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9 results for “ddPCR”
Data from: Optimizing detectability of the endangered fan mussel using eDNA and ddPCR
<p>Spatial and temporal monitoring of species threatened with extinction is of critical importance for conservation and ecosystem management. On the Mediterranean coast, the fan mussel (<em>Pinna nobilis</em>) is listed as critically endangered after suffering from a mass mortality event since 2016, leading to 100% mortality in most marine populations. Conventional monitoring for this macroinvertebrate is done using scuba, which is challenging in dense meadows or with low visibility. Here we developed an environmental DNA assay targeting the fan mussel and assessed the influence of several environmental parameters on the species detectability <em>in situ</em>. We developed and tested an eDNA molecular marker and collected 48 water samples in two sites at the Thau lagoon (France) with distinct fan mussel density, depths, and during two seasons (summer and autumn). Our marker can amplify fan mussel DNA but lacks specificity since it also amplifies a conspecific species (<em>Pinna rudis</em>). We successfully amplified fan mussel DNA from <em>in situ</em> samples with 46 positive samples (out of 48) using ddPCR, although the DNA concentrations measured were low over almost all samples. Deeper sampling depth slightly increased DNA concentrations, but no seasonal effect was found. We highlight a putative spawning event on a single summer day with much higher DNA concentration compared to all other samples. We present an eDNA molecular assay able to detect the endangered fan mussel and provide guidelines to optimize the sampling protocol to maximize detectability. Effective and non-invasive monitoring tools for endangered species are promising to monitor remaining populations and have the potential for ecological restoration or habitat recolonisation following a mass mortality event.</p>
Droplet digital PCR (ddPCR) as a tool for investigating dynamics of cryptic symbionts
<p>Interactions among symbiotic organisms and their hosts are major drivers of ecological and evolutionary processes. Monitoring the infection patterns among natural populations and identifying factors affecting these interactions is critical for understanding symbiont-host relationships. However, many of these interactions remain understudied since the knowledge about the symbiont species is lacking and hinders the development of appropriate tools. In this study, we developed a digital droplet PCR (ddPCR) assay based on apicomplexan COX1 gene to detect an undescribed agamococcidian symbiont. We show that the method gives precise and reproducible results and enables detecting cryptic symbionts in low target concentration. We further exemplify the assay's use to survey seasonally sampled natural host (Pygospio elegans) populations for symbiont infection dynamics. We found that symbiont prevalence differs spatially but does not show seasonal changes. Infection load differed between populations and was low in spring and significantly increased towards fall in all populations. We also found that the symbiont prevalence is affected by host length and population density. Larger hosts were more likely to be infected and high host densities were found to have lower probability of infection. The observed variations could be due to characteristics of both symbiont and host biology, especially the seasonal variation in encounter rates. Our findings show that the developed ddPCR assay is a robust tool for detecting undescribed symbionts that are otherwise difficult to quantify, enabling further insight into the impact cryptic symbionts have on their hosts.</p>
Data from: Optimizing detectability of the endangered fan mussel using eDNA and ddPCR
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Droplet digital PCR (ddPCR) as a tool for investigating dynamics of cryptic symbionts
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Correlation Between Efficacy of Osimertinib and EGFR T790M Status and Ratio Via ddPCR in NSCLC
ClinicalTrials.gov study NCT05458726. IPD Sharing: NO. Countries: 1. Publications: 1.
Data from: Use of ddPCR in experimental evolution studies
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Evaluation of a ddPCR Technology for the SARS-CoV-2 Detection in Symptomatic Patients With Suspicion of COVID-19
ClinicalTrials.gov study NCT04510454. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Molecular Monitoring of cfDNA by ddPCR in Non-small Cell Lung Cancer Treated by Immunotherapy.
ClinicalTrials.gov study NCT04720339. IPD Sharing: NO. Countries: 1. Publications: 0.
Blood DdPCR for Early Identification and Dynamic Surveillance of Pathogenic Bacteria in ICU Septic Patients: a Single-centre, Prospective, Observational Study
ClinicalTrials.gov study NCT06791889. IPD Sharing: NO. Countries: 1. Publications: 0.
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