cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.m63xsj454
title: Data for: Emergent dynamics of adult stem cell lineages from single nucleus and single cell RNA-Seq of Drosophila testes

description: Proper differentiation of sperm from germline stem cells, essential for
 production of the next generation, requires dramatic changes in gene
 expression that drive remodeling of almost all cellular components, from
 chromatin to organelles to cell shape itself. Here we provide a single
 nucleus and single cell RNA-seq resource covering all of spermatogenesis
 in Drosophila starting from in-depth analysis of adult testis single
 nucleus RNA-seq (snRNA-seq) data from the Fly Cell Atlas (FCA) study (Li
 et al., 2022). With over 44,000 nuclei and 6,000 cells analyzed, the data
 provide identification of rare cell types, mapping of intermediate steps
 in differentiation, and the potential to identify new factors impacting
 fertility or controlling differentiation of germline and supporting
 somatic cells. We justify assignment of key germline and somatic cell
 types using combinations of known markers, in situ hybridization, and
 analysis of extant protein traps. Comparison of single cell and single
 nucleus datasets proved particularly revealing of dynamic developmental
 transitions in germline differentiation. To complement the web-based
 portals for data analysis hosted by the FCA, we provide datasets
 compatible with commonly used software such as Seurat and Monocle. The
 foundation provided here will enable communities studying spermatogenesis
 to interrogate the datasets to identify candidate genes to test for
 function in vivo.
description: The “Testis, 10X, Relaxed” loom file (https://flycellatlas.org/) was imported into Seurat. A community of Drosophila researchers with interests in testis / spermatogenesis / fertility / and stem cell-niche biology adjusted and updated the previously reported cluster annotations (Li , 2022), and supported the assignments by analysis of markers using <em>in situ</em> hybridization and extant protein traps. Significant new metadata are provided in this Seurat object, including the new annotation assignments and trajectory inference for both the germline and somatic lineages. A monocle object is included seprately, representing trajectory inference analysis of the data set. The base files representing the scRNA-seq data are also included (barcodes, features and martix).
description: Examples: Seurat 4.0
 RStudio 2021.09.0 R 4.0.2
DOI: 10.6078/d1w43v
title: Data in support of: Mega-disturbances cause rapid decline of mature conifer forest habitat in California

description: Mature forests provide important wildlife habitat and support critical
 ecosystem functions globally. Within the dry conifer forests of the
 western United States, past management and fire exclusion have contributed
 to forest conditions susceptible to increasingly severe wildfire and
 drought. We evaluated declines in conifer forest cover in the southern
 Sierra Nevada of California during a decade of record disturbance by using
 spatially comprehensive forest structure estimates, wildfire perimeter
 data, and the eDaRT forest disturbance tracking algorithm. Primarily due
 to the combination of wildfires, drought, and drought-associated beetle
 epidemics, 30% of the region’s conifer forest extent transitioned to
 non-forest vegetation during 2011-2020. Fifty percent of mature forest
 habitat and 85% of high density mature forests either transitioned to
 lower density forest or non-forest vegetation types. California spotted
 owl Protected Activity Centers (PAC) experienced greater canopy cover
 decline (49% of 2011 cover) than non-PAC areas (42% decline). Areas with
 high initial canopy cover and without tall trees were most vulnerable to
 canopy cover declines, likely explaining the disproportionate declines of
 mature forest habitat and within PACs. Drought and beetle attack caused
 greater cumulative declines than areas where drought and wildfire
 mortality overlapped, and both types of natural disturbance far outpaced
 declines attributable to mechanical activities. Drought mortality that
 disproportionately affects large conifers is particularly problematic to
 mature forest specialist species reliant on large trees. However, patches
 of degraded forests within wildfire perimeters were larger with greater
 core area than those outside burned areas, and remnant forest habitats
 were more fragmented within burned perimeters than those affected by
 drought and beetle mortality alone. The percent of mature forest that
 survived and potentially benefited from lower severity wildfire increased
 over time as the total extent of mature forest declined. These areas
 provide some opportunity for improved resilience to future disturbances,
 but strategic management interventions are likely also necessary to
 mitigate worsening mega-disturbances. Remaining dry mature forest habitat
 in California may be susceptible to complete loss in the coming decades
 without a rapid transition from a conservation paradigm that attempts to
 maintain static conditions to one that manages for sustainable disturbance
 dynamics.
DOI: 10.5061/dryad.fttdz08wg
title: Data from: Signal detection shapes ornament allometry in functionally convergent Caribbean Anolis and Southeast Asian Draco lizards

description: Visual ornaments have long been assumed to evolve hyper-allometry as an
 outcome of sexual selection. Yet growing evidence suggests many
 sexually-selected morphologies can exhibit other scaling patterns with
 body size, including hypo-allometry. The large conspicuous throat fan, or
 dewlap, of arboreal Caribbean Anolis lizards was one
 ornament previously thought to conform to the classical expectation of
 hyper-allometry. We re-evaluated this classic example alongside a second
 arboreal group of lizards that has also independently evolved a
 functionally equivalent dewlap, the Southeast
 Asian Draco lizards. Across multiple closely-related
 species in both genera,
 the Anolis and Draco dewlaps were
 either isometric or had hypo-allometric scaling patterns. In the case of
 the Anolis dewlap, variation in dewlap allometry was
 predicted by the distance of conspecifics and the light environment in
 which the dewlap was typically viewed. Signal efficacy therefore appears
 to have driven the evolution of hypo-allometry in what was originally
 thought to be a sexually-selected ornament with hyper-allometry. Our
 findings suggest that other elaborate morphological structures used in
 social communication might similarly exhibit isometric or hypo-allometric
 scaling patterns because of environmental constraints on signal detection.
description: Please see published article for full details on methods of data
 collection
description: Data is given in .csv format and can be opened with any
 program
DOI: 10.5061/dryad.vq83bk3wh
title: Colonisation success of a tree-killing bark beetle: Geographic variation and mismatch with host preference

description: The preference–performance hypothesis (PPH) predicts that female insects
 maximise their fitness by ovipositing on hosts where their offspring
 perform the best. The preference–performance relationships in bark beetles
 are complex because before offspring development can occur in the phloem,
 adult bark beetles must first successfully invade host trees, and then
 construct galleries beneath the bark. Therefore, a positive correlation
 between host preference and successful colonisation is necessary for the
 PPH in bark beetles to hold (i.e., the preference–colonisation hypothesis
 in bark beetles).In this study, through field choice experiments, I
 investigated the successful colonisation of the bark beetle, Polygraphus
 proximus, within four allopatrically distributed Abies species across a
 distinct biogeographic boundary in Japan.The results of this study showed
 that the biogeographic boundary did not limit the successful colonisation
 by P. proximus. I observed that successful colonization was low in A.
 firma, despite it being an exotic species and the most preferred at the
 study sites, indicating a mismatch between preference and colonization
 success. Additionally, I observed that A. sachalinensis had a high
 colonization success rate, even though it was the least preferred species
 at the study sites.The results suggest that the host preference of P.
 proximus has not been adjusted by colonisation success through natural
 selection. The absence of significant differences in colonisation success
 across the Tsugaru Strait, and the preference–colonisation mismatches
 imply that genetic factors do not contribute to host specialisation.
DOI: 10.5061/dryad.xwdbrv1gw
title: Nuclear genetic diversity and structure of Anastrepha ludens wild populations evidenced by microsatellite markers

description: The Mexican fruit fly, Anastrepha ludens is an important pest that causes
 widespread damage to a number of fruit crops in Mexico. The Sterile Insect
 Technique (SIT) is commonly used for its control. However, the existence
 of natural barriers can give rise to a population structure in neutral
 loci and possibly behavioral or adaptive traits that interfere with SIT.
 For this reason, it is important to understand the genetic diversity and
 structure of A. ludens populations and to better understand the
 evolutionary ecology and population processes in view of possible
 expansions and possible host shifts due to climate change. We genotyped
 nine nuclear DNA (nDNA) microsatellite loci among fruit fly populations
 collected from five biogeographic areas within Mexico, Mexican Plateau,
 the Northeastern Coastal Plain, the Pacific Coast, the Gulf Coast of
 Mexico, the Soconusco and a laboratory strain. The nuclear genetic
 diversity was moderate (from He = 0.34 to He = 0.39) within the wild
 mexfly population. We found that populations were clustered in three
 genetic groups (K=3). The diversity and genetic structure of A. ludens are
 produced by environmental and geological conditions as well as local
 conditions like anthropogenic perturbation which would produce population
 expansion and the existence of possible predators that would affect the
 population density. Gene flow showed recent migration among populations.
 The laboratory strain showed less diversity than the wild samples. Large
 values of current and ancestral population size suggest high resistance to
 climatic changes, probably due to biological attributes, such as its
 polyphagous, multivoltine and high dispersal characteristics. In
 particular ecosystem fragmentation and perturbation as well as the
 existence of new plant hosts all of which would probably increase the
 abundance of flies.
description: Please, See
 Material & Methods.
description: Data to be used in the Population Genetics Software.
 This dataset includes all nine microsatellite loci from 120
 specimens in five geographic localitions in Mexico and one laboratory
 strain.
DOI: 10.5061/dryad.b8gtht7g3
title: Habitat change alters the expression and efficiency of a female ornament

description: Anthropogenic habitat changes are disrupting the mate choice process in a
 range of organisms, with consequences for populations and communities.
 Research has so far focussed on male sexually selected traits and female
 mate choice, given their conspicuousness, while effects on female
 ornaments and male mate choice have been largely overlooked. Yet, females
 of many species develop ornaments that males use in mate choice. These
 ornaments can be costly and reduce female fecundity and viability and,
 hence, influence population growth rate. Thus, attention should be paid to
 changes in these ornaments and the consequences the changes have for
 populations. Here, we show that declining visibility in aquatic ecosystems
 reduces the investment of female threespine stickleback in a melanin-based
 ornament in favour of increased search activity. The adjustment appears
 adaptive as males pay less attention to the ornament under poor
 visibility, and as melanin-based ornaments are physiologically costly. It
 is likely that past fluctuations in visibility has promoted the evolution
 of environment-dependent plasticity in female ornamentation. More
 attention should be paid to changes in female ornaments and their adaptive
 value, across taxa, given the impact that female investment in ornaments
 can have on fecundity and population growth rate. Environments are
 changing at an accelerating rate because of human activities and knowledge
 of the responses of both males and females to these changes are needed to
 evaluate and predict the ultimate impact on populations and biodiversity.
 Keywords: environmental change, eutrophication, fecundity, reproduction,
 sexual selection, signals
DOI: 10.5061/dryad.w6m905qs8
title: Congeneric predators fill discrete niches created by the relative abundances of their prey species

description: To what degree is niche partitioning driven by underlying patterns in
 resources such as food, rather than by competition itself? Do discrete
 niches exist? We address these questions in the context of Cooper’s and
 Sharp-shinned Hawks, two broadly sympatric, North American, bird-eating
 raptors in the genus Accipiter. We find that the resource base, as
 quantified by body masses of birds at bird feeders, is approximately
 lognormal (smallest birds are most abundant), with lesser modes (peaks) in
 abundance at larger body mass. The predators appear to exploit peaks in
 the resource base, with Sharp-shinned Hawks focusing on small prey items
 (median of 26.5 g), and Cooper’s Hawks taking prey from the two most
 abundant peaks (both the small body mass peak and a lesser peak at medium
 body mass ~90g). We tested the ability of citizen scientists to
 distinguish these notoriously similar species, and we determined the
 influence of potential false positive detections on our conclusions. We
 find that citizen scientists struggle to distinguish these predators from
 one another, and 18% of Cooper’s Hawks were identified as Sharp-shinned
 Hawks, while 27% of Sharp-shinned Hawks were identified as Cooper’s Hawks.
 Yet, simulations show that this uncertainty did not jeopardize our
 qualitative conclusions.
description: Data collected through the interactions add-on to Project
 FeederWatch. Eliot Miller tracks incoming observations, highlights unusual
 observations, and contacts contributors to confirm/refute such
 observations. This then is a cleaner and vetted version of the original
 FeederWatch interactions observations. User names, IDs, and email
 addresses are all stripped from the data.
DOI: 10.5061/dryad.hdr7sqvm5
title: Spatial confounding in Bayesian species distribution modeling

description: Species distribution models (SDMs) are currently the main tools to derive
 species niche estimates and spatially explicit predictions for species
 geographical distribution. However, unobserved environmental conditions
 and ecological processes may confound the model estimates if they have a
 direct impact on the species and, at the same time, they are correlated
 with the observed environmental covariates. This, so-called spatial
 confounding, is a general property of spatial models but it has not been
 studied in the context of SDMs before. Here we examine how the estimation
 accuracy of SDMs depends on the type of spatial confounding. We construct
 two simulation studies where we alter spatial structures of the observed
 and unobserved covariates and the level of dependence between them. We fit
 generalized linear models with and without spatial random effects applying
 Bayesian inference and record the bias induced to model estimates by
 spatial confounding. After this, we examine spatial confounding also with
 real vegetation data from northern Norway. Our results show that model
 estimates for coarse-scale covariates, such as climate covariates, are
 likely to be biased if a species distribution depends also on an
 unobserved covariate operating on a finer spatial scale. Pushing higher
 probability for a relatively weak and spatially smoothly varying spatial
 random effect compared to the observed covariates improved estimation
 accuracy. The improvement was independent of the actual spatial structure
 of the unobserved covariate. Our study addresses the major factors of
 spatial confounding in SDMs and provides a list of recommendations for
 pre-inference assessment of spatial confounding and for inference-based
 methods to decrease the chance of biased model estimates.
description: The study analyzes simulated and empirical species occurrence
 data sets. The simulated data set was created by using Gaussian process
 regression to generate spatial covariates, compute a species presence
 probability with probit-transformed linear combination of the covariates,
 and sample species occurrences with the presence probabilities. The
 empirical data set was collected in-situ in Northern Norway.
description: Matlab
DOI: 10.5061/dryad.rjdfn2zdw
title: Use of a pressure wire for automatically correcting artifacts in phasic pressure tracings from a fluid-filled catheter

description: Background/purpose: Matching phasic pressure tracings between a
 fluid-filled catheter and high-fidelity pressure wire has received limited
 attention, although each part contributes half of the information to
 clinical decisions. We aimed to study the impact of a novel and automated
 method for improving the phasic calibration of a fluid-filled catheter by
 accounting for its oscillatory behavior.   Methods/materials:
 Retrospective analysis of drift check tracings was performed using our
 algorithm that corrects for mean difference (offset), temporal delays
 (timing), differential sensitivity of the manifold transducer and pressure
 wire sensor (gain), and the oscillatory behavior of the fluid-filled
 catheter described by its resonant frequency and damping factor (how
 quickly oscillations disappear after a change in pressure).  
 Results: Among 2886 cases, correcting for oscillations showed a large
 improvement in 28% and a medium improvement in 41% (decrease in root mean
 square error &gt;0.5 mmHg to &lt;1 or 1–2 mmHg, respectively). 96
 % of oscillators were underdamped with median damping factor of 0.27 and
 frequency of 10.6 Hz. Fractional flow reserve or baseline Pd/Pa
 demonstrated no clinically important bias when ignoring oscillations.
 However, uncorrected subcycle non-hyperemic pressure ratios (NHPR)
 displayed both bias and scatter.   Conclusions: By automatically
 accounting for the oscillatory behavior of a fluid-filled catheter system,
 phasic matching against a high-fidelity pressure wire can be improved
 compared to standard equalization methods. The majority of tracings
 contain artifacts, mainly due to underdamped oscillations, and neglecting
 them leads to biased estimates of equalization parameters. No clinically
 important bias exists for whole-cycle metrics, in contrast to significant
 effects on subcycle NHPR.
DOI: 10.5061/dryad.98sf7m0ms
title: A highly divergent Wolbachia with a tiny genome in an insect-parasitic tylenchid nematode

description: Wolbachia symbionts are the most successful host-associated microbes on
 the planet, infecting arthropods and nematodes. Their role in nematodes is
 particularly enigmatic, with filarial nematode species either 100%
 infected and dependent on symbionts for reproduction and development, or
 not at all infected. We have discovered a highly divergent strain of
 Wolbachia in an insect-parasitic tylenchid nematode, Howardula sp., in a
 nematode clade that has not previously been known to harbour Wolbachia.
 While this nematode is 100% infected with Wolbachia, we did not detect it
 in related species. We sequenced the Howardula symbiont (wHow) genome and
 found that it is highly reduced, comprising only 550 kilobase pairs of
 DNA, ~35% smaller than the smallest Wolbachia nematode symbiont genomes.
 The wHow genome is a subset of all other Wolbachia genomes and has not
 acquired any new genetic information. While it has lost many genes,
 including genes involved in cell wall synthesis and cell division, it has
 retained the entire heme biosynthesis pathway, suggesting that heme
 supplementation is critical. wHow provides key insights into our
 understanding of what are the lower limits of Wolbachia cells, as well as
 the role of Wolbachia symbionts in the biology and convergent evolution of
 diverse parasitic nematodes.
description: The data stored in this dataset is described in detail in the
 methods section of the associated manuscript.
DOI: 10.5281/zenodo.18362331
title: MARKETINGDA SOTISH SIYOSATI, KOMMUNIKATSIYA SIYOSATI VA INTERAKTIV MARKETING

description: Ushbu maqola savdo siyosati, aloqa siyosati va interaktiv marketingning muhim jihatlarini o‘rganadi va ularning mijozlarni jalb qilishda muhim rolini o‘rganadi. Unda samarali savdo siyosatini tashkil etuvchi turli elementlar, jumladan, narx strategiyasi, sotish texnikasi va mijozlar bilan munosabatlarni boshqarish masalalari muhokama qilinadi.
DOI: 10.5281/zenodo.18362332
title: MARKETINGDA SOTISH SIYOSATI, KOMMUNIKATSIYA SIYOSATI VA INTERAKTIV MARKETING

description: Ushbu maqola savdo siyosati, aloqa siyosati va interaktiv marketingning muhim jihatlarini o‘rganadi va ularning mijozlarni jalb qilishda muhim rolini o‘rganadi. Unda samarali savdo siyosatini tashkil etuvchi turli elementlar, jumladan, narx strategiyasi, sotish texnikasi va mijozlar bilan munosabatlarni boshqarish masalalari muhokama qilinadi.
DOI: 10.5281/zenodo.18362343
title: КРИПТОЛОГИЯНИНГ ФАН СИФАТИДА ШАКЛЛАНИШИ

description: Ахборотларнинг муҳофазасини таъминлаш масалалари инсоният жамиятида қадимдан муҳим бўлиб келган. Айтиш мумкинки, ахборотни муҳофаза қилиш услублари жамиятда дастлабки пайдо бўлган муомала тили ва ёзуви билан узвий боғлиқ ҳамда тенгдошдир.
DOI: 10.5281/zenodo.18362344
title: КРИПТОЛОГИЯНИНГ ФАН СИФАТИДА ШАКЛЛАНИШИ

description: Ахборотларнинг муҳофазасини таъминлаш масалалари инсоният жамиятида қадимдан муҳим бўлиб келган. Айтиш мумкинки, ахборотни муҳофаза қилиш услублари жамиятда дастлабки пайдо бўлган муомала тили ва ёзуви билан узвий боғлиқ ҳамда тенгдошдир.
DOI: 10.15468/dl.9sg7h9
title: Occurrence Download

description: A dataset containing 1376 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Galatella linosyris",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1376 records from 112 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009722-260120142942310/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18362355
title: MAKTABGACHA TA'LIM TASHKILOTLARIDA PSIXOLOG FAOLIYATI

description: Ushbu maqolada maktabgacha ta’lim tashkilotlarida psixolog faoliyatining ahamiyati, vazifalari va metodik asoslari tahlil qilinadi. Mazkur faoliyat bolaning psixologik, nutqiy, intellektual, ijtimoiy va emotsional rivojlanishini qo‘llab-quvvatlashga qaratilgan. Maqolada psixologning kundalik faoliyati, diagnostika va rivojlantiruvchi ishlar, ota-onalar va tarbiyachilar bilan konsultativ ishlash jarayonlari yoritilgan. Shuningdek, bolalarning maktabga tayyorligini oshirish va individual yondashuvni tashkil etish metodik tavsiyalari taqdim etilgan.
DOI: 10.5281/zenodo.18362356
title: MAKTABGACHA TA'LIM TASHKILOTLARIDA PSIXOLOG FAOLIYATI

description: Ushbu maqolada maktabgacha ta’lim tashkilotlarida psixolog faoliyatining ahamiyati, vazifalari va metodik asoslari tahlil qilinadi. Mazkur faoliyat bolaning psixologik, nutqiy, intellektual, ijtimoiy va emotsional rivojlanishini qo‘llab-quvvatlashga qaratilgan. Maqolada psixologning kundalik faoliyati, diagnostika va rivojlantiruvchi ishlar, ota-onalar va tarbiyachilar bilan konsultativ ishlash jarayonlari yoritilgan. Shuningdek, bolalarning maktabga tayyorligini oshirish va individual yondashuvni tashkil etish metodik tavsiyalari taqdim etilgan.