cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.jdfn2z3ff
title: Soil biota diversity and plant diversity both contributed to ecosystem stability in grasslands

description: Understanding the effects of diversity on ecosystem stability in the
 context of global change has become an important goal of recent ecological
 research. However, the effects of diversity at multiple scales and trophic
 levels on ecosystem stability across environmental gradients remain
 unclear. Here, we conducted a field survey of α-, β-, and γ-diversity of
 plants and soil biota (bacteria, fungi, and nematodes) and estimated the
 temporal ecosystem stability of NDVI in 132 plots on the Mongolian
 Plateau. After climate and soil environmental variables were controlled
 for, both the α- and β-diversity of plants and soil biota (mainly via
 nematodes) together with precipitation explained most variation in
 ecosystem stability. These findings evidence that the diversity of both
 soil biota and plants contributes to ecosystem stability. Model
 predictions of the future effects of global changes on terrestrial
 ecosystem stability will require field observations of diversity of both
 plants and soil biota.
DOI: 10.5061/dryad.m63xsj46f
title: HtrA1 in placental cell models: A possible role in preeclampsia

description: Background: The High temperature requirement A 1 (HtrA1) is a multidomain
 secretory protein with serine-protease activity involved in the regulation
 of many cellular processes in both physiological and pathological
 conditions. HtrA1 is normally expressed in human placenta, and its
 expression is higher in the first trimester compared to the third
 trimester, suggesting an important role of this serine protease in early
 phases of human placenta development. The aim of this study was to
 evaluate the functional role of HtrA1 in in vitro models of human placenta
 in order to define the role of this serine protease in preeclampsia (PE)
 Methods: BeWo, HTR8/SVneo and HUVEC cells expressing HtrA1 and showing a
 cytoplasm localization of HtrA1 were used as syncytiotrophoblast,
 cytotrophoblast and placental endothelium models respectively. Oxidative
 stress was induced treating BeWo and HTR8/SVneo cells with H2O2 to mimic
 PE conditions in order to evaluate its effect on HtrA1 expression. In
 addition, HtrA1 overexpression and silencing experiments were performed to
 evaluate the effects on syncytialization, cell mobility and invasion
 processes. Finally, human recombinant HtrA1 treatments were performed to
 study the effects of exogenous HtrA1 on Endoglin, VEGFA, ERK1/2, NF-kB and
 PCNA that are molecules involved in PE onset Results: Our main data showed
 that the oxidative stress significantly increased HtrA1 expression in both
 BeWo and HTR8/SVneo cells. In addition, we demonstrated that HtrA1 has a
 pivotal role in cell motility and invasion processes. In particular, HtrA1
 overexpression increased while HtrA1 silencing decreased cell motility and
 invasion in HTR8/SVneo cell model. Finally, we found that hrHtrA1
 treatments of HUVEC did not alter the expression of the listed above
 molecules involved in PE onset; (4) Conclusions: In conclusion, our
 results suggest an important role of HtrA1 in regulating extravillous
 cytotrophoblast invasion and motility during early stage of placentation
 in the first trimester of gestation suggesting a key role of this serine
 protease in PE onset.
DOI: 10.17632/74tccjwxhn
title: Solid Recovery, Delignification, and Sugar Yield in LCB pretreatment using Machine Learning and TOPSIS

description: SCB pretreatment with varying NaOH conc, Temp, and time (based on CCD) maps to solid recovery, delignification, and sugar yield from the treated biomass. The dataset was augmented with Gaussian noise, and three different ML models were developed for three responses. Multi-objective optimization was adopted using GA - the pareto optimal solution was screened based on TOPSIS method.
DOI: 10.5061/dryad.47d7wm3j7
title: Supplementary material: for Using anticipation to unveil drivers of local livelihoods in Transfrontier Conservation Areas: a call for more environmental justice

description: Calling on the concept of environmental justice in
 its distributive, procedural, and
 recognition dimensions, we implemented a collaborative
 scenario-building approach to explore sustainable livelihood pathways in
 four sites belonging to two Transfrontier Conservation Areas (TFCAs) in
 southern Africa.  Grounded on participation and
 transdisciplinarity, as a foundation for decolonised anticipatory action
 research, we aimed at stimulating knowledge exchange and providing
 insights on the future of local livelihoods by engaging experts living
 within these TFCAs.  Our results show that wildlife and
 wildlife-related activities are not seen as the primary drivers of local
 livelihoods, despite the focus and investments of dominant stakeholders in
 these sectors. Instead, local governance and land use regulations emerged
 as key drivers in the four study sites. The state of natural resources,
 including water, and appropriate farming systems also appeared critical to
 sustain future livelihoods in TFCAs, together with the recognition of
 indigenous culture, knowledge, and value systems. Nature conservation,
 especially in Africa, is rooted in its colonial past and struggles to free
 or decolonise itself from the habits of this past despite decades of
 reconsideration. To date, the enduring coloniality of conservation
 prevents local citizens from truly participating in the planning and
 designing of the TFCAs they live in, leaving room for limited benefits to
 local citizens and often limiting indigenous people's capacity to
 conserve.  A practical way forward is to consider environmental
 justice as a cement between the two pillars of the TFCA
 concept, i.e.nature conservation and socioeconomic development of
 local or neighbouring communities, as part of a more broad and urgent need
 to rethink the relationships between people in, and with, the rest of
 nature.
description: We adapted and used a
 collaborative scenario-building approach called Participatory Prospective
 Analysis (PPA) (Bourgeois
 et al. 2017a), as a
 human-centred forward-thinking activity rooted in participation and
 transdisciplinarity (Gudowsky & Peissl
 2016), to explore
 alternative futures for local livelihoods and associated issues at stake.
 This methodology is used to implement anticipatory processes in complex
 multistakeholder environments dealing with wicked problems worldwide
 (Bourgeois et al. 2017a;
 Bourgeois et al. 2017b; Shantiko et al. 2021) and in Africa (Puskur et al. 2017; Sourisseau et al. 2017;
 Camara, Bourgeois & Jahel 2019). 
 Supp. Mat. 1: Attendance list for each workshop
 Supp. Mat.
 2: Future
 agenda Supp. Mat. 3: Structural Analysis conducted in each
 site Supp. Mat. 4: Factors of change 
 Supp. Mat.
 5: Panorama of the main
 issues at stake Supp. Mat. 6: Future states of drivers
DOI: 10.17632/74tccjwxhn.1
title: Solid Recovery, Delignification, and Sugar Yield in LCB pretreatment using Machine Learning and TOPSIS

description: SCB pretreatment with varying NaOH conc, Temp, and time (based on CCD) maps to solid recovery, delignification, and sugar yield from the treated biomass. The dataset was augmented with Gaussian noise, and three different ML models were developed for three responses. Multi-objective optimization was adopted using GA - the pareto optimal solution was screened based on TOPSIS method.
DOI: 10.5061/dryad.0k6djhb45
title: Training and test data for: Not getting in too deep: A practical deep learning approach to routine crystallisation image classification

description: These data were used to classify crystallisation experiments in Milne et
 al., (https://doi.org/10.1101/2022.09.28.509868). Here, four of the most
 widely-used convolutional deep-learning network architectures that can be
 implemented without the need for extensive computational resources were
 compared. It was shown that the classifiers have different strengths that
 can be combined to provide an ensemble classifier achieving a
 classification accuracy comparable to that obtained by a large consortium
 initiative (Bruno et al. PLOS one, 13(6), 2018). Eight classes
 were used to rank the experimental outcomes, thereby providing detailed
 information that can be used with routine crystallography experiments to
 automatically identify crystal formation for drug discovery and pave the
 way for further exploration of the relationship between crystal formation
 and crystallisation conditions.
description: The images in this dataset were collected at AstraZeneca UK using
 a Rock imager (Formulatrix) and cropped from the original 1028x960 pixels
 to 800x800 pixels.
description: The data files in this submission are in PNG format and are
 compressed as .zip files. The images for three independent test sets are
 compressed separately (Test1.zip, Test2.zip, Test3.zip) whilst the images
 used as the training set are compressed as separate classes
 (e.g.TrainingClear.zip contains training set images from the class
 'Clear').
DOI: 10.5061/dryad.dr7sqvb2w
title: Data from: Reconciling diverse viewpoints within systematic conservation planning

description: Conservation encompasses numerous alternative viewpoints on what to value
 (features such as biodiversity, ecosystem services or socio-economic
 benefits) and how to convert these values into conservation policies that
 deliver for nature and people. Reconciling these differing values and
 viewpoints in policy development and implementation is a perennial
 challenge. Balancing differing stakeholder viewpoints within a single
 conservation plan risks some viewpoints overshadowing others. This can
 occur as some dominant viewpoints may lead to more marginal views being
 suppressed, and also through social biases during the planning process.
 Here we develop four separate ‘caricature’ conservation viewpoints, and
 spatially quantify each of them in order to test different approaches to
 equitable reconciliation. Each viewpoint prioritises different locations,
 dependent on the extent to which they deliver a variety of different
 biodiversity, well-being and economic goals. We then show how these
 different viewpoints can be reconciled using numeric methods. We find that
 a pluralist approach, which accounts for the spatial similarities and
 differences between viewpoints, is able to deliver equitably for multiple
 conservation features. This pluralist approach provides a coherent spatial
 conservation strategy with the capacity to satisfy advocates of quite
 divergent approaches to conservation.
description: Please see
 the README.md document and the accompanying published article: Cunningham,
 C.A., Crick, H.Q., Morecroft, M.D., Thomas, C.D., Beale, C.M. 2023.
 Reconciling diverse viewpoints within systematic conservation
 planning.<em> People and Nature</em>. https://doi.org/10.1002/pan3.10449.
description: Please see the README.md document and the accompanying published
 article: Cunningham, C.A., Crick, H.Q., Morecroft, M.D., Thomas, C.D.,
 Beale, C.M. 2023. Reconciling diverse viewpoints within systematic
 conservation planning. <em>People and Nature</em>. https://doi.org/10.1002/pan3.10449. Software used: <strong>R</strong> R version 4.2.2 (2022-10-31 ucrt) -- "Innocent and Trusting"<br>Copyright (C) 2022 The R Foundation for Statistical Computing<br>Platform: x86_64-w64-mingw32/x64 (64-bit) <strong>Zonation</strong> Zonation 4.0.0rc1_compact, build: Sep 19 2014 18:16:13
DOI: 10.5061/dryad.n8pk0p30m
title: The role of blood viscosity in hovering flight of hawkmoths

description: Viscosity determines the resistance of hemolymph flow through vessels. For
 flying insects, viscosity is a major physiological parameter limiting
 flight performance by controlling the flow rate of fuel to the flight
 muscles, circulating nutrients, and rapidly removing metabolic waste
 products. The more viscous the hemolymph, the greater the metabolic energy
 needed to pump it through body cavities and hemolymph vessels. By
 employing Magnetic Rotational Spectroscopy with nickel nanorods, we showed
 that viscosity of hemolymph in resting hawkmoths (Sphingidae) depends on
 wing size non-monotonically. Viscosity increases for small hawkmoths with
 high wingbeat frequencies, reaches a maximum for middle-sized hawkmoths
 with moderate wingbeat frequencies, and decreases in large hawkmoths with
 slower wingbeat frequencies but greater lift. Accordingly, hawkmoths with
 small and large wings have viscosities approaching that of water, whereas
 hawkmoths with mid-sized wings have more than twofold greater viscosity.
 The metabolic demands of flight correlate with significant changes in
 circulatory strategies via modulation of hemolymph viscosity. Thus, the
 evolution of hovering flight would require fine-tuned viscosity
 adjustments to balance the need for the hemolymph to carry more fuel to
 the flight muscles while decreasing the viscous dissipation associated
 with its circulation.
DOI: 10.17632/ddcyybjgnd
title: statistic data

description: The data of Zhisheng Zhang
DOI: 10.17632/ddcyybjgnd.1
title: statistic data

description: The data of Zhisheng Zhang
DOI: 10.5061/dryad.5x69p8d7m
title: Data for: Ground nesting in passerine birds: Evolution, biogeography and life history correlates

description: Nest location is one of the key components of avian reproduction and sharp
 transitions between different nest location strategies may have profound
 ecological and evolutionary consequences. Here, we used a
 phylogenetically-informed comparative framework to reconstruct the
 evolution of ground nesting behaviour in passerine birds, quantify its
 biogeographical and habitat variation, and test for its associations with
 life history traits. Our dataset comprised over 1600 species distributed
 worldwide and representing ca. 90% of all extant passerine families. Our
 analyses revealed a scattered phylogenetic distribution and moderate
 phylogenetic signal in the occurrence of ground nesting in passerines. We
 also found relatively high forward and backward transitions rates between
 character states of ground and non-ground nesting, indicating strong
 evolutionary lability. Non-ground nesting was identified as a likely
 ancestral state at the root of passerine phylogeny. Occurrence of ground
 nesting was clearly associated with habitat variation, as open habitats
 generally supported greater proportion of ground nesting species than
 non-open habitats (forests). Within the major habitat categories we found
 greater proportion of ground nesters in boreal and temperate than
 subtropical and tropical zones. This reflected a general latitudinal
 gradient in the occurrence of ground nesting, with higher proportion of
 ground nesting species at higher latitudes (especially at the northern
 hemisphere). Ground nesting was also associated with fast life histories,
 as ground nesters had larger clutches, shorter incubation periods and
 faster chick development rates than non-ground nesters. This variation was
 possibly driven by higher predation rates on nestlings and adult birds in
 ground nesting species. Our study lays a foundation for a comprehensive
 understanding of mechanisms and processes that have driven macroevolution
 of ground nesting behaviour in the most species-rich extant avian lineage.
DOI: 10.5878/002738
title: The Regional Western Sweden SOM Survey 1994
title: Den västsvenska SOM-undersökningen 1994
title: Väst-SOM 1994

description: This is the third study in the series of SOM-surveys carried out in Western Sweden exclusively. The questionnaire was divided into six subject fields: mass media; politics and society; the municipality of Göteborg; traffic and environment; leisure and housing; and background. Most of the questions are replications of questions asked in one or several previous SOM-surveys. New questions in the 1994 survey dealt with efforts to influence or change activities on local or county level; interest in environmental issues; access to and use of the 'Environmental catalogue'; opinions on environmental issues local government ought to work on, and to what extent the respondent was prepared to contribute personally to a better environment; establishments and places visited during the last year; favourite soccer team; method of travel to work/school; and vote in the general election and in the local election in 1994. Respondents living in Göteborg were asked about public transport costs, they also had to place the local parties and a number of local politicians on a scale ranging from strongly dislike to strongly like, and they had to state which characteristics suited the local politicians Göran Johansson (socialdem.) and Johnny Magnusson (cons.).

Purpose:

Study attitudes and behaviours that are linked to local and regional issues and phenomena
description: Detta är den tredje studien i serien SOM-undersökningar genomförda i Västsverige. Undersökningens frågeformulär var indelat i sex områden: massmedia; politik och samhälle; Göteborgs kommun; trafik och miljö; fritid och boende; samt bakgrundsfrågor. Huvuddelen av enkätens frågor återfinns även i en eller flera av de tidigare undersökningarna. Nya frågeställningar i 1994 års undersökning tar upp försök att påverka eller förändra kommunal eller landstingskommunal verksamhet, intresse för miljöfrågor, tillgång till och utnyttjande av Miljökatalogen, inställning till vilka miljöfrågor kommunen bör arbeta med och i vilken utsträckning man personligen är beredd att bidra till en bättre miljö. Därutöver ställdes frågor om vilka anläggningar och utflyktsmål man besökt under senaste året, favoritlag i fotboll, vilket färdsätt man senast använde sig av för att ta sig till arbetet/skolan, samt hur man röstat i riksdags- och kommunfullmäktigevalet 1994. Respondenter bosatta i Göteborgs kommun fick frågor om kostnader för kollektivtrafiken, dessutom fick de placera de lokala partierna och ett antal kommunala politiker på en skala som sträckte sig från ogillar starkt till gillar starkt, samt ange vilka egenskaper de ansåg passade in på de lokala politikerna Göran Johansson (s) och Johnny Magnusson (m).

Syfte:

Studera attityder och beteenden som är knutna till lokala och regionala frågor och företeelser
DOI: 10.5878/000265
title: The Regional Western Sweden SOM Survey 1994
title: Den västsvenska SOM-undersökningen 1994
title: Väst-SOM 1994

description: This is the third study in the series of SOM-surveys carried out in Western Sweden exclusively. The questionnaire was divided into six subject fields: mass media; politics and society; the municipality of Göteborg; traffic and environment; leisure and housing; and background. Most of the questions are replications of questions asked in one or several previous SOM-surveys. New questions in the 1994 survey dealt with efforts to influence or change activities on local or county level; interest in environmental issues; access to and use of the 'Environmental catalogue'; opinions on environmental issues local government ought to work on, and to what extent the respondent was prepared to contribute personally to a better environment; establishments and places visited during the last year; favourite soccer team; method of travel to work/school; and vote in the general election and in the local election in 1994. Respondents living in Göteborg were asked about public transport costs, they also had to place the local parties and a number of local politicians on a scale ranging from strongly dislike to strongly like, and they had to state which characteristics suited the local politicians Göran Johansson (socialdem.) and Johnny Magnusson (cons.).

Purpose:

Study attitudes and behaviours that are linked to local and regional issues and phenomena
description: Detta är den tredje studien i serien SOM-undersökningar genomförda i Västsverige. Undersökningens frågeformulär var indelat i sex områden: massmedia; politik och samhälle; Göteborgs kommun; trafik och miljö; fritid och boende; samt bakgrundsfrågor. Huvuddelen av enkätens frågor återfinns även i en eller flera av de tidigare undersökningarna. Nya frågeställningar i 1994 års undersökning tar upp försök att påverka eller förändra kommunal eller landstingskommunal verksamhet, intresse för miljöfrågor, tillgång till och utnyttjande av Miljökatalogen, inställning till vilka miljöfrågor kommunen bör arbeta med och i vilken utsträckning man personligen är beredd att bidra till en bättre miljö. Därutöver ställdes frågor om vilka anläggningar och utflyktsmål man besökt under senaste året, favoritlag i fotboll, vilket färdsätt man senast använde sig av för att ta sig till arbetet/skolan, samt hur man röstat i riksdags- och kommunfullmäktigevalet 1994. Respondenter bosatta i Göteborgs kommun fick frågor om kostnader för kollektivtrafiken, dessutom fick de placera de lokala partierna och ett antal kommunala politiker på en skala som sträckte sig från ogillar starkt till gillar starkt, samt ange vilka egenskaper de ansåg passade in på de lokala politikerna Göran Johansson (s) och Johnny Magnusson (m).

Syfte:

Studera attityder och beteenden som är knutna till lokala och regionala frågor och företeelser
DOI: 10.5061/dryad.msbcc2g2x
title: Chromophore carbonyl twisting in fluorescent biosensors encodes direct readout of protein conformations with multicolor switching

description: Fluorescent labeling of proteins is a powerful tool for probing
 structure-function relationships with many biosensing applications.
 Structure-based rules for systematically designing fluorescent biosensors
 require understanding ligand-mediated fluorescent response mechanisms
 which can be challenging to establish. We installed thiol-reactive
 derivatives of the naphthalene-based fluorophore Prodan into bacterial
 periplasmic glucose-binding proteins. Glucose binding elicited paired
 color exchanges in the excited and ground states of these conjugates.
 X-ray structures and mutagenesis studies established that glucose-mediated
 color switching arises from steric interactions that couple protein
 conformational changes to twisting of the Prodan carbonyl relative to its
 naphthalene plane. Mutations of residues contacting the carbonyl can
 optimize color switching by altering fluorophore conformational equilibria
 in the apo and glucose-bound proteins. A commonly accepted view is that
 Prodan derivatives report on protein conformations via solvatochromic
 effects due to changes in the dielectric of their local environment. Here
 we show that instead Prodan carbonyl twisting controls color switching.
 These insights enable structure-based biosensor design by coupling
 ligand-mediated protein conformational changes to internal chromophore
 twists through specific steric interactions between fluorophore and
 protein.
description: Spectroscopic data were collected on a Nanodrop3300
 spectrofluorometer and Nanodrop2000 spectrophotometer. The data was
 processed with software developed for this and related projects. A
 "frozen" copy of the software has been included in the
 repository.
description: All data is provided in ASCII format.
DOI: 10.5061/dryad.b2rbnzskq
title: Individual-based simulations for: Population rescue through an increase of the selfing rate under pollen limitation: Plasticity vs. evolution

description: The file contains the individual-based simulation code that is used in the
 paper "Population rescue through an increase of the selfing rate
 under pollen limitation: plasticity vs. evolution". This study built
 eco-evolutionary models and individual-based simulations to explore the
 demographic and genetic conditions in which higher self-fertilization by
 plasticity and/or evolution rescues populations, following deficits due to
 sudden onset of pollen limitation. The code is written in
 C++. Please first read the README.txt file for instructions and
 details.