cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.jwstqjqfq
title: Desktop fabrication of monolithic soft robotic devices with embedded fluidic control circuits

description: Most soft robots are pneumatically actuated and fabricated by molding and
 assembling processes that typically require many manual operations and
 limit complexity. Furthermore, complex control components (for example,
 electronic pumps and microcontrollers) must be added to achieve even
 simple functions. Desktop fused filament fabrication (FFF)
 three-dimensional printing provides an accessible alternative with less
 manual work and the capability of generating more complex structures.
 However, because of material and process limitations, FFF-printed soft
 robots often have a high effective stiffness and contain a large number of
 leaks, limiting their applications. We present an approach for the design
 and fabrication of soft, airtight pneumatic robotic devices using FFF to
 simultaneously print actuators with embedded fluidic control components.
 We demonstrated this approach by printing actuators an order of magnitude
 softer than those previously fabricated using FFF and capable of bending
 to form a complete circle. Similarly, we printed pneumatic valves that
 control a high-pressure airflow with low control pressure. Combining the
 actuators and valves, we demonstrated a monolithically printed
 electronics-free autonomous gripper. When connected to a constant supply
 of air pressure, the gripper autonomously detected and gripped an object
 and released the object when it detected a force due to the weight of the
 object acting perpendicular to the gripper. The entire fabrication process
 of the gripper required no posttreatment, postassembly, or repair of
 manufacturing defects, making this approach highly repeatable and
 accessible. Our proposed approach represents a step toward complex,
 customized robotic systems and components created at distributed
 fabricating facilities.
description: Please see the README document and the corresponding published
 article: Zhai Y., De Boer A., Yan
 J., Shih  B., Faber M., Speros J., Gupta R., Tolley M. T. , 2023,
 "Desktop
 Fabrication of Monolithic Soft Robotic Devices with
 Embedded Fluidic Control Circuits", Science Robotics, 8 (79),
 eadg3792. DOI:
 10.1126/scirobotics.adg3792
description: Please see the README document and the corresponding published
 article: Zhai Y., De Boer A., Yan
 J., Shih  B., Faber M., Speros J., Gupta R., Tolley M. T. , 2023,
 "Desktop
 Fabrication of Monolithic Soft Robotic Devices with
 Embedded Fluidic Control Circuits", Science Robotics, 8 (79),
 eadg3792. DOI:
 10.1126/scirobotics.adg3792
DOI: 10.5061/dryad.sn02v6x8p
title: Use of density-impact functions to inform and improve the environmental outcomes of feral horse management

description: The available science often demonstrates the need for feral horse
 population control but not the degree of control required to achieve
 environmental conservation objectives. To better manage the influence of
 feral horses, we must first understand the relationship between feral
 horse density and environmental impact. We recorded vegetation and soil
 disturbance, and the sign of potential causes of this impact in two parts
 of the Australian Alps, the Bogong High Plains (BHP) and the Eastern
 Victorian Alps (EVA). We calculated density-impact functions to assist
 managers with determining feral horse density targets for control
 programmes. Minimal sign of feral horse impact was detected on the BHP,
 with no impact of feral horses observed along 99% of the length of
 transects. In contrast, impacts assigned to feral horses were
 significantly higher in the EVA, where a larger, higher-density population
 of feral horses existed. However, greater than 83% of the walked transect
 length was still undisturbed by feral horses in the EVA. We detected a
 threshold of horse impact at ~250 horse faecal piles per ha. Above this
 threshold, a slight increase in horse density resulted in a
 disproportionately large increase in impact. In this context, a relatively
 small population control effort may substantially reduce direct horse
 impact. But where horse densities exist below this threshold, considerably
 more expense and control effort (resulting from the difficulties related
 to control at low density) is likely to make very little difference to an
 already low level of direct impact. The combined impacts associated with
 the sign of deer, feral pigs, fire and humans were large compared to that
 of feral horses. Management of feral horses to reduce their direct impact
 is unlikely to be beneficial without complementary management to reduce
 the effects of these other agents of impact.
DOI: 10.5061/dryad.x69p8czpk
title: Data from: Jeju Island: a sentinel for tracking ocean warming impacts on high-latitude benthic communities

description: As climate changes and anthropogenic pressures increase, marine ecosystem
 assembly and functioning are altered. High-latitude areas may provide
 opportunities for some tropical and subtropical organisms to survive. Yet,
 it is difficult to assess ongoing changes as ecological baselines are
 often missing. Here, we focus on the rapidly warming region of Jeju Island
 (South Korea), where thermal changes may have already triggered a poleward
 expansion of tropical and subtropical taxa and changes in community
 assembly. In 2012–2014, an island-wide quantitative description of its
 benthic communities (5 m and 15 m depths) was made, whereas patterns in
 seawater temperatures were examined from 1981 to 2020. The Jeju Island
 algal assemblage was dominated by the regionally endemic
 kelp, Ecklonia cava. Turf, encrusting coralline algae, alongside
 tropical, subtropical, and cosmopolitan macro-algae were also major
 components of the benthic community. Hermatypic coral cover was higher at
 the 15 m depth than 5 m depth. Increases in seawater temperatures were
 highly significant, with differences between the average annual SST
 [1980–2020] and annual SST reaching up to + 1.61 °C in only 40 yr. The
 thermal rise was more pronounced in winter than summer, and warming was
 further accompanied by a major decline in the number of days below 14 °C
 and 18 °C, which are considered critical thermal thresholds for hermatypic
 coral survival and reef development, respectively. Warming winter seawater
 temperatures could ultimately lead to a loss of seasonality and profound
 modifications of benthic assemblages. This study provides the necessary
 assessment of benthic community conditions at Jeju Island upon which the
 ongoing changes in the area can be explicitly demonstrated.
description: Full details on sample collection and analyses are available in
 the published manuscript.
DOI: 10.5061/dryad.3ffbg79pp
title: Kupffer cell-like syncytia replenish resident macrophage function in fibrotic liver

description: Kupffer cells (KCs) are localized in liver sinusoids but extend pseudopods
 to parenchymal cells to maintain their identity and serve as the body’s
 central bacterial filter. Liver cirrhosis dramatically alters vascular
 architecture, but how KCs adapt is unclear. We used a mouse model of liver
 fibrosis and human tissue to examine immune adaptation. Fibrosis forced
 KCs to lose contact with parenchymal cells, downregulating “KC identity”,
 which rendered them incapable of clearing bacteria. Commensals stimulated
 the recruitment of monocytes via CD44 to a spatially distinct vascular
 compartment. There, they formed large aggregates of multinucleated cells
 (syncytia) that expressed phenotypical KC markers and displayed enhanced
 bacterial catching ability. Syncytia formed via CD36 and were observed in
 human cirrhosis as a possible antimicrobial defense that evolved with
 fibrosis.
description: This data package contains the raw data to reproduce all figures in this
 manuscript. In particular,
 we provide the unaltered and
 unprocessed raw bitmap
 files (tif) used for all microscopy images and microscopy
 videos shown in the manuscript. The main methods used in the
 paper are intravital microscopy, flow cytometry, and RNA sequencing. Raw
 data are from image analysis. The raw sequencing data have been deposited
 in the Gene Expression Omnibus (GEO) under GSE226946.
DOI: 10.5061/dryad.sbcc2frc6
title: Spring arrival of the common cuckoo at breeding grounds is strongly determined by environmental conditions in tropical Africa

description: Failure to adapt migration timing to changes in environmental conditions
 along migration routes and at breeding locations can result in mismatches
 across trophic levels, as occurs between the brood parasitic common cuckoo
 Cuculus canorus and its hosts. Using satellite tracking data from 87 male
 cuckoos across 11 years, we evaluate why the cuckoo has not advanced its
 arrival to the UK. Across years, breeding ground arrival was primarily
 determined by timing of departure from stopover in West Africa before
 northward crossing of the Sahara. Together with high population synchrony
 and low apparent endogenous control of this event, this suggests that a
 seasonal ecological constraint operating here limits overall variation in
 breeding grounds arrival, although this event was itself influenced by
 carry-over from timing of arrival into tropical Africa. Between-year
 variation within individuals was, in contrast, mostly determined by
 northward migration through Europe, likely due to weather conditions. We
 find evidence of increased mortality risk for a) early birds following
 migration periods positively impacting breeding grounds arrival, and b)
 late birds, possibly suffering energy limitation, after departure from the
 breeding grounds. These results help identify areas where demands of
 responding to global change can potentially be alleviated by improving
 stopover quality.
description: These datasets were constructed as described in the Methods of
 the paper. <strong>mig_timing_df.csv</strong> is the cleaned
 Julian date of each migratory milestone, with associated covariates, by
 PTT and year. <strong>mig_timing_df_uncertainty.csv</strong>
 is the uncertainty associated with each milestone.
description: The data files are in comma-separated value format and are
 designed to be analysed using the script
 <strong>analyse_cuckoo_mig_milestones.R</strong>.
DOI: 10.5061/dryad.8931zcrw2
title: Fastq sequence files supporting: Assessing the degradation of environmental DNA and RNA based on genomic origin in a metabarcoding context

description: Molecular tools of species identification based on eNAs (environmental
 nucleic acids; eDNA and eRNA) have the potential to greatly transform
 biodiversity science. However, the ability of eNAs to obtain “real-time”
 biodiversity estimates may be complicated by the differential persistence
 and degradation dynamics of the molecular template (eDNA or eRNA) and the
 barcode marker used. Here, we collected water samples over a 28-day period
 to comparatively assess species detection using eDNA and eRNA
 metabarcoding of two distinct barcode markers—a mitochondrial mRNA marker
 (COI) and a nuclear rRNA marker (18S)—following complete removal
 of Arthropoda taxa in a semi-natural freshwater system.
 Our findings demonstrate that Arthropoda community
 composition was largely influenced by marker choice, rather than molecular
 template, individual microcosm, or sampling time point. Further, although
 eRNA may capture similar species diversity as the established eDNA method,
 this finding may be marker dependent. Although we found little to
 no difference in decay rates observed among sample groups (COI eDNA, COI
 eRNA, 18S eDNA, 18S eRNA), this result is likely due to limitations in the
 ability of eNA-based metabarcoding to provide a strong
 correlation between true eNA copy numbers present in the
 environment and final read counts obtained (following the metabarcoding
 workflow). Collectively, our findings provide further support for
 the use of multi-marker assessments in metabarcoding surveys to unravel
 the broadest taxonomic diversity possible, highlight the limitations
 of eNA metabarcoding methods in providing accurate decay
 rate estimates, as well as establish the need for further comparative
 studies using both metabarcoding and single-species detection methods to
 assess the persistence and degradation dynamics of eNAs for a diverse
 range of taxa.
description: Refer related manuscript for more information.
DOI: 10.5281/zenodo.18375140
title: Bias-corrected annual precipitation, reference evapotranspiration, and aridity index over Europe (1950-2024)

description: This dataset provides bias-corrected annual precipitation (P), reference evapotranspiration (ET₀), and the derived Aridity Index (AI) over Europe for the period 1950-2024. The data are based on ERA5-Land reanalysis and were bias-corrected using CLIMWAT station observations.

Annual fields were produced from monthly ERA5-Land variables and aggregated on the native spatial grid. Reference evapotranspiration was computed following the FAO-56 Penman-Monteith formulation, and the aridity index was calculated as the ratio of annual precipitation to annual reference evapotranspiration.

In addition to the annual datasets, the dataset includes:



Long term mean and percent deviations of precipitation (P), reference evapotranspiration (ET₀), and derived aridity index (AI) over Europe for 1950-1974 (base period), 1975-1999, and 2000-2024 periods.

Sen’s slope trend estimates and Mann-Kendall p-values for annual precipitation (P), reference evapotranspiration (ET₀), and aridity index (AI) for the period 1950-2024.


All variables are provided in NetCDF format with CF-compliant metadata and are intended for use in climate variability, aridification assessment, and hydro-climatic trend analyses at regional to continental scales.
DOI: 10.5281/zenodo.18375141
title: Bias-corrected annual precipitation, reference evapotranspiration, and aridity index over Europe (1950-2024)

description: This dataset provides bias-corrected annual precipitation (P), reference evapotranspiration (ET₀), and the derived Aridity Index (AI) over Europe for the period 1950-2024. The data are based on ERA5-Land reanalysis and were bias-corrected using CLIMWAT station observations.

Annual fields were produced from monthly ERA5-Land variables and aggregated on the native spatial grid. Reference evapotranspiration was computed following the FAO-56 Penman-Monteith formulation, and the aridity index was calculated as the ratio of annual precipitation to annual reference evapotranspiration.

In addition to the annual datasets, the dataset includes:



Long term mean and percent deviations of precipitation (P), reference evapotranspiration (ET₀), and derived aridity index (AI) over Europe for 1950-1974 (base period), 1975-1999, and 2000-2024 periods.

Sen’s slope trend estimates and Mann-Kendall p-values for annual precipitation (P), reference evapotranspiration (ET₀), and aridity index (AI) for the period 1950-2024.


All variables are provided in NetCDF format with CF-compliant metadata and are intended for use in climate variability, aridification assessment, and hydro-climatic trend analyses at regional to continental scales.
DOI: 10.5061/dryad.5dv41nsbh
title: Morphology of Arctic cod (Boreogadus saida) assessed according to habitat preference and age in the Beaufort Sea

description: Arctic cod (Boreogadus saida) represents the most widespread and abundant
 fish in the Arctic and is a critical trophic link in its ecosystems. Like
 many species endemic to the region, it has lost essential habitat as the
 extent and thickness of sea ice have declined substantially in recent
 decades. Extreme warming induced by climate change continues to
 deteriorate polar marine environments. Thus, understanding how Arctic cod
 uses and partitions its habitat/environment is central to its
 conservation. We assessed Arctic cod functional morphology using
 traditional (including gill rakers) and geometric morphometrics and
 explored whether these differed among habitats and age classes using
 multivariate techniques. While distinct ecotypes have been proposed, these
 were not detected in our analyses. Rather, results show similar patterns
 in the external morphology of Arctic cod across habitats and age classes
 in the Beaufort Sea. However, analysis of gill rakers revealed concurrent
 habitat- and age-specific changes likely associated with dietary
 preferences. Findings indicate that although Arctic cod does not
 specialise in external morphological features in any habitat, important
 aspects of its internal feeding morphology shift as it grows,
 likely underpinning important distributional changes and the species'
 critical role in transferring energy in Arctic marine ecosystems.
description: Arctic cod were collected along predefined transects in the
 Beaufort Sea as part of the Canadian Beaufort Sea Marine Ecosystem
 Assessment program run by Fisheries and Oceans Canada. Collected fish were
 frozen and sent to the Fish Population and Conservation Genetics
 laboratory at McGill University for processing. Here, fish were thawed and
 photographed in standardised manner. Because some fish were in poor
 conditions (after collection, freezing, and thawing) not all fish were
 usable in all analyses (as described in the text). Fish pictures were
 analysed for geometric morphometrics to assess shape and shape features.
 Traditional morphology was also assessed from standardised pictures. The
 gill arch on the right side of each usable fish was extracted under a
 dissecting microscope and the length of the gill arch and the number of
 gill rakers was recorded.
DOI: 10.25338/b8t64h
title: Can demographic histories explain long-term isolation and recent pulses of asymmetric gene flow between highly divergent gray fox lineages?

description: Secondary contact zones between deeply divergent, yet interfertile,
 lineages provide windows into the speciation process. North American gray
 foxes (Urocyon cinereoargenteus) are divided into western and eastern
 lineages that diverged approximately 1 million years ago. These ancient
 lineages currently hybridize in a relatively narrow zone of contact in the
 southern Great Plains, a pattern more commonly observed in smaller-bodied
 taxa, which suggests relatively recent contact after a long period of
 allopatry. Based on local ancestry inference with whole genome sequencing
 (n = 43), we identified two distinct Holocene pulses of admixture. The
 older pulse (500–3,500 YBP) reflected unidirectional gene flow from east
 to west, whereas the more recent pulse (70–200 YBP) of admixture was
 bi-directional. Demographic analyses indicated that the eastern lineage
 declined precipitously after divergence, remaining small throughout most
 of the late Pleistocene, and expanding only during the Holocene. Genetic
 diversity in the eastern lineage was highest in the southeast and lowest
 near the contact zone, consistent with a western expansion. Concordantly,
 distribution modeling indicated that during their isolation, the most
 suitable habitat occurred far east of today’s contact zone or west of the
 Great Plains. Thus, long-term isolation was likely caused by the small,
 distant location of the eastern refugium, with recent contact reflecting a
 large increase in suitable habitat and corresponding demographic expansion
 from the eastern refugium. Ultimately, long-term isolation in gray foxes
 may reflect their specialized bio-climatic niche. This system presents an
 opportunity for future investigation of potential pre- and post-zygotic
 isolating mechanisms. 
description: See README.md file for detailed information on the methods and
 data processing.
description: See README.md file for detailed information on programs and
 software required to recreate analyses in this manuscript
DOI: 10.5061/dryad.rbnzs7hh2
title: Data from: Contemporary distribution of non-native Chinook salmon (Oncorhynchus tshawytscha) in South America

description: The dataset incorporates information on Chinook salmon occurrences by
 basin in South America, which was obtained from the literature and from
 unpublished information obtained from research monitoring efforts
 conducted in Chile, Argentina, and Uruguay. The information was divided
 into two periods: historical (prior to 2006) and contemporary information
 (2006 onwards). Year or range of years in which the observation was taken
 was also included. This dataset was used to construct Fig. 1 of the
 manuscript "Contemporary distribution of non-native Chinook salmon
 (Oncorhynchus tshawytscha) in South America".
description: Adult Chinook salmon occurrences in South
 America were gathered from peer-reviewed journal articles and unpublished
 information obtained from research monitoring efforts conducted in Chile
 (Millennium Nucleus of Austral Invasive Salmonids, INVASAL), Argentina
 (CONICET), and Uruguay (National Direction of Aquatic Resources, DINARA,
 MGAP) between 2006 and 2022. For our literature review, we used the
 keywords “<em>Oncorhynchus tshawytscha</em>”, or “non-native
 Chinook salmon”, and “Distribution”, or “South America”, or “Patagonia”.
 Research monitoring programs included intense field sampling efforts in
 freshwater and estuarine environments (i.e., netting, angling, trolling,
 electrofishing, and environmental DNA), opportunistic and pilot sampling
 efforts in marine environments, as well as recreational fishery records
 with posterior field surveys or visual (photos or videos)
 confirmation. For each
 Chinook salmon occurrence, we incorporated information about the name of
 the basin (location), its geographic location (latitude and longitude),
 the country or countries where the basin is located, the ocean where the
 basin discharge occurs (in the case of marine occurrences this corresponds
 to the site of the record) and the type of aquatic system (i.e., river
 mouth, coastal lagoon, freshwater, marine). In addition, we incorporated
 information about the type of record and the year of observation.
 Regarding the type of record, those occurrences prior to the year 2005
 (Ciancio et al. 2005, Soto et al. 2007, Correa and Gross 2008) were
 classified as historical occurrences (H) and those that occurred between
 2006 and 2022 were classified as contemporary occurrences (C).
 Contemporary distributions were classified based on the presence of ‘only
 adult salmon’ (i.e., no evidence of successful reproduction) or ‘adult
 spawners and juvenile salmon’ (i.e., evidence of successful reproduction).
 Finally, we provided a general characterization of each basin with Chinook
 salmon occurrences, including drainage area (in
 km<sup>2</sup>) and mean annual discharge (in
 m<sup>3</sup> s<sup>-1</sup>; based on WaterGAP
 2.2). Coordinates for some data points were manually adjusted to avoid
 overlap in cartographic representations.
description: This file can be opened with Microsoft Excel or any program that
 can read .xlsx files.