061/dryad.jsxksn0b4
title: High rates of evolution preceded shifts to sex-biased gene expression in Leucadendron, the most sexually dimorphic angiosperms

description: Differences between males and females are usually more subtle in dioecious
 plants than animals, but strong sexual dimorphism has evolved convergently
 in the South African Cape plant genus Leucadendron. Such sexual dimorphism
 in leaf size is expected largely to be due to differential gene expression
 between the sexes. We compared patterns of gene expression in leaves among
 ten Leucadendron species across the genus. Surprisingly, we found no
 positive association between sexual dimorphism in morphology and the
 number or the percentage of sex-biased genes. Sex bias in most sex-biased
 genes evolved recently and was species-specific. We compared rates of
 evolutionary change in expression for genes that were sex-biased in one
 species but unbiased in others and found that sex-biased genes evolved
 faster in expression than un-biased genes. This greater rate of expression
 evolution of sex-biased genes, also documented in animals, might suggest
 the possible role of sexual selection in the evolution of gene expression.
 However, our comparative analysis clearly indicates that the more rapid
 rate of expression evolution of sex-biased genes predated the origin of
 bias, and shifts towards bias were depleted in signatures of adaptation.
 Our results are thus more consistent with the view that sex bias is simply
 freer to evolve in genes less subject to constraints in expression level.
DOI: 10.5061/dryad.xwdbrv1f6
title: Ecological specialization, rather than the island effect, explains morphological diversification in an ancient radiation of geckos

description: Island colonists are often assumed to experience higher levels of
 phenotypic diversification than continental taxa. However, empirical
 evidence has uncovered exceptions to this ‘island effect’. Here, we tested
 this pattern using the geckos of the genus Pristurus from continental
 Arabia and Africa and the Socotra Archipelago. Using a recently published
 phylogeny and an extensive morphological dataset, we explore the
 differences in phenotypic evolution between Socotran and continental taxa.
 Moreover, we reconstructed ancestral habitat occupancy to examine if
 ecological specialization is correlated with morphological change,
 comparing phenotypic disparity and trait evolution between habitats. We
 found a heterogeneous outcome of island colonization. Namely, only one of
 the three colonization events resulted in a body size increase. However,
 in general, Socotran species do not present higher levels or rates of
 morphological diversification than continental groups. Instead, habitat
 specialization explains better the body size and shape evolution in
 Pristurus . Particularly, the colonization of ground habitats appears as
 the main driver of morphological change, producing the highest disparity
 and evolutionary rates. Additionally, arboreal species show very similar
 body size and head proportions. These results reveal a determinant role of
 ecological mechanisms in morphological evolution and corroborate the
 complexity of ecomorphological dynamics in continent–island systems.
DOI: 10.5061/dryad.nvx0k6dtf
title: Influence of biomimicry structures on ecosystem function in a Rocky Mountain incised stream

description: Rising levels of stream degradation have motivated a boom in restoration
 projects across the globe. However, post-restoration monitoring is still
 frequently lacking and does not always incorporate biotic responses to
 changes in the physical template. Beaver mimicry structures (BMS) are
 becoming a popular tool to restore degraded streams throughout the
 American West, but relatively little is known about how these
 installations influence both biotic and abiotic factors, with consequences
 for ecosystem functioning. We monitored basal resources, organic and
 inorganic material standing stocks, and macroinvertebrate density,
 biomass, and production to quantify functional responses to BMS
 installation. We compared conditions at BMS sites to naturally occurring
 beaver dam and reference riffle sites in a low-gradient stream in
 southwest Montana, USA. Thermal ranges were contracted, and daily maximum
 temperatures were higher, in the BMS treatment compared to the reference
 riffle treatment. Fine sediment standing stock and basal resources were
 similar in beaver and BMS treatments, and both treatments were higher than
 reference riffles. All treatments differed in macroinvertebrate density,
 which was highest in the Beaver treatment, followed by Mimic and then
 Reference treatment. Biomass and secondary production were higher in
 Beaver and BMS treatments compared to the Reference treatment, but only
 Beaver and Reference treatments differed significantly, likely due to
 differences in physical habitat and basal resource availability.
 Consequently, production of collector-gatherers in the BMS treatment and
 shredders in the beaver treatment was higher than in reference riffles.
 Changes to local hydrology and sediment dynamics resulting from BMS
 influence biotic functional responses like organic material standing stock
 and secondary production, creating habitat and ecosystem function distinct
 from riffles and similar to target conditions of natural beaver dams. To
 continue to improve BMS as a standard restoration practice, future
 research could consider the extent of degradation, increasing temporal
 scale of monitoring. alterations to aquatic-terrestrial subsidies and
 impacts to fishes.
DOI: 10.15468/dl.jxx22r
title: Occurrence Download

description: A dataset containing 5875063 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year 2016-2026"
 ]
}

 The dataset includes 5875063 records from 2459 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002967-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48612/msupe/tn39-5gf6-xrex
title: Multiple Game Education (MGE): Integration of Traditional and Digital Games in Learning to Improve Literacy and Numeracy of Primary School Students

description: Context and relevance. The Current technological advances have significantly changed how children and teenagers learn. Game-based learning is emerging as an interesting and innovative approach. Students are increasingly connected to technology, and game-based learning approaches are emerging in response to this change. By utilizing game elements, teaching can become more interactive and engaging. The game-based learning approach emerged as a response to changes in educational paradigms and the challenges teachers and students face. Objective. This quantitative study aims to determine the increase in students' literacy and numeracy skills in multiple-game education (MGE) based learning through traditional and digital games. Hypothesis. Multiple Game Education (MGE) improves students' literacy and numeracy skills. Methods and materials. The study is conducted using a pre-experimental design (One Group Pretest-Post Test), where the administered treatment can be more accurate because it can be compared to the situation before the treatment. The sample in this study was twenty-nine. In this study, students were tested on their numeracy and literacy skills after learning activities. Observation, tests (pre- and post-test), and documentation were used to collect data. Additionally, the improvement was assessed using the Normalized Gain (N-Gain) test to compare the difference between pretest and post-test results. Beside that, the statistics analyzed include mean, standard deviation, median, skewness, and kurtosis, which aim to determine the characteristics of the data distribution. Results. Based on the results of the two Paired Samples T-Tests, it can be concluded that the intervention significantly improved participants' literacy and numeracy skills. There was a highly significant improvement in the literacy measure with a t value = -8.601 and p < .001, as well as a huge effect size (Cohen's d = -1.597). This suggests that the intervention had a powerfuleffect on participants' literacy skills. Meanwhile, on the numeracy measure, a significant improvement was also found with a t value = -4.134 and p < .001, as well as a medium to large effect size (Cohen's d = -0.768), indicating that the intervention was also effective in improving numeracy, although not as strong as on literacy. Overall, the intervention has significantly improved both skills, with a greater impact seen in literacy. Conclusions. Research findings indicate a favorable assessment of implementing MGE learning successfully in elementary school mathematics education frameworks. MGE learning an improves multiple educational dimensions, which include literacy and numeracy performance, mathematical understanding development, and motivates students to participate with improved positive learning orientation.
DOI: 10.15468/dl.dxd7p3
title: Occurrence Download

description: A dataset containing 269231 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Ulex europaeus L."
 ]
}

 The dataset includes 269231 records from 1796 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011474-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pnnzr2
title: Occurrence Download

description: A dataset containing 32768 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Bromus erectus Huds.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 32768 records from 168 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007318-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wwvfpy
title: Occurrence Download

description: A dataset containing 2870 records in GBIF matching the query:
SELECT
 '270' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 16.25916876999866
 AND decimalLatitude &lt;= 20.3845909579754
 AND decimalLongitude &gt;= 92.09228368724241
 AND decimalLongitude &lt;= 98.6537462863998
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 2870 records were derived from 95 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009052-260120142942310/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q8xm2a
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cycas dolichophylla"
 ]
}

 The dataset includes 12 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009064-260120142942310/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.smzs2g
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Capelio tabularis",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 39 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009065-260120142942310/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.31143829
title: LLMs vs SATs dataset

description: <pre>- PfCat: datasets/performance_issues_list.csv<br>- PfProg: datasets/pf_prof.csv<br>- LLMs Detection Results: llm_results/<br>- Progressions Detected (with SAMU): datasets/progressions.csv<br>- PfLLM: https://github.com/sanadlab/vibe_coded_android_apps<br>- PfAnnlReal: datasets/pf_ann_real.csv<br>- PfAnnLLM: datasets/pf_ann_llm.csv</pre>