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47 results for “Purging”
Dataset for "Progessive improvement of the Australian blacklip abalone (Haliotis rubra) genome assembly with Nanopore long reads, hybrid meta assembly and haplotig purging
<p>This Zenodo archive contains the blacklip abalone genome assemblies and and their BUSCO completeness calculations. Genome annotation (gff3 format), CDS, protein sequences and Orthofinder2 output were also included.</p>
Data and code for: Failure to purge: Population and individual inbreeding effects on fitness across generations of wild Impatiens capensis
<p>Inbreeding exposes deleterious recessive alleles in homozygotes, lowering fitness and generating inbreeding depression (ID). Both purging (via selection) and fixation (via drift) should reduce segregating deleterious mutations and ID in more inbred populations. These theoretical predictions are not well-tested in wild populations, which is concerning given purging/fixation have opposite fitness outcomes. We examined how individual- and population-level inbreeding and genomic heterozygosity affected maternal and progeny fitness within and among 12 wild populations of <em>Impatiens capensis</em>. We quantified maternal fitness in home sites, maternal multilocus heterozygosity (using 12,560 SNPs), and lifetime fitness of selfed and predominantly outcrossed progeny in a common garden. These populations spanned a broad range of individual- (<span class="s1"><em>f</em></span><span class="s2"><sub>i</sub></span><em> </em>= -0.17–0.98) and population-level inbreeding (<span class="s1"><em>F</em></span><span class="s2"><sub>IS</sub></span> = 0.25–0.87). More inbred populations contained fewer polymorphic loci, less fecund mothers, and smaller progeny, suggesting higher fixed loads. However, despite appreciable ID (mean: 8.8 lethal equivalents per gamete), ID did not systematically decline in more inbred population. More heterozygous mothers were more fecund and produced fitter progeny in outcrossed populations, but this pattern unexpectedly reversed in highly inbred populations. These observations suggest that persistent overdominance or some other force acts to forestall purging and fixation in these populations.</p>
Data and code for: Failure to purge: Population and individual inbreeding effects on fitness across generations of wild Impatiens capensis
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Conditionally deleterious mutation load accumulates in genomic islands but can be purged with sufficient genotypic redundancy
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Does operational sex ratio influence relative strength of purging selection in males vs. females?
<p>According to theory, sexual selection in males may efficiently purge mutation load of sexual populations, reducing or fully compensating "the cost of males". For this to occur, mutations not only need to be deleterious to both sexes, they also must affect males more than females. A frequently overlooked problem is that relative strength of selection on males vs. females may vary between environments, with social conditions being particularly likely to affect selection in males and females differently. Here we induced mutations in red flour beetles (Tribolium castaneum) and tested their effect in both sexes under three different operational sex ratios (1:2, 1:1, 2:1). Induced mutations decreased fitness of both males and females, but their effect was not stronger in males. Surprisingly, operational sex ratio did not affect selection against deleterious mutations nor its relative strength in the sexes. Thus, our results show no support for the role of sexual selection in the evolutionary maintenance of sex.</p> <p> </p>
Genomic evidence that a sexually selected trait captures genome-wide variation and facilitates the purging of genetic load
<p><span>The evolution of costly traits like deer antlers and peacock trains, which drove the formation of Darwinian sexual selection theory, has been hypothesised to both reflect and affect patterns of genetic variance across the genome, but direct tests are missing. Here, we used an evolve and re-sequence approach to reveal patterns of genome-wide diversity associated with the expression of a sexually-selected weapon that is dimorphic among males of the bulb mite,</span> <em>Rhizoglyphus robini</em><span>. Populations selected for the weapon </span>showed reduced genome-wide diversity compared to populations selected against the weapon, particularly in terms of the number of segregating non-synonymous positions, indicating enhanced purifying selection. <span>This increased purifying selection reduced inbreeding depression, but outbred female fitness did not improve, possibly because any benefits were offset by increased sexual antagonism. </span>The majority of single nucleotide polymorphisms (SNPs) that consistently diverged in response to selection were initially rare and overrepresented in exons, and enriched in regions under balancing or relaxed selection, suggesting they are likely moderately deleterious variants. These diverged SNPs were scattered across the genome, <span>further demonstrating that selection for or against the weapon and the associated changes to the mating system can both capture and influence genome-wide variation. </span></p>
Allo Non-Myeloablative SCT Utilizing Mis-Matched Family Member Stem Cells Purged Using Campath
ClinicalTrials.gov study NCT00580034. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Exploratory Trial to Estimate Proportion of Patients With Tumor Cell Contaminated Leukapheresis Products With and Without Bortezomib With In-vivo Purging - Multiple Myeloma (MM)
ClinicalTrials.gov study NCT02703779. IPD Sharing: NO. Countries: 1. Publications: 1.
Immunochemotherapy, in Vivo Purging, PBSC Mobilization and Autotransplant in Relapsed or Refractory Follicular Lymphoma
ClinicalTrials.gov study NCT00366275. IPD Sharing: Not stated. Countries: 1. Publications: 4.
Does operational sex ratio influence relative strength of purging selection in males vs. females?
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Genomic evidence that a sexually selected trait captures genome-wide variation and facilitates the purging of genetic load
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Data from: Estimation of genetic purging under competitive conditions
Inbreeding depression for fitness traits is a key issue in evolutionary biology and conservation genetics. The magnitude of inbreeding depression, though, may critically depend on the efficiency of genetic purging, the elimination or recessive deleterious mutations by natural selection after they are exposed by inbreeding. However, the detection and quantification of genetic purging for nonlethal mutations is a rather difficult task. Here, we present two comprehensive sets of experiments with Drosophila aimed at detecting genetic purging in competitive conditions and quantifying its magnitude. We obtain, for the first time in competitive conditions, an estimate for the predictive parameter, the purging coefficient (d), that quantifies the magnitude of genetic purging, either against overall inbreeding depression (d ≈ 0.3), or against the component ascribed to nonlethal alleles (dNL ≈ 0.2). We find that competitive fitness declines at a high rate when inbreeding increases in the absence of purging. However, in moderate size populations under competitive conditions, inbreeding depression need not be too dramatic in the medium to short term, as the efficiency of purging is also very high. Furthermore, we find that purging occurred under competitive conditions also reduced the inbreeding depression that is expressed in the absence of competition.
Data for Purge Haplotigs Case Study
<p>Data for the Purge Haplotigs case study.</p> <p><strong>arabidopsis/ cabsauv/ cpyxidata/ zfinch/</strong></p> <p>All files related to the FALCON Unzip assemblies for Purge Haplotigs processing, processing with a similar tool, repeat annotation, BUSCO and Quast analysis, genome alignments, and short read mapping. All sequencing reads are available from the Sequence Read Archive and are therefore omitted. BAM alignment files are omitted due to size constraints. These are available on request, or can be generated following the directions in the paper's supplementary workflow document.</p> <p><strong>arabidopsis_trio_comparison/</strong></p> <p>Genome alignments and comparisons using the Arabidopsis trio dataset.</p>
Rapid Response to Day Hospital Treatment in Bulimia Nervosa and Purging Disorder
ClinicalTrials.gov study NCT02444065. IPD Sharing: Not stated. Countries: 1. Publications: 25.
CTC Quantification During TURBT and PKVBT of Transitional Cell Carcinoma in Purging Fluid and Blood
ClinicalTrials.gov study NCT04811846. IPD Sharing: NO. Countries: 1. Publications: 11.
FDA Approved Medication to Reduce Binge Eating and/or Purging
ClinicalTrials.gov study NCT02553824. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Data from: Estimation of genetic purging under competitive conditions
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Data from: Has the inbreeding load for a condition-dependent sexual signalling trait been purged in insular lizard populations?
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Selection in males purges the mutation load on female fitness
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Data from: Reduction in the cumulative effect of stress-induced inbreeding depression due to intra-generational purging in Drosophila melanogaster
Environmental stress generally exacerbates the harmful effects of inbreeding and it has been proposed that this could be exploited in purging deleterious alleles from threatened inbred populations. However, understanding what factors contribute to variability in the strength of inbreeding depression (ID) observed across adverse environmental conditions remains a challenge. Here, we examined how the nature and timing of stress affects ID and the potential for purging using inbred and outbred Drosophila melanogaster larvae exposed to biotic (larval competition, bacteria infection) and abiotic (ethanol, heat) stressors compared with unstressed controls. ID was measured during (larval survival) and after (male mating success) stress exposure. The level of stress imposed by each stressor was approximately equal, averaging a 42% reduction in outbred larval survival relative to controls. All stressors induced on average the same ID, causing a threefold increase in lethal equivalents for larval survival relative to controls. However, stress-induced ID in larval success was followed by a 30% reduction in ID in mating success of surviving males. We propose that this fitness recovery is due to 'intragenerational purging' whereby fitness correlations facilitate stress-induced purging that increases the average fitness of survivors in later life history stages. For biotic stressors, post-stress reductions in ID are consistent with intragenerational purging, whereas for abiotic stressors, there appeared to be an interaction between purging and stress-induced physiological damage. For all stressors, there was no net effect of stress on lifetime ID compared with unstressed controls, undermining the prediction that stress enhances the effectiveness of population-level purging across generations.
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