cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8153276
title: mansucript files zipped.zip from Electrochemical mapping of oxygenation in the three-dimensional multicellular tumour hemi-spheroid.

description: Blood capillaries deliver oxygen and nutrients to surrounding micro-regions of tissue and carry away metabolic waste. In normal tissue, capillaries are close enough to keep all the cells viable. In solid tumours, the capillary system is chaotic and typical inter-capillary distances are larger than in normal tissue. Therefore, hypoxic regions develop. Drug molecules may not reach these areas at concentrations above the lethal level. The combined effect of low drug concentrations and local hypoxia, often exacerbated by acidity, leads to therapy failure. To better understand the interplay between hypoxia and poor drug penetration, oxygenation needs to be assessed in different areas of inter-capillary tissue. The multicellular tumour spheroid is a well-established three-dimensional (3D) <i>in vitro</i> model of the capillary microenvironment. It is used to mimic nascent tumours and micro-metastases as well. In this work, we demonstrate for the first time that dynamic intra-spheroidal oxygen maps can be obtained at the 3D multicellular tumour hemi-spheroid (MCH) using a non-invasive microelectrode array. The same oxygen distributions exist inside the equivalent but less accessible full spheroid. The MCH makes high throughput—high content analysis of spheroids feasible and thus can assist studies on basic cancer biology, drug development and personalized medicine.
DOI: 10.6084/m9.figshare.8153276.v2
title: mansucript files zipped.zip from Electrochemical mapping of oxygenation in the three-dimensional multicellular tumour hemi-spheroid.

description: Blood capillaries deliver oxygen and nutrients to surrounding micro-regions of tissue and carry away metabolic waste. In normal tissue, capillaries are close enough to keep all the cells viable. In solid tumours, the capillary system is chaotic and typical inter-capillary distances are larger than in normal tissue. Therefore, hypoxic regions develop. Drug molecules may not reach these areas at concentrations above the lethal level. The combined effect of low drug concentrations and local hypoxia, often exacerbated by acidity, leads to therapy failure. To better understand the interplay between hypoxia and poor drug penetration, oxygenation needs to be assessed in different areas of inter-capillary tissue. The multicellular tumour spheroid is a well-established three-dimensional (3D) <i>in vitro</i> model of the capillary microenvironment. It is used to mimic nascent tumours and micro-metastases as well. In this work, we demonstrate for the first time that dynamic intra-spheroidal oxygen maps can be obtained at the 3D multicellular tumour hemi-spheroid (MCH) using a non-invasive microelectrode array. The same oxygen distributions exist inside the equivalent but less accessible full spheroid. The MCH makes high throughput—high content analysis of spheroids feasible and thus can assist studies on basic cancer biology, drug development and personalized medicine.
DOI: 10.6084/m9.figshare.8153276.v1
title: mansucript files zipped.zip from Electrochemical mapping of oxygenation in the three-dimensional multicellular tumour hemi-spheroid

description: Blood capillaries deliver oxygen and nutrients to surrounding micro-regions of tissue and carry away metabolic waste. In normal tissue, capillaries are close enough to keep all the cells viable. In solid tumours, the capillary system is chaotic and typical inter-capillary distances are larger than in normal tissue. Therefore, hypoxic regions develop. Drug molecules may not reach these areas at concentrations above the lethal level. The combined effect of low drug concentrations and local hypoxia, often exacerbated by acidity, leads to therapy failure. To better understand the interplay between hypoxia and poor drug penetration, oxygenation needs to be assessed in different areas of inter-capillary tissue. The multicellular tumour spheroid is a well-established three-dimensional (3D) <i>in vitro</i> model of the capillary microenvironment. It is used to mimic nascent tumours and micro-metastases as well. In this work, we demonstrate for the first time that dynamic intra-spheroidal oxygen maps can be obtained at the 3D multicellular tumour hemi-spheroid (MCH) using a non-invasive microelectrode array. The same oxygen distributions exist inside the equivalent but less accessible full spheroid. The MCH makes high throughput—high content analysis of spheroids feasible and thus can assist studies on basic cancer biology, drug development and personalized medicine.
DOI: 10.6084/m9.figshare.8168723
title: Gellman et al kinematic data from Swimming from coast to coast: a novel fixed-gear swimming gait in fish.

description: Kinematic data from bluegill sunfish volitional swimming. Gellman ED, Tandler TR, Ellerby DJ, Swimming from coast to coast: a novel fixed-gear swimming gait in fish, Biology Letters
DOI: 10.6084/m9.figshare.8168723.v1
title: Gellman et al kinematic data from Swimming from coast to coast: a novel fixed-gear swimming gait in fish

description: Kinematic data from bluegill sunfish volitional swimming. Gellman ED, Tandler TR, Ellerby DJ, Swimming from coast to coast: a novel fixed-gear swimming gait in fish, Biology Letters
DOI: 10.6084/m9.figshare.8180999
title: Data from Local pesticide use intensity conditions landscape effects on biological pest control.

description: Raw and normalized data used for the analyses
DOI: 10.6084/m9.figshare.8180999.v2
title: Data from Local pesticide use intensity conditions landscape effects on biological pest control.

description: Raw and normalized data used for the analyses
DOI: 10.6084/m9.figshare.8180993
title: Data labels from Local pesticide use intensity conditions landscape effects on biological pest control.

description: Labels of the variable of the Data file
DOI: 10.6084/m9.figshare.8180999.v1
title: Data from Local pesticide use intensity conditions landscape effects on biological pest control

description: Raw and normalized data used for the analyses
DOI: 10.6084/m9.figshare.8180993.v2
title: Data labels from Local pesticide use intensity conditions landscape effects on biological pest control.

description: Labels of the variable of the Data file
DOI: 10.6084/m9.figshare.8180993.v1
title: Data labels from Local pesticide use intensity conditions landscape effects on biological pest control

description: Labels of the variable of the Data file
DOI: 10.6084/m9.figshare.8186939
title: Table S3 from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions.

description: GO enrichment results. “set” indicates the pH treatment for each term.
DOI: 10.6084/m9.figshare.8186945
title: Table S4 from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions.

description: Raw data for morphology analysis. Lengths are in micro-meters
DOI: 10.6084/m9.figshare.8186939.v2
title: Table S3 from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions.

description: GO enrichment results. “set” indicates the pH treatment for each term.
DOI: 10.6084/m9.figshare.8186945.v2
title: Table S4 from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions.

description: Raw data for morphology analysis. Lengths are in micro-meters
DOI: 10.6084/m9.figshare.8186939.v1
title: Variant ID and statistics from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions

description: Detailed information for all variants. Information includes allele frequency estimates for each treatment, mean and standard deviation of change in allele frequency, and gene annotation
DOI: 10.6084/m9.figshare.8186945.v1
title: Gene ontology enrichment from Rare genetic variation and balanced polymorphisms are important for survival in global change conditions

description: GO enrichment results. “set” indicates the pH treatment for each term.
DOI: 10.6084/m9.figshare.8198570
title: Electronic Supplementary Material, S7 from Local habitat, not phylogenetic relatedness, predicts gut microbiota better within folivorous than frugivorous lemur lineages.

description: Both host phylogenetic placement and feeding strategy influence the structure of the gut microbiome (GMB); however, parsing their relative contributions presents a challenge. To meet this challenge, we compared GMB structure in two genera of lemurs characterized by different dietary specializations, the frugivorous brown lemurs (<i>Eulemur</i> spp.) and the folivorous sifakas (<i>Propithecus</i> spp.). These genera sympatrically occupy similar habitats (dry forests and rainforests) and diverged over similar evolutionary timescales. We collected fresh faeces from 12 species (six per host genus), at seven sites across Madagascar, and sequenced the 16S rRNA gene to determine GMB membership, diversity and variability. The lemurs' GMBs clustered predominantly by host genus; nevertheless, within genera, host relatedness did not predict GMB distance between species. The GMBs of brown lemurs had greater evenness and diversity, but were more homogeneous across species, whereas the GMBs of sifakas were differentiated between habitats. Thus, over relatively shallow timescales, environmental factors can override the influence of host phylogenetic placement on GMB phylogenetic composition. Moreover, feeding strategy can underlie the relative strength of host–microbiome coadaptation, with Madagascar's folivores perhaps requiring locally adapted GMBs to facilitate their highly specialized diets.
DOI: 10.6084/m9.figshare.8198570.v2
title: Electronic Supplementary Material, S7 from Local habitat, not phylogenetic relatedness, predicts gut microbiota better within folivorous than frugivorous lemur lineages.

description: Both host phylogenetic placement and feeding strategy influence the structure of the gut microbiome (GMB); however, parsing their relative contributions presents a challenge. To meet this challenge, we compared GMB structure in two genera of lemurs characterized by different dietary specializations, the frugivorous brown lemurs (<i>Eulemur</i> spp.) and the folivorous sifakas (<i>Propithecus</i> spp.). These genera sympatrically occupy similar habitats (dry forests and rainforests) and diverged over similar evolutionary timescales. We collected fresh faeces from 12 species (six per host genus), at seven sites across Madagascar, and sequenced the 16S rRNA gene to determine GMB membership, diversity and variability. The lemurs' GMBs clustered predominantly by host genus; nevertheless, within genera, host relatedness did not predict GMB distance between species. The GMBs of brown lemurs had greater evenness and diversity, but were more homogeneous across species, whereas the GMBs of sifakas were differentiated between habitats. Thus, over relatively shallow timescales, environmental factors can override the influence of host phylogenetic placement on GMB phylogenetic composition. Moreover, feeding strategy can underlie the relative strength of host–microbiome coadaptation, with Madagascar's folivores perhaps requiring locally adapted GMBs to facilitate their highly specialized diets.
DOI: 10.6084/m9.figshare.8198570.v1
title: Electronic Supplementary Material, S7 from Local habitat, not phylogenetic relatedness, predicts gut microbiota better within folivorous than frugivorous lemur lineages

description: Both host phylogenetic placement and feeding strategy influence the structure of the gut microbiome (GMB); however, parsing their relative contributions presents a challenge. To meet this challenge, we compared GMB structure in two genera of lemurs characterized by different dietary specializations, the frugivorous brown lemurs (<i>Eulemur</i> spp.) and the folivorous sifakas (<i>Propithecus</i> spp.). These genera sympatrically occupy similar habitats (dry forests and rainforests) and diverged over similar evolutionary timescales. We collected fresh faeces from 12 species (six per host genus), at seven sites across Madagascar, and sequenced the 16S rRNA gene to determine GMB membership, diversity and variability. The lemurs' GMBs clustered predominantly by host genus; nevertheless, within genera, host relatedness did not predict GMB distance between species. The GMBs of brown lemurs had greater evenness and diversity, but were more homogeneous across species, whereas the GMBs of sifakas were differentiated between habitats. Thus, over relatively shallow timescales, environmental factors can override the influence of host phylogenetic placement on GMB phylogenetic composition. Moreover, feeding strategy can underlie the relative strength of host–microbiome coadaptation, with Madagascar's folivores perhaps requiring locally adapted GMBs to facilitate their highly specialized diets.
DOI: 10.6084/m9.figshare.8198630
title: R Script from Tool use and social homophily among male bottlenose dolphins.

description: Collection of the R Scripts used to perform the analyses used in the study
DOI: 10.6084/m9.figshare.8198630.v2
title: R Script from Tool use and social homophily among male bottlenose dolphins.

description: Collection of the R Scripts used to perform the analyses used in the study
DOI: 10.6084/m9.figshare.8198630.v1
title: R Script from Tool use and social homophily among male bottlenose dolphins

description: Collection of the R Scripts used to perform the analyses used in the study
DOI: 10.6084/m9.figshare.8230619
title: Data Accessibility from Frequency dependence of surface acoustic wave swimming.

description: Experimental data for data accessibility
DOI: 10.6084/m9.figshare.8230619.v2
title: Data Accessibility from Frequency dependence of surface acoustic wave swimming.

description: Experimental data for data accessibility
DOI: 10.6084/m9.figshare.8230619.v1
title: Data Accessibility from Frequency dependence of surface acoustic wave swimming

description: Experimental data for data accessibility
DOI: 10.6084/m9.figshare.13095848
title: OD9 dataset part 03/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.13095848.v1
title: OD9 dataset part 03/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.13095851
title: OD9 dataset part 04/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.13095851.v1
title: OD9 dataset part 04/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.13095854.v1
title: OD9 dataset part 05/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.13095854
title: OD9 dataset part 05/28

description: 435 032 nwchem logfiles calculated thanks to the quchempedia BOINC project.DFT calculations (B3LYP / 321G)The first 184 158 molecules corresond to the recalculation of QM9 and PC9. The others are newly generated molecules with the EvoMol software.<br>Beware the concaneted tar file is 141GB of compressed files.<br>
DOI: 10.6084/m9.figshare.8256146
title: Dataset from Predation shapes sperm performance surfaces in guppies.

description: Sperm velocity is a key determinant of competitive fertilization success in many species. Selection is therefore expected to favour the evolution of faster sperm when the level of sperm competition is high. However, several aspects can determine the direction and strength of selection acting on this key performance trait, including ecological factors that influence both sperm competition and the strength of selection acting on correlated traits that may constrain evolutionary responses in sperm velocity. Here, we determine how a key ecological variable, the level of predation, shapes sperm swimming speed across 18 Trinidadian populations of guppies (<i>Poecilia reticulata</i>). We use performance analysis, a statistical tool akin to the familiar methods of multivariate selection analyses, to determine how the level of predation influences sperm velocity (modelled as a performance trait) when accounting for correlated pre- and postcopulatory traits that are also impacted by predation. We show that predation affects the combination of pre- and postcopulatory traits that ultimately predict sperm performance. Overall, we report evidence for disruptive relationships between sperm performance and combinations of ornaments and sperm morphology, but the specific combinations of traits that predict sperm velocity depended on the level of predation. These analyses underscore the complex nonlinear interrelationships among pre- and postcopulatory traits and the importance of considering ecological factors that may ultimately change the way in which multiple traits interact to determine a trait's performance value. As such, our results are likely to be broadly applicable across systems where selection is influenced by ecological conditions.
DOI: 10.6084/m9.figshare.8256146.v2
title: Dataset from Predation shapes sperm performance surfaces in guppies.

description: Sperm velocity is a key determinant of competitive fertilization success in many species. Selection is therefore expected to favour the evolution of faster sperm when the level of sperm competition is high. However, several aspects can determine the direction and strength of selection acting on this key performance trait, including ecological factors that influence both sperm competition and the strength of selection acting on correlated traits that may constrain evolutionary responses in sperm velocity. Here, we determine how a key ecological variable, the level of predation, shapes sperm swimming speed across 18 Trinidadian populations of guppies (<i>Poecilia reticulata</i>). We use performance analysis, a statistical tool akin to the familiar methods of multivariate selection analyses, to determine how the level of predation influences sperm velocity (modelled as a performance trait) when accounting for correlated pre- and postcopulatory traits that are also impacted by predation. We show that predation affects the combination of pre- and postcopulatory traits that ultimately predict sperm performance. Overall, we report evidence for disruptive relationships between sperm performance and combinations of ornaments and sperm morphology, but the specific combinations of traits that predict sperm velocity depended on the level of predation. These analyses underscore the complex nonlinear interrelationships among pre- and postcopulatory traits and the importance of considering ecological factors that may ultimately change the way in which multiple traits interact to determine a trait's performance value. As such, our results are likely to be broadly applicable across systems where selection is influenced by ecological conditions.
DOI: 10.6084/m9.figshare.8256146.v1
title: Dataset from Predation shapes sperm performance surfaces in guppies

description: Sperm velocity is a key determinant of competitive fertilization success in many species. Selection is therefore expected to favour the evolution of faster sperm when the level of sperm competition is high. However, several aspects can determine the direction and strength of selection acting on this key performance trait, including ecological factors that influence both sperm competition and the strength of selection acting on correlated traits that may constrain evolutionary responses in sperm velocity. Here, we determine how a key ecological variable, the level of predation, shapes sperm swimming speed across 18 Trinidadian populations of guppies (<i>Poecilia reticulata</i>). We use performance analysis, a statistical tool akin to the familiar methods of multivariate selection analyses, to determine how the level of predation influences sperm velocity (modelled as a performance trait) when accounting for correlated pre- and postcopulatory traits that are also impacted by predation. We show that predation affects the combination of pre- and postcopulatory traits that ultimately predict sperm performance. Overall, we report evidence for disruptive relationships between sperm performance and combinations of ornaments and sperm morphology, but the specific combinations of traits that predict sperm velocity depended on the level of predation. These analyses underscore the complex nonlinear interrelationships among pre- and postcopulatory traits and the importance of considering key ecological factors that may ultimately change the way that multiple traits interact to determine a trait's performance value. As such, our results are likely to be broadly applicable across systems where selection is influenced by ecological conditions.
DOI: 10.6084/m9.figshare.8262305
title: Raw Data from Variation of carbon contents in eelgrass (<i>Zostera marina</i>) sediments implied from depth profiles.

description: Seagrass meadows are able to store significant amounts of organic carbon in their underlying sediment, but global estimates are uncertain partly owing to spatio-temporal heterogeneity between and within areas and species. In order to provide robust estimates, there is a need to better understand the fate of, and mechanisms behind, organic carbon storage. In this observational study, we analyse a suite of biotic and abiotic parameters in sediment cores from 47 different eelgrass (<i>Zostera marina</i>) beds spanning the distributional range of the Northern Hemisphere. Depth profiles of particulate organic carbon (POC) revealed three patterns of vertical distribution where POC either increased, decreased or showed no pattern with sediment depth. These categories exhibited distinct profiles of <i>δ</i><sup>13</sup>C and C : N ratios, where high POC profiles had a proportionally larger storage of eelgrass-derived material whereas low POC profiles were dominated by phytoplanktonic and macroalgal material. However, high POC did not always translate into high carbon density. Nevertheless, this large-scale dataset provides evidence that the variability in organic matter source in response to natural and anthropogenic environmental changes affects the potential role of eelgrass beds as POC sinks, particularly where eelgrass decline is observed.