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907 results for “Pine”
Identification of metabolic pathways differentially regulated in somatic and zygotic embryos of maritime pine
GEO Series GSE194039. Pinus pinaster. 18 samples. Type: Expression profiling by high throughput sequencing.
The gene expression landscape of pine seedling tissues.
GEO Series GSE78263. Pinus pinaster. 14 samples. Type: Expression profiling by high throughput sequencing.
Quantitative transcriptomics of pheromone biosynthetic midgut and fat body tissues in the mountain pine beetle, Dendroctonus ponderoase Hopkins
GEO Series GSE69061. Dendroctonus ponderosae. 32 samples. Type: Expression profiling by high throughput sequencing.
Stage-specific transcriptional changes during zygotic embryogenesis in maritime pine (Pinus pinaster Ait.)
GEO Series GSE32551. Pinus taeda; Pinus pinaster. 30 samples. Type: Expression profiling by array.
Comparative transcriptome analysis of early interaction events in Scots pine root tissues following challenge
GEO Series GSE5410. Pinus taeda; Pinus sylvestris. 108 samples. Type: Expression profiling by array.
Chalara longipesis growth on pine needles
GEO Series GSE139254. Stipitochalara longipes. 7 samples. Type: Expression profiling by high throughput sequencing.
Examining the potential protective effect of Vasaka tea extract on lung cells exposted to Pine wood smoke
GEO Series GSE232172. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
RNA-seq based in vivo transcriptomes of pine trees inoculated with pinewood nematode under the enhanced resistance state
GEO Series GSE154134. Pinus densiflora. 9 samples. Type: Expression profiling by high throughput sequencing.
Raw data from the Forests (MDPI) 2020; 11(11):1222 paper: "Seed sourcing strategies considering climate change forecasts: a practical test in Scots pine"
<p>Raw data from the Forests paper: "Seed sourcing strategies considering climate change forecasts: a practical test in Scots pine"</p> <p>Forests. 2020; 11(11):1222. https://doi.org/10.3390/f11111222</p> <p>It comprises data from a multisite (5) provenance test: height (measurements years:1995, 2000 and 2005), dbh (measurements years:1995, 2000 and 2005) and survival (measurements years: 2000 and 2005)</p>
Data from: Genetic diversity of the endemic Canary Island pine tree, Pinus canariensis (Ph.D. thesis)
The Canary Island pine, Pinus canariensis, is an endemic tree that forms one of the main forest ecosystems within the archipelago, and whose distribution has been reduced in the last five centuries by clear cutting for the extraction of timber and tar. It was in the XXth century that exploitation declined and reforestation programs were brought forward for the restoration of an ecosystem that harbours a number of endangered endemic species of plants and animals. In addition to reforestation efforts, an understanding of population genetic processes is also necessary for the successful conservation management of the Canarian pine forest, particularly in light of gathering evidence for local adaptation. In this thesis historical and contemporary gene flow within P. canariensis was studied with nuclear and chloroplast microsatellite markers. High immigration rates (0.68–0.75) were estimated as expected for an outcrossing wind-pollinated tree. Nevertheless, significant population differentiation (FST=0.019, RST=0.044) was detectable for sites separated by only a few kilometres. Within the context of reforestation programs the high levels of gene flow detected would appear to have a positive effect, by facilitating the immigration of local alleles from natural stands into potentially genetically depauperate first generation gene pools of reforested stands. Historical population growth was revealed with chloroplast microsatellites for most populations of P. canariensis. Population expansions for the pine parasite weevil Brachyderes rugatus were also detected, broadly coinciding with the population expansions within the Canary Island pine forests. Given the estimated times of expansion, these population demographic increases would seem likely related to the process of colonisation of newly emerged islands or local patches after volcanic disturbance. Detection and dating of these expansions from chloroplast microsatellites was, to some degree, negatively affected by homoplasy (i.e. parallel and back mutations). Coalescent simulations of the evolution of chloroplast microsatellites were applied to study the effects of homoplasy in the statistical analysis of population structuring. Measures of genetic diversity based on number of haplotypes and measures based on genetic distances were differently affected. Genetic distances were underestimated but were proportional to the actual value. These effects help to explain the lower performance of statistical analyses for the detection and dating of population expansions. Further research on the effects of homoplasy in the analysis of population differentiation using chloroplast microsatellites is essential.
Data from: Speciation in mountain refugia: phylogeography and demographic history of the pine siskin and black-capped siskin complex
Following Pleistocene glacial maxima, species that adapted to temperate climates in low-latitude refugia had to modify their ranges as climate changed, expanding either latitudinally towards the poles, or altitudinally to higher elevations in mountainous regions. Within just a few thousand years, populations taking alternative routes during interglacials became isolated from each other and subjected to different selection pressures, often leading to lineage divergence and speciation. The pine siskin Spinus pinus is a common and widespread songbird showing relative phenotypic uniformity across the North American continent. One exception is the subspecies found in the highlands of northern Central America (S. p. perplexus), which shows marked differentiation in plumage color and shares some traits with the endemic and partly sympatric black-capped siskin S. atriceps, suggesting potential introgression or even a hybrid origin of perplexus. Relationships and species limits among pinus, perplexus and atriceps have been controversial for decades. We provide new molecular evidence to help resolve the evolutionary history of the group. Phylogenetic analysis of mitochondrial DNA and nuclear intron sequences revealed three distinct lineages within the complex, corresponding to: 1) S. pinus individuals from Canada through central Mexico (S. p. pinus and S. p. macropterus), 2) individuals from the highlands of Guatemala and Chiapas (S. p. perplexus), and 3) S. atriceps. Pine siskins across North America show evidence of a recent postglacial population expansion and extremely low levels of diversity and structure. In contrast, S. p. perplexus shows evidence of demographic stasis, reflecting long-term isolation and restricted dispersal. Marked and diagnostic genetic differences among the three lineages in mtDNA and at least one intron, suggest that a hybrid origin of S. p. perplexus is unlikely, yet some degree of introgression between S. p. perplexus and S. atriceps cannot be ruled out in localities where they occur in sympatry.
Data from: Fine root dynamics in lodgepole pine and white spruce stands along productivity gradients in reclaimed oil sands sites
Open-pit mining activities in the oil sands region of Alberta, Canada, create disturbed lands that, by law, must be reclaimed to a land capability equivalent to that existed before the disturbance. Re-establishment of forest cover will be affected by the production and turnover rate of fine roots. However, the relationship between fine root dynamics and tree growth has not been studied in reclaimed oil sands sites. Fine root properties (root length density, mean surface area, total root biomass, and rates of root production, turnover, and decomposition) were assessed from May to October 2011 and 2012 using sequential coring and ingrowth core methods in lodgepole pine (Pinus contorta Dougl.) and white spruce (Picea glauca (Moench.) Voss) stands. The pine and spruce stands were planted on peat mineral soil mix placed over tailings sand and overburden substrates, respectively, in reclaimed oil sands sites in Alberta. We selected stands that form a productivity gradient (low, medium, and high productivities) of each tree species based on differences in tree height and diameter at breast height (DBH) increments. In lodgepole pine stands, fine root length density and fine root production, and turnover rates were in the order of high > medium > low productivity sites and were positively correlated with tree height and DBH and negatively correlated with soil salinity (P < 0.05). In white spruce stands, fine root surface area was the only parameter that increased along the productivity gradient and was negatively correlated with soil compaction. In conclusion, fine root dynamics along the stand productivity gradients were closely linked to stand productivity and were affected by limiting soil properties related to the specific substrate used for reconstructing the reclaimed soil. Understanding the impact of soil properties on fine root dynamics and overall stand productivity will help improve land reclamation outcomes.
Looking for local adaptation: convergent microevolution in Aleppo pine (Pinus halepensis).
<p>SNP dataset in Aleppo pine (<em>Pinus halepensis</em>) published in <em>Genes</em> <strong>2019</strong>, <em>10</em>(9), 673; https://doi.org/10.3390/genes10090673</p>
Figure 4 in To what extent do pine and oak clear-cut stumps support mite (Acari: Mesostigmata) communities in temperate forests?
Figure 4. Species rank for mesostigmatid mites in Scots pine and sessile oak stumps and litter.
Dataset for "Divergent climate constraints and growth projections of Scots pine across Eurasia"
<p>Dataset for anonymous review of "Divergent climate constraints and growth projections of Scots pine across Eurasia"</p>
EFFECT OF FRENCH MARITIME PINE BARK EXTRACT ON ATTENTION-DEFICIT HYPERACTIVITY DISORDER: A RANDOMIZED CLINICAL TRIAL.
<p>This is a dataset from a phase III, randomised, double-blind, placebo and active product controlled, multicentre clinical trial with three parallel treatment arms to compare effects on ADHD and ADD behaviour between Pycnogenol®, MPH (Medikinet® Retard) and placebo, using the ADHDRating Scale (ADHD-RS/ARS) as a primary outcome measure.</p> <p>Evaluations were performed in weeks 5 and 10, as compared to baseline. Two visits with similar evaluations were conducted: at baseline and after 10 weeks. Next to baseline and final evaluations, an extra evaluation of behaviour and physical symptoms was conducted in week 5 by means of questionnaires. The trial population will consists of ADHD and ADD patients recruited at the University Hospitals of Antwerp (UZA) and Ghent (UZ Ghent) and the Hospital Network Antwerp (ZNA), Belgium. Participants were randomised, stratified by trial centre, to one of the three treatment arms (placebo, Pycnogenol®, or Medikinet® Retard) by randomization.com randomisation software. Published protocol: Verlaet AAJ, Ceulemans B, Verhelst H, Van West D, De Bruyne T, Pieters L, Savelkoul HFJ, Hermans N. Effect of Pycnogenol® on attention-deficit hyperactivity disorder (ADHD): study protocol for a randomised controlled trial. Trials (2017), 18(1).</p> <p>As the primary objective is to assess the efficacy of Pycnogenol® for improving ADHD and ADD behaviour as rated by teachers compared to placebo and Medikinet® Retard, the primary outcome is the summed ADHD score of the ADHD-RS as rated by teachers. Teachers filled out this questionnaire before the start of the intervention and after 5 and 10 weeks. Secondary outcomes ADHD/ADD behaviour Secondary outcomes related to ADHD/ADD behaviour are:</p> <p>Summed ADHD score of the ADHD-RS, rated by parents</p> <p>Summed ADHD score of the Social-emotional Questionnaire (SEQ), rated by parents and teachers</p> <p>Scores on ADHD subscales of the ADHD-RS and SEQ, rated by parents and teachers (hyperactivity, impulsivity and inattention)</p> <p>Percentage of responders rated by parents and teachers, defined as participants with a reduction of at least 20% of their baseline summed ADHD-RS s</p> <p>Social behaviour problems subscale of the SEQ, rated by parents and teachers, to evaluate to what extent symptoms of ODD and CD are displayed</p> <p>Anxiety subscale of the SEQ, rated by parents and teachers, to evaluate symptoms of general anxiety, social anxiety and anxiety-depression</p> <p>Physical and sleep complaints, including various potential side effects, measured by the Physical Complaints Questionnaire (PCQ)</p> <p>Dietary habits of participants were assessed by a Food Frequency Questionnaire (FFQ).</p> <p>The ADHD-RS (ARS) is a validated, internationally accepted questionnaire. Its 9 inattention (IA) and 9 hyperactivity and impulsivity (HI) items, rated on a four-point rating scale (never/seldom 0, sometimes 1, often 2, or very often 3), are based on the DSM. The ADHD-RS was used in previous trials as well. </p> <p>Besides ADHD, the Social-Emotional Questionnaire (SEQ) assesses core symptoms of other social-emotional problems (social behaviour problems, anxiety and autism). Its 72 questions are based on the DSM and rated on a five-point scale (never 0, less than once a month 1, every month 2, every week 3, or (almost) every day 4). The ADHD score can be subdivided into an hyperactivity (H) score, impulsivity (I) score and inattention (IA) score, each based on 6 questions.</p> <p>The PCQ enquires physical and sleep complaints, for instance related to pain, unusual thirst/perspiration, asthma or rhinitis, skin problems, tiredness, gastrointestinal problems and sleep problems. Questions include potential adverse effects and are rated on a five-point scale. In addition to several stand-alone questions, various questions can be combined (e.g. total pain: headache, stomach ache and growing pains). Each item is rated on a five-point scale (never 0, less than once a month 1, every month 2, every week 3, or (almost) every day 4). </p> <p>The FFQ consisted of 50 questions on different food groups to be rated on a nine-point scale (never 0, less than once a month 1, 1-3 times a month 2, once a week 3, 2-4 times a week 4, 5-6 times a week 5, once a day 6, 2-3 times a day 7, more than 3 times a day 8) to assess global dietary habits (e.g. how often a participant consumes fresh fruits or vegetables).</p> <p>Researchers involved in digitalizing questionnaire answers and statistics were blind for the participant groups. In case of >2 missing answers regarding a (sub)score within a patient, this (sub)score was set to missing. Participants were excluded from analyses only for those outcomes without any data available. Several teacher questionnaires were missing due to teachers never responding/not responding anymore, starting/ending the study during the summer holiday, covid-19 (homeschooling), or a combination of these.</p> <p>Data in SPSS were directly used for statistics. Data in excel are raw data.</p>
Figure 2 from: Vea I, Gwiazdowski R, Normark B (2013) Corroborating molecular species discovery: Four new pine-feeding species of Chionaspis (Hemiptera, Diaspididae). ZooKeys 270: 37-58. https://doi.org/10.3897/zookeys.270.2910
Figure 2 - Chionaspis caudata Vea sp. n., adult female.
Figure 3 from: Vea I, Gwiazdowski R, Normark B (2013) Corroborating molecular species discovery: Four new pine-feeding species of Chionaspis (Hemiptera, Diaspididae). ZooKeys 270: 37-58. https://doi.org/10.3897/zookeys.270.2910
Figure 3 - Chionaspis sonorae Vea sp. n., adult female.
Figure 1 from: Vea I, Gwiazdowski R, Normark B (2013) Corroborating molecular species discovery: Four new pine-feeding species of Chionaspis (Hemiptera, Diaspididae). ZooKeys 270: 37-58. https://doi.org/10.3897/zookeys.270.2910
Figure 1 - Chionaspis brachycephalon Vea sp. n., adult female.
Figure 4 from: Vea I, Gwiazdowski R, Normark B (2013) Corroborating molecular species discovery: Four new pine-feeding species of Chionaspis (Hemiptera, Diaspididae). ZooKeys 270: 37-58. https://doi.org/10.3897/zookeys.270.2910
Figure 4 - Chionaspis torreyanae Vea sp. n., adult female.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.