cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.2bvq83bkv
title: Network analysis reveals underlying syntactic features in a vocally learnt mammalian display, humpback whale song

description: Vocal communication systems have a set of rules that govern the
 arrangement of acoustic signals, broadly defined as ‘syntax’. However,
 there is a limited understanding of potentially shared or analogous rules
 across vocal displays in different taxa. Recent work on songbirds has
 investigated syntax using network-based modelling. This technique
 quantifies features such as connectivity (adjacent signals in a sequence)
 and recurring patterns. Here, we apply network-based modelling to the
 complex, hierarchically structured songs of humpback whales (Megaptera
 novaeangliae) from east Australia. Given the song’s annual evolving
 pattern and the cultural conformity of males within a population, network
 modelling captured the patterns of multiple song types over 13 consecutive
 years. Song arrangements in each year displayed clear “small-world”
 network structure, characterised by clusters of highly connected sounds.
 Transitions between these connected sounds further suggested a combination
 of both structural stability and variability. Small-world network
 structure within humpback songs may facilitate the characteristic and
 persistent vocal learning observed. Similar small-world structures and
 transition patterns are found in several birdsong displays, indicating
 common syntactic patterns among vocal learning in multiple taxa.
 Understanding the syntactic rules governing vocal displays in multiple,
 independently evolving lineages may indicate what rules or structural
 features are important to the evolution of complex communication,
 including human language.
DOI: 10.15468/dl.vrwqym
title: Occurrence Download

description: A dataset containing 398835 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CollectionCode is Mala",
 "InstitutionCode is MCZ"
 ]
}

 The dataset includes 398835 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001990-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.s7h44j133
title: Data from: Photothermal-assisted antibacterial application of GO-Ag nanocomposites against clinical isolated MDR E. coli

description: In the field of public health, treatment of multidrug-resistant (MDR)
 bacterial infection is a great challenge. Herein, we provide a solution to
 this problem with the use of graphene oxide-silver (GO-Ag) nanocomposites
 as anti-bacterial agent. Following established protocols, silver
 nanoparticles were grown on graphene oxide sheets. Then, a series of
 in-vitro studies were conducted to validate the antibacterial efficiency
 of the GO-Ag nanocomposites against clinical MDR Escherichia coli (E.
 coli) strains. GO-Ag nanocomposites showed the highest antibacterial
 efficiency among tested antimicrobials (graphene oxide, silver
 nanoparticles, GO-Ag), and synergetic antibacterial effect was observed in
 GO-Ag nanocomposites treated group. 14.0 µg mL-1 GO-Ag treatment could
 greatly inhibit bacteria growth, remained bacteria viabilities were 4.4%
 and 4.1% for MDR-1 and MDR-2 E. coli bacteria respectively. In addition,
 with assistance of photothermal effect, effective sterilization could be
 achieved using GO-Ag nanocomposites as low as 7.0 µg mL-1. Fluorescence
 imaging and morphology characterization uncovered that bacteria integrity
 was disrupted after GO-Ag nanocomposites treatment. Cytotoxicity results
 of GO-Ag using human derived cell lines (HEK 293T, Hep G2) suggested more
 than 80% viability remained at 7.0 µg mL-1. All the results proved that
 GO-Ag nanocomposites are efficient antibacterial agent against multi-drug
 resistant E. coli.
description: <strong>Absorption Spectrum</strong>
 Absorption spectrum of different nanomaterials
 <strong>GO-Ag MDR1 treatment</strong>
 MTT assay data of MDR-1 <strong>GO-Ag
 MDR2 treatment</strong> MTT assay data
 of MDR-2 <strong>Heating
 Curve</strong> Heating curve of different
 nanomaterials (GO, GO-Ag, AgNP, Control)
 <strong>PT combined MDR2 treatment</strong>
 MTT assay data of MDR-2 with photothermal combined
 treatment
DOI: 10.5061/dryad.8kprr4xjb
title: An emerging fungal pathogen is associated with increased resting metabolic rate and total evaporative water loss rate in a winter‐active snake

description: 1. Energy allocation tradeoffs associated with mounting metabolically
 costly immune responses may serve as sublethal mechanisms by which
 pathogens reduce host fitness. The emergence of cutaneous fungal
 pathogens, which invade the skin of their host and have the potential to
 disturb energy and water balance, highlight the importance of host
 physiology in determining individual- and population-level effects of
 disease. 2. Snake fungal disease (SFD, ophidiomycosis), caused by the
 fungal pathogen Ophidiomyces ophiodiicola (Oo), is an emerging disease
 afflicting wild snake populations throughout eastern North America.
 Emaciation and dehydration are phenotypic correlates of SFD, but it is
 unknown if such declines in host condition occur via effects of Oo
 infection on host physiology (i.e., increased rates of metabolism and
 evaporative water loss, respectively). 3. We used flow-through
 respirometry to assess the energetic and hydric consequences of natural Oo
 infection in winter-active pygmy rattlesnakes (Sistrurus miliarius). We
 measured resting metabolic rate (CO2 production rate) and total
 evaporative water loss rate of winter-acclimatized S. miliarius as a
 function of SFD status and acute temperature (17, 25, and 32°C). We also
 used regression models characterizing individual variation in the
 thermal-sensitivity of resting metabolic rate to predict the theoretical
 effects of behavioral fever on daily resting CO2 production by
 free-ranging S. miliarius with SFD in winter. 4. Natural infection by Oo
 was associated with significant increases in resting metabolic rate
 (30–45%) and total evaporative water loss rate (30–40%) across all
 measurement temperatures. Under simulated scenarios of behavioral fever,
 Oo infection was predicted to increase daily resting CO2 production rate
 by 58–102%. 5. Our results are consistent with the hypothesis that the
 immune response to Oo infection is energetically costly and may contribute
 to declining host condition. Our modeling efforts combining the cumulative
 effects of increased immune activity and increased body temperature on
 metabolism represent a novel approach to quantifying the total daily
 energetic cost of infection in ectothermic vertebrates undergoing
 behavioral fever.
DOI: 10.15468/dl.ns5w92
title: Occurrence Download

description: A dataset containing 94622 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "TaxonKey is Lynx rufus"
 ]
}

 The dataset includes 94622 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002007-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.3tx95x6br
title: Fitness consequences of a non-recombining sex-ratio drive chromosome can explain its prevalence in the wild

description: Understanding the pleiotropic consequences of gene drive systems on host
 fitness is essential to predict their spread through a host population.
 Here we study Sex-ratio (SR) X-chromosome drive in the fly Drosophila
 recens, where SR causes the death of Y-bearing sperm in male carriers. SR
 males only sire daughters, which all carry SR, thus giving the chromosome
 a transmission advantage. The prevalence of the SR chromosome appears
 stable, suggesting pleiotropic costs. It was previously shown that females
 homozygous for SR are sterile, and here we test for additional fitness
 costs of SR. We find that females heterozygous for SR have reduced
 fecundity and that male SR carriers have reduced fertility in conditions
 of sperm competition. We then use our fitness estimates to parameterize
 theoretical models of SR drive and show that the decrease in fecundity and
 sperm competition performance can account for the observed prevalence of
 SR in natural populations. In addition, we find that the expected
 equilibrium frequency of the SR chromosome is particularly sensitive to
 the degree of multiple mating and performance in sperm competition.
 Together our data suggest that the mating system of the organism should be
 carefully considered during the development of gene drive systems.
description: See readme file for variable definitions.
DOI: 10.5061/dryad.5mkkwh71s
title: High resolution distribution modelling of a threatened short-range endemic plant informed by edaphic factors.

description: Short-range endemic plants often have edaphic specialisations that, with
 their restricted distributions, expose them to increased risk of
 anthropogenic extinction. Here, we present a modelling approach to
 understand habitat suitability for Ricinocarpos brevis R.J.F.Hend.
 & Mollemans (Euphorbiaceae), a threatened shrub confined to three
 isolated populations in the semi-arid south-west of Western Australia. The
 model is a maximum entropy species distribution projection constructed on
 the basis of physical soil characteristics and geomorphology data at
 approximately 25 m2 (1 arc-second) resolution. The model predicts the
 species to occur on shallow, low bulk density soils that are located high
 in the landscape. The model shows high affinity (72.1% average likelihood
 of occurrence) for the known populations of R. brevis, as well as
 identifying likely locations that are not currently known to support the
 species. There was a strong relationship between the likelihood of R.
 brevis occurrence and soil moisture content that the model estimated at a
 depth of 20 cm. We advocate that our approach should be standardised using
 publicly available data to generate testable hypotheses for the
 distribution and conservation management of short--range endemic plant
 species for all of continental Australia.
DOI: 10.5061/dryad.x69p8czdn
title: Data from: Combining correlative and mechanistic niche models with human activity data to elucidate the invasive potential of a sub-Antarctic insect

description: Aim Correlative Species Distribution Models (SDMs) are subject to
 substantial spatio-temporal limitations when historical occurrence records
 of data-poor species provide incomplete and outdated information for niche
 modelling. Complementary mechanistic modelling techniques can, therefore,
 offer a valuable contribution to underpin more physiologically-informed
 predictions of biological invasions, the risk of which is often
 exacerbated by climate change. In this study we integrate physiological
 and human pressure data to address the uncertainties and limitations of
 correlative SDMs and to better understand, predict, and manage biological
 invasions. Location Western archipelagos of the Southern Ocean and martime
 Antarctica Taxon Eretmoptera murphyi (Chironomidae), invertebrates.
 Methods Mahalanobis Distances were used for correlative SDM construction
 for a species with few records. A mechanistic SDM was built around
 different fitness components (larval survival and life stage progression)
 as a function of temperature. SDM predictions were combined with human
 activity levels in Antarctica to generate a site vulnerability index to
 the colonization of E. murphyi. Future scenarios of ecophysiological
 suitability were built around the warming trends in the region. Results
 Both SDMs converge to predict high environmental suitability in the
 species’ native and introduced ranges. However, the mechanistic model
 indicates a slightly larger invasive potential based on larval performance
 at different temperatures. Human activity levels across the Antarctic
 Peninsula play a key role in discerning site vulnerabilities. Niche
 suitability in Antarctica grows considerably under long-term climate
 scenarios, leading to a substantially higher invasive threat to the
 Antarctic ecosystems. In turn changing conditions result on growing
 physiological mismatches with the environment in the native range on South
 Georgia. Main conclusions Long-term studies of invasion potential under
 climate benefit from integrating correlative predictions with
 physiological experiments, as the invasion potential varies depending on
 the area and the timescale examined. This study also highlights a
 conservation paradox whereby the accidental introduction of an insect
 represents a threat to the Antarctic ecoystems that contrasts with its
 endangered status at the native range.
DOI: 10.5061/dryad.p5hqbzkkv
title: Cell-autonomous light sensitivity via Opsin3 regulates fuel utilization in brown adipocytes

description: Opsin3 (Opn3) is a transmembrane heptahelical G-protein-coupled receptor
 (GPCR) with the potential to produce a non-visual photoreceptive effect.
 Interestingly, anatomical profiling of GPCRs reveals that Opn3 mRNA is
 highly expressed in adipose tissue. The photosensitive functions of Opn3
 in mammals are poorly understood, and whether Opn3 has a role in fat is
 entirely unknown. In this study, we found that Opn3-knockout (Opn3-KO)
 mice were prone to diet-induced obesity and insulin-resistance. At the
 cellular level, Opn3-KO brown adipocytes cultured in darkness had
 decreased glucose uptake and lower nutrient-induced mitochondrial
 respiration than wild-type (WT) cells. Light exposure promoted
 mitochondrial activity and glucose uptake in WT adipocytes but not in
 Opn3-KO cells. Brown adipocytes carrying a defective mutation in Opn3’s
 putative G-protein-binding domain also exhibited a reduction in glucose
 uptake and mitochondrial respiration in darkness. Using RNA sequencing, we
 identified several novel light-sensitive and Opn3-dependent molecular
 signatures in brown adipocytes. Importantly, direct exposure of BAT to
 light in living mice significantly enhanced thermogenic capacity of BAT,
 and this effect was diminished in Opn3-KO animals. These results uncover a
 previously unrecognized cell-autonomous, light-sensing mechanism in brown
 adipocytes via Opn3-GPCR signaling that can regulate fuel metabolism and
 mitochondrial respiration in vitro and thermogenesis in vivo. Our work
 also provides a potential basis for developing light-based treatments for
 obesity and its related metabolic disorders.
DOI: 10.5061/dryad.dr7sqv9v5
title: Magnetic fabric constraints on the Cenozoic compressional strain changes in the northern Qaidam marginal thrust belt and their tectonic implications

description: Reconstructing the compressional strain history of the northern Qaidam
 marginal thrust belt has significant implications for understanding the
 mountain building processes of the northeastern Tibetan Plateau and the
 tectonic evolution of the Altyn Tagh Fault (ATF). However, the
 variation of compressional strain in this region has rarely been studied.
 Here, we present Cenozoic anisotropy of the low field magnetic
 susceptibility records from the fluvial-lacustrine Hongliugou
 profile within the middle part of the northern Qaidam marginal
 thrust belt. The magnetic fabrics of the Shizigou Formation
 are dominated by a primary sedimentary magnetic fabric, whereas
 those of the lower Lulehe Formation are undetermined,
 most likely due to the conglomerate lithology; in contrast, the magnetic
 fabrics of the middle Lulehe to Shangyoushashan Formations, all of which
 are dominated by antiferromagnetic hematite and paramagnetic
 components with crystallographic preferred orientations,
 are mostly embryonic tectonic fabrics induced
 by prefolding layer-parallel shortening. Compared with previously reported
 paleomagnetic rotation results within the Hongliugou locality, the
 rotation-corrected compressional strain directions
 are perpendicular to the rotation-corrected magnetic lineations
 and exhibit a regular trend from nearly N-S before ~33 Ma to NE-SW
 at ~10 Ma. Integrated with other lines of evidence from
 the northern Qaidam Basin, we attribute the ~45° successive clockwise
 rotation of the
 compressional strain directions to the
 propagation of significant strike-slip faulting along
 the ATF into the northern Qaidam marginal thrust
 belt that resulted in significant clockwise
 rotations in the region.
DOI: 10.5061/dryad.n8pk0p2r7
title: High-speed video recordings of Müller's larva swimming and feeding

description: These data form the basis for the paper "Large-scale ciliary reversal
 mediates capture of individual algal prey by Müller's larva" by
 George von Dassow and Christina I. Ellison, in press at Invertebrate
 Biology as of late 2019 (preprint on bioRxiv, doi.org/10.1101/709790).
  Wild-caught Müller's larva of several species of polyclad
 flatworm were observed swimming and feeding on unicellular algae using
 high-speed video.  These videos document local ciliary reversal
 mediating prey capture, one cell at a time, by local control of fluid
 streams.  Data consists mostly of larvae swimming in
 cuvettes seeded with cryptophyte algae and other prey.  Some
 sequences show larvae tethered by suction pipette or larvae swimmng in
 seawater seeded with neutral fluid tracers.
DOI: 10.5061/dryad.905qfttgd
title: Data from: A GWAS approach identifies Dapp1 as a determinant of air pollution-induced airway hyperreactivity

description: Asthma is a chronic inflammatory disease of the airways with contributions
 from genes, environmental exposures, and their interactions. 
 While genome-wide association studies (GWAS) in humans have identified
 ~200 susceptibility loci, the genetic factors that modulate risk of asthma
 through gene-environment (GxE) interactions remain poorly
 understood.  Using the Hybrid Mouse Diversity Panel (HMDP), we
 sought to identify the genetic determinants of airway hyperreactivity
 (AHR) in response to diesel exhaust particles (DEP), a model
 traffic-related air pollutant.  As measured by invasive
 plethysmography, AHR under control and DEP-exposed conditions varied
 3-4-fold in over 100 inbred strains from the HMDP.  A GWAS with
 linear mixed models mapped two loci significantly associated with lung
 resistance under control exposure to chromosomes 2 (p=3.0x10-6) and 19
 (p=5.6x10-7).  The chromosome 19 locus harbors Il33 and is
 syntenic to asthma association signals observed at the IL33 locus in
 humans.  A GxE GWAS for post-DEP exposure lung resistance
 identified a significantly associated locus on chromosome 3
 (p=2.5x10-6).  Among the genes at this locus is Dapp1, an adaptor
 molecule expressed in immune-related and mucosal tissues, including the
 lung.  Dapp1-deficient mice exhibited significantly lower AHR
 than control mice but only after DEP exposure, thus functionally
 validating Dapp1 as one of the genes underlying the GxE association at
 this locus.  In summary, our results indicate that some of the
 genetic determinants for asthma-related phenotypes may be shared between
 mice and humans, as well as the existence of GxE interactions in mice that
 modulate lung function in response to air pollution exposures relevant to
 humans.
DOI: 10.5061/dryad.gtht76hh3
title: Revegetation by sowing reduces soil bacterial and fungal diversity

description: Aim: The aim of this study was to understand the effects of revegetation
 on the diversity of bacteria and fungi in soil by sowing a single species
 and exploring the underlying mechanism. Location: Beijing, China Taxon:
 Plants and Microbes Methods: In a short-term ecological restoration
 experiment, one natural recovery treatment and three seed sowing
 treatments were chosen to assess their effects on the alteration of fungal
 and bacterial diversity. Plant species richness, abundance, and height
 were investigated. The diversity of fungi and bacteria was analyzed by
 high-throughput sequencing technologies. Linear mixed-effects model
 analysis was used to examine the effects of different restoration methods
 on biodiversity and ecosystem functions. Pearson’s correlation analysis,
 analysis of covariance, and structural equation modelling (SEM) were used
 to examine the relationship between biodiversity and environmental
 factors. Results: Species richness and the Shannon-Wiener Index (H’) of
 plants in the sown treatments were lower than in the natural recovery
 treatment, especially with sowing of Medicago sativa L. Similarly, the sum
 of the observed species and H’ of fungi and bacteria significantly
 decreased in the sown treatments. Moreover, plant density, community
 coverage, and soil moisture increased markedly, while soil bulk density
 decreased in the sown treatments. Importantly, SEM showed that sown
 treatments reduced the diversity of plants through increasing plant
 density, while it decreased the diversity of fungi and bacteria through
 decreasing the plant diversity and increasing soil moisture. Main
 conclusions: Our findings confirm that ecological restoration by sowing
 could improve soil conditions, but may be unfavorable to the amelioration
 of soil microbial diversity in the short-term. Restoration practitioners
 should consider long-term studies on the dynamics of biodiversity in the
 above- and below- ground after revegetation by native species to achieve
 goals related to biodiversity conservation.