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359 results for “trait associations”
Figure 6 in Two new species of asterocherid (Copepoda: Siphonostomatoida) associated with a sponge from the Strait of Messina, Italy: taxonomic and ecological traits
Figure 6. Psilomyzon laetitiae sp. nov.: adult male. (A) antennule; (B) detail of antennule segments 8–11; (C) leg 4; (D) detail of the second endopodal segment of leg 4.
Figure 2 in Two new species of asterocherid (Copepoda: Siphonostomatoida) associated with a sponge from the Strait of Messina, Italy: taxonomic and ecological traits
Figure 2. Psilomyzon laetitiae sp. nov.: adult female. (A) habitus, dorsal; (B) antennule; (C) detail of antennule segments 8–11.
Figure 3 in Two new species of asterocherid (Copepoda: Siphonostomatoida) associated with a sponge from the Strait of Messina, Italy: taxonomic and ecological traits
Figure 3. Psilomyzon laetitiae sp. nov.: adult female. (A) antenna; (B) mandible; (C) maxillule; (D) maxilla; (E) maxilliped.
Data from: Fine-scale spatial associations between functional traits and tree growth
<p>This data set relates to a 40x60 m2 stem-mapped plot that was established in a temperate rainforest of southern Chile. It contains data for each individual stem located within the plot. Each individual is characterized by a species code, diameter at breast height (dbh, 1.35 m), diameter at coring height (dch, ca. 30 cm), x and y coordinates, basal area index of the last 10 years (bai, cm2), and growth efficiency (ge, cm2/cm2).</p>
Data from: Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTLs associated with invader traits
<p>The data directory here includes all of the data and scripts necessary to recreate the results and plots for the manuscript titled "Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTLs associated with invader traits". These data include a genetic map, QTL analysis, paleolog analysis, gene synteny analysis, and assembly validation for yellow starthistle (Centaurea solstitialis).</p>
Supplementary material 3 from: Worthy SJ, Marsico TD, Lucardi RD, Whitehurst LE, Burgess KS (2022) Variation in plant traits and phylogenetic structure associated with native and nonnative species in an industrialized flora. NeoBiota 77: 101-123. https://doi.org/10.3897/neobiota.77.87307
Phylogenetic tree depicting genetic relationships among 159 species of the flora at the Port of Savannah, Savannah, Georgia, USA, with available sequences
Germline Immunomodulatory Expression Quantitative Trait Loci (ieQTLs) Associated with Immune-Related Toxicity from Checkpoint Inhibition
<p>Robert Ferguson<sup>1,2,3*</sup>, Vylyny Chat<sup>1,2,3*</sup>, Leah Morales<sup>1,2,3</sup>, Danny Simpson<sup>1,2,3</sup>, Kelsey Monson<sup>1,2,3</sup>, Elisheva Cohen<sup>1,2,3</sup>,Sarah Zusin<sup>1,2,3</sup>, Gabriele Madonna<sup>4</sup>, Mariaelena Capone<sup>4</sup>, Ester Simeone<sup>4</sup>, Anna Pavlick<sup>5</sup>, Jason Luke<sup>6,7</sup>, Thomas F Gajewski<sup>8,9,10</sup>, Iman Osman<sup>1,3,11,12</sup>, Paolo Antonio Ascierto<sup>4</sup>, Jeffrey Weber<sup>1,3,11</sup>, Tomas Kirchhoff<sup>1,2,3</sup></p> <p>1Laura and Isaac Perlmutter Cancer Center, New York University Langone Health, New York, NY, USA<br> 2Departments of Population Health and Environmental Medicine, New York University- Grossman School of Medicine, New York, NY, USA<br> 3The Interdisciplinary Melanoma Cooperative Group, New York University-Grossman School of Medicine, New York, NY, USA<br> 4Melanoma Cancer Immunotherapy and Innovative Therapy Unit, Istituto Nazionale Tumori IRCCS Fondazione G. Pascale, Napoli, Italy<br> 5Division of Hematology & Medical Oncology, the Cutaneous Oncology Program, Weill Cornell Medicine and New York-Presbyterian, New York, USA<br> 6Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15213, USA.<br> 7UPMC Hillman Cancer Center, Pittsburgh, PA 15232, USA.<br> 8Department of Pathology, University of Chicago, Chicago, IL, USA.</p> <p>9Section of Hematology/Oncology, Department of Medicine, University of Chicago, Chicago, IL, USA.<br> 10Ben May Department for Cancer Research, University of Chicago, Chicago, IL, USA.<br> 11Department of Medicine, New York University-Grossman School of Medicine, New York, NY, USA<br> 12Ronald O. Perelman Department of Dermatology, New York University-Grossman School of Medicine, New York, NY, USA</p> <p>*These authors contributed equally to the work</p> <p>Corresponding author: Tomas Kirchhoff, PhD</p> <p><strong>ABSTRACT</strong><br> <strong>Background:</strong> Immune-checkpoint inhibition (ICI) has improved clinical outcomes for metastatic melanoma patients, however, 65-80% of patients treated with ICI experience immune-related adverse events (irAEs). Given the plausible link of irAEs with underlying host immunity, we explored if germline genetic variants controlling the expression of 42 immunomodulatory genes<br> were associated with the risk of irAEs in melanoma patients treated with the single-agent anti- CTLA-4 antibody ipilimumab (IPI).<br> <strong>Methods:</strong> We identified 42 immunomodulatory expression quantitative trait loci (ieQTLs) most significantly associated with the expression of 382 immune-related genes. These germline variants were genotyped in IPI-treated melanoma patients, collected as part of a multiinstitutional collaboration. We tested the association of ieQTLs with irAEs in a discovery cohort of 95 patients followed by validation in an additional 97 patients.<br> Results: We found that the alternate allele of rs7036417, a variant linked to increased expression of SYK, was strongly associated with an increased risk of grade 3-4 toxicity (OR= 7.46; 95% CI=2.65-21.03; p=1.43E-04). This variant was not associated with response (OR= 0.90; 95% CI=0.37-2.21; p=0.82).<br> Conclusion: We report that rs7036417 associates with increased risk of severe irAEs, independent of IPI efficacy. SYK plays an important role in B-cell/T-cell expansion and increased pSYK has been reported in patients with autoimmune disease. The association between rs7036417 and IPI irAEs in our data suggests a role of SYK over-expression in irAE development. These findings support the hypothesis that inherited variation in immune-related pathways modulate ICI toxicity and suggest SYK as a possible future target for therapies to reduce irAEs.</p> <p> </p> <p><strong>Keywords:</strong> irAEs; germline variants; immune checkpoint inhibition; melanoma</p> <p><strong>Funding:</strong> This research was funded by the Italian Ministry of Health (IT-MOH) through “Ricerca Corrente”, grants number M2/2 and L2-1.</p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p>
Contrasting mycorrhizal growth responses in native and invasive woody species are associated with distinct root trait syndromes
<ol> <li>Invasive plant species often express resource-acquisitive leaf traits that support rapid growth, but associated fine root traits and the role of microbial mutualists in invader whole-plant functioning remains poorly understood.</li> <li>We performed an experiment of 12 phylogenetically-grouped native and non-native, invasive woody species, grown with or without a common inoculum of arbuscular mycorrhizal fungi (AMF) across two nutrient levels. We measured 10 fine root traits associated with nutrient uptake and suitability of AMF colonization.</li> <li>The presence of AMF increased the growth rate of all species, but native species were significantly more dependent on AMF than invaders. Further, invaders expressed a distinct syndrome of first-order root traits, including longer, thinner roots of high specific root length, greater branching intensity, and lower tissue density, which are traits associated with rapid nutrient uptake and low AMF association. This syndrome was independent of phylogeny, AMF inoculation, and soil fertility.</li> <li>An acquisitive fine root trait syndrome for invaders supports high photosynthetic and growth rates, linking above- and below-ground functioning. The occurrence of this syndrome across phylogenetic groups indicates that lineages of woody invaders typically associated with arbuscular mycorrhizas may be generally less dependent on AMF than native species.</li> </ol>
Datasets and code for "Phylogenetic modeling of enhancer shifts in mole-rats reveals regulatory changes associated with tissue-specific traits"
<p>This archive contains the code and datasets generated in the associated manuscript: "Phylogenetic modeling of enhancer shifts in mole-rats reveals regulatory changes associated with tissue-specific traits". We provide instructions, environments and scripts to reproduce the presented analyses.</p>
Genes associated with plant growth-promoting traits (PGPTs) in acidobacteriota MAGs
<p>The prevalence and abundance of Acidobacteriota raise concerns about their ecological function and metabolic activity in the environment. Studies have reported the potential of some members of Acidobacteriota to interact with plants and play a significant role in biogeochemical cycles. However, their role in this context has not been extensively studied. Here, we performed a comprehensive genomic analysis of 758 metagenome-assembled genomes (MAGs) of Acidobacteriota, revealing a high frequency of plant growth-promoting traits (PGPTs) genes.</p>
Habitat traits and predation interact to drive abundance and body size patterns in macroalgae associated fauna
<p>Habitat-forming organisms provide three-dimensional structure that supports abundant and diverse communities. Variation in the morphological traits of habitat-formers will therefore likely influence how they facilitate associated communities, either via food and habitat provisioning, or by altering predator-prey interactions. These mechanisms, however, are typically studied in isolation and thus we know little of how they interact to affect associated communities. In response to this, we used naturally occurring morphological variability in the alga <em>Sargassum</em> <em>vestitum</em> to create habitat units of distinct morphotypes to test whether variation in the morphological traits (frond size and thallus size) of <em>S. vestitum</em>, or the interaction between these traits, affect their value as habitat for associated communities in the presence and absence of predation. We found morphological traits did not interact, instead having independent effects on epifauna that were negligible in the absence of predation. However, when predators were present, habitat units with large fronds were found to host significantly lower epifaunal abundances than other morphotypes, suggesting large frond alga provided low-value refuge from predators. The presence of predators also influenced the size structure of epifaunal communities from habitat units of differing frond size suggesting the refuge value of <em>S. vestitum </em>was also related to epifauna body size. This suggests that habitat-formers may chiefly structure associated communities by mediating size-selective predation, and not through habitat-provisioning. Furthermore, these results also highlight that habitat traits cannot be considered in isolation, for their interaction with biotic processes can have significant implications for associated communities.</p>
Data from: Experimental migration upward in elevation is associated with strong selection on life history traits
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Data from: Genome wide association mapping of floral traits in cultivated sunflower (Helianthus annuus)
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Data from: Trait-associated loss of frugivores in fragmented forest does not affect seed removal rates
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Data from: Fine-scale spatial associations between functional traits and tree growth
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Data from: Genome-wide association mapping of date palm fruit traits
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Data from: Functional traits associated with the establishment of introduced Phytophthora spp. in Swedish forests
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Contrasting mycorrhizal growth responses in native and invasive woody species are associated with distinct root trait syndromes
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Data from: Evidence for contemporary and historical gene flow between guppy populations in different watersheds, with a test for associations with adaptive traits
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Data from: Genome-wide association study of meat quality traits in a White Duroc × Erhualian F2 intercross and Chinese Sutai pigs
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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.