cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4220130
title: A Balanced Mixture of Antagonistic Pressures Promotes the Evolution of Parallel Movement

description: A common hypothesis about the origins of collective behaviour suggests that animals might live and move in groups to increase their chances of surviving predator attacks. This hypothesis is supported by several studies that use computational models to simulate natural evolution. These studies, however, either tune an ad-hoc model to ‘reproduce’ collective behaviour, or concentrate on a single type of predation pressure, or infer the emergence of collective behaviour from an increase in prey density. In nature, prey are often targeted by multiple predator species simultaneously and this might have played a pivotal role in the evolution of collective behaviour. We expand on previous research by using an evolutionary rule-based system to simulate the evolution of prey behaviour when prey are subject to multiple simultaneous predation pressures. We analyse the evolved behaviour via prey density, polarization, and angular momentum. Our results suggest that a mixture of antagonistic external pressures that simultaneously steer prey towards grouping and dispersing might be required for prey individuals to evolve dynamic parallel movement.
DOI: 10.6084/m9.figshare.4220130.v1
title: A Balanced Mixture of Antagonistic Pressures Promotes the Evolution of Parallel Movement

description: A common hypothesis about the origins of collective behaviour suggests that animals might live and move in groups to increase their chances of surviving predator attacks. This hypothesis is supported by several studies that use computational models to simulate natural evolution. These studies, however, either tune an ad-hoc model to ‘reproduce’ collective behaviour, or concentrate on a single type of predation pressure, or infer the emergence of collective behaviour from an increase in prey density. In nature, prey are often targeted by multiple predator species simultaneously and this might have played a pivotal role in the evolution of collective behaviour. We expand on previous research by using an evolutionary rule-based system to simulate the evolution of prey behaviour when prey are subject to multiple simultaneous predation pressures. We analyse the evolved behaviour via prey density, polarization, and angular momentum. Our results suggest that a mixture of antagonistic external pressures that simultaneously steer prey towards grouping and dispersing might be required for prey individuals to evolve dynamic parallel movement.
DOI: 10.6084/m9.figshare.4220136.v1
title: Movielens 1M data set

description: The data set is a reference to grouplens. And it is used for movie recommendation.<br>
DOI: 10.6084/m9.figshare.4220040
title: MDD_fMRI

description: MDD fMRI data
DOI: 10.6084/m9.figshare.4220040.v1
title: MDD_fMRI

description: MDD fMRI data
DOI: 10.6084/m9.figshare.4220013
title: Three new species of <i>Stiphrornis</i> (Aves: Muscicapidae) from the Afro-tropics, with a molecular phylogenetic assessment of the genus

description: We describe three new species of forest robin in the genus <i>Stiphrornis</i>; two from West Africa and one from the Congo Basin. Each species represents a distinct phylogenetic lineage based on genetic analysis. In addition to genetic differentiation, each new species is diagnosable from other <i>Stiphrornis</i> lineages by morphology, and by plumage. One of the new species appears to be restricted to the Central and Brong-Ahafo Regions of Ghana, and another is restricted to Benin and the Central Region of Ghana. In Ghana, these two new species presumably come into contact with <i>Stiphrornis erythrothorax</i> (Western Region of Ghana and westward), and there is evidence that one of the new species has a distinguishably different song from <i>erythrothorax</i>. The distribution of the third new species is primarily on the south bank of the Congo River, near the city of Kisangani. Recognition of these species provides additional evidence that Afrotropical forests are harbouring substantial cryptic diversity, and that our knowledge of the drivers of this diversity remains poorly documented across the region. http://www.zoobank.org/urn:lsid:zoobank.org:pub:BF2A0BE6-1140-4EFF-9035-380D61AB03AE
DOI: 10.6084/m9.figshare.4220010
title: Absence of an effect of freshwater input on the stable isotope and fatty acid signatures of intertidal filter-feeders

description: Freshwater input is known to have the potential to influence marine pelagic and benthic communities through the export of nutrients, sediments and detritus. The increase in nutrients of riverine origin in coastal environments can enhance primary production in coastal areas, supporting a diverse and rich fauna. However, it is not clear how and to what extent these freshwater inputs influence marine populations. We investigated the potential effects of freshwater input on the diets of intertidal benthic organisms <i>in situ</i> on the east coast of South Africa, analysing their δ<sup>13</sup>C and δ<sup>15</sup>N stable isotope and fatty acid content. Specifically, we investigated the dietary regime of three barnacle and one mussel species in relation to their proximity to the mouths of large rivers. Strong dissimilarities among species were recorded with both techniques; however, no significant effect of freshwater input was observed for any of them. There are several possible explanations for these results, including rapid dilution, with fresh water near the river mouth being thoroughly mixed with seawater, resulting in a riverine influence being too weak to be detectable in the signatures of benthic populations. Our results contrast with a previous study conducted in the same area, where it was suggested that demersal organisms relied on freshwater-derived organic matter. Our study, however, showed no freshwater effect either within a few metres or tens of kilometres from the nearest large river mouths, supporting the notion that freshwater input does not play an important role for the benthic intertidal community in the ecosystems studied. Given that freshwater input is likely to diminish in the future, because of increased human abstraction of water, any potential effects of freshwater input on these marine populations are likely to be further reduced.
DOI: 10.6084/m9.figshare.4220013.v1
title: Three new species of <i>Stiphrornis</i> (Aves: Muscicapidae) from the Afro-tropics, with a molecular phylogenetic assessment of the genus

description: We describe three new species of forest robin in the genus <i>Stiphrornis</i>; two from West Africa and one from the Congo Basin. Each species represents a distinct phylogenetic lineage based on genetic analysis. In addition to genetic differentiation, each new species is diagnosable from other <i>Stiphrornis</i> lineages by morphology, and by plumage. One of the new species appears to be restricted to the Central and Brong-Ahafo Regions of Ghana, and another is restricted to Benin and the Central Region of Ghana. In Ghana, these two new species presumably come into contact with <i>Stiphrornis erythrothorax</i> (Western Region of Ghana and westward), and there is evidence that one of the new species has a distinguishably different song from <i>erythrothorax</i>. The distribution of the third new species is primarily on the south bank of the Congo River, near the city of Kisangani. Recognition of these species provides additional evidence that Afrotropical forests are harbouring substantial cryptic diversity, and that our knowledge of the drivers of this diversity remains poorly documented across the region. http://www.zoobank.org/urn:lsid:zoobank.org:pub:BF2A0BE6-1140-4EFF-9035-380D61AB03AE
DOI: 10.6084/m9.figshare.4220010.v2
title: Absence of an effect of freshwater input on the stable isotope and fatty acid signatures of intertidal filter-feeders

description: Freshwater input is known to have the potential to influence marine pelagic and benthic communities through the export of nutrients, sediments and detritus. The increase in nutrients of riverine origin in coastal environments can enhance primary production in coastal areas, supporting a diverse and rich fauna. However, it is not clear how and to what extent these freshwater inputs influence marine populations. We investigated the potential effects of freshwater input on the diets of intertidal benthic organisms <i>in situ</i> on the east coast of South Africa, analysing their δ<sup>13</sup>C and δ<sup>15</sup>N stable isotope and fatty acid content. Specifically, we investigated the dietary regime of three barnacle and one mussel species in relation to their proximity to the mouths of large rivers. Strong dissimilarities among species were recorded with both techniques; however, no significant effect of freshwater input was observed for any of them. There are several possible explanations for these results, including rapid dilution, with fresh water near the river mouth being thoroughly mixed with seawater, resulting in a riverine influence being too weak to be detectable in the signatures of benthic populations. Our results contrast with a previous study conducted in the same area, where it was suggested that demersal organisms relied on freshwater-derived organic matter. Our study, however, showed no freshwater effect either within a few metres or tens of kilometres from the nearest large river mouths, supporting the notion that freshwater input does not play an important role for the benthic intertidal community in the ecosystems studied. Given that freshwater input is likely to diminish in the future, because of increased human abstraction of water, any potential effects of freshwater input on these marine populations are likely to be further reduced.
DOI: 10.6084/m9.figshare.4219959
title: Dataset for: Real Time Imaging of Sodium Glucose Transporter (SGLT1) Trafficking and Activity in Single Cells.

description: The processes controlling targeting of glucose transporters to apical and basolateral membranes of polarized cells are complex and not-well understood. We have engineered SGLT1 and GLUT4 constructs linked to fluorescent proteins to highlight the differences in transporter expression and trafficking, in real time, in different cell types. Activity was assessed in parallel using a FRET glucose sensor. In COS cells and HEK cells, SGLT1 was distributed between the plasma membrane and intracellular compartments, but there was little expression in CHO cells. Trafficking was investigated using the lysosome inhibitors NH4Cl (10 mM) and chloroquine (150 M) and the proteasome inhibitors MG-262 (1 µM) and Lactacystin (5 µM). Lysosome inhibitors caused SGLT1 accumulation into intracellular bodies, whereas proteasome inhibitors induced SGLT1 accumulation in the plasma membrane, even in CHO cells. Our data suggest that a fraction of SGLT1 is rapidly degraded by lysosomes and never reached the plasma membrane; another fraction reaches the membrane and is subsequently degraded by lysosomes following internalization. The latter process is regulated by the ubiquitin/proteasome pathway, acting at a late stage of the lysosomal pathway. Using the cholesterol inhibitor MβCD (3 mM), a dominant negative dynamin (K44A) and caveolin, we showed that SGLT1 internalization is lipid raft-mediated, but caveolin-independent. In contrast, GLUT4 internalization is dynamin-dependent, but cholesterol-independent. The physiological relevance of these data is discussed in terms of differential membrane compartmentalization of the transporters and expression under stress conditions.
DOI: 10.6084/m9.figshare.4219959.v1
title: Dataset for: Real Time Imaging of Sodium Glucose Transporter (SGLT1) Trafficking and Activity in Single Cells.

description: The processes controlling targeting of glucose transporters to apical and basolateral membranes of polarized cells are complex and not-well understood. We have engineered SGLT1 and GLUT4 constructs linked to fluorescent proteins to highlight the differences in transporter expression and trafficking, in real time, in different cell types. Activity was assessed in parallel using a FRET glucose sensor. In COS cells and HEK cells, SGLT1 was distributed between the plasma membrane and intracellular compartments, but there was little expression in CHO cells. Trafficking was investigated using the lysosome inhibitors NH4Cl (10 mM) and chloroquine (150 M) and the proteasome inhibitors MG-262 (1 µM) and Lactacystin (5 µM). Lysosome inhibitors caused SGLT1 accumulation into intracellular bodies, whereas proteasome inhibitors induced SGLT1 accumulation in the plasma membrane, even in CHO cells. Our data suggest that a fraction of SGLT1 is rapidly degraded by lysosomes and never reached the plasma membrane; another fraction reaches the membrane and is subsequently degraded by lysosomes following internalization. The latter process is regulated by the ubiquitin/proteasome pathway, acting at a late stage of the lysosomal pathway. Using the cholesterol inhibitor MβCD (3 mM), a dominant negative dynamin (K44A) and caveolin, we showed that SGLT1 internalization is lipid raft-mediated, but caveolin-independent. In contrast, GLUT4 internalization is dynamin-dependent, but cholesterol-independent. The physiological relevance of these data is discussed in terms of differential membrane compartmentalization of the transporters and expression under stress conditions.
DOI: 10.6084/m9.figshare.4219815
title: Soil influences on plant growth, floral density and nectar yield in three cultivars of mānuka (<i>Leptospermum scoparium</i>)

description: Honey derived from the nectar of <i>Leptospermum scoparium</i> J.R. et G. Forst. Myrtaceae (mānuka) is a high-value product and there is considerable potential for economic growth in honey-growing regions of New Zealand through increased nectar yield from mānuka plantations. <i>Leptospermum scoparium</i> exhibits a significant amount of phenotypic plasticity throughout regions in New Zealand where it has established, although the influences on this plasticity are unknown. When assessing <i>L. scoparium</i> as a nectar source for honey in marginal land areas, the possible effect of soil on nectar chemistry and yield should be considered. We investigated whether phenological patterns of flowering, plant growth, nectar composition and nectar yield were influenced by soil composition. Three different cultivars of <i>L. scoparium</i> were grown on 10 different soils in glasshouse conditions. The soils chosen were representative of the range of New Zealand soils where mānuka is being considered as a commercial crop for the honey industry. ANOVA and general linear models revealed no significant effect of soils on nectar composition or production; however, significant but complex interactions between cultivars and soils influenced plant growth and flowering (<i>P</i> ≤ 0.05). Accordingly, the overall nectar yield was influenced by cultivar and soil interaction. Measured attributes of the soil such as cation exchange capacity, sulphate, iron, manganese, calcium and chloride were shown to influence the plant parameters assessed. Results allowed modelling of nectar potential against each soil type and established a mānuka soil index to determine the most appropriate soil for each cultivar. The results indicated that potential nectar yield increases will be dependent on cultivars being deployed according to the nature of the soil present. Furthermore, the mānuka cultivars displayed significantly greater growth in response to increased nutrients and some cultivars increased floral density, suggesting potential to improve nectar yield by greater plant growth using targeted fertilisation.
DOI: 10.6084/m9.figshare.4219815.v1
title: Soil influences on plant growth, floral density and nectar yield in three cultivars of mānuka (<i>Leptospermum scoparium</i>)

description: Honey derived from the nectar of <i>Leptospermum scoparium</i> J.R. et G. Forst. Myrtaceae (mānuka) is a high-value product and there is considerable potential for economic growth in honey-growing regions of New Zealand through increased nectar yield from mānuka plantations. <i>Leptospermum scoparium</i> exhibits a significant amount of phenotypic plasticity throughout regions in New Zealand where it has established, although the influences on this plasticity are unknown. When assessing <i>L. scoparium</i> as a nectar source for honey in marginal land areas, the possible effect of soil on nectar chemistry and yield should be considered. We investigated whether phenological patterns of flowering, plant growth, nectar composition and nectar yield were influenced by soil composition. Three different cultivars of <i>L. scoparium</i> were grown on 10 different soils in glasshouse conditions. The soils chosen were representative of the range of New Zealand soils where mānuka is being considered as a commercial crop for the honey industry. ANOVA and general linear models revealed no significant effect of soils on nectar composition or production; however, significant but complex interactions between cultivars and soils influenced plant growth and flowering (<i>P</i> ≤ 0.05). Accordingly, the overall nectar yield was influenced by cultivar and soil interaction. Measured attributes of the soil such as cation exchange capacity, sulphate, iron, manganese, calcium and chloride were shown to influence the plant parameters assessed. Results allowed modelling of nectar potential against each soil type and established a mānuka soil index to determine the most appropriate soil for each cultivar. The results indicated that potential nectar yield increases will be dependent on cultivars being deployed according to the nature of the soil present. Furthermore, the mānuka cultivars displayed significantly greater growth in response to increased nutrients and some cultivars increased floral density, suggesting potential to improve nectar yield by greater plant growth using targeted fertilisation.
DOI: 10.6084/m9.figshare.4219809
title: Dataset for: Quantifying indirect evidence in network meta-analysis

description: Network meta-analysis enables comprehensive synthesis of evidence concerning multiple treatments and their simultaneous comparisons based on both direct and indirect evidence. A fundamental pre-requisite of network meta-analysis is the consistency of evidence that is obtained from different sources, particularly whether direct and indirect evidence are in accordance with each other or not, and how they may influence the overall estimates. We have developed an efficient method to quantify indirect evidence, as well as a testing procedure to evaluate their inconsistency using Lindsay's composite likelihood method. We also show that this estimator has complete information for the indirect evidence. Using this method, we can assess the degree of consistency between direct and indirect evidence and their contribution rates to the overall estimate. Sensitivity analyses can be also conducted with this method to assess the influences of potentially inconsistent treatment contrasts on the overall results. These methods can provide useful information for overall comparative results that might be biased from specific inconsistent treatment contrasts. We also provide some fundamental requirements for valid inference on these methods concerning consistency restrictions on multi-arm trials. In addition, the efficiency of the developed method is demonstrated based on simulation studies. Applications to a network meta-analysis of 12 new-generation antidepressants are presented.
DOI: 10.6084/m9.figshare.4219803
title: Prevalence of Hypertension Among Patients Attending Mobile Medical Clinics in the Philippines After Typhoon Haiyan

description: Age and blood pressure data from 3500+ patient charts, following the natural disaster resulting from Typhoon Haiyan in the Philippines.<br><br>The Philippines Department of Health has requested that we acknowledge the data source, which is the Department of Health, Regional Office VIII, Leyte, Philippines.
DOI: 10.6084/m9.figshare.4219803.v1
title: Prevalence of Hypertension Among Patients Attending Mobile Medical Clinics in the Philippines After Typhoon Haiyan

description: Age and blood pressure data from 3500+ patient charts, following the natural disaster resulting from Typhoon Haiyan in the Philippines.<br><br>The Philippines Department of Health has requested that we acknowledge the data source, which is the Department of Health, Regional Office VIII, Leyte, Philippines.
DOI: 10.6084/m9.figshare.4219656
title: BIO205 2016 Tut0106 Census 1 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219659
title: BIO205 2016 Tut0106 Census 2 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219659.v1
title: BIO205 2016 Tut0106 Census 2 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219653
title: BIO205 2016 Tut0104 Census 2 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219656.v1
title: BIO205 2016 Tut0106 Census 1 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219635
title: Trichinella Uganda_data for PLOS ONE_final.xls

description: The dataset contains the basic underlying information for the manuscript "First Report of the Occurrence of Trichinella-specific Antibodies in Domestic Pigs in Central and Eastern Uganda". Sheet 1 includes the lab data (serology), sheet 2 the lab data and related metadata for descriptive analysis, and sheet 3 the results of the digestion assay (all negative).<br>
DOI: 10.6084/m9.figshare.4219653.v1
title: BIO205 2016 Tut0104 Census 2 Data.xlsx

description: Data set collected at University of Toronto Mississauga (UTM) campus, following protocol posted at http://www.campusecology.network/protcol/
DOI: 10.6084/m9.figshare.4219635.v1
title: Trichinella Uganda_data for PLOS ONE_final.xls

description: The dataset contains the basic underlying information for the manuscript "First Report of the Occurrence of Trichinella-specific Antibodies in Domestic Pigs in Central and Eastern Uganda". Sheet 1 includes the lab data (serology), sheet 2 the lab data and related metadata for descriptive analysis, and sheet 3 the results of the digestion assay (all negative).<br>
DOI: 10.17608/k6.auckland.4219599
title: 'DOM' version 0.4

description: This report describes changes in version 0.4 of the ‘DOM’ package for R. The main change in this version is the addition of new functions that allow control over the Cascading Style Sheet (CSS) content of a web page. This provides programmatic control over the styling of HTML and SVG content on a page.
DOI: 10.17608/k6.auckland.4219599.v1
title: 'DOM' version 0.4

description: This report describes changes in version 0.4 of the ‘DOM’ package for R. The main change in this version is the addition of new functions that allow control over the Cascading Style Sheet (CSS) content of a web page. This provides programmatic control over the styling of HTML and SVG content on a page.
DOI: 10.6084/m9.figshare.4219530.v1
title: Mothur tutorial

description: Introduction to use of mothur to process NGS sequences