| 1. |
- McGinn, Steven, et al.
(författare)
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New Technologies for DNA analysis-A review of the READNA Project.
- 2016
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Ingår i: New Biotechnology. - : Elsevier BV. - 1876-4347 .- 1871-6784.
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Forskningsöversikt (refereegranskat)abstract
- The REvolutionary Approaches and Devices for Nucleic Acid analysis (READNA) project received funding from the European Commission for 4 1/2 years. The objectives of the project revolved around technological developments in nucleic acid analysis. The project partners have discovered, created and developed a huge body of insights into nucleic acid analysis, ranging from improvements and implementation of current technologies to the most promising sequencing technologies that constitute a 3(rd) and 4(th) generation of sequencing methods with nanopores and in situ sequencing, respectively.
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| 2. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 3. |
- Philippe, Herve, et al.
(författare)
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Mitigating Anticipated Effects of Systematic Errors Supports Sister-Group Relationship between Xenacoelomorpha and Ambulacraria
- 2019
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Ingår i: Current Biology. - : Elsevier BV. - 0960-9822 .- 1879-0445. ; 29:11, s. 1818-1826.e6
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Tidskriftsartikel (refereegranskat)abstract
- Xenoturbella and the acoelomorph worms (Xenacoe-lomorpha) are simple marine animals with controversial affinities. They have been placed as the sister group of all other bilaterian animals (Nephrozoa hypothesis), implying their simplicity is an ancient characteristic [1, 2]; alternatively, they have been linked to the complex Ambulacraria (echinoderms and hemichordates) in a Glade called the Xenambulacraria [3,5], suggesting their simplicity evolved by reduction from a complex ancestor. The difficulty resolving this problem implies the phylogenetic signal supporting the correct solution is weak and affected by inadequate modeling, creating a misleading non-phylogenetic signal. The idea that the Nephrozoa hypothesis might be an artifact is prompted by the faster molecular evolutionary rate observed within the Acoelomorpha. Unequal rates of evolution are known to result in the systematic artifact of long branch attraction, which would be predicted to result in an attraction between long-branch acoelomorphs and the outgroup, pulling them toward the root [6]. Other biases inadequately accommodated by the models used can also have strong effects, exacerbated in the context of short internal branches and long terminal branches [7]. We have assembled a large and informative dataset to address this problem. Analyses designed to reduce or to emphasize misleading signals show the Nephrozoa hypothesis is supported under conditions expected to exacerbate errors, and the Xenambulacraria hypothesis is preferred in conditions designed to reduce errors. Our reanalyses of two other recently published datasets [1, 2] produce the same result. We conclude that the Xenacoelomorpha are simplified relatives of the Ambulacraria.
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| 4. |
- Röttger, Stefan, et al.
(författare)
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Radon metrology for use in climate change observation and radiation protection at the environmental level
- 2022
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Ingår i: Advances in Geosciences. - : Copernicus GmbH. - 1680-7340 .- 1680-7359. ; 57, s. 37-47
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Tidskriftsartikel (refereegranskat)abstract
- Radon (222Rn) gas is the largest source of public exposure to naturally occurring radioactivity and the identification of radon priority areas is required by the Council Directive 2013/59/Euratom. Radon is also used as a tracer to improve atmospheric transport models and to indirectly estimate greenhouse gas (GHG) fluxes using the Radon Tracer Method (RTM). This method is based on the correlation between atmospheric concentrations of radon and GHG, together with information on the radon flux data. For radiological data, all European countries have installed networks of automatic gamma dose rate monitoring stations and report the real-time information gathered to the European Radiological Data Exchange Platform (EURDEP). So far, atmospheric radon activity concentrations and radon fluxes are not yet reported in EURDEP, nor routinely measured within the European radiological networks although these observations could help to avoid false positives results. Due to above applications, there is a need of building a metrological chain to ensure high quality radon activity concentrations and radon flux measurements. Both climate and radiation protection research communities underline the need for improved traceability in low-level atmospheric radon measurements (Khanbabaee et al., 2021). The EMPIR project 19ENV01 traceRadonThis project 19ENV01 traceRadon has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme. 19ENV01 traceRadon denotes the EMPIR project reference. is aimed towards providing the necessary measurement infrastructure and transfer standards to fulfil this need. Results of this project are particularly important for improving independent GHG emission estimates that support national reporting under the Paris Agreement on climate change and for the Council Directive 2013/59/Euratom, thus benefitting two large scientific communities. In this paper, early results, such as new activity standard developments and an overview of commercial and research radon monitors are presented and discussed. These results will feed into the traceRadon project with respect to radionuclide metrology in air and its potential for the improvement of the RTM.
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