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97 results for “virus resistance”
MD simulation data: An Entropic Safety Catch Controls Hepatitis C Virus Entry and Antibody Resistance
<p><strong>Background</strong></p> <p>Equilibration, relaxation and production runs were performed on GPUs using the CUDA version of PMEMD in AMBER 16 and AMBER ff14SB force field. Minimisation steps were performed on a CPU using PMEMD in AMBER 16 and the AMBER ff14SB force field. All software is available from http://ambermd.org/. </p> <p><strong>Contents</strong></p> <p>There are three tarball (<strong>.tar.gz</strong>) files containing the <strong>core simulation data</strong>: one for wild type (WT), the second for the I438V A524T mutant and the third for the S449P mutant. Each contains:</p> <p>1. a source PDB (<strong>.pdb</strong>) file</p> <p>2. Five AMBER trajectory (<strong>.nc</strong>) files for five independent MD simulations, numbered 1 to 5. <strong>Note: </strong>each of these files is over 2GB.</p> <p>There is an additional tarball containing the <strong>control files</strong> <strong>and scripts</strong> used for running the MD simulations:</p> <p>1. Multiple control (<strong>.ctl</strong>) files numbered 1 to 10 that are used to minimize (<strong>min</strong> prefix), relax (<strong>rel</strong> prefix) and equilibrate (<strong>equ</strong> prefix) the model</p> <p>2. Executable <strong>do_md</strong> that performed all the minimisation, relaxation and equilibration steps</p> <p>3. control file <strong>prod.ctl</strong> used for the production run </p> <p>4. Executable <strong>run_prod</strong> that was used to perform the production run</p> <p>5. Two control files (<strong>prod_short.ctl </strong>and <strong>prod_short_2.ctl</strong>) for the short runs used to de-correlate the simulation for the independent runs</p> <p>6. Executable <strong>run_short</strong> and <strong>run_short_2</strong> used to carry out the de-correlated production runs.</p>
Resistance test to bean common mosaic virus (BCMV) in common bean
<p>This video is part of a series of videos prepared by SERIDA partner for the BRESOV project (GA 774244) The video briefly describes a test for resistance to BCMV, a common disease in bean crops</p> <p> </p> <p>https://www.youtube.com/watch?v=ukEVm_yC26Q</p>
Data from: Unravelling cucumber resistance to several viruses via genome-wide association studies highlighted resistance hotspots and new QTLs
<p>The mapping and introduction of sustainable resistance to viruses in crops is a major challenge in modern breeding, especially regarding vegetables. We hence assembled a panel of cucumber elite lines and landraces from different horticultural groups for testing with six virus species. We mapped 18 quantitative trait loci (QTL) with a multiloci genome wide association studies (GWAS), some of which have already been described in the literature. We detected two resistance hotspots, one on chromosome 5 for resistance to the cucumber mosaic virus (CMV), cucumber vein yellowing virus (CVYV), cucumber green mottle mosaic virus (CGMMV) and watermelon mosaic virus (WMV), colocalizing with the RDR1 gene, and another on chromosome 6 for resistance to the zucchini yellowing mosaic virus (ZYMV) and papaya ringspot virus (PRSV) close to the putative VPS4 gene location. We observed clear structuring of resistance among horticultural groups due to plant virus coevolution and modern breeding which have impacted linkage disequilibrium (LD) in resistance QTLs. The inclusion of genetic structure in GWAS models enhanced the GWAS accuracy in this study. The dissection of resistance hotspots by local LD and haplotype construction helped gain insight into the panel’s resistance introduction history. ZYMV and CMV resistance were both introduced from different donors in the panel, resulting in multiple resistant haplotypes at same locus for ZYMV, and in multiple resistant QTLs for CMV.</p>
Figure 9 in Evaluation of the Chilli veinal mottle virus CP gene expressing transgenic Nicotiana benthamiana plants for disease resistance against the virus
Figure 9. ELISA plate readings (O.D at 405nm) of leaf samples of transgenic lines (T1-T8) and control plants after 15 dpi.
Figure 7 in Evaluation of the Chilli veinal mottle virus CP gene expressing transgenic Nicotiana benthamiana plants for disease resistance against the virus
Figure 7. PCR Products of the hpt gene from T0 transgenic plants. Lane 1-9 are transgenic. Lane 10, +ve control. Lane 11, control (untransformed) plant.
Figure 6. DNA bands from T0 in Evaluation of the Chilli veinal mottle virus CP gene expressing transgenic Nicotiana benthamiana plants for disease resistance against the virus
Figure 6. DNA bands from T0 transgenic and Agro-infilterated plants. Lane 1-10, transgenic plants. Lane 11-13, agro-infilterated plants.
Figure 3 in Evaluation of the Chilli veinal mottle virus CP gene expressing transgenic Nicotiana benthamiana plants for disease resistance against the virus
Figure 3. Symptoms development on propagative host plants after mechanical inoculation with ChiVMV isolate ATIPK. (a) N. tabacum showing mosaic, mottling and vein clearing (b) C. annum (cv. Loungi) displays the symptoms of mottling, mosaic, leaf deformation and vein clearing.
Figure 2 in Evaluation of the Chilli veinal mottle virus CP gene expressing transgenic Nicotiana benthamiana plants for disease resistance against the virus
Figure 2. Symptoms of ChiVMV on chilli leaves collected from Islamabad. (a) Shows mottling and severe vein clearing and distortion. (b) Shows reduced leaf size with mottling and distortion.
Fig. 1 in Comparison of Bemisia tabaci infestation, virus infection, and yield in conventional and transgenic Bean golden mosaic virus-resistant common bean elite lines
Fig. 1. Symptoms of virus infection on common bean plants under field situation: (A) Bean golden mosaic virus; (B) Cowpea mild mottle virus on old transgenic plants and (C) young transgenic plant; (D) symptoms of mixed infection caused by Bean golden mosaic virus and Cowpea mild mottle virus.
Orsay virus infection increases Caenorhabditis elegans resistance to heat-shock
<p>The heat shock response plays a role in the immune defense against viruses across various organisms. Studies on model organisms show that inducing this response prior to viral exposure enhances host resistance to infections, while deficient responses make individuals more vulnerable. Moreover, viruses rely on components of the heat shock response for their own stability and viral infections improve thermal tolerance in plants, giving infected individuals an advantage in extreme conditions, which aids the virus in replication and transmission. Here, we examine the interaction between the nematode Caenorhabditis elegans and its natural pathogen the Orsay virus (OrV) under heat stress. We found that OrV infection leads to differential expression of heat-stress related genes, and infected populations showed increased resistance to heat shock. This resistance correlated with increased expression of argonautes alg-1 and alg-2, which are crucial for survival after heat shock and for OrV replication. Overall, our study suggests an environmental-dependent mutualistic relationship between the nematode and OrV, potentially expanding the animal's ecological niche and providing the virus with extra opportunities for replication and adaptation to extreme conditions.</p>
Agronomic and quality impact of a shortened translocation for wheat streak mosaic virus resistance
<p class="H1"><em><span>Wheat streak mosaic virus</span></em><span> (WSMV) </span><span>is a mite-vectored virus with substantial economic impact on wheat production. One of the effective sources of resistance to WSMV, <em>Wsm1</em>, is carried on a translocation from <em>Thinopyrum intermedium. </em>The original whole arm form of this translocation (T4DL·4J<sup>s</sup>S) was highly effective against WSMV but carried a substantial yield penalty in the absence of the virus. Shorter recombinants of the <em>Th. intermedium </em>translocation are now available. This study characterized the agronomic performance of near-isogenic sib-pair families in ten yield trials using one of these shortened T4DL·4DS-4J<sup>s</sup>S translocations, named 'rec213', in the absence of visible disease. This translocation had no effect on heading date, was associated with a modest reduction (≤ 4.8 cm) in plant height, and the translocation had a favorable effect (≤ 12.6%) on grain yield in those environments where highly significant genotype effects were detected. The translocation did not affect protein concentration or lactic acid-sodium dodecyl sulfate solvent retention capacity, a measure of gluten quality. However, families with the translocation had slightly (≤ 5%) lower protein quality scores than paired families without the translocation. We do not expect this modest difference in quality to be a barrier to utilization of the rec213 translocation for <em>Wsm1</em>, but we encourage breeders to work within high quality genetic backgrounds in when using the rec213 translocation, and to monitor the quality of breeding selections. Improved codominant PCR-based marker assays were developed to facilitate the use of the rec213 <em>Wsm1 </em>trait in breeding programs.</span></p>
A Pilot Study Assessing the Integrase Inhibitor GSK1349572 in HIV-infected Persons With Virus Resistant to Raltegravir
ClinicalTrials.gov study NCT00950859. IPD Sharing: Not stated. Countries: 5. Publications: 1.
Study Assessing Dolutegravir in HIV-1 Infected Subjects With Virus Resistant to Raltegravir and/or Elivitegravir
ClinicalTrials.gov study NCT01568892. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Agronomic and quality impact of a shortened translocation for wheat streak mosaic virus resistance
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Orsay virus infection increases Caenorhabditis elegans resistance to heat-shock
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Spectral composition of light pollution affects melatonin suppression and West Nile virus infection resistance and mortality in the House Sparrow (Passer domesticus).
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Data from: New insights into the history of domesticated and wild apricots and its contribution to Plum pox virus resistance
Studying domesticated species and their wild relatives allows understanding of the mechanisms of population divergence and adaptation, and identifying valuable genetic resources. Apricot is an important fruit in the Northern hemisphere, where it is threatened by the Plum pox virus (PPV), causing the sharka disease. The histories of apricot domestication and of its resistance to sharka are however still poorly understood. We used 18 microsatellite markers to genotype a collection of 230 wild trees from Central Asia and 142 cultivated apricots as representatives of the worldwide cultivated apricot germplasm; we also performed experimental PPV inoculation tests. The genetic markers revealed highest levels of diversity in Central Asian and Chinese wild and cultivated apricots, confirming an origin in this region. In cultivated apricots, Chinese accessions were differentiated from more Western accessions, while cultivated apricots were differentiated from wild apricots. An approximate Bayesian approach indicated that apricots likely underwent two independent domestication events, with bottlenecks, from the same wild population. Central Asian native apricots exhibited genetic subdivision and high frequency of resistance to sharka. Altogether, our results contribute to the understanding of the domestication history of cultivated apricot and point to valuable genetic diversity in the extant genetic resources of wild apricots.
Safety and Efficacy of Doravirine, Tenofovir, Lamivudine (MK-1439A) in Participants Infected With Treatment-Naïve Human Immunodeficiency Virus (HIV) -1 With Transmitted Resistance (MK-1439A-030)
ClinicalTrials.gov study NCT02629822. IPD Sharing: YES. Countries: 0. Publications: 1.
Italian Registry of HIV-1 Infected Patients With Drug-RESistant Virus to Reverse Transcriptase Inhibitors, InteGrasE and Viral Protease.
ClinicalTrials.gov study NCT04098315. IPD Sharing: YES. Countries: 1. Publications: 3.
A Comparison of Adefovir and Tenofovir for the Treatment of Lamivudine-Resistant Hepatitis B Virus in People With HIV
ClinicalTrials.gov study NCT00033163. IPD Sharing: Not stated. Countries: 1. Publications: 7.
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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.