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27 results for “phenotypic quality”
Brachypodium distachyon images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p>Brachypodium distachyon images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Euphorbia peplus images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p>Euphorbia peplus images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Arabidopsis thaliana images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Arabidopsis thaliana</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Oryza sativa images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Oryza sativa</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Solanum lycopersicum images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Solanum lycopersicum</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Ocimum basilicum images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Ocimum basilicum</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Gold standard corpus, ontologies, and Entity-Quality ontology annotations for evolutionary phenotypes
<p>This data set includes a gold-standard corpus of evolutionary phenotype descriptions (in the form of character state descriptions pulled from a variety of phylogenetic systematics studies), and their corresponding expert-curated annotations with ontology terms in the form of Entity-Quality (EQ) statements. EQ annotatons allow machine-reasoning (through the semantics encoded in the requisite ontologies from which the ontology terms are drawn), and machine-reasoning in turn enables computing metrics for quantifying the semantic similarity between different phenotype descriptions as represented by their EQ annotations.</p> <p>Also included are the ontologies, and the human expert-generated and Semantic Charaparser (i.e., machine) generated EQ annotations used to assess Semantic Charaparser performance relative to inter-curator variation and to the effect of having access to external knowledge. The ontologies include those used as input, the "augmented" ontologies created by human curators in each experiment round, and the merged ontology used to maximize Semantic Charaparser's performance.</p> <p>The production of the gold standard corpus, annotation experiments, and evaluation of the results are described in detail in the following manuscript:</p> <blockquote> <p>Dahdul et al (2018) Annotation of phenotypes using ontologies: a Gold Standard for the training and evaluation of natural language processing systems. BioRxiv https://doi.org/10.1101/322156. Submitted to Database.</p> </blockquote> <p>The analysis code for evaluating the gold standard corpus (and the input data and ontologies for that) are available separately from the following:</p> <blockquote> <p>Manda et al (2018) Code and data for analysis of evolutionary phenotype ontology annotations and gold standard corpus. Zenodo. https://doi.org/10.5281/zenodo.1218010</p> </blockquote> <p>In comparison to the previous version (v1.0.0), this record includes a file of MD5 checksums of the Gold Standard data files. The data files themselves are unchanged.</p>
Data and scripts used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p>Images, script and data used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Food quality shapes gradual phenotypic plasticity in ectotherms facing temperature variability
<p><span>Organisms exhibit reversible physiological adjustments as a response to rapidly changing environments. Yet, such plasticity of the phenotype is gradual and may lag behind the environmental fluctuations, thereby affecting the long-term average performance of the organisms. By supplying energy and essential compounds for optimal tissue building, food determines the range of possible phenotypic changes and potentially the rate at which they occur. Here, we assess how differences in the dietary supply of essential lipids modulate the phenotypic plasticity of an ectotherm facing thermal fluctuations. </span><span>We use three phytoplankton strains to create a gradient of polyunsaturated fatty acids and sterols supply for <em>Daphnia</em> <em>magna</em> under constant and fluctuating temperatures. We used three different fluctuation periodicities to unravel the temporal dynamics of gradual plasticity and its long-term consequences on <em>D. magna</em> performance measured as juvenile somatic growth rate. In agreement with gradual plasticity theory, we show that in <em>D. magna</em>, fluctuation periodicity determines the differential between observed growth rates and those expected from constant conditions. Most importantly, we show that diet modulates both the size and the direction of the growth rate differential. Overall, we demonstrate that the nutritional context is essential for predicting ectotherm consumers' performance in fluctuating thermal environments.</span></p>
Food quality shapes gradual phenotypic plasticity in ectotherms facing temperature variability
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Phenotype data (composition, functionality, end-product quality) of wheat grown in Flanders, Belgium
<p>Data for the Ph.D. dissertation entitled: Outline of four degrees of diversification for understanding bread wheat (<em>Triticum aestivum</em> L.) quality. For further details on the content of the files, the meaning of abbreviations and used techniques, it is referred to the Ph.D. manuscript. </p> <p>For further details, please contact the author. </p>
Setaria viridis images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Setaria viridis</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
High MHC diversity confers no advantage for phenotypic quality and reproductive performance in a wild bird
<p class="MsoNormal"><span>Genes of the major histocompatibility complex (MHC) en</span><span>code antigen binding molecules and are an integral part of the acquired immune response of vertebrates. In general, high individual MHC diversity is expected to increase fitness by broadening the spectrum of pathogens recognized by the immune system, in accordance with the heterozygote advantage mechanism. On the other hand, the optimality hypothesis assumes that individuals with optimal (intermediate), rather than maximum diversity of the MHC will achieve the highest fitness because of inherent costs associated with expressing diverse MHC alleles.</span></p> <p class="MsoNormal"><span>Here, we tested for associations between individual diversity of the MHC class I and class II genes (binding antigens of intra- and extra-cellular pathogens, respectively) and a range of fitness-related traits (condition, ornament expression and reproduction) in an urban population of the Eurasian coot <em>Fulica atra</em>.</span></p> <p class="MsoNormal"><span>Contrary to our expectation, we found that high within-individual allelic diversity of MHC genes (both class I and II) was associated with poorer condition (lower blood haemoglobin concentrations), weaker expression of the putative ornament (smaller frontal shield), later onset of breeding and smaller clutches. An analysis of functional MHC allele clusters (supertypes) provided further support for negative associations of MHC diversity with phenotypic quality and reproductive performance, but most of these relationships could not be explained by the presence of specific maladaptive supertypes</span><span>. Finally, we found l</span><span>ittle empirical support for the optimality hypothesis in the Eurasian coot.</span></p> <p class="MsoNormal"><span>Our results suggest that the costs of high MHC diversity outweighed any benefits associated with broad MHC repertoire, which could be driven by depauperate pathogen diversity in an urban landscape. To the best of our knowledge, this is one of the first studies providing consistent evidence for negative associations of MHC diversity with a range of fitness-related traits in a natural avian population.</span></p>
The Effect of Polycystic Ovary Syndrome Phenotypes on Quality of Life and Sexual Function
ClinicalTrials.gov study NCT06428786. IPD Sharing: NO. Countries: 1. Publications: 2.
Data from: Nest as an extended phenotype signal of female quality in the great reed warbler
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High MHC diversity confers no advantage for phenotypic quality and reproductive performance in a wild bird
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Data from: Telomere length reflects phenotypic quality and costs of reproduction in a long-lived seabird
Telomere length is associated with cellular senescence, lifestyle and ageing. Short telomeres indicate poor health in humans and reduced life expectancy in several bird species, but little is known about telomeres in relation to phenotypic quality in wild animals. We investigated telomere lengths in erythrocytes of known-age common terns (Sterna hirundo), a migratory seabird, in relation to arrival date and reproductive performance. Cross-sectional data revealed that, independent of age, individuals with short telomeres performed better: they arrived and reproduced earlier in the season and had more chicks in the nest. The latter effect was stronger the older the brood and stronger in males, which do most of the chick provisioning. Longitudinal data confirmed this pattern: compared with birds that lost their brood, birds that raised chicks beyond the 10th nestling day experienced higher telomere attrition from one year to the next. However, more detailed analysis revealed that the least and most successful individuals lost the fewest base pairs compared with birds with intermediate success. Our results suggest that reproductive success is achieved at the expense of telomeres, but that individual heterogeneity in susceptibility to such detrimental effects is important, as indicated by low telomere loss in the most successful birds.
Data from: Environmental change mediates mate choice for an extended phenotype, but not for mate quality
Sexual cues, including extended phenotypes, are expected to be reliable indicators of male genetic quality and/or provide information on parental quality. However, the reliability of these cues may be dependent on stability of the environment, with heterogeneity affecting how selection acts on such traits. Here we test how environmental change mediates mate choice for multiple sexual traits, including an extended phenotype – the structure of male-built nests – in stickleback fish. First, we manipulated the dissolved oxygen (DO) content of water to create high or low DO environments in which male fish built nests. Then we recorded the mate choice of females encountering these males (and their nests), under either the same or reversed DO conditions. Males in high DO environments built more compact nests than those in low DO conditions and males adjusted their nest structure in response to changing conditions. Female mate choice for extended phenotype (male nests) was environmentally-dependent (females chose more compact nests in high DO conditions), while female choice for male phenotype was not (females chose large, vigorous males regardless of DO level). Examining mate choice in this dynamic context suggests that females evaluate the reliability of multiple sexual cues, taking into account environmental heterogeneity.
Data from: Telomere length reflects phenotypic quality and costs of reproduction in a long-lived seabird
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Data from: Phenotypic traits and resource quality as factors affecting male reproductive success in a toadfish
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.