cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.0zpc866wv
title: Predicting species abundance by implementing the ecological niche theory

description: Species are not uniformly distributed across the landscape. For every
 species, there should be few favoured sites where abundance is high and
 many other sites of lower suitability where abundance is low.
 Consequently, local abundance could be thought of as a natural expression
 of species response to local conditions. The correlation between abundance
 and environmental suitability has been well documented, and a recent
 meta-analysis has suggested that this relationship could be a generality.
 Despite the importance and potential implication of the
 abundance-suitability relationship, its predictive power for meaningful
 extrapolations has been surprisingly poorly explored. In this study, we
 showed how a highly predictable trend can be extracted from the
 abundance-suitability relationship, accurately predicting the variation in
 species abundance at a high spatial resolution. We produced high-quality
 environmental suitability estimations for 50 endemic species to the
 Australian Wet Tropics. Environmental suitability derived from species
 distribution models was related to observed abundance estimated using data
 from 29 years of uninterrupted monitoring effort. We used the fitted
 relationship to accurately predict abundance at a fine scale across the
 species range. Our results showed that the abundance-suitability
 relationship was strong for endemic species in the Australian Wet Tropics.
 The predictive power of our models was high, explaining, on average, 55%
 of the deviance across taxa. Despite interspecific variation in the
 strength of the abundance-suitability relationship associated with
 potential intrinsic estimation biases, our approach provides a powerful
 tool for predicting abundance across the species range at a fine scale.
 The potential for robust abundance predictions from occurrence-based
 species distribution models shown in this study are numerous, and it could
 have a significant impact in enhancing species conservation and management
 decisions.
description: Data collection and methodology can be obtained from https://doi.org/10.1086/600087 and/or https://doi.org/10.1890/09-1069.1
DOI: 10.5061/dryad.crjdfn337
title: Spatially exlicit capture histories for small mammals and predators in a Tasmanian forest system

description: The following data represents three years of capture-recapure records from
 individually marked co-occurring small mammals and predators from four
 spatially independent sites situated in cool temperate forests in southern
 Tasmania, Australia. Data for small mammals was collected for the swamp
 rat, Rattus lutreolus, and long-tailed mouse, Pseudomys higginsi, using
 Elliott small mammal live capture and release traps. Data for predators
 was collected for the Tasmanian devil, Sarcophilus harrisii, and feral
 cat, Felis catus, using remote cameras.
description: The data set was collected using Elliott small mammal live
 capture and release traps for small mammals, and remote cameras for
 predators. Sixty Elliott traps and up-to 18 remote cameras were set at
 each of four sites two times per year for three years. The attached data
 is formatted for spatially explicit capture recapture analysis and as such
 contains capture histories for each species and survey and related trap
 locational files for each site. More detailed information in relation to
 survey methods can be found in Lazenby et al. (2021).
description: Capture histories and associated capture coordinates constituting
 spatially explicit capture recapture data<br> for the paper titled
 Raiders of the last ark: the impacts of feral cats on small mammals in
 Tasmanian forest ecosystems All text files are
 formatted consistently where in capture files:<br> Session -
 represents the survey session e.g. 1<br> Individual no. - depicts
 the ear mark or number assigned to each individual capture. There are
 often multiple capture records i.e. rows<br> for each individual
 within and between sessions.<br> Trap night - The night of capture
 across successive 24 hr periods.<br> Trap no. - The number assigned
 to the Elliott trap or camera in which a capture was recorded.<br>
 Site_month_year - the site, month and year of survey for each capture
 record. Sites are abbreviated to SW for southwest, MtF for Mt Field, WR
 for Wellington Ranges, and TP for Tasman Peninsula. And
 in trap and camera coordinate files:<br> Trap no. - Is the number
 assigned to each Elliott trap (for swamp rats and long-tailed mice) or
 camera (for feral cats and Tasmanian<br> devils). The following two
 columns represent an easting and northing in map datum WGS 84, with final
 column denoting site. IMPORTANT given Tasmanian devils are a listed
 threatened species, camera coordinates have been masked in order to
 generalize sensitive species occurence data. This masking will not affect
 the overall spatial scale of recapture of devils or cats. For enquiries
 please contact Billie Lazenby: Billie.Lazenby@dpipwe.tas.gov.au
DOI: 10.5061/dryad.00000002t
title: Data for: Analogous computations in working memory input, output and motor gating: Electrophysiological and computational modeling evidence

description: Adaptive cognitive-control involves a hierarchical cortico-striatal gating
 system that supports selective updating, maintenance, and retrieval of
 useful cognitive and motor information. Here, we developed a task that
 independently manipulates selective gating operations into working-memory
 (input gating), from working-memory (output gating), and of responses
 (motor gating) and tested the neural dynamics and computational principles
 that support them. Increases in gating demands, captured by gate switches,
 were expressed by distinct EEG correlates at each gating level that
 evolved dynamically in partially overlapping time windows. Further,
 categorical representations of specific maintained items and of motor
 responses could be decoded from EEG when the corresponding gate was
 switching, thereby linking gating operations to prioritization. Finally,
 gate switching at all levels was related to increases in the motor
 decision threshold as quantified by the drift-diffusion model. Together
 these results support the notion that cognitive gating operations scaffold
 on top of mechanisms involved in motor gating.
DOI: 10.15468/dl.zq7vpq
title: Occurrence Download

description: A dataset containing 1498 records in GBIF matching the query:
SELECT
 '450' 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;= 83.91704653307544
 AND decimalLongitude &lt;= 94.41597137694312
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 1498 records were derived from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002733-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.2jm63xsnp
title: Assessing mammal species richness and occupancy in a Northeast Asian temperate forest shared by cattle

description: Aim: Asian forests are becoming increasingly degraded and fragmented by
 the extensive intensification of anthropogenic activities; these
 activities threaten wildlife and ecosystem sustainability. Facing a
 defaunation crisis, managers need more information on species assemblages
 to guide conservation efforts. We tested the relative influence of natural
 and anthropogenic factors on mammalian species richness and occupancy in
 temperate forests in Northeast Asia. Location: Northeast China. Methods:
 Camera-trapping data and multi-species occupancy models were used to
 estimate the species richness of a terrestrial mammal community in a
 working landscape and assess community-, group-, and species-specific
 responses to natural and anthropogenic features while accounting for
 imperfect detection. Species were grouped based on body size, diet, and
 activity pattern. Results: We deployed 138 cameras and photographed 21
 mammalian species over 22,976 trap days across the China-Russia border.
 Both natural and anthropogenic correlates varied in their importance in
 predicting the presence of different animals. Vegetation cover and cattle
 were found to have significantly positive and negative influences on
 community-level mammalian occupancy, respectively. The positive
 relationship with vegetation cover was most evident for large or diurnal
 species; the negative relationship with cattle was most evident for
 diurnal and wild ungulate species. Large species occupancy was also
 negatively associated with human settlements. The predicted richness
 across each station varied from 5 to 14 unique species, and species had a
 mean occupancy probability of 0.45 (95% credible interval = 0.09-0.86).
 Species richness was generally the lowest in livestock grazing areas and
 close to human settlements. Human influence is more important than the
 influences of vegetation and environmental variables. Main conclusions:
 Our results highlight that livestock grazing was the primary human
 disturbance that had a negative impact on species occupancy and richness.
 Multi-species occupancy models helped to identify drivers of biodiversity
 declines and will inform conservation strategies in human-dominated
 landscapes in Northeast Asian forests. We suggest that landscape
 conservation planning seek to maximize forest protection and ecosystem
 services such as biodiversity and carbon storage.
description: detection history with effort 14 days.csv - Our observed data
 were represented by a summarized detection matrix yij that contains the
 number of 14-day windows where species i was detected at station j at
 least once. site covariates.csv - The covariate for
 each camera site, in the same order as all of the other data (not
 standardized). speciesCode.csv- A vector of the
 observed species used in our community analysis.
DOI: 10.5061/dryad.c59zw3r6f
title: Efficacy and safety evaluation of a new antidepressant drug agomelatine in the treatment of post-stroke depression: a single-center clinical study

description: Objective: To compare the effects of agomelatine and sertraline
 hydrochloride on the clinical efficacy, neurocytokine and monoamine
 transmitter metabolism in patients with post-stroke depression. 
 Methods: A total of 94 patients with post-stroke depression
 admitted to our hospital from July 2015 to September 2018 were randomly
 divided into a test group and a control group with 47 cases each. The
 experimental group was treated with agomelatine 25 mg/d orally, which was
 increased to 50 mg/d after 1 week, and the control group was treated with
 sertraline hydrochloride 50 mg/d. The two groups were treated continuously
 for 8 weeks. The clinical efficacy, the incidence of adverse reactions and
 the Hamilton Depression Scale (HAMD) before and after treatment, the
 National Institutes of Health Stroke Scale (NIHSS) score, BI index, and
 neurocytokines were compared between the two groups. Derived Neurotrophic
 Factor: BDNF; Nerve Growth Factor: NGF), Monoamine Transmitter Metabolism
 (5-Hydroxytryptamine: 5-HT; 5-Hydroxyindoleacetic acid: 5-HIAA;
 Norepinephrine: NE) changes. Results: After treatment, the total
 effective rates of the experimental group and the control group were
 82.97% (39 cases/47 cases) and 80.85% (38 cases and 47 cases),
 respectively, and the difference was not statistically significant
 (P&gt;0.05). After treatment, there was no statistical difference
 between the test group and the control group in HAMD score, NIHSS score,
 and BI index (P&gt;0.05). After treatment, there was no statistically
 significant difference between the test group and the control group in
 BDNF, NGF, 5-HT, 5-HIAA and NE (P&gt;0.05). The incidence of adverse
 reactions in the experimental group and the control group were 17.02% and
 19.14%, respectively, and the difference was not statistically significant
 (P&gt;0.05). Conclusion: Agomelatine and sertraline hydrochloride have
 the same clinical efficacy in the treatment of post-stroke depression, and
 the adverse reactions are relatively mild.
DOI: 10.5061/dryad.ngf1vhht0
title: State-space model for Svalbard ptarmigan

description: To improve understanding and management of the consequences of current
 rapid environmental change, ecologists advocate using long-term monitoring
 data series to generate iterative near-term predictions of ecosystem
 responses. This approach allows scientific evidence to increase rapidly
 and management strategies to be tailored simultaneously. Iterative
 near-term forecasting may therefore be particularly useful for adaptive
 monitoring of ecosystems subjected to rapid climate change. Here, we show
 how to implement near-term forecasting in the case of a harvested
 population of rock ptarmigan in high-arctic Svalbard, a region subjected
 to the largest and most rapid climate change on Earth. We fitted
 state-space models to ptarmigan counts from point-transect
 distance-sampling during 2005-2019 and developed two types of predictions:
 1) explanatory predictions to quantify the effect of potential drivers of
 ptarmigan population dynamics, and 2) anticipatory predictions to assess
 the ability of candidate models of increasing complexity to forecast
 next-year population density. Based on the explanatory predictions, we
 found that a recent increasing trend in the Svalbard rock ptarmigan
 population can be attributed to major changes in winter climate.
 Currently, a strong positive effect of increasing average winter
 temperature on ptarmigan population growth outweighs the negative impacts
 of other manifestations of climate change such as rain-on-snow events.
 Moreover, the ptarmigan population may compensate for current harvest
 levels. Based on the anticipatory predictions, the near-term forecasting
 ability of the models improved non-linearly with the length of the time
 series, but yielded good forecasts even based on a short time series. The
 inclusion of ecological predictors improved forecasts of sharp changes in
 next-year population density, demonstrating the value of ecosystem-based
 monitoring. Overall, our study illustrates the power of integrating
 near-term forecasting in monitoring systems to aid understanding and
 management of wildlife populations exposed to rapid climate change. We
 provide recommendations for how to improve this approach.
description: The time series of the Svalbard rock ptarmigan population is part
 of an ecosystem-wide monitoring system that encompasses the period of the
 most rapid recent climate warming with associated changes in the abiotic
 and biotic domains of the Svalbard terrestrial ecosystem. Ptarmigan data
 come from point-transect
 distance sampling conducted by the Norwegian Polar Institute on calling
 territorial males during four weeks in April. 
description: Please refer to the metadata file for detailed description of the
 variables and parameters in the RData file.
DOI: 10.5061/dryad.c59zw3r6g
title: Environmental conditions but not nest composition affect reproductive success in an urban bird

description: Birds can influence the environmental conditions that eggs and offspring
 experience by adjusting the composition of their nests. They often use
 feathers to build nests, presumably due to their insulating properties.
 The amount of feathers in nests is often associated with increased
 nestling survival and body condition. However, it is unclear whether these
 putative beneficial effects of adding feathers to nests are relevant in a
 wide range of environmental conditions or, instead, depend on the
 environment. Here, we combine data on weather conditions and feathers in
 nests (i.e. nest composition) to investigate their relative contribution
 to reproductive success of the Eurasian tree sparrow (Passer montanus).
 Specifically, we investigate whether the effect of weather conditions on
 breeding success is modulated by the amount of feathers added to the nest.
 We found a strong negative effect of rainfall on the number of nestlings
 that successfully fledged, but this negative effect was not mitigated by
 the amount of feathers in nests. We also found that the amount of feathers
 in nests varied across the breeding season. Nests contained more feathers
 early in the breeding season when temperatures were lower. Our results
 suggest that, despite considerable variation in nest composition, the use
 of feathers in nests is not beneficial to buffer negative rainfall effects
 on the reproductive success of tree sparrows.
DOI: 10.5068/d14x10
title: On defining and finding islands of trees and mitigating large island bias

description: How best can we summarise sets of phylogenetic trees? Systematists have
 relied heavily on consensus methods, but if tree distributions can be
 partitioned into distinct subsets it may be helpful to provide separate
 summaries of these rather than relying entirely upon a single consensus
 tree. How sets of trees can most helpfully be partitioned and represented
 leads to many open questions, but one  natural partitioning is
 provided by the islands of trees found during tree searches. Islands that
 are of dissimilar size have been shown to yield majority-rule consensus
 trees dominated by the largest sets. We illustrate this large island bias
 and approaches that mitigate its impact by revisiting a recent analysis of
 phylogenetic relationships of living and fossil amphibians. We introduce a
 revised definition of tree islands based on any tree-to-tree pairwise
 distance metric that usefully extends the notion to any set or multiset of
 trees, as might be produced by, for example, Bayesian or bootstrap
 methods, and that facilitates finding tree islands a posteriori. We
 extract islands from  a tree distribution obtained in a Bayesian
 analysis of the amphibian data to investigate their impact in that
 context, and we compare the partitioning produced by tree islands with
 those resulting from some alternative approaches. Distinct subsets of
 trees, such as tree islands, should be of interest because of what they
 may reveal about evolution and/or our attempts to understand it, and are
 an important, sometimes overlooked, consideration when building and
 interpreting consensus trees.
DOI: 10.25338/b8ts64
title: A solitary ground-nesting wasp truncates its parental investment in response to detection of parasites

description: 1. Parental investment by solitary nest-building wasps and bees is
 predicted to be plastic, responding to variation in the sex of the
 offspring, the availability of food used as provisions (‘resource
 limitation’), the female’s inventory of mature oocytes (‘egg limitation’),
 and risk imposed by nest parasites. 2. I observed nest provisioning by
 Ammophila dysmica, a solitary, ground-nesting wasp that provisions its
 nest with one or two caterpillar prey to evaluate the hypotheses that
 provisioning is shaped by caterpillar size, offspring sex, the hunting
 time required to capture prey, a female’s egg load, and penetration of
 nests by the parasites Argochrysis armilla and Hilarella hilarella. 3.
 Ammophila dysmica were more likely to add a second provision to the nest
 when the first prey item was relatively small and when provisioning
 daughters. 4. Neither the hunting time required to capture the first
 caterpillar prey nor the female’s inventory of oocytes predicted a
 female’s likelihood of adding a second caterpillar to a nest. Variation in
 oocyte inventory across females was minimal; all females examined had a
 mature or nearly mature oocyte remaining in the ovaries immediately after
 laying an egg. 5. Ammophila dysmica were much less likely to add a second
 caterpillar to nests that were penetrated by parasites during the first
 provisioning. 6. Although many nest parasites have evolved adaptations to
 avoid detection by their hosts, oviposition by A. armilla often appears to
 reveal its presence, eliciting an abrupt truncation of investment by the
 host in that nest.
description: All data were collected by direct observations in the field.
description: All needed metadata are included with the data files (see
 metadata tabs).
DOI: 10.5061/dryad.9w0vt4bdr
title: Data from: Sexual selection maintains a female-specific character in a species with dynamic sex roles

description: The effects of sexual selection are more conspicuous among male animals,
 and as a result the majority of sexual selection research focuses on
 males. However, burgeoning evidence suggests that sexual selection also
 acts on females, and there have been calls for an increased focus on
 females. Here, we used a multivariate approach to analyze sexual selection
 in Kawanaphila nartee, a spermatophore gift-giving bushcricket with
 dynamic sex roles. Early in the breeding season females compete for males,
 and later, when environmental food resources are more abundant, sex roles
 revert to Darwinian convention. Ear size, which is much greater in females
 than in males, has been suggested to affect female fitness, as females
 with larger ears are more likely to reach calling males first under sex
 role reversed conditions. We tested this suggestion and found evidence of
 positive linear and nonlinear correlational selection acting on female ear
 size early in the breeding season (under reversed sex roles), but not
 later in the breeding season (under Darwinian sex roles). Interestingly,
 there was no correlation between mating success and reproductive success
 (Bateman gradient) at any time during the season. Together, our results
 indicate that even brief and circumscribed periods of intrasexual
 competition among females can lead to sexual selection on morphological
 characters, and that this selection may not depend on multiple mating.
 Considering the wealth of reports in the literature of brief episodes of
 intrasexual competition among female animals, we recommend increased study
 of sexual selection acting on females.