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47 results for “transfer rate”
Data from: Comparative genomics reveals high rates of horizontal transfer and strong purifying selection on rhizobial symbiosis genes
<p class="western"><span>Horizontal transfer (HT) alters the repertoire of symbiosis genes in rhizobial genomes and may play an important role in the on-going evolution of the rhizobia-legume symbiosis. To gain insight into the extent of HT of symbiosis genes with different functional roles (nodulation, N-fixation, host benefit, and symbiont fitness), we conducted comparative genomic and selection analyses of the full genome sequences from 27 rhizobial genomes. We find that symbiosis genes experience high rates of HT among rhizobial lineages but also bear signatures of purifying selection (low Ka:Ks). HT and purifying selection appear to be particularly strong in genes involved in initiating the symbiosis (e.g. nodulation) and in genome-wide association candidates for mediating variation in benefits provided to the host. These patterns are consistent with rhizobia adapting to the host environment through the loss and gain of symbiosis genes, but not with host-imposed positive selection driving divergence of symbiosis genes through recurring bouts of positive selection.</span></p>
Lateral gene transfer generates accessory genes that accumulate at different rates within a grass lineage
<p><span></span></p> <p>Lateral gene transfer (LGT) is the <span>movement</span> of DNA between <span>organism</span> without sexual <span>reproduction. </span>The acquired genes represent genetic novelties that <span>have</span> independently evolved in the donor<span>'</span>s genome. <span>Phylogenetic</span> methods <span>have</span> shown that LGT is widespread across the entire grass family, although we know little about the underlying dynamics.</p> <p>We identify laterally acquired genes in five de novo reference genomes from the same grass genus (four <em>Alloteropsis semialata</em> and one <em>Alloteropsis angusta</em>). Using additional resequencing data for a further 40 Alloteropsis individuals, we place the acquisition of each gene onto a phylogeny using stochastic character mapping, and then infer rates of gains and losses.</p> <p>We detect 168 laterally acquired genes in the five reference genomes [32-100 per genome]. Exponential decay models indicate that the rate of LGT acquisitions [6-28 per Ma] and subsequent losses [11-24% per Ma] varied significantly among lineages. Laterally acquired genes were lost at a higher rate than vertically inherited loci [0.02-0.8% per Ma].</p> <p>This high turnover creates intraspecific gene content variation, with a preponderance of them occurring as accessory genes in the <em>Alloteropsis</em> pangenome. This rapid turnover generates standing variation that can ultimately fuel local adaptation.</p>
Data from: Comparative genomics reveals high rates of horizontal transfer and strong purifying selection on rhizobial symbiosis genes
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Lateral gene transfer generates accessory genes that accumulate at different rates within a grass lineage
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Data from: Conjugative plasmid transfer is limited by prophages but can be overcome by high conjugation rates
<p><span><span><span><span>Antibiotic resistance spread via plasmids is a serious threat to successfully fight infections and makes understanding plasmid transfer in nature crucial to prevent the rise of antibiotic resistance. Studies addressing the dynamics of plasmid conjugation have yet neglected one omnipresent factor: prophages (viruses integrated into bacterial genomes), whose activation can kill host and surrounding bacterial cells. To investigate the impact of prophages on conjugation, we combined experiments and mathematical modelling. Using <em>E. coli</em>, prophage lambda and the multidrug-resistant plasmid RP4 we find that prophages can substantially limit the spread of conjugative plasmids. This inhibitory effect was strongly dependent on environmental conditions and bacterial genetic background. Our empirically parameterized model reproduced experimental dynamics of cells acquiring either the prophage or the plasmid well but failed to predict the number of cells acquiring both elements. This suggests more complex interactions between conjugative plasmids and prophages in sequential infections. Varying phage and plasmid infection parameters over empirically realistic ranges revealed that plasmids can overcome the negative impact of prophages through high conjugation rates. Overall, the presence of prophages introduces an additional death rate for plasmid carriers, the magnitude of which is determined in non-trivial ways by the environment, the phage and the plasmid.</span></span></span></span></p>
Estimating the transfer rates of bacterial plasmids with an adapted Luria–Delbrück fluctuation analysis
<p>This repository accompanies the publication of <strong><em>Estimating the rate of plasmid transfer with an adapted Luria–Delbrück fluctuation analysis</em></strong> by Kosterlitz et. al. to provide a consolidated and accessible way of viewing the source data, figures, and custom programs.</p>
Monthly pCO2, gas transfer velocity and CO2 efflux rate in global streams and rivers (the GRADES river networks)
<p>The datasets contain monthly partial pressure of dissolved CO<sub>2</sub> (<em>p</em>CO<sub>2</sub>, µatm), gas transfer velocity (<em>k</em>, m d<sup>-1</sup>), and CO<sub>2</sub> efflux rate (g C m<sup>-2</sup> d<sup>-1</sup>) estimates for global streams and rivers in both comma separated values (csv) and GeoTIFF formats. These datasets served as the base for monthly CO<sub>2</sub> emission estimates for global streams and rivers and can be used to support regional terrestrial carbon balances. Original vector-version of products is based on the Global Reach–level A priori Discharge Estimates for SWOT or GRADES river networks, which have ~ 3 million individual reaches of global streams and rivers. The GeoTIFF version has a spatial resolution of approximately 0.0083º (1 km). The datasets also contain direct CO<sub>2</sub> measurements compiled from the literature (Supplementary Data 1).</p>
A federated learning framework based on transfer learning and knowledge distillation for targeted advertising-Click-Through Rate Prediction Dataset
<p>https://www.kaggle.com/c/avazu-ctr-prediction</p>
Cumulative Live Birth Rates After Cleavage-stage Versus Blastocyst-stage Embryo Transfer
ClinicalTrials.gov study NCT03152643. IPD Sharing: NO. Countries: 1. Publications: 1.
Effect of Oxytocin Antagonists on Implantation Success Rates of Frozen-thawed Embryo Transfer
ClinicalTrials.gov study NCT03904745. IPD Sharing: UNDECIDED. Countries: 1. Publications: 6.
Two Different Types of Luteal Phase Support in Natural Cycle Frozen Embryo Transfer and Its Effect on Pregnancy Rates
ClinicalTrials.gov study NCT05838105. IPD Sharing: Not stated. Countries: 1. Publications: 8.
Effect of Intramuscular Progesterone Supplementation on Clinical and Ongoing Pregnancy Rates in Patients With Low Serum Progesterone Levels on the Day of Embryo Transfer in Artificial Frozen Cycles
ClinicalTrials.gov study NCT04837768. IPD Sharing: Not stated. Countries: 1. Publications: 7.
Transfer of Frozen Embryos in Natural Cycle: Evaluation of Impact of Spontaneous Versus HCG-triggered Ovulation on Pregnancy Rate
ClinicalTrials.gov study NCT03428165. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Serum Progesterone on the Day of Embryo Transfer and Pregnancy Rate.
ClinicalTrials.gov study NCT03272412. IPD Sharing: Not stated. Countries: 1. Publications: 1.
The Impact of Past Coronavirus Disease 19 (COVID-19) Infection on the Live Birth Rates of Frozen Embryo Transfer Cycles
ClinicalTrials.gov study NCT05739019. IPD Sharing: YES. Countries: 1. Publications: 6.
Serum Vitamin D Levels and Pregnancy Rates in Women Undergoing Elective Frozen Embryo Transfer (eFET)
ClinicalTrials.gov study NCT02361710. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Vitamin D Deficiency and Pregnancy Rates in Women Undergoing Frozen Embryo Transfer
ClinicalTrials.gov study NCT01985672. IPD Sharing: Not stated. Countries: 1. Publications: 6.
Impact of a Previous CS on the Ongoing Pregnancy Rate in Single Euploid Frozen Embryo Transfer (ET)
ClinicalTrials.gov study NCT05798624. IPD Sharing: Not stated. Countries: 1. Publications: 14.
hCG Concentration in Peripheral Maternal Blood After Embryo Transfer, Ongoing Pregnancy Rates, and Morphokinetics
ClinicalTrials.gov study NCT04744519. IPD Sharing: NO. Countries: 1. Publications: 2.
Effect of Ultrasound Guided Embryo Transfer on Pregnancy Rates
ClinicalTrials.gov study NCT01810601. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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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
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