cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.nvx0k6dqs
title: Data: Abiotic niche divergence of homoploid hybrid species from their progenitors

description: Although more frequently reported recently than was previously expected,
 the role of ecology in the speciation of homoploid hybrid species (HHS)
 has not been quantitatively evaluated. We examined divergences in
 the niches of 22 assumed HHS (18 plants and four animals) from those of
 their progenitors using 52097 occurrences and 26 environmental factors
 (temperature, precipitation, altitude and soil). We identified three niche
 divergence patterns in HHS, niche novelty, niche contraction and niche
 intermediacy, by estimating niche overlap and niche breadth. Niche
 novelty, found in 16 HHS, is the commonest pattern, in which HHS occupied
 new habitats and a range geographically isolated from those of the
 progenitors, with low niche overlap and small niche breadth. Our study
 indicates that ecological divergence contributes greatly to the
 establishment of HHS and suggests that increasing habitat disturbance and
 the predicted climate change that may create new niches will accelerate
 the future production of HHS.
DOI: 10.5061/dryad.j3tx95xbx
title: Data from: Social selectivity in aging wild chimpanzees

description: Humans prioritize close, positive relationships during aging, and
 socioemotional selectivity theory proposes that this shift causally depend
 on capacities for thinking about personal future time horizons. To examine
 this theory, we tested for key elements of human social aging in
 longitudinal data on wild chimpanzees. Aging male chimpanzees have more
 mutual friendships characterized by high, equitable investment, whereas
 younger males have more one-sided relationships. Older males are more
 likely to be alone, but they also socialize more with important social
 partners. Further, males show a relative shift from more agonistic
 interactions to more positive, affiliative interactions over their life
 span. Our findings indicate that social selectivity can emerge in the
 absence of complex future-oriented cognition, and they provide an
 evolutionary context for patterns of social aging in humans.
description: See methods in the manuscript for all details.
description: Please see the key tab in the files for all details for
 usage.
DOI: 10.5068/d1dm4h
title: Persistent panmixia despite extreme habitat loss and population decline in the threatened tricolored blackbird (Agelaius tricolor)

description: Habitat loss and alteration have driven many species into decline, often
 to the point of requiring protection and intervention to avert extinction.
 Genomic data provide the opportunity to inform conservation and recovery
 efforts with details about vital evolutionary processes with a resolution
 far beyond that of traditional genetic approaches. The tricolored
 blackbird (Agelaius tricolor) has suffered severe losses during the
 previous century largely due to anthropogenic impacts on their habitat.
 Using a dataset composed of a whole genome paired with reduced
 representation libraries (RAD-Seq) from samples collected across the
 species’ range, we find evidence for panmixia using multiple methods,
 including PCA (no geographic clustering), admixture analyses (ADMIXTURE
 and TESS conclude K = 1), and comparisons of genetic differentiation
 (average FST = 0.029). Demographic modeling approaches recovered an
 ancient decline that had a strong impact on genetic diversity but did not
 detect any effect from the known recent decline. We also did not detect
 any evidence for selection, and hence adaptive variation, at any site.
 These results indicate that species continues to have high vagility across
 its range despite population decline and habitat loss and should be
 managed as a single unit.
DOI: 10.5061/dryad.n5tb2rbtf
title: Phylogeographic analysis of shrubby beardtongues reveals range expansions during the Last Glacial Maximum and implicates the Klamath Mountains as a hotspot for hybridization

description: Quaternary glacial cycles often altered species’ geographic distributions,
 which in turn altered the geographic structure of species’ genetic
 diversity. In many cases, glacial expansion forced species in temperate
 climates to contract their ranges and reside in small pockets of suitable
 habitat (refugia), where they were likely to interact closely with other
 species, setting the stage for potential gene exchange. These
 introgression events, in turn, would have degraded species boundaries,
 making the inference of phylogenetic relationships challenging. Using
 high-throughput sequence data, we employ a combination of species
 distribution models and hybridization tests to assess the effect of
 glaciation on the geographic distributions, phylogenetic relationships,
 and patterns of gene flow of five species of Penstemon subgenus
 Dasanthera, long-lived shrubby angiosperms distributed throughout the
 Pacific Northwest of North America. Surprisingly, we find that rather than
 reducing their ranges to small refugia, most Penstemon subgenus Dasanthera
 species experienced increased suitable habitat during the Last Glacial
 Maximum relative to the present day. We also find substantial evidence for
 gene exchange between species, with the bulk of introgression events
 occurring in or near the Klamath Mountains of southwestern Oregon and
 northwestern California. Subsequently, our phylogenetic inference reveals
 blurred taxonomic boundaries in the Klamath Mountains, where introgression
 is most prevalent. Our results question the classical paradigm of
 temperate species’ responses to glaciation and highlight the importance of
 contextualizing phylogenetic inference with species’ histories of
 introgression.
DOI: 10.15468/dl.3mdcf5
title: Occurrence Download

description: A dataset containing 49891 records in GBIF matching the query:
SELECT
 '441' 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;= 41.89415215079384
 AND decimalLatitude &lt;= 46.479780028101516
 AND decimalLongitude &gt;= 23.97629900945012
 AND decimalLongitude &lt;= 31.471990458981043
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 49891 records were derived from 200 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002581-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.zs7h44j6t
title: Difference in effect of pheromone for monitoring the European spruce bark beetle

description: In recent decades there have been an increasing number of outbreaks of the
 European spruce bark beetle (Ips typographus) in Europe. A large amount of
 sanitary felling has taken place, with significant economic and ecological
 consequences. In order to anticipate such large-scale outbreaks, an
 effective monitoring system should be set up. One important aspect of
 monitoring is the decision on which pheromone to use. We suggest a
 framework for selecting an effective pheromone with few side effects and
 implemented it on five different pheromones under different disturbance
 conditions: Pheroprax, IT Ecolure, Ipstyp, Ipsowit and Typosan. We set 50
 traps in two areas with sites that were disturbed and undisturbed by wind
 storms. We collected bark beetles from traps every one to two weeks from
 the end of March until the end of September in 2019. We investigated the
 number of bark beetles caught, bark beetle dynamics, amount of bycatch and
 predators, the taxonomic groups of the bycatch and the overall costs of
 the monitoring system. We found that Pheroprax, IT Ecolure and Ipsowit
 caught the most bark beetles and best showed the population dynamics.
 There was a low amount of bycatch (less than 6% of the total catch) and
 predators (a few individuals), but some groups seem to prefer certain
 pheromones. The cost of the pheromones increased with their effectiveness.
 However, pheromone costs are low relative to the personnel costs involved
 in setting traps and collecting bark beetles. The framework and the
 results will help professionals to decide which pheromones to purchase for
 their bark beetle monitoring system.
description: We set 50 traps in two areas with sites that were disturbed and
 undisturbed by wind storms. We collected bark beetles from traps every one
 to two weeks from the end of March until the end of September in 2019. We
 investigated the number of bark beetles caught, amount of bycatch and
 predators, for the bycatch the taxonomic groups on order level and for the
 Coleoptera on family level.
DOI: 10.5061/dryad.j3tx95xbz
title: The trajectories of vegetative structure and soil microbial function diverged across a fire chronosequence of the boreal forests in Northeast China

description: The role of boreal forest to ameliorate the effect of global climate
 change largely depends on the regeneration of postfire forests in
 northeast China. The postfire recovery of boreal forest can be evaluated
 by the aboveground vegetative structure and soil microbial function. In
 present study, a 50-year fire chronosequence was established, and the
 biomass of forbs, shrub and woody plant was separately weighted to assess
 their contribution to the whole community with the year since fire (YSF).
 Simultaneously, soil biophysical properties were measured for stands in
 different time period after fire. Soil microbial functions, i.e., growth
 efficiency (GE) and carbon use efficiency (CUE), were calculated basing on
 ecoenzymatic and soil nutrient stoichiometry. In terms of vegetative
 structure, forbs’ proportion decreased from 75% to 1.5%, but the
 proportion of woody plant increased from 0.04% to 70% across this fire
 chronosequence. In contrast, soil microbial function reached the highest
 value in 15 YSF and then began to decrease. As an important variable, soil
 metal content, particularly the calcium content, showed a positive
 correlation with woody plant biomass and a negative with soil microbial
 function. Furthermore, soil metal content was significantly increased in
 the late stage of this fire chronosequence. Overall, the present work
 highlighted that the time period of 15 YSF and 31 YSF was a hallmark stage
 for aboveground vegetative structure and soil microbial function to change
 in different trends, and the calcium content may partly account for these
 two divergent trajectories.
description: A fire chronosequence of 50 years was built in northeast China.
 The aboveground vegetative structure and soil microbial functions were
 investigated across this fire chronosquence. The change of vegetative
 structure was displayed by the proportion of woody plant biomass with the
 time since fire,a nd soil microbial function was reflected by the
 ecoenzymatic activity and soil microbial growth efficiency. The chaning
 trends of vegetative structure and soil microbial function was assessed
 with the year since fire.
description: There no missing values.
DOI: 10.5061/dryad.vt4b8gtqb
title: Cohesin depleted cells rebuild functional nuclear compartments after endomitosis

description: Cohesin plays an essential role in chromatin loop extrusion, but its
 impact on a compartmentalized nuclear architecture is debatable. Using
 live-cell and super-resolved 3D microscopy, we demonstrate that
 cohesin-depleted cells pass through an endomitosis and rebuild a single
 multilobulated nucleus (MLN) with chromosome territories (CTs) pervaded by
 interchromatin channels. CTs contain chromatin domain clusters with a
 zonal organization of repressed chromatin domains in the interior and
 transcriptionally competent domains located at the periphery. Splicing
 speckles are located nearby within the lining channel system. These
 clusters form microscopically defined, active and inactive compartments,
 which correspond to A and B compartments, respectively, in ensemble Hi-C.
 Functionality of MLN despite continuous absence of cohesin was
 demonstrated by their ability to pass through S-phase with typical
 spatio-temporal patterns of replication domains. Evidence for structural
 changes of these domains compared to controls suggests that cohesin is
 required for their full integrity.
description: Unprocessed raw data Chromatin compaction
 classes processed according to Schmid et al., 2017
description: Readable by Fiji
DOI: 10.5061/dryad.1rn8pk0rx
title: Disentangling the latitudinal and altitudinal shifts in community composition induced by climate change: the case of riparian birds

description: Aim. This study investigates whether, and how the composition of riparian
 bird communities has been affected by climate warming and habitat change.
 Although these two forces act separately, their respective contributions
 are rarely examined. Moreover, while the response of a given community may
 be a function of latitude and altitude, most studies have focused on these
 gradients separately. Riparian ecosystems are an opportunity to
 investigate community change along latitudinal and elevational gradients.
 Location. France, three major rivers (the Doubs, the Allier, the Loire)
 Taxon. Birds. Methods. Drawing upon bird community monitoring data over a
 period of 31 years (1982–2013, n = 1286 point counts), we assessed
 community adjustment to temperature increase with the Community
 Temperature Index (CTI), and the homogenisation pattern following habitat
 conversion with the Community Specialisation Index (CSI). We evaluated the
 spatial climatic debt accumulated by communities, and the interaction
 between CTI and CSI trends. Furthermore, we tested differences in trends
 for lowland and highland elevations. Results. Over the study period the
 temperature increased by 1.17°C, and the CTI by 0.12°C, which corresponds
 to a spatial climatic debt of 4.9 km yr-1. Lowland, but not highland
 communities adjusted to warming, but there was a decline in species
 abundance. CSI trends revealed biotic homogenisation in both lowland and
 highland communities. This finding was uncorrelated with the CTI increase,
 and is thought to be due to pressure from land use change on community
 composition. Main conclusions. Riparian breeding bird communities have
 been affected by a temperature increase and, potentially, habitat change.
 Highland communities are most vulnerable to climate warming. Both climate
 warming and habitat change appear to have rapidly affected the composition
 of local communities, with expectable concerns on their diversity and
 specificity in the long term.
description: Breeding birds were monitored in spring during a longitudinal
 long-term scientific study that recorded point counts of any species heard
 or seen (Blondel <i>et al.</i> 1981). Two sessions were run
 (20 minutes in April and 20 minutes between mid-May and mid-June), and the
 highest abundance for each species between the two sessions was retained.
 Point counts were regularly spaced along the riverbank (1–5 km depending
 on the river) to limit the risk of double counting birds moving across a
 large area, and were strictly identical for each session (Table
 S1).
DOI: 10.5061/dryad.80gb5mkpk
title: Dataset: Tropical bats counter heat by combining torpor with adaptive hyperthermia

description: Many tropical mammals are vulnerable to heat because their water budget
 limits the use of evaporative cooling for heat compensation. Further
 increasing temperatures and aridity might consequently exceed their
 thermoregulatory capacities. Here, we describe two novel modes of torpor,
 a response usually associated with cold or resource bottlenecks, as
 efficient mechanisms to counter heat. We conducted a field study on the
 Malagasy bat Macronycteris commersoni resting in foliage during the hot
 season, unprotected from environmental extremes. On warm days, the bats
 alternated between remarkably short micro-torpor-bouts and normal resting
 metabolism within few minutes. On hot days, the bats extended their torpor
 bouts over the hottest time of the day while tolerating body temperatures
 up to 42.9°C. Adaptive hyperthermia combined with lowered metabolic heat
 production from torpor allows higher heat storage from the environment,
 negates the need for evaporative cooling and thus increases heat
 tolerance. However, it is a high-risk response as the torpid bats cannot
 defend body temperature if ambient temperature increases above a
 critical/lethal threshold. Torpor coupled with hyperthermia and
 micro-torpor-bouts broaden our understanding of the basic principles of
 thermal physiology and demonstrate how mammals can perform near their
 upper thermal limits in an increasingly warmer world.
DOI: 10.5281/zenodo.18396107
title: Supplementary of "Research advances of Carica papaya in agriculture, food science, and bioactive compounds: A bibliometric study"
DOI: 10.5281/zenodo.18396108
title: Supplementary of "Research advances of Carica papaya in agriculture, food science, and bioactive compounds: A bibliometric study"
DOI: 10.5061/dryad.stqjq2c24
title: Catalan Referendum Twitter corpus

description: This corpus consists of 46,962 tweets related to the Catalan referendum, a
 very controversial topic in Spain due to it was an independence referendum
 called by the Catalan regional government and suspended by the
 Constitutional Court of Spain after a request from the Spanish government.
 All the tweets were downloaded on October 1, 2017 with the
 hashtags #CatalanReferendum or #ReferendumCatalan. Later, we
 collected features of these tweets on October 31, 2017 in order to analyze
 their virality. Each item in this collection is made up of the
 features we used from each tweet to perform the virality analysis: lang:
 Tweet language. retweet_count: Total number of retweets recorded for a
 given tweet. favourite_count: Total number of favourites recorded for a
 given tweet. is_quote_status: Whether a tweet includes a quote of another
 tweet. num_hashtags: Total number of hashtags in the tweet. num_urls:
 Total number of URLs in the tweet. num_mentions: Total number of users
 mentioned in the tweet. interval_time: Interval of the day on which the
 tweet was published (morning (06:00-12:00), afternoon (12:00-18:00),
 evening (18:00-00:00) or night (00:00-06:00)). positive_words_iSOL: Total
 number of positive words found in the tweet using iSOL lexicon.
 negative_words_iSOL: Total number of negative words found in the tweet
 using iSOL lexicon. positive_words_NRC: Total number of positive words
 found in the tweet using NRC lexicon. negative_words_NRC: Total number of
 negative words found in the tweet using NRC lexicon.  
   positive_words_mlSenticon: Total number of positive words found
 in the tweet using ML-SentiCon lexicon. negative_words_mlSenticon: Total
 number of negative words found in the tweet using ML-SentiCon lexicon.
 verified_user: Whether the tweet is from a verified user.
 followers_count_user: Total number of users who follow the author
 of a tweet. friends_count_user: Total number of friends
 that the author is following. listed_count_user: Total
 number of lists that include the author of a tweet.
 favourites_count_user: Total
 number of favourited tweets by a user.
 statuses_count_user: Total number of tweets
 made by the author since the creation of the account.
DOI: 10.5061/dryad.9p8cz8wdv
title: Environmental change reduces body condition, but not population growth, in a high-arctic herbivore

description: Environmental change influences fitness-related traits and demographic
 rates, which in herbivores are often linked to resource-driven variation
 in body condition. Coupled body condition-demographic responses may
 therefore be important for herbivore population dynamics in fluctuating
 environments, such as the Arctic. We applied a transient Life-Table
 Response Experiment (‘transient-LTRE’) to demographic data from Svalbard
 barnacle geese (Branta leucopsis), to quantify their population-dynamic
 responses to changes in body mass. We partitioned contributions from
 direct and delayed demographic and body condition-mediated processes to
 variation in population growth. Declines in body condition (1980-2017),
 which positively affected reproduction and fledgling survival, had
 negligible consequences for population growth. Instead, population growth
 rates were largely reproduction-driven, in part through positive responses
 to rapidly advancing spring phenology. The virtual lack of body
 condition-mediated effects indicates that herbivore population dynamics
 may be more resilient to changing body condition than previously expected,
 with implications for their persistence under environmental change.
description: Data of body mass was recorded during goose catches (during the
 moulting period at the breeding grounds at Ny-Ålesund Svalbard). Body mass
 (measured in g) was then entered into data bases along with the individual
 ID and age class (fledgling = FL or adult = Ad).  Included in the dataset
 is the average annual body mass for a cohort , for fledglings (1991-2016)
 and adults (1980-2016), and the sample size for which the average was
 calculated. 
description: Where average values of body mass are missing, there was no data
 available in this year.
DOI: 10.5061/dryad.vt4b8gtqc
title: In the shadows of snow leopards and the Himalayas: density and habitat selection of blue sheep in Manang, Nepal

description: There is a growing agreement that conservation needs to be proactive and
 pay increased attention to common species and to the threats they face.
 The blue sheep (Pseudois nayaur) plays a key ecological role in sensitive
 high-altitude ecosystems of Central Asia and is among the main prey
 species for the globally vulnerable snow leopard (Panthera uncia). As the
 blue sheep has been increasingly exposed to human pressures, it is vital
 to estimate its population dynamics, protect the key populations, identify
 important habitats, and secure a balance between conservation and local
 livelihoods. We conducted a study in Manang, Annapurna Conservation Area
 (Nepal) to survey blue sheep on 60 transects in spring (127.9 km) and 61
 transects in autumn (134.7 km) of 2019, estimate their minimum densities
 from total counts, compare these densities with previous estimates, and
 assess blue sheep habitat selection by the application of generalized
 additive models (GAMs). Total counts yielded minimum density estimates of
 6.0-7.7 and 6.9-7.8 individuals/km2 in spring and autumn, respectively,
 which are relatively high compared to other areas. Elevation and, to a
 lesser extent, land cover indicated by the normalized difference
 vegetation index (NDVI) strongly affected habitat selection by blue sheep,
 whereas the effects of anthropogenic variables were insignificant. Animals
 were found mainly in habitats associated with grasslands and shrublands at
 elevations between 4200 and 4700 m. We show that the blue sheep population
 size in Manang has been largely maintained over the past three decades,
 indicating the success of the integrated conservation and development
 efforts in this area. Considering a strong dependence of snow leopards on
 blue sheep, these findings give hope for the long-term conservation of
 this big cat in Manang. We suggest that long-term population monitoring
 and a better understanding of blue sheep-livestock interactions are
 crucial to maintain healthy populations of blue sheep and, as a
 consequence, of snow leopards.