cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.mcvdnck20
title: Sperm numbers on the perivitelline layers of blue tit eggs are repeatable within a clutch, but independent of the occurrence of extra-pair paternity

description: In many socially monogamous bird species, females produce offspring sired
 by males other than their social partner. A large body of research has
 aimed to elucidate the evolutionary causes and consequences of such
 extra-pair paternity, but relatively little is known about the underlying
 behaviour. The number of sperm on the egg’s perivitelline layers (PVL) is
 related to recent copulation activity and may thus give some insight into
 the female’s mating behaviour. We used a simple technique that allowed us
 to remove embryonic cells from the blastoderm for DNA extraction whilst
 keeping the PVL intact for sperm counts. Using 243 eggs from 99 blue tits
 (Cyanistes caeruleus), we show that PVL sperm numbers were repeatable
 within clutches (r = 0.40 [95% CI: 0.25-0.53]). However, neither overall
 sperm numbers, nor changes in sperm numbers across the laying sequence
 differed between clutches that contained extra-pair sired eggs and those
 that did not. Our results therefore provide no evidence that females with
 and without extra-pair young differ in their copulation activity.
description: Please see the methods sections in the manuscript for details on
 data collection.
description: The readme file contains an explanation of each of the variables
 in the dataset.
DOI: 10.5061/dryad.nk98sf7tx
title: Why forest fails to recover after repeated wildfires in Amazonian floodplains? Experimental evidence on tree recruitment limitation

description: Amazonian floodplain forests are particularly vulnerable to wildfires that
 spread during extreme droughts, causing large scale forest dieback. After
 a second wildfire, these forests persist trapped with low tree cover and
 empty seed banks, yet the mechanisms that could explain this arrested
 succession remain unknown. Here we use a four-year field
 experiment to test whether tree recruitment failures in burnt floodplain
 forests are caused by environmental filtering, limiting early seedling
 emergence and establishment. We sowed seeds and planted seedlings of six
 floodplain trees with contrasting life strategies, and tested the roles of
 environmental filters by comparing tree seedling performances under
 different habitats (i.e. unburned forest, forest edge with burnt site,
 forest burnt once and forest burnt twice), and by manipulating soil root
 mats and herbaceous cover. Our results show that seedling
 emergence was around 15 % across all habitats. In general, seedlings
 performed best in burnt forests. Seedling growth was highest in forests
 burnt once, possibly because of high nutrient availability after fire. In
 forests burnt twice, tree seedlings grew relatively less, as nutrients
 become limiting due to flood erosion; yet, seedlings survived longer,
 possibly because of lower competition with sparse, naturally recruiting
 trees. We found similar patterns for seedlings that emerged in the field
 from sowed seeds. Synthesis: Our experimental evidence suggests
 that environmental filtering related to soil nutrient limitations may slow
 down forest recovery after repeated wildfires. Yet, our findings showing
 that floodplain trees are able to germinate from seeds and establish
 successfully in twice burnt forests suggest that seed limitation may be
 the reason why forest recovery fails persistently. A corollary to the
 problem is that repeatedly burnt forests seem to be trapped by a
 self-reinforcing feedback, in which low tree cover reduces seed dispersal
 and consequently seed availability, keeping tree cover low. Overall, our
 findings indicate that active restoration initiatives based on seeding
 native tree species may help accelerating the recovery of degraded
 floodplain forests after repeated wildfires.
DOI: 10.25349/d9sp6v
title: Data from: Strong evidence for an intraspecific metabolic scaling coefficient near 0.89 in fish

description: We curated standard metabolic rate measurements of individual fish,
 temperature, and body mass.  The database is grouped
 by studies, with independent trials, and fish species.
 The databse includes a total of n = 1456 observations that were
 used to quantify the body mass – metabolic rate relationship in
 fishes using the evidential approach to statistical inference. 
description: We compiled standard metabolic rate (SMR, mg
 O<sub>2</sub> h<sup>-1</sup>) measurements of
 individual fish, their body mass (BM, g), and test temperature (ºC). Data
 were gathered by carefully and individually examining publicly available
 datasets published in complement to peer-reviewed articles from 2000 or
 later using Google Dataset Search
 (https://datasetsearch.research.google.com/); we used the following
 keywords "metabolic rate fish", "oxygen consumption
 fish", "metabolism fish", "standard metabolic rate
 fish". In addition, several datasets were personally received from
 authors and are shared with permission from authors. Metabolic rate data
 were included if the following criteria were met: 1) fish were in post
 larval life stages, 2) fish were in a post-absorptive state, meaning they
 were unfed for a minimum of 20 h prior to taking metabolic rate
 measurements, 3)  the SMR was estimated from taking overnight metabolic
 rate measurements of each fish (&gt;12 h of automatic measurement), 4)
 fish were acclimated to test water temperature for at least 7 days prior
 to the experiment, and 5) fish were at calm resting states. Data were
 included if SMR was measured at ecologically relevant conditions,
 including temperature ranges, for each species. Fish of the same species,
 from the same study, and with the same covariates (e.g., salinity, light,
 conspecific density conditions, diets, or population) were grouped
 together in trials (details in Jerde et al. 2019, main text and in the
 attached excel file). 
description: The description and documentation of the data are provided in the
 README document. Table 1 in the associated manuscript (Jerde et al.,
 2019) details the sources of the data, species, trials identification,
 temperature under which the SMR measurements were collected, and sample
 sizes per trial. Attached are five files: 1) README
 document, 2) Jerde_etal_2019_fish_SMR_scaling.xlsx (and open format
 datafile), 3)  Jerde_etal_2019_data_reference_table.xlsx, along with the
 .ods versions for the two .xls files.
DOI: 10.5061/dryad.2jm63xsq2
title: Distinct population code for movement kinematics and changes of ongoing movements in human subthalamic nucleus

description: The subthalamic nucleus (STN) is theorized to globally suppress movement
 through connections with downstream basal ganglia structures. Current
 theories are supported by increased STN activity when subjects withhold an
 uninitiated action plan, but a critical test of these theories requires
 studying STN responses when an ongoing action is replaced with an
 alternative. We perform this test in subjects with Parkinson’s disease
 using an extended reaching task where the movement trajectory changes
 mid-action. We show that STN activity decreases during action switches,
 contrary to prevalent theories. Further, beta oscillations in the STN
 local field potential, which are associated with movement inhibition, do
 not show increased power or spiking entrainment during switches. We report
 an inhomogeneous population neural code in STN, with one sub-population
 encoding movement kinematics and direction and another encoding unexpected
 action switches. We suggest an elaborate neural code in STN that
 contributes to planning actions and changing the plans.
description: This dataset contains raw and processed data for subjects
 completing the Interrupted Reach task during STN micro-electrode
 recordings. Each subject folder (e.g. Sub01) contains the raw
 electrophysiology data, the sorted spikes, and the behavioral data as .mat
 files. Time-frequency data for the LFP is provided for each subject in the
 "CWT_mean" folder. The analytic signal of the data filtered in
 the beta frequency range is in the "Hilbert_beta_mean" folder.
 The PPC folders contain the pairwise phase consistency data for each
 subject. The processed_data.mat file contains a structure with all
 subjects' spiking and behavioral related data. It does not contain
 LFP data.
DOI: 10.15468/dl.tpnyj8
title: Occurrence Download

description: A dataset containing 1015 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (Bhutan, India, Myanmar, China, Bangladesh)",
 "IucnRedListCategory is CR",
 "OccurrenceStatus is Present",
 "TaxonKey is Ardea insignis",
 "Year 1850-2026"
 ]
}

 The dataset includes 1015 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002911-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.j9kd51cd3
title: Comparative analysis of Dipodomys species indicates that kangaroo rat hindlimb anatomy is adapted for rapid evasive leaping

description: Body size is a key factor that influences antipredator behavior. For
 animals that rely on jumping to escape from predators, there is a
 theoretical trade-off between jump distance and acceleration as body size
 changes at both the inter- and intraspecific levels. Assuming geometric
 similarity, acceleration will decrease with increasing body size due to a
 smaller increase in muscle cross-sectional area than body mass. Smaller
 animals will likely have a similar jump distance as larger animals due to
 their shorter limbs and faster accelerations. Therefore, in order to
 maintain acceleration in a jump across different body sizes, hind limbs
 must be disproportionately bigger for larger animals. We explored this
 prediction using four species of kangaroo rats (Dipodomys spp.), a genus
 of bipedal rodent with similar morphology across a range of body sizes
 (40–150 g). Kangaroo rat jump performance was measured by simulating snake
 strikes to free-ranging individuals. Additionally, morphological
 measurements of hind limb muscles and segment lengths were obtained from
 thawed frozen specimens. Overall, jump acceleration was constant across
 body sizes and jump distance increased with increasing size. Additionally,
 kangaroo rat hind limb muscle mass and cross-sectional area scaled with
 positive allometry. Ankle extensor tendon cross-sectional area also scaled
 with positive allometry. Hind limb segment length scaled isometrically,
 with the exception of the metatarsals, which scaled with negative
 allometry. Overall, these findings support the hypothesis that kangaroo
 rat hind limbs are built to maintain jump acceleration rather than jump
 distance. Selective pressure from single-strike predators, such as snakes
 and owls, likely drives this relationship.
DOI: 10.5061/dryad.h18931zm6
title: Combined pressure and flow measurements to guide treatment of coronary stenoses

description: Objectives: The aim of this study was to assess clinical outcomes after
 combined pressure and flow assessment of coronary lesions. Background:
 Although fractional flow reserve (FFR) remains the invasive reference
 standard for revascularization, approximately 40% of stenoses have
 discordant coronary flow reserve (CFR). Optimal treatment for these
 disagreements remains unclear. Methods: A total of 455 subjects with 668
 lesions were enrolled from 12 sites in 6 countries. Only lesions with
 reduced FFR and CFR underwent revascularization; all other combinations
 received initial medical therapy. Results: Fourteen percent of lesions had
 FFR&lt;=0.8 but CFR&gt;=2.0 while 23% of lesions had
 FFR&gt;0.8 but CFR&lt;2.0. During 2-year follow-up, the primary
 endpoint of composite all-cause death, myocardial infarction, and
 revascularization in lesions with FFR&lt;=0.8 but CFR&gt;=2 (10.8%
 event rate) compared with lesions with FFR&gt;0.8 and CFR&gt;=2
 (6.2% event rate) exceeded the prespecified +10% noninferiority margin (P
 = 0.090). Target vessel failure models using both continuous FFR and
 continuous CFR found that only higher FFR was associated with reduced
 target vessel failure (Cox P = 0.007) after initial medical treatment.
 Central core laboratory review accepted 69.8% of all tracings with mean
 differences of &lt;0.01 for FFR and &lt;0.02 for CFR, indicating
 no material impact on clinical measurements or outcomes. Conclusions:
 All-cause death, myocardial infarction, and revascularization after 2
 years was not noninferior between lesions with FFR&lt;=0.8 but
 CFR&gt;=2 and lesions with FFR&gt;0.8 and CFR&gt;=2. These
 results do not support using invasive CFR&gt;=2 to defer
 revascularization for lesions with reduced FFR if the patient would
 otherwise be a candidate on the basis of the entire clinical scenario and
 treatment preference.
DOI: 10.5061/dryad.5hqbzkh6c
title: Midpoint attractor models resolve the mid-elevation peak in Himalayan plant species richness

description: The midpoint attractor models (MPA) of species richness integrate a
 unimodal environmental favourability gradient and neutral effects forced
 by geometric constraints and thus extend ecologically neutral mid-domain
 model. However, both alternative MPA algorithms assume that underlying
 environmental favourability peaks within the modeling domain. Here, we
 used elevational distribution data for 1054 plant species occurring in NW
 Himalaya to explore species richness gradients and MPA performance in
 species groups defined by biogeography, taxonomy and life form. MPA models
 achieved an excellent fit, but the two MPA algorithms produced contrasting
 estimates of midpoint attractor location, especially for species groups
 with richness originating in lowlands. Therefore, we propose a
 modification of the MPA model accounting for the environmental
 favourability peak outside the study domain to reflect these situations.
 Biogeographic origin was more decisive for midpoint attractor location
 than taxonomic or life-form classification, indicating relatively low
 climatic niche conservatism in plants.
description: Data file contains information on vertical range limits for 1054
 vascular plants recorded in West Himalayas, Ladakh territory, India.
 Regional range limits for Ladakh are based on field survey by L. Klimeš
 and J. Doležal. Continental range limits in adjacent regions were compiled
 from published records in: the Flora of Pakistan
 (https://www.tropicos.org/Project/Pakistan), the Flora of China
 (www.eFloras.org), the Flora of Nanga Parbat (Dickoré & Nüsser,
 2000), The Himalayan Uplands Plant database (Dickoré, 2011), and the
 Global Biodiversity Information Facility (GBIF, https://www.gbif.org).
 Records from the GBIF were rounded to nearest hundred. Unreliable outliers
 based on historical records (e.g. proclaimed elevation more than 1000 m
 apart from other records) were not taken into account and the next
 closest, reliable occurrence extreme was used instead.
 Further, it contains implementation of midpoint attractor models
 in R language, which was used to analyze this data.
DOI: 10.5061/dryad.9kd51c5hm
title: The main associated trees of Parrotia subaequalis in eastern China

description: Parrotia subaequalis (H. T. Chang) R. M. Hao et H. T. Wei is a rare and
 endangered Tertiary relict tree that is endemic to subtropical China.
 However, little is known about its growth condition and relationship with
 associated tree species. Here, we for the first time measured the
 structural diversity of P. subaequalis communities at three representative
 sites in eastern China using four structural indices including mingling,
 tree-tree distance, diameter and tree height differences. This dataset is
 about the main associated trees of Parrotia subaequalis in eastern China.
 It includes the species names, individuals, distributing sites of main
 associated trees in the three sample areas. The results showed that: 1)
 Collectively, most P. subaequalis and associated tree species were small
 and mid-sized classes in tree height, and small-sized class in diameter;
 2) There were two or more other tree species around most of P. subaequalis
 individuals across the three sites; 3) Overall, the mean distance between
 reference trees and their neighbors was mainly 1–2 m. Our results
 indicated that a strong interspecific competition existed between P.
 subaequalis and its associated tree species. Meanwhile, although the
 reference tree P. subaequalis had slight advantages in both horizontal and
 vertical planes, we think that it is necessary to take some effective
 measures to reduce the interspecific competition and thereby keep it at a
 proper successive stage. In addition, we also discuss the protection level
 of P. subaequalis in China, and propose to keep this species at the
 First-Grade State Protection.
description: This dataset was collected by the authors during field
 investigetion. It was used to conduct an analysis of <em>Parrotia
 subaequalis</em>'s growth condition and relationship with
 associated tree species.
DOI: 10.15468/dl.4wjatj
title: Occurrence Download

description: A dataset containing 342698 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is FLOTROP, a massive contribution to plant diversity data for open ecosystems in Tropical Africa."
 ]
}

 The dataset includes 342698 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002922-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.47d7wm3dg
title: Spatial conservation prioritization for the Amur tiger in Northeast China

description: Amur tiger (Panthera tigris altaica) is critically endangered and also the
 subspecies of the tiger with the most restoration potential in China. It
 is challenging to protect large-ranging carnivores like tigers under
 increasing pressure of human development. To provide a more technically
 robust foundation for tiger habitat conservation prioritization, we
 conducted a comprehensively empirical analysis based on a broadly
 collected occurrence dataset of tigers and their prey. We modeled tiger
 distribution by running an ensemble model integrating nine different
 algorithms. We found that the ensemble model performed well and
 outperformed any individual model regarding the discrimination ability. We
 used cumulative resistant kernel analysis to identify core habitats as
 with high predicted movement density and used factorial least-cost paths
 to model corridors among tiger occurrence locations. We found core
 habitats for Amur tigers are distributed in three mountain areas, namely
 eastern Wanda Mountain, southern Zhangguangcailing, and
 Laoyeling-Dalongling. We found significant protection gaps as existing
 protected areas only cover less than 1/4 of predicted core habitats, but
 this proportion will rise significantly with the establishment of the
 Northeast China Tiger and Leopard National Park. Furthermore, we ranked
 spatial priorities for the expansion of the protected area network,
 simultaneously considering biological and socioeconomic dimensions under
 the Zonation framework. Our study presented the most up-to-date and
 detailed maps of the predicted potential distribution and area of the most
 important habitats for the Amur tigers in China, which can provide
 quantitative guidance in the effort to maximize the efficiency of
 conservation initiatives at a regional scale.
description: This dataset contains the environmental variables used to model
 ungulate richness and Amur tiger habitat suitability and the R code to
 conduct these analyses.
DOI: 10.5061/dryad.mgqnk990k
title: Incubation temperature and physiological aging in the zebra finch

description: In birds, incubation temperature has received increased attention as an
 important source of phenotypic variability in offspring. A lower than
 optimal incubation temperature may negatively affect aspects of nestling
 physiology, such as body growth and energy metabolism. However, the
 long-term effects of sub-optimal incubation temperature on morphology and
 physiology are not well understood. In a previous study, we showed that
 zebra finches from eggs incubated at a low temperature (35.9°C) for 2/3 of
 the total incubation time suffered a lower post-fledging survival compared
 to individuals that had been incubated at higher temperatures (37.0 and
 37.9°C). In the present study, we investigated whether these variations in
 incubation temperature could cause permanent long-lasting differences in
 body mass, body size, or basal metabolic rate. Furthermore, we tested
 whether the observed differences in survival between treatment groups
 would be reflected in the rate of physiological deterioration, assessed
 through oxidative damage and decreased metabolic rate with age (i.e.
 ‘metabolic aging’). Incubation temperature did not significantly affect
 embryonic or nestling body growth and did not influence final adult body
 mass or body size. Nor was there any long-term effect on basal metabolic
 rate. Birds from eggs incubated at the lowest temperature experienced an
 accumulation of oxidative damage with age, although this was not
 accompanied by an accelerated rate of metabolic aging. The present results
 suggest that the low survival in these birds was possibly mediated by
 increased oxidative stress, but independent of body growth and the basal
 metabolic rate.
DOI: 10.5061/dryad.ttdz08kzs
title: Data from: Geographic variation in pollen color is associated with temperature stress

description: The evolution of flower color, especially petal pigmentation, has received
 substantial attention. Less understood is the evolutionary ecology of
 pollen pigmentation though it varies among and within species and its
 biochemical properties affect pollen viability.   We characterize
 the distribution of pollen color across 24 populations of the North
 American herb Campanula americana, and assess the degree to which this
 variation is genetically based. We identify abiotic factors that covary
 with pollen color and test whether germination of light and dark pollen is
 differentially affected by variable temperature and UaV. Pollen color
 vaulries from white to deep purple in C. americana and is genetically
 determined. There was a longitudinal cline whereby pollen was darkest in
 western populations. Accounting for latitudinal variation, western
 populations experience elevated temperature and UV irradiance. Germination
 of light-colored pollen was reduced by 60% under high temperature, but
 dark pollen was unaffected. Exposure to UV reduced germination of light
 and dark pollen similarly. The cline in pollen color across the range may
 reflect adaptation to heat stress. This study supports thermal tolerance
 as a novel function of pollen pigmentation and contributes to growing
 evidence that abiotic factors can drive floral diversity.
description: Campanula americana plants from 24 populations were grown to
 flowering in the greenhouse. Pollen color was scored as indicated in the
 paper. Pollen color of parents and offspring were used to calculat of
 heritability. Geographic variation in pollen color and its association
 with abiotic factors was estimated. Finally different color pollen was
 exposed to a range of temperatures and to different UV levels to determine
 the influence of these factors on pollen viability (measured as
 germination proportion). Raw data is uploaded. Additional data can be
 found in Table S1 of the Supporting Information.
description: Metadata is included in each of the files describing each
 vbariable. The methods section of the paper describes how each variable
 was collected.<br> Missing values for numerical data are blanks,
 i.e. empty cells, for non-numerical data they are "."