Search

Your search keyword '"Loose, M"' showing total 597 results
Start Over Author "Loose, M"
597 results on '"Loose, M"'

1. LOFAR discovery and wide-band characterisation of an ultra-steep spectrum AGN radio remnant associated with Abell 1318

Author

Shulevski, A., Brienza, M., Massaro, F., Morganti, R., Intema, H., Oosterloo, T., De Gasperin, F., Rajpurohit, K., Pasini, T., Kutkin, A., Vohl, D., Adams, E. A. K., Adebahr, B., Brüggen, M., Hess, K. M., Loose, M. G., Oostrum, L. C., and Ziemke, J.

Subjects
Astrophysics - Astrophysics of Galaxies
Abstract

We present the discovery of a very extended (550 kpc) and low-surface-brightness ($ 3.3 \mu \mathrm{Jy} \, arcsec^{-2} $ at 144 MHz) radio emission region in Abell 1318. These properties are consistent with its characterisation as an active galactic nucleus (AGN) remnant radio plasma, based on its morphology and radio spectral properties. We performed a broad-band (54 - 1400 MHz) radio spectral index and curvature analysis using LOFAR, uGMRT, and WSRT-APERTIF data. We also derived the radiative age of the detected emission, estimating a maximum age of 250 Myr. The morphology of the source is remarkably intriguing, with two larger, oval-shaped components and a thinner, elongated, and filamentary structure in between, plausibly reminiscent of two aged lobes and a jet. Based on archival {\it Swift} as well as SDSS data we performed an X-ray and optical characterisation of the system, whose virial mass was estimated to be $ \sim 7.4 \times 10^{13} \, \mathrm{M} _{\odot}$. This places A1318 in the galaxy group regime. Interestingly, the radio source does not have a clear optical counterpart embedded in it, thus, we propose that it is most likely an unusual AGN remnant of previous episode(s) of activity of the AGN hosted by the brightest group galaxy ($ \sim 2.6 \times 10^{12} \, \mathrm{M} _{\odot}$), which is located at a projected distance of $\sim$170 kpc in the current epoch. This relatively high offset may be a result of IGrM sloshing sourced by a minor merger. The filamentary morphology of the source may suggest that the remnant plasma has been perturbed by the system dynamics, however, only future deeper X-ray observations will be able to address this question., Comment: 16 pages, 9 figures, accepted by A&A; edited some affiliations

Published
2023

2. Citizen Science Astronomy with a Network of Small Telescope: The Launch and Deployment of JWST

Author

Lambert, R. A., Marchis, F., Asencio, J., Blaclard, G., Sgro, L. A., Giorgini, J. D., Plavchan, P., White, T., Verveen, A., Goto, T., Kuossari, P., Sethu, N., Loose, M. A., Will, S., Sibbernsen, K., Pickering, J. W., Randolph, J., Fukui, K., Huet, P., Guillet, B., Clerget, O., Stahl, S., Yoblonsky, N., Lauvernier, M., Matsumura, T., Yamato, M., Laugier, J. M., Brodt-Vilain, O., Espudo, A., Kukita, R., Iida, S., Kardel, S., Green, D., Tikkanen, P., Douvas, A., Billiani, M., Knight, G., Ryno, M., Simard, G., Knight, R., Primm, M., Wildhagen, B., Poncet, J., Frachon, T., Shimizu, M., Jackson, A., Parker, B., Redfern, G., Nikiforov, P., Friday, E., Lincoln, K., Sweitzer, J., Mitsuoka, R., Cabral, K., Katterfeld, A., and Fairfax, M.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - Earth and Planetary Astrophysics
Abstract

We present a coordinated campaign of observations to monitor the brightness of the James Webb Space Telescope (JWST) as it travels toward the second Earth-Sun Lagrange point and unfolds using the network ofUnistellar digital telescopes. Those observations collected by citizen astronomers across the world allowed us to detect specific phases such as the separation from the booster, glare due to a change of orientation after a maneuver, the unfurling of the sunshield, and deployment of the primary mirror. After deployment of the sunshield on January 6 2022, the 6-h lightcurve has a significant amplitude and shows small variations due to the artificial rotation of the space telescope during commissionning. These variations could be due to the deployment of the primary mirror or some changes in orientation of the space telescope. This work illustrates the power of a worldwide array of small telescopes, operated by citizen astronomers, to conduct large scientific campaigns over a long timeframe. In the future, our network and others will continue to monitor JWST to detect potential degradations to the space environment by comparing the evolution of the lightcurve., Comment: 15 pages, 13 figures and 2 tables, SPIE Ground-based and Airborne Telescopes IX, AS22 SPIE Astronomical Telescopes + Instrumentation, 12182-144

Published
2022

5. Evaluating the cost implications of integrating SARS-CoV-2 genome sequencing for infection prevention and control investigation of nosocomial transmission within hospitals

Author

Panca, M., Blackstone, J., Stirrup, O., Cutino-Moguel, M.-T., Thomson, E., Peters, C., Snell, L.B., Nebbia, G., Holmes, A., Chawla, A., Machin, N., Taha, Y., Mahungu, T., Saluja, T., de Silva, T.I., Saeed, K., Pope, C., Shin, G.Y., Williams, R., Darby, A., Smith, D.L., Loose, M., Robson, S.C., Laing, K., Partridge, D.G., Price, J.R., and Breuer, J.

Published
2023
Full Text
View/download PDF

6. LOFAR MSSS: Detection of a low-frequency radio transient in 400 hrs of monitoring of the North Celestial Pole

Author

Stewart, A. J., Fender, R. P., Broderick, J. W., Hassall, T. E., Muñoz-Darias, T., Rowlinson, A., Swinbank, J. D., Staley, T. D., Molenaar, G. J., Scheers, B., Grobler, T. L., Pietka, M., Heald, G., McKean, J. P., Bell, M. E., Bonafede, A., Breton, R. P., Carbone, D., Cendes, Y., Clarke, A. O., Corbel, S., de Gasperin, F., Eislöffel, J., Falcke, H., Ferrari, C., Grießmeier, J. -M., Hardcastle, M. J., Heesen, V., Hessels, J. W. T., Horneffer, A., Iacobelli, M., Jonker, P., Karastergiou, A., Kokotanekov, G., Kondratiev, V. I., Kuniyoshi, M., Law, C. J., van Leeuwen, J., Markoff, S., Miller-Jones, J. C. A., Mulcahy, D., Orru, E., Pandey-Pommier, M., Pratley, L., Rol, E., Röttgering, H. J. A., Scaife, A. M. M., Shulevski, A., Sobey, C. A., Stappers, B. W., Tasse, C., van der Horst, A. J., van Velzen, S., van Weeren, R. J., Wijers, R. A. M. J., Wijnands, R., Wise, M., Zarka, P., Alexov, A., Anderson, J., Asgekar, A., Avruch, I. M., Bentum, M. J., Bernardi, G., Best, P., Breitling, F., Brüggen, M., Butcher, H. R., Ciardi, B., Conway, J. E., Corstanje, A., de Geus, E., Deller, A., Duscha, S., Frieswijk, W., Garrett, M. A., Gunst, A. W., van Haarlem, M. P., Hoeft, M., Hörandel, J., Juette, E., Kuper, G., Loose, M., Maat, P., McFadden, R., McKay-Bukowski, D., Moldon, J., Munk, H., Norden, M. J., Paas, H., Polatidis, A. G., Schwarz, D., Sluman, J., Smirnov, O., Steinmetz, M., Thoudam, S., Toribio, M. C., Vermeulen, R., Vocks, C., Wijnholds, S. J., Wucknitz, O., and Yatawatta, S.

Subjects
Astrophysics - High Energy Astrophysical Phenomena, Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

We present the results of a four-month campaign searching for low-frequency radio transients near the North Celestial Pole with the Low-Frequency Array (LOFAR), as part of the Multifrequency Snapshot Sky Survey (MSSS). The data were recorded between 2011 December and 2012 April and comprised 2149 11-minute snapshots, each covering 175 deg^2. We have found one convincing candidate astrophysical transient, with a duration of a few minutes and a flux density at 60 MHz of 15-25 Jy. The transient does not repeat and has no obvious optical or high-energy counterpart, as a result of which its nature is unclear. The detection of this event implies a transient rate at 60 MHz of 3.9 (+14.7, -3.7) x 10^-4 day^-1 deg^-2, and a transient surface density of 1.5 x 10^-5 deg^-2, at a 7.9-Jy limiting flux density and ~10-minute time-scale. The campaign data were also searched for transients at a range of other time-scales, from 0.5 to 297 min, which allowed us to place a range of limits on transient rates at 60 MHz as a function of observation duration., Comment: 23 pages, 16 figures, 5 tables, accepted for publication in MNRAS

Published
2015
Full Text
View/download PDF

7. Imaging Jupiter's radiation belts down to 127 MHz with LOFAR

Author

Girard, J. N., Zarka, P., Tasse, C., Hess, S., de Pater, I., Santos-Costa, D., Nenon, Q., Sicard, A., Bourdarie, S., Anderson, J., Asgekar, A., Bell, M. E., van Bemmel, I., Bentum, M. J., Bernardi, G., Best, P., Bonafede, A., Breitling, F., Breton, R. P., Broderick, J. W., Brouw, W. N., Brüggen, M., Ciardi, B., Corbel, S., Corstanje, A., de Gasperin, F., de Geus, E., Deller, A., Duscha, S., Eislöffel, J., Falcke, H., Frieswijk, W., Garrett, M. A., Grießmeier, J., Gunst, A. W., Hessels, J. W. T., Hoeft, M., Hörandel, J., Iacobelli, M., Juette, E., Kondratiev, V. I., Kuniyoshi, M., Kuper, G., van Leeuwen, J., Loose, M., Maat, P., Mann, G., Markov, S., McFadden, R., McKay-Bukowski, D., Moldon, J., Munk, H., Nelles, A., Norden, M. J., Orru, E., Paas, H., Pandey-Pommier, M., Pizzo, R., Polatidis, A. G., Reich, W., Röttgering, H., Rowlinson, A., Schwarz, D., Smirnov, O., Steinmetz, M., Swinbank, J., Tagger, M., Thoudam, S., Toribio, M. C., Vermeulen, R., Vocks, C., van Weeren, R. J., Wijers, R. A. M. J., and Wucknitz, O.

Subjects
Astrophysics - Earth and Planetary Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

Context. Observing Jupiter's synchrotron emission from the Earth remains today the sole method to scrutinize the distribution and dynamical behavior of the ultra energetic electrons magnetically trapped around the planet (because in-situ particle data are limited in the inner magnetosphere). Aims. We perform the first resolved and low-frequency imaging of the synchrotron emission with LOFAR at 127 MHz. The radiation comes from low energy electrons (~1-30 MeV) which map a broad region of Jupiter's inner magnetosphere. Methods (see article for complete abstract) Results. The first resolved images of Jupiter's radiation belts at 127-172 MHz are obtained along with total integrated flux densities. They are compared with previous observations at higher frequencies and show a larger extent of the synchrotron emission source (>=4 $R_J$). The asymmetry and the dynamic of east-west emission peaks are measured and the presence of a hot spot at lambda_III=230 {\deg} $\pm$ 25 {\deg}. Spectral flux density measurements are on the low side of previous (unresolved) ones, suggesting a low-frequency turnover and/or time variations of the emission spectrum. Conclusions. LOFAR is a powerful and flexible planetary imager. The observations at 127 MHz depict an extended emission up to ~4-5 planetary radii. The similarities with high frequency results reinforce the conclusion that: i) the magnetic field morphology primarily shapes the brightness distribution of the emission and ii) the radiating electrons are likely radially and latitudinally distributed inside about 2 $R_J$. Nonetheless, the larger extent of the brightness combined with the overall lower flux density, yields new information on Jupiter's electron distribution, that may shed light on the origin and mode of transport of these particles., Comment: 10 pages, 12 figures, accepted for publication in A&A (27/11/2015) - abstract edited because of limited characters

Published
2015
Full Text
View/download PDF

8. The LOFAR Multifrequency Snapshot Sky Survey (MSSS) I. Survey description and first results

Author

Heald, G. H., Pizzo, R. F., Orrú, E., Breton, R. P., Carbone, D., Ferrari, C., Hardcastle, M. J., Jurusik, W., Macario, G., Mulcahy, D., Rafferty, D., Asgekar, A., Brentjens, M., Fallows, R. A., Frieswijk, W., Toribio, M. C., Adebahr, B., Arts, M., Bell, M. R., Bonafede, A., Bray, J., Broderick, J., Cantwell, T., Carroll, P., Cendes, Y., Clarke, A. O., Croston, J., Daiboo, S., de Gasperin, F., Gregson, J., Harwood, J., Hassall, T., Heesen, V., Horneffer, A., van der Horst, A. J., Iacobelli, M., Jelić, V., Jones, D., Kant, D., Kokotanekov, G., Martin, P., McKean, J. P., Morabito, L. K., Nikiel-Wroczyński, B., Offringa, A., Pandey, V. N., Pandey-Pommier, M., Pietka, M., Pratley, L., Riseley, C., Rowlinson, A., Sabater, J., Scaife, A. M. M., Scheers, L. H. A., Sendlinger, K., Shulevski, A., Sipior, M., Sobey, C., Stewart, A. J., Stroe, A., Swinbank, J., Tasse, C., Trüstedt, J., Varenius, E., van Velzen, S., Vilchez, N., van Weeren, R. J., Wijnholds, S., Williams, W. L., de Bruyn, A. G., Nijboer, R., Wise, M., Alexov, A., Anderson, J., Avruch, I. M., Beck, R., Bell, M. E., van Bemmel, I., Bentum, M. J., Bernardi, G., Best, P., Breitling, F., Brouw, W. N., Brüggen, M., Butcher, H. R., Ciardi, B., Conway, J. E., de Geus, E., de Jong, A., de Vos, M., Deller, A., Dettmar, R. J., Duscha, S., Eislöffel, J., Engels, D., Falcke, H., Fender, R., Garrett, M. A., Grießmeier, J., Gunst, A. W., Hamaker, J. P., Hessels, J. W. T., Hoeft, M., Hörandel, J., Holties, H. A., Intema, H., Jackson, N. J., Jütte, E., Karastergiou, A., Klijn, W. F. A., Kondratiev, V. I., Koopmans, L. V. E., Kuniyoshi, M., Kuper, G., Law, C., van Leeuwen, J., Loose, M., Maat, P., Markoff, S., McFadden, R., McKay-Bukowski, D., Mevius, M., Miller-Jones, J. C. A., Morganti, R., Munk, H., Nelles, A., Noordam, J. E., Norden, M. J., Paas, H., Polatidis, A. G., Reich, W., Renting, A., Röttgering, H., Schoenmakers, A., Schwarz, D., Sluman, J., Smirnov, O., Stappers, B. W., Steinmetz, M., Tagger, M., Tang, Y., ter Veen, S., Thoudam, S., Vermeulen, R., Vocks, C., Vogt, C., Wijers, R. A. M. J., Wucknitz, O., Yatawatta, S., and Zarka, P.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

We present the Multifrequency Snapshot Sky Survey (MSSS), the first northern-sky LOFAR imaging survey. In this introductory paper, we first describe in detail the motivation and design of the survey. Compared to previous radio surveys, MSSS is exceptional due to its intrinsic multifrequency nature providing information about the spectral properties of the detected sources over more than two octaves (from 30 to 160 MHz). The broadband frequency coverage, together with the fast survey speed generated by LOFAR's multibeaming capabilities, make MSSS the first survey of the sort anticipated to be carried out with the forthcoming Square Kilometre Array (SKA). Two of the sixteen frequency bands included in the survey were chosen to exactly overlap the frequency coverage of large-area Very Large Array (VLA) and Giant Metrewave Radio Telescope (GMRT) surveys at 74 MHz and 151 MHz respectively. The survey performance is illustrated within the "MSSS Verification Field" (MVF), a region of 100 square degrees centered at J2000 (RA,Dec)=(15h,69deg). The MSSS results from the MVF are compared with previous radio survey catalogs. We assess the flux and astrometric uncertainties in the catalog, as well as the completeness and reliability considering our source finding strategy. We determine the 90% completeness levels within the MVF to be 100 mJy at 135 MHz with 108" resolution, and 550 mJy at 50 MHz with 166" resolution. Images and catalogs for the full survey, expected to contain 150,000-200,000 sources, will be released to a public web server. We outline the plans for the ongoing production of the final survey products, and the ultimate public release of images and source catalogs., Comment: 23 pages, 19 figures. Accepted for publication in Astronomy & Astrophysics. MSSS Verification Field images and catalog data may be downloaded from http://vo.astron.nl

Published
2015
Full Text
View/download PDF

9. The brightness and spatial distributions of terrestrial radio sources

Author

Offringa, A. R., de Bruyn, A. G., Zaroubi, S., Koopmans, L. V. E., Wijnholds, S. J., Abdalla, F. B., Brouw, W. N., Ciardi, B., Iliev, I. T., Harker, G. J. A., Mellema, G., Bernardi, G., Zarka, P., Ghosh, A., Alexov, A., Anderson, J., Asgekar, A., Avruch, I. M., Beck, R., Bell, M. E., Bell, M. R., Bentum, M. J., Best, P., Bîrzan, L., Breitling, F., Broderick, J., Brüggen, M., Butcher, H. R., de Gasperin, F., de Geus, E., de Vos, M., Duscha, S., Eislöffel, J., Fallows, R. A., Ferrari, C., Frieswijk, W., Garrett, M. A., Grießmeier, J., Hassall, T. E., Horneffer, A., Iacobelli, M., Juette, E., Karastergiou, A., Klijn, W., Kondratiev, V. I., Kuniyoshi, M., Kuper, G., van Leeuwen, J., Loose, M., Maat, P., Macario, G., Mann, G., McKean, J. P., Meulman, H., Norden, M. J., Orru, E., Paas, H., Pandey-Pommier, M., Pizzo, R., Polatidis, A. G., Rafferty, D., Reich, W., van Nieuwpoort, R., Röttgering, H., Scaife, A. M. M., Sluman, J., Smirnov, O., Sobey, C., Tagger, M., Tang, Y., Tasse, C., ter Veen, S., Toribio, C., Vermeulen, R., Vocks, C., van Weeren, R. J., Wise, M. W., and Wucknitz, O.

Subjects
Astrophysics - Cosmology and Extragalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics, Physics - Atmospheric and Oceanic Physics
Abstract

Faint undetected sources of radio-frequency interference (RFI) might become visible in long radio observations when they are consistently present over time. Thereby, they might obstruct the detection of the weak astronomical signals of interest. This issue is especially important for Epoch of Reionisation (EoR) projects that try to detect the faint redshifted HI signals from the time of the earliest structures in the Universe. We explore the RFI situation at 30-163 MHz by studying brightness histograms of visibility data observed with LOFAR, similar to radio-source-count analyses that are used in cosmology. An empirical RFI distribution model is derived that allows the simulation of RFI in radio observations. The brightness histograms show an RFI distribution that follows a power-law distribution with an estimated exponent around -1.5. With several assumptions, this can be explained with a uniform distribution of terrestrial radio sources whose radiation follows existing propagation models. Extrapolation of the power law implies that the current LOFAR EoR observations should be severely RFI limited if the strength of RFI sources remains strong after time integration. This is in contrast with actual observations, which almost reach the thermal noise and are thought not to be limited by RFI. Therefore, we conclude that it is unlikely that there are undetected RFI sources that will become visible in long observations. Consequently, there is no indication that RFI will prevent an EoR detection with LOFAR., Comment: Accepted for publication in MNRAS

Published
2013
Full Text
View/download PDF

10. LOFAR: The LOw-Frequency ARray

Author

van Haarlem, M. P., Wise, M. W., Gunst, A. W., Heald, G., McKean, J. P., Hessels, J. W. T., de Bruyn, A. G., Nijboer, R., Swinbank, J., Fallows, R., Brentjens, M., Nelles, A., Beck, R., Falcke, H., Fender, R., Hörandel, J., Koopmans, L. V. E., Mann, G., Miley, G., Röttgering, H., Stappers, B. W., Wijers, R. A. M. J., Zaroubi, S., Akker, M. van den, Alexov, A., Anderson, J., Anderson, K., van Ardenne, A., Arts, M., Asgekar, A., Avruch, I. M., Batejat, F., Bähren, L., Bell, M. E., Bell, M. R., van Bemmel, I., Bennema, P., Bentum, M. J., Bernardi, G., Best, P., Bîrzan, L., Bonafede, A., Boonstra, A. -J., Braun, R., Bregman, J., Breitling, F., van de Brink, R. H., Broderick, J., Broekema, P. C., Brouw, W. N., Brüggen, M., Butcher, H. R., van Cappellen, W., Ciardi, B., Coenen, T., Conway, J., Coolen, A., Corstanje, A., Damstra, S., Davies, O., Deller, A. T., Dettmar, R. -J., van Diepen, G., Dijkstra, K., Donker, P., Doorduin, A., Dromer, J., Drost, M., van Duin, A., Eislöffel, J., van Enst, J., Ferrari, C., Frieswijk, W., Gankema, H., Garrett, M. A., de Gasperin, F., Gerbers, M., de Geus, E., Grießmeier, J. -M., Grit, T., Gruppen, P., Hamaker, J. P., Hassall, T., Hoeft, M., Holties, H., Horneffer, A., van der Horst, A., van Houwelingen, A., Huijgen, A., Iacobelli, M., Intema, H., Jackson, N., Jelic, V., de Jong, A., Juette, E., Kant, D., Karastergiou, A., Koers, A., Kollen, H., Kondratiev, V. I., Kooistra, E., Koopman, Y., Koster, A., Kuniyoshi, M., Kramer, M., Kuper, G., Lambropoulos, P., Law, C., van Leeuwen, J., Lemaitre, J., Loose, M., Maat, P., Macario, G., Markoff, S., Masters, J., McKay-Bukowski, D., Meijering, H., Meulman, H., Mevius, M., Middelberg, E., Millenaar, R., Miller-Jones, J. C. A., Mohan, R. N., Mol, J. D., Morawietz, J., Morganti, R., Mulcahy, D. D., Mulder, E., Munk, H., Nieuwenhuis, L., van Nieuwpoort, R., Noordam, J. E., Norden, M., Noutsos, A., Offringa, A. R., Olofsson, H., Omar, A., Orrú, E., Overeem, R., Paas, H., Pandey-Pommier, M., Pandey, V. N., Pizzo, R., Polatidis, A., Rafferty, D., Rawlings, S., Reich, W., de Reijer, J. -P., Reitsma, J., Renting, A., Riemers, P., Rol, E., Romein, J. W., Roosjen, J., Ruiter, M., Scaife, A., van der Schaaf, K., Scheers, B., Schellart, P., Schoenmakers, A., Schoonderbeek, G., Serylak, M., Shulevski, A., Sluman, J., Smirnov, O., Sobey, C., Spreeuw, H., Steinmetz, M., Sterks, C. G. M., Stiepel, H. -J., Stuurwold, K., Tagger, M., Tang, Y., Tasse, C., Thomas, I., Thoudam, S., Toribio, M. C., van der Tol, B., Usov, O., van Veelen, M., van der Veen, A. -J., ter Veen, S., Verbiest, J. P. W., Vermeulen, R., Vermaas, N., Vocks, C., Vogt, C., de Vos, M., van der Wal, E., van Weeren, R., Weggemans, H., Weltevrede, P., White, S., Wijnholds, S. J., Wilhelmsson, T., Wucknitz, O., Yatawatta, S., Zarka, P., Zensus, A., and van Zwieten, J.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

LOFAR, the LOw-Frequency ARray, is a new-generation radio interferometer constructed in the north of the Netherlands and across europe. Utilizing a novel phased-array design, LOFAR covers the largely unexplored low-frequency range from 10-240 MHz and provides a number of unique observing capabilities. Spreading out from a core located near the village of Exloo in the northeast of the Netherlands, a total of 40 LOFAR stations are nearing completion. A further five stations have been deployed throughout Germany, and one station has been built in each of France, Sweden, and the UK. Digital beam-forming techniques make the LOFAR system agile and allow for rapid repointing of the telescope as well as the potential for multiple simultaneous observations. With its dense core array and long interferometric baselines, LOFAR achieves unparalleled sensitivity and angular resolution in the low-frequency radio regime. The LOFAR facilities are jointly operated by the International LOFAR Telescope (ILT) foundation, as an observatory open to the global astronomical community. LOFAR is one of the first radio observatories to feature automated processing pipelines to deliver fully calibrated science products to its user community. LOFAR's new capabilities, techniques and modus operandi make it an important pathfinder for the Square Kilometre Array (SKA). We give an overview of the LOFAR instrument, its major hardware and software components, and the core science objectives that have driven its design. In addition, we present a selection of new results from the commissioning phase of this new radio observatory., Comment: 56 pages, 34 figures, accepted for publication by A&A

Published
2013
Full Text
View/download PDF

12. Inter-Pixel Crosstalk in Teledyne Imaging Sensors (TIS) H4RG-10 Detectors

Author

Dudik, R. P., Jordan, M., Dorland, B. N., Veillette, D., Waczynski, A., Lane, B., Loose, M., Kan, E., Waterman, J., and Pravdo, S.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

CMOS-hybrid arrays have recently surfaced as competitive optical detectors for use in ground- and space-based astronomy. One source of error in these detectors that does not appear in more traditional CCD arrays is the inter-pixel capacitance component of crosstalk. In this paper we use a single pixel reset method to model inter-pixel capacitance (IPC). We combine this IPC model with a model for charge diffusion to estimate the total crosstalk on H4RG arrays. Finally, we compare our model results to Fe55 data obtained using an astrometric camera built to test the H4RG-B0 generation detectors., Comment: Accepted to Applied Optics 03-26-12

Published
2012
Full Text
View/download PDF

13. Optimized Trigger for Ultra-High-Energy Cosmic-Ray and Neutrino Observations with the Low Frequency Radio Array

Author

Singh, K., Mevius, M., Scholten, O., Anderson, J. M., van Ardenne, A., Arts, M., Avruch, M., Asgekar, A., Bell, M., Bennema, P., Bentum, M., Bernadi, G., Best, P., Boonstra, A. -J., Bregman, J., van de Brink, R., Broekema, C., Brouw, W., Brueggen, M., Buitink, S., Butcher, H., van Cappellen, W., Ciardi, B., Coolen, A., Damstra, S., Dettmar, R., van Diepen, G., Dijkstra, K., Donker, P., Doorduin, A., Drost, M., van Duin, A., Eisloeffel, J., Falcke, H., Garrett, M., Gerbers, M., Griessmeier, J., Grit, T., Gruppen, P., Gunst, A., van Haarlem, M., Hoeft, M., Holties, H., Horandel, J., Horneffer, L. A., Huijgen, A., James, C., de Jong, A., Kant, D., Kooistra, E., Koopman, Y., Koopmans, L., Kuper, G., Lambropoulos, P., van Leeuwen, J., Loose, M., Maat, P., Mallary, C., McFadden, R., Meulman, H., Mol, J. -D., Morawietz, J., Mulder, E., Munk, H., Nieuwenhuis, L., Nijboer, R., Norden, M., Noordam, J., Overeem, R., Paas, H., Pandey, V. N., Pandey-Pommier, M., Pizzo, R., Polatidis, A., Reich, W., de Reijer, J., Renting, A., Riemers, P., Roettgering, H., Romein, J., Roosjen, J., Ruiter, M., Schoenmakers, A., Schoonderbeek, G., Sluman, J., Smirnov, O., Stappers, B., Steinmetz, M., Stiepel, H., Stuurwold, K., Tagger, M., Tang, Y., ter Veen, S., Vermeulen, R., de Vos, M., Vogt, C., van der Wal, E., Weggemans, H., Wijnholds, S., Wise, M., Wucknitz, O., Yattawatta, S., and van Zwieten, J.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - High Energy Astrophysical Phenomena
Abstract

When an ultra-high energy neutrino or cosmic ray strikes the Lunar surface a radio-frequency pulse is emitted. We plan to use the LOFAR radio telescope to detect these pulses. In this work we propose an efficient trigger implementation for LOFAR optimized for the observation of short radio pulses., Comment: Submitted to Nuclear Instruments and Methods in Physics Research Section A

Published
2011
Full Text
View/download PDF

14. Observing pulsars and fast transients with LOFAR

Author

Stappers, B. W., Hessels, J. W. T., Alexov, A., Anderson, K., Coenen, T., Hassall, T., Karastergiou, A., Kondratiev, V. I., Kramer, M., van Leeuwen, J., Mol, J. D., Noutsos, A., Romein, J. W ., Weltevrede, P., Fender, R., Wijers, R. A. M. J., Bähren, L., Bell, M. E., Broderick, J., Daw, E. J., Dhillon, V. S., Eislöffel, J., Falcke, H., Griessmeier, J., Law, C., Markoff, S., Miller-Jones, J. C. A., Scheers, B., Spreeuw, H., Swinbank, J., ter Veen, S., Wise, M. W., Wucknitz, O., Zarka, P., Anderson, J., Asgekar, A., Avruch, I. M., Beck, R., Bennema, P., Bentum, M. J., Best, P., Bregman, J., Brentjens, M., van de Brink, R. H., Broekema, P. C., Brouw, W. N., Brüggen, M., de Bruyn, A. G., Butcher, H. R., Ciardi, B., Conway, J., Dettmar, R. -J., van Duin, A., van Enst, J., Garrett, M., Gerbers, M., Grit, T., Gunst, A., van Haarlem, M. P., Hamaker, J. P., Heald, G., Hoeft, M., Holties, H., Horneffer, A., Koopmans, L. V. E., Kuper, G., Loose, M., Maat, P., McKay-Bukowski, D., McKean, J. P., Miley, G., Morganti, R., Nijboer, R., Noordam, J. E., Norden, M., Olofsson, H., Pandey-Pommier, M., Polatidis, A., Reich, W., Röttgering, H., Schoenmakers, A., Sluman, J., Smirnov, O., Steinmetz, M., Sterks, C. G. M., Tagger, M., Tang, Y., Vermeulen, R., Vermaas, N., Vogt, C., de Vos, M., Wijnholds, S. J., Yatawatta, S., and Zensus, A.

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - Solar and Stellar Astrophysics
Abstract

Low frequency radio waves, while challenging to observe, are a rich source of information about pulsars. The LOw Frequency ARray (LOFAR) is a new radio interferometer operating in the lowest 4 octaves of the ionospheric "radio window": 10-240MHz, that will greatly facilitate observing pulsars at low radio frequencies. Through the huge collecting area, long baselines, and flexible digital hardware, it is expected that LOFAR will revolutionize radio astronomy at the lowest frequencies visible from Earth. LOFAR is a next-generation radio telescope and a pathfinder to the Square Kilometre Array (SKA), in that it incorporates advanced multi-beaming techniques between thousands of individual elements. We discuss the motivation for low-frequency pulsar observations in general and the potential of LOFAR in addressing these science goals. We present LOFAR as it is designed to perform high-time-resolution observations of pulsars and other fast transients, and outline the various relevant observing modes and data reduction pipelines that are already or will soon be implemented to facilitate these observations. A number of results obtained from commissioning observations are presented to demonstrate the exciting potential of the telescope. This paper outlines the case for low frequency pulsar observations and is also intended to serve as a reference for upcoming pulsar/fast transient science papers with LOFAR., Comment: 35 pages, 19 figures, accepted for publication by A&A

Published
2011
Full Text
View/download PDF

16. Factors affecting turnaround time of SARS-CoV-2 sequencing for inpatient infection prevention and control decision making: analysis of data from the COG-UK HOCI study

Author

Colton, H., primary, Parker, M.D., additional, Stirrup, O., additional, Blackstone, J., additional, Loose, M., additional, McClure, C.P., additional, Roy, S., additional, Williams, C., additional, McLeod, J., additional, Smith, D., additional, Taha, Y., additional, Zhang, P., additional, Hsu, S.N., additional, Kele, B., additional, Harris, K., additional, Mapp, F., additional, Williams, R., additional, Flowers, P., additional, Breuer, J., additional, Partridge, D.G., additional, and de Silva, T.I., additional

Published
2023
Full Text
View/download PDF

17. Factors affecting turnaround time of SARS-CoV-2 sequencing for inpatient infection prevention and control decision making: analysis of data from the COG-UK HOCI study

Author

Colton, H, Parker, MD, Stirrup, O, Blackstone, J, Loose, M, McClure, CP, Roy, S, Williams, C, McLeod, J, Smith, D, Taha, Y, Zhang, P, Hsu, SN, Kele, B, Harris, K, Mapp, F, Williams, R, COG-UK HOCI Investigators, COVID-19 Genomics UK (COG-UK) Consortium, Flowers, P, Breuer, J, Partridge, DG, De Silva, TI, and Apollo - University of Cambridge Repository

Subjects
Inpatients, SARS-CoV-2, Decision Making, Sequencing, Humans, COVID-19, Infection control, Turnaround time, United Kingdom
Abstract

BACKGROUND: Barriers to rapid return of sequencing results can affect the utility of sequence data for infection prevention and control decisions. AIM: To undertake a mixed-methods analysis to identify challenges that sites faced in achieving a rapid turnaround time (TAT) in the COVID-19 Genomics UK Hospital-Onset COVID-19 Infection (COG-UK HOCI) study. METHODS: For the quantitative analysis, timepoints relating to different stages of the sequencing process were extracted from both the COG-UK HOCI study dataset and surveys of study sites. Qualitative data relating to the barriers and facilitators to achieving rapid TATs were included from thematic analysis. FINDINGS: The overall TAT, from sample collection to receipt of sequence report by infection control teams, varied between sites (median 5.1 days, range 3.0-29.0 days). Most variation was seen between reporting of a positive COVID-19 polymerase chain reaction (PCR) result to sequence report generation (median 4.0 days, range 2.3-27.0 days). On deeper analysis, most of this variability was accounted for by differences in the delay between the COVID-19 PCR result and arrival of the sample at the sequencing laboratory (median 20.8 h, range 16.0-88.7 h). Qualitative analyses suggest that closer proximity of sequencing laboratories to diagnostic laboratories, increased staff flexibility and regular transport times facilitated a shorter TAT. CONCLUSION: Integration of pathogen sequencing into diagnostic laboratories may help to improve sequencing TAT to allow sequence data to be of tangible value to infection control practice. Adding a quality control step upstream to increase capacity further down the workflow may also optimize TAT if lower quality samples are removed at an earlier stage.

Published
2023

18. Establishment and cryptic transmission of Zika virus in Brazil and the Americas

Author

Faria, N. R., Quick, J., Claro, I.M., Thézé, J., de Jesus, J. G., Giovanetti, M., Kraemer, M. U. G., Hill, S. C., Black, A., da Costa, A. C., Franco, L. C., Silva, S. P., Wu, C.-H., Raghwani, J., Cauchemez, S., du Plessis, L., Verotti, M. P., de Oliveira, W. K., Carmo, E. H., Coelho, G. E., Santelli, A. C. F. S., Vinhal, L. C., Henriques, C. M., Simpson, J. T., Loose, M., Andersen, K. G., Grubaugh, N. D., Somasekar, S., Chiu, C. Y., Muñoz-Medina, J. E., Gonzalez-Bonilla, C. R., Arias, C. F., Lewis-Ximenez, L. L., Baylis, S. A., Chieppe, A. O., Aguiar, S. F., Fernandes, C. A., Lemos, P. S., Nascimento, B. L. S., Monteiro, H. A. O., Siqueira, I. C., de Queiroz, M. G., de Souza, T. R., Bezerra, J. F., Lemos, M. R., Pereira, G. F., Loudal, D., Moura, L. C., Dhalia, R., França, R. F., Magalhães, T., Marques, Jr, E. T., Jaenisch, T., Wallau, G. L., de Lima, M. C., Nascimento, V., de Cerqueira, E. M., de Lima, M. M., Mascarenhas, D. L., Neto, J. P. Moura, Levin, A. S., Tozetto-Mendoza, T. R., Fonseca, S. N., Mendes-Correa, M. C., Milagres, F. P., Segurado, A., Holmes, E. C., Rambaut, A., Bedford, T., Nunes, M. R. T., Sabino, E. C., Alcantara, L. C. J., Loman, N. J., and Pybus, O. G.

Published
2017
Full Text
View/download PDF

19. Citizen science astronomy with a network of small telescopes: the launch and deployment of JWST

Author

Lambert, Ryan A., primary, Marchis, Franck, additional, Asencio, Joe, additional, Blaclard, Guillaume, additional, Sgro, Lauren A., additional, Giogini, Jon D., additional, Plavchan, Peter, additional, White, Tracy, additional, Verveen, A., additional, Goto, T., additional, Kuossari, Petri, additional, Sethu, N., additional, Loose, M. A., additional, Will, S., additional, Sibbernsen, K., additional, Pickering, J. W., additional, Randolph, J., additional, Fukui, K., additional, Huet, P., additional, Guillet, B., additional, Clerget, O., additional, Stahl, S., additional, Yoblonsky, N., additional, Lauvernier, M., additional, Matsumura, T., additional, Yamato, M., additional, Laugier, J.-M., additional, Brodt-Vilain, O., additional, Espudo, A., additional, Kukita, R., additional, Iida, S., additional, Kardel, S., additional, Green, D., additional, Tikkanen, P., additional, Douvas, A., additional, Billiani, M., additional, Knight, G., additional, Ryno, M., additional, Simard, G., additional, Knight, R., additional, Primm, M., additional, Wildhagen, B., additional, Poncet, J., additional, Frachon, T., additional, Shimizu, M., additional, Jackson, A., additional, Parker, B., additional, Redfern, G., additional, Nikiforov, P., additional, Friday, E., additional, Lincoln, K., additional, Sweitzer, J., additional, Mitsuoka, R., additional, Cabral, K., additional, Katterfeld, A., additional, and Fairfax, M., additional

Published
2022
Full Text
View/download PDF

20. Specification and epigenomic resetting of the pig germline exhibit conservation with the human lineage

Author

China Scholarship Council, University of Nottingham, European Commission, Croucher Foundation, Biotechnology and Biological Sciences Research Council (UK), Zhu, Qifan [0000-0001-5146-3337], Sang, F. [0000-0002-8746-5868], Withey, S. [0000-0003-0520-0290], Tang, Walfred [0000-0002-5803-1681], Dietmann, Sabine [0000-0001-6672-8457], Klisch, D. [0000-0002-5772-2261], Ramos Ibeas, Priscila [0000-0003-4578-0189], Zhang, Haixin [0000-0002-8840-053X], Requena, Cristina E. [0000-0001-5239-9162], Hajkova, Petra [0000-0003-4145-1468], Loose, M. [0000-0002-5264-0929], Surani, M. A. [0000-0002-8640-4318], Alberio, Ramiro [0000-0001-6560-3919], Zhu, Qifan, Sang, F., Withey, S., Tang, Walfred, Dietmann, Sabine, Klisch, D., Ramos Ibeas, Priscila, Zhang, Haixin, Requena, Cristina E, Hajkova, Petra, Loose, M., Surani, M. A., Alberio, Ramiro, China Scholarship Council, University of Nottingham, European Commission, Croucher Foundation, Biotechnology and Biological Sciences Research Council (UK), Zhu, Qifan [0000-0001-5146-3337], Sang, F. [0000-0002-8746-5868], Withey, S. [0000-0003-0520-0290], Tang, Walfred [0000-0002-5803-1681], Dietmann, Sabine [0000-0001-6672-8457], Klisch, D. [0000-0002-5772-2261], Ramos Ibeas, Priscila [0000-0003-4578-0189], Zhang, Haixin [0000-0002-8840-053X], Requena, Cristina E. [0000-0001-5239-9162], Hajkova, Petra [0000-0003-4145-1468], Loose, M. [0000-0002-5264-0929], Surani, M. A. [0000-0002-8640-4318], Alberio, Ramiro [0000-0001-6560-3919], Zhu, Qifan, Sang, F., Withey, S., Tang, Walfred, Dietmann, Sabine, Klisch, D., Ramos Ibeas, Priscila, Zhang, Haixin, Requena, Cristina E, Hajkova, Petra, Loose, M., Surani, M. A., and Alberio, Ramiro

Abstract

Investigations of the human germline and programming are challenging because of limited access to embryonic material. However, the pig as a model may provide insights into transcriptional network and epigenetic reprogramming applicable to both species. Here we show that, during the pre- and early migratory stages, pig primordial germ cells (PGCs) initiate large-scale epigenomic reprogramming, including DNA demethylation involving TET-mediated hydroxylation and, potentially, base excision repair (BER). There is also macroH2A1 depletion and increased H3K27me3 as well as X chromosome reactivation (XCR) in females. Concomitantly, there is dampening of glycolytic metabolism genes and re-expression of some pluripotency genes like those in preimplantation embryos. We identified evolutionarily young transposable elements and gene coding regions resistant to DNA demethylation in acutely hypomethylated gonadal PGCs, with potential for transgenerational epigenetic inheritance. Detailed insights into the pig germline will likely contribute significantly to advances in human germline biology, including in vitro gametogenesis.

Published
2021

23. SARS-CoV-2 evolution during treatment of chronic infection

Author

Kemp, S. A., Collier, D. A., Datir, R. P., Ferreira, I. A. T. M., Gayed, S., Jahun, A., Hosmillo, M., Rees-Spear, C., Mlcochova, P., Lumb, I. U., Roberts, D. J., Chandra, A., Temperton, N., Baker, S., Dougan, G., Hess, C., Kingston, N., Lehner, P. J., Lyons, P. A., Matheson, N. J., Owehand, W. H., Saunders, C., Summers, C., Thaventhiran, J. E. D., Toshner, M., Weekes, M. P., Bucke, A., Calder, J., Canna, L., Domingo, J., Elmer, A., Fuller, S., Harris, J., Hewitt, S., Kennet, J., Jose, S., Kourampa, J., Meadows, A., O'Brien, C., Price, J., Publico, C., Rastall, R., Ribeiro, C., Rowlands, J., Ruffolo, V., Tordesillas, H., Bullman, B., Dunmore, B. J., Fawke, S., Graf, S., Hodgson, J., Huang, C., Hunter, K., Jones, E., Legchenko, E., Matara, C., Martin, J., Mescia, F., O'Donnell, C., Pointon, L., Pond, N., Shih, J., Sutcliffe, R., Tilly, T., Treacy, C., Tong, Z., Wood, J., Wylot, M., Bergamaschi, L., Betancourt, A., Bower, G., Cossetti, C., De Sa, A., Epping, M., Gleadall, N., Grenfell, R., Hinch, A., Huhn, O., Jackson, S., Jarvis, I., Lewis, D., Marsden, J., Nice, F., Okecha, G., Omarjee, O., Perera, M., Richoz, N., Romashova, V., Yarkoni, N. S., Sharma, R., Stefanucci, L., Stephens, J., Strezlecki, M., Turner, L., De Bie, E. M. D. D., Bunclark, K., Josipovic, M., Mackay, M., Rossi, S., Selvan, M., Spencer, S., Yong, C., Ansaripour, A., Michael, A., Mwaura, L., Patterson, C., Polwarth, G., Polgarova, P., di Stefano, G., Fahey, C., Michel, R., Bong, S. -H., Coudert, J. D., Holmes, E., Allison, J., Butcher, H., Caputo, D., Clapham-Riley, D., Dewhurst, E., Furlong, A., Graves, B., Gray, J., Ivers, T., Kasanicki, M., Le Gresley, E., Linger, R., Meloy, S., Muldoon, F., Ovington, N., Papadia, S., Phelan, I., Stark, H., Stirrups, K. E., Townsend, P., Walker, N., Webster, J., Robson, S. C., Loman, N. J., Connor, T. R., Golubchik, T., Martinez Nunez, R. T., Ludden, C., Corden, S., Johnston, I., Bonsall, D., Smith, C. P., Awan, A. R., Bucca, G., Estee Torok, M., Saeed, K., Prieto, J. A., Jackson, D. K., Hamilton, W. L., Snell, L. B., Moore, C., Harrison, E. M., Goncalves, S., Fairley, D. J., Loose, M. W., Watkins, J., Livett, R., Moses, S., Amato, R., Nicholls, S., Bull, M., Smith, D. L., Barrett, J., Aanensen, D. M., Curran, M. D., Parmar, S., Aggarwal, D., Shepherd, J. G., Parker, M. D., Glaysher, S., Bashton, M., Underwood, A. P., Pacchiarini, N., Loveson, K. F., Carabelli, A. M., Templeton, K. E., Langford, C. F., Sillitoe, J., de Silva, T. I., Wang, D., Kwiatkowski, D., Rambaut, A., O'Grady, J., Cottrell, S., Holden, M. T. G., Thomson, E. C., Osman, H., Andersson, M., Chauhan, A. J., Hassan-Ibrahim, M. O., Lawniczak, M., Alderton, A., Chand, M., Constantinidou, C., Unnikrishnan, M., Darby, A. C., Hiscox, J. A., Paterson, S., Martincorena, I., Robertson, D. L., Volz, E. M., Page, A. J., Pybus, O. G., Bassett, A. R., Ariani, C. V., Spencer Chapman, M. H., K. K., Li, Shah, R. N., Jesudason, N. G., Taha, Y., Mchugh, M. P., Dewar, R., Jahun, A. S., Mcmurray, C., Pandey, S., Mckenna, J. P., Nelson, A., Young, G. R., Mccann, C. M., Elliott, S., Lowe, H., Temperton, B., Roy, S., Price, A., Rey, S., Wyles, M., Rooke, S., Shaaban, S., de Cesare, M., Letchford, L., Silveira, S., Pelosi, E., Wilson-Davies, E., O'Toole, A., Hesketh, A. R., Stark, R., du Plessis, L., Ruis, C., Adams, H., Bourgeois, Y., Michell, S. L., Gramatopoulos, D., Edgeworth, J., Breuer, J., Todd, J. A., Fraser, C., Buck, D., John, M., Kay, G. L., Palmer, S., Peacock, S. J., Heyburn, D., Weldon, D., Robinson, E., Mcnally, A., Muir, P., Vipond, I. B., Boyes, J., Sivaprakasam, V., Salluja, T., Dervisevic, S., Meader, E. J., Park, N. R., Oliver, K., Jeffries, A. R., Ott, S., da Silva Filipe, A., Simpson, D. A., Williams, C., Masoli, J. A. H., Knight, B. A., Jones, C. R., Koshy, C., Ash, A., Casey, A., Bosworth, A., Ratcliffe, L., Xu-McCrae, L., Pymont, H. M., Hutchings, S., Berry, L., Jones, K., Halstead, F., Davis, T., Holmes, C., Iturriza-Gomara, M., Lucaci, A. O., Randell, P. A., Cox, A., Madona, P., Harris, K. A., Brown, J. R., Mahungu, T. W., Irish-Tavares, D., Haque, T., Hart, J., Witele, E., Fenton, M. L., Liggett, S., Graham, C., Swindells, E., Collins, J., Eltringham, G., Campbell, S., Mcclure, P. C., Clark, G., Sloan, T. J., Jones, C., Lynch, J., Warne, B., Leonard, S., Durham, J., Williams, T., Haldenby, S. T., Storey, N., Alikhan, N. -F., Holmes, N., Carlile, M., Perry, M., Craine, N., Lyons, R. A., Beckett, A. H., Goudarzi, S., Fearn, C., Cook, K., Dent, H., Paul, H., Davies, R., Blane, B., Girgis, S. T., Beale, M. A., Bellis, K. L., Dorman, M. J., Drury, E., Kane, L., Kay, S., Mcguigan, S., Nelson, R., Prestwood, L., Rajatileka, S., Batra, R., Williams, R. J., Kristiansen, M., Green, A., Justice, A., Mahanama, A. I. K., Samaraweera, B., Hadjirin, N. F., Quick, J., Poplawski, R., Kermack, L. M., Reynolds, N., Hall, G., Chaudhry, Y., Pinckert, M. L., Georgana, I., Moll, R. J., Thornton, A., Myers, R., Stockton, J., Williams, C. A., Yew, W. C., Trotter, A. J., Trebes, A., MacIntyre-Cockett, G., Birchley, A., Adams, A., Plimmer, A., Gatica-Wilcox, B., Mckerr, C., Hilvers, E., Jones, H., Asad, H., Coombes, J., Evans, J. M., Fina, L., Gilbert, L., Graham, L., Cronin, M., Kumziene-Summerhayes, S., Taylor, S., Jones, S., Groves, D. C., Zhang, P., Gallis, M., Louka, S. F., Starinskij, I., Jackson, C., Gourtovaia, M., Tonkin-Hill, G., Lewis, K., Tovar-Corona, J. M., James, K., Baxter, L., Alam, M. T., Orton, R. J., Hughes, J., Vattipally, S., Ragonnet-Cronin, M., Nascimento, F. F., Jorgensen, D., Boyd, O., Geidelberg, L., Zarebski, A. E., Raghwani, J., Kraemer, M. U. G., Southgate, J., Lindsey, B. B., Freeman, T. M., Keatley, J. -P., Singer, J. B., de Oliveira Martins, L., Yeats, C. A., Abudahab, K., Taylor, B. E. W., Menegazzo, M., Danesh, J., Hogsden, W., Eldirdiri, S., Kenyon, A., Mason, J., Robinson, T. I., Holmes, A., Hartley, J. A., Curran, T., Mather, A. E., Shankar, G., Jones, R., Howe, R., Morgan, S., Wastenge, E., Chapman, M. R., Mookerjee, S., Stanley, R., Smith, W., Peto, T., Eyre, D., Crook, D., Vernet, G., Kitchen, C., Gulliver, H., Merrick, I., Guest, M., Munn, R., Bradley, D. T., Wyatt, T., Beaver, C., Foulser, L., Churcher, C. M., Brooks, E., Smith, K. S., Galai, K., Mcmanus, G. M., Bolt, F., Coll, F., Meadows, L., Attwood, S. W., Davies, A., De Lacy, E., Downing, F., Edwards, S., Scarlett, G. P., Jeremiah, S., Smith, N., Leek, D., Sridhar, S., Forrest, S., Cormie, C., Gill, H. K., Dias, J., Higginson, E. E., Maes, M., Young, J., Wantoch, M., Jamrozy, D., Lo, S., Patel, M., Hill, V., Bewshea, C. M., Ellard, S., Auckland, C., Harrison, I., Bishop, C., Chalker, V., Richter, A., Beggs, A., Best, A., Percival, B., Mirza, J., Megram, O., Mayhew, M., Crawford, L., Ashcroft, F., Moles-Garcia, E., Cumley, N., Hopes, R., Asamaphan, P., Niebel, M. O., Gunson, R. N., Bradley, A., Maclean, A., Mollett, G., Blacow, R., Bird, P., Helmer, T., Fallon, K., Tang, J., Hale, A. D., Macfarlane-Smith, L. R., Harper, K. L., Carden, H., Machin, N. W., Jackson, K. A., Ahmad, S. S. Y., George, R. P., Turtle, L., O'Toole, E., Watts, J., Breen, C., Cowell, A., Alcolea-Medina, A., Charalampous, T., Patel, A., Levett, L. J., Heaney, J., Rowan, A., Taylor, G. P., Shah, D., Atkinson, L., Lee, J. C. D., Westhorpe, A. P., Jannoo, R., Lowe, H. L., Karamani, A., Ensell, L., Chatterton, W., Pusok, M., Dadrah, A., Symmonds, A., Sluga, G., Molnar, Z., Baker, P., Bonner, S., Essex, S., Barton, E., Padgett, D., Scott, G., Greenaway, J., Payne, B. A. I., Burton-Fanning, S., Waugh, S., Raviprakash, V., Sheriff, N., Blakey, V., Williams, L. -A., Moore, J., Stonehouse, S., Smith, L., Davidson, R. K., Bedford, L., Coupland, L., Wright, V., Chappell, J. G., Tsoleridis, T., Ball, J., Khakh, M., Fleming, V. M., Lister, M. M., Howson-Wells, H. C., Boswell, T., Joseph, A., Willingham, I., Duckworth, N., Walsh, S., Wise, E., Moore, N., Mori, M., Cortes, N., Kidd, S., Williams, R., Gifford, L., Bicknell, K., Wyllie, S., Lloyd, A., Impey, R., Malone, C. S., Cogger, B. J., Levene, N., Monaghan, L., Keeley, A. J., Partridge, D. G., Raza, M., Evans, C., Johnson, K., Abnizova, I., Aigrain, L., Ali, M., Allen, L., Anderson, R., Ariani, C., Austin-Guest, S., Bala, S., Bassett, A., Battleday, K., Beal, J., Beale, M., Bellany, S., Bellerby, T., Bellis, K., Berger, D., Berriman, M., Betteridge, E., Bevan, P., Binley, S., Bishop, J., Blackburn, K., Bonfield, J., Boughton, N., Bowker, S., Brendler-Spaeth, T., Bronner, I., Brooklyn, T., Buddenborg, S. K., Bush, R., Caetano, C., Cagan, A., Carter, N., Cartwright, J., Monteiro, T. C., Chapman, L., Chillingworth, T. -J., Clapham, P., Clark, R., Clarke, A., Clarke, C., Cole, D., Cook, E., Coppola, M., Cornell, L., Cornwell, C., Corton, C., Crackett, A., Cranage, A., Craven, H., Craw, S., Crawford, M., Cutts, T., Dabrowska, M., Davies, M., Dawson, J., Day, C., Densem, A., Dibling, T., Dockree, C., Dodd, D., Dogga, S., Dougherty, M., Dove, A., Drummond, L., Dudek, M., Durrant, L., Easthope, E., Eckert, S., Ellis, P., Farr, B., Fenton, M., Ferrero, M., Flack, N., Fordham, H., Forsythe, G., Francis, M., Fraser, A., Freeman, A., Galvin, A., Garcia-Casado, M., Gedny, A., Girgis, S., Glover, J., Goodwin, S., Gould, O., Gray, A., Gray, E., Griffiths, C., Gu, Y., Guerin, F., Hamilton, W., Hanks, H., Harrison, E., Harrott, A., Harry, E., Harvison, J., Heath, P., Hernandez-Koutoucheva, A., Hobbs, R., Holland, D., Holmes, S., Hornett, G., Hough, N., Huckle, L., Hughes-Hallet, L., Hunter, A., Inglis, S., Iqbal, S., Jackson, A., Jackson, D., Verdejo, C. J., Jones, M., Kallepally, K., Kay, K., Keatley, J., Keith, A., King, A., Kitchin, L., Kleanthous, M., Klimekova, M., Korlevic, P., Krasheninnkova, K., Lane, G., Langford, C., Laverack, A., Law, K., Lensing, S., Lewis-Wade, A., Liddle, J., Lin, Q., Lindsay, S., Linsdell, S., Long, R., Lovell, J., Mack, J., Maddison, M., Makunin, A., Mamun, I., Mansfield, J., Marriott, N., Martin, M., Mayho, M., Mccarthy, S., Mcclintock, J., Mchugh, S., Mcminn, L., Meadows, C., Mobley, E., Moll, R., Morra, M., Morrow, L., Murie, K., Nash, S., Nathwani, C., Naydenova, P., Neaverson, A., Nerou, E., Nicholson, J., Nimz, T., Noell, G. G., O'Meara, S., Ohan, V., Olney, C., Ormond, D., Oszlanczi, A., Pang, Y. F., Pardubska, B., Park, N., Parmar, A., Patel, G., Payne, M., Peacock, S., Petersen, A., Plowman, D., Preston, T., Puethe, C., Quail, M., Rajan, D., Rance, R., Rawlings, S., Redshaw, N., Reynolds, J., Reynolds, M., Rice, S., Richardson, M., Roberts, C., Robinson, K., Robinson, M., Robinson, D., Rogers, H., Rojo, E. M., Roopra, D., Rose, M., Rudd, L., Sadri, R., Salmon, N., Saul, D., Schwach, F., Scott, C., Seekings, P., Shirley, L., Simms, A., Sinnott, M., Sivadasan, S., Siwek, B., Sizer, D., Skeldon, K., Skelton, J., Slater-Tunstill, J., Sloper, L., Smerdon, N., Smith, C., Smith, J., Smith, K., Smith, M., Smith, S., Smith, T., Sneade, L., Soria, C. D., Sousa, C., Souster, E., Sparkes, A., Spencer-Chapman, M., Squares, J., Steed, C., Stickland, T., Still, I., Stratton, M., Strickland, M., Swann, A., Swiatkowska, A., Sycamore, N., Swift, E., Symons, E., Szluha, S., Taluy, E., Tao, N., Taylor, K., Thompson, S., Thompson, M., Thomson, M., Thomson, N., Thurston, S., Toombs, D., Topping, B., Tovar-Corona, J., Ungureanu, D., Uphill, J., Urbanova, J., Jansen Van, P., Vancollie, V., Voak, P., Walker, D., Walker, M., Waller, M., Ward, G., Weatherhogg, C., Webb, N., Wells, A., Wells, E., Westwood, L., Whipp, T., Whiteley, T., Whitton, G., Whitwham, A., Widaa, S., Williams, M., Wilson, M., Wright, S., Farr, B. W., Quail, M. A., Thurston, S. A. J., Bronner, I. F., Redshaw, N. M., Lensing, S. V., Balcazar, C. E., Gallagher, M. D., Williamson, K. A., Stanton, T. D., Michelsen, M. L., Warwick-Dugdale, J., Manley, R., Farbos, A., Harrison, J. W., Sambles, C. M., Studholme, D. J., Lackenby, A., Mbisa, T., Platt, S., Miah, S., Bibby, D., Manso, C., Hubb, J., Dabrera, G., Ramsay, M., Bradshaw, D., Schaefer, U., Groves, N., Gallagher, E., Lee, D., Williams, D., Ellaby, N., Hartman, H., Manesis, N., Patel, V., Ledesma, J., Twohig, K. A., Allara, E., Pearson, C., Cheng, J. K. J., Bridgewater, H. E., Frost, L. R., Taylor-Joyce, G., Brown, P. E., Tong, L., Broos, A., Mair, D., Nichols, J., Carmichael, S. N., Smollett, K. L., Nomikou, K., Aranday-Cortes, E., Johnson, N., Nickbakhsh, S., Vamos, E. E., Hughes, M., Rainbow, L., Eccles, R., Nelson, C., Whitehead, M., Gregory, R., Gemmell, M., Wierzbicki, C., Webster, H. J., Fisher, C. L., Signell, A. W., Betancor, G., Wilson, H. D., Nebbia, G., Flaviani, F., Cerda, A. C., Merrill, T. V., Wilson, R. E., Cotic, M., Bayzid, N., Thompson, T., Acheson, E., Rushton, S., O'Brien, S., Baker, D. J., Rudder, S., Aydin, A., Sang, F., Debebe, J., Francois, S., Vasylyeva, T. I., Zamudio, M. E., Gutierrez, B., Marchbank, A., Maksimovic, J., Spellman, K., Mccluggage, K., Morgan, M., Beer, R., Afifi, S., Workman, T., Fuller, W., Bresner, C., Angyal, A., Green, L. R., Parsons, P. J., Tucker, R. M., Brown, R., Whiteley, M., Rowe, W., Siveroni, I., Le-Viet, T., Gaskin, A., Johnson, R., Sharrocks, K., Blane, E., Modis, Y., Leigh, K. E., Briggs, J. A. G., van Gils, M. J., Smith, K. G. C., Bradley, J. R., Doffinger, R., Ceron-Gutierrez, L., Barcenas-Morales, G., Pollock, D. D., Goldstein, R. A., Smielewska, A., Skittrall, J. P., Gouliouris, T., Goodfellow, I. G., Gkrania-Klotsas, E., Illingworth, C. J. R., Mccoy, L. E., Gupta, R. K., Medical Microbiology and Infection Prevention, AII - Infectious diseases, Collier, Dami A [0000-0001-5446-4423], Jahun, Aminu [0000-0002-4585-1701], Temperton, Nigel [0000-0002-7978-3815], Modis, Yorgo [0000-0002-6084-0429], Briggs, John AG [0000-0003-3990-6910], Goldstein, Richard A [0000-0001-5148-4672], Skittrall, Jordan P [0000-0002-8228-3758], Gkrania-Klotsas, Effrossyni [0000-0002-0930-8330], McCoy, Laura E [0000-0001-9503-7946], Gupta, Ravindra K [0000-0001-9751-1808], and Apollo - University of Cambridge Repository

Subjects
0301 basic medicine, Male, Time Factors, viruses, Passive, Antibodies, Viral, CITIID-NIHR BioResource COVID-19 Collaboration, 2.1 Biological and endogenous factors, Viral, Aetiology, Neutralizing, Lung, Phylogeny, neutralising antibodies, Infectivity, education.field_of_study, Genome, Multidisciplinary, Alanine, biology, High-Throughput Nucleotide Sequencing, Viral Load, Spike Glycoprotein, Virus Shedding, Adenosine Monophosphate, Aged, Antibodies, Neutralizing, COVID-19, Chronic Disease, Genome, Viral, Humans, Immune Evasion, Immune Tolerance, Immunization, Passive, Immunosuppression Therapy, Mutagenesis, Mutant Proteins, Mutation, SARS-CoV-2, Spike Glycoprotein, Coronavirus, Evolution, Molecular, Infectious Diseases, Pneumonia & Influenza, Antibody, Infection, Viral load, Biotechnology, Evolution, General Science & Technology, antibody escape, Convalescent plasma, 030106 microbiology, Population, evasion, Antibodies, Virus, Article, Vaccine Related, resistance, 03 medical and health sciences, Immune system, COVID-19 Genomics UK (COG-UK) Consortium, Biodefense, Genetics, Viral shedding, education, COVID-19 Serotherapy, QR355, Prevention, Wild type, Molecular, Pneumonia, Virology, COVID-19 Drug Treatment, Coronavirus, Emerging Infectious Diseases, Good Health and Well Being, 030104 developmental biology, biology.protein, Immunization, immune suppression, mutation
Abstract

The spike protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is critical for virus infection through the engagement of the human ACE2 protein1 and is a major antibody target. Here we show that chronic infection with SARS-CoV-2 leads to viral evolution and reduced sensitivity to neutralizing antibodies in an immunosuppressed individual treated with convalescent plasma, by generating whole-genome ultra-deep sequences for 23 time points that span 101 days and using in vitro techniques to characterize the mutations revealed by sequencing. There was little change in the overall structure of the viral population after two courses of remdesivir during the first 57 days. However, after convalescent plasma therapy, we observed large, dynamic shifts in the viral population, with the emergence of a dominant viral strain that contained a substitution (D796H) in the S2 subunit and a deletion (ΔH69/ΔV70) in the S1 N-terminal domain of the spike protein. As passively transferred serum antibodies diminished, viruses with the escape genotype were reduced in frequency, before returning during a final, unsuccessful course of convalescent plasma treatment. In vitro, the spike double mutant bearing both ΔH69/ΔV70 and D796H conferred modestly decreased sensitivity to convalescent plasma, while maintaining infectivity levels that were similar to the wild-type virus.The spike substitution mutant D796H appeared to be the main contributor to the decreased susceptibility to neutralizing antibodies, but this mutation resulted in an infectivity defect. The spike deletion mutant ΔH69/ΔV70 had a twofold higher level of infectivity than wild-type SARS-CoV-2, possibly compensating for the reduced infectivity of the D796H mutation. These data reveal strong selection on SARS-CoV-2 during convalescent plasma therapy, which is associated with the emergence of viral variants that show evidence of reduced susceptibility to neutralizing antibodies in immunosuppressed individuals.

Published
2021

24. Differential and defective transcription of koala retrovirus indicates the complexity of host and virus evolution

Author

Tarlinton, R. E., primary, Legione, A. R., additional, Sarker, N., additional, Fabijan, J., additional, Meers, J., additional, McMichael, L., additional, Simmons, G., additional, Owen, H., additional, Seddon, J. M., additional, Dick, G., additional, Ryder, J. S., additional, Hemmatzedah, F., additional, Trott, D. J., additional, Speight, N., additional, Holmes, N., additional, Loose, M., additional, and Emes, R. D., additional

Published
2022
Full Text
View/download PDF

26. Crown rust resistance in ryegrasses

Author

Adams, E., De Loose, M., Baert, J., Ghesquiere, A., Depicker, A., Van Bockstaele, E., Roldán-Ruiz, I., Mugnozza, G. T. Scarascia, editor, Porceddu, E., editor, and Pagnotta, M. A., editor

Published
1999
Full Text
View/download PDF

28. List of Contributors

Author

Abbas, O., primary, Abernethy, G.A., additional, Amaral, J., additional, Amin, I., additional, Ashour, M.L., additional, Baeten, V., additional, Bendall, J.G., additional, Bontempo, L., additional, Brendel, T., additional, Broeders, S., additional, Cajka, T., additional, Camin, F., additional, Circi, S., additional, Cozzolino, D., additional, Dankowska, A., additional, Deforce, D., additional, De Loose, M., additional, Delwiche, S.R., additional, Downey, G., additional, Dugo, L., additional, Dymerski, T., additional, El-Ahmady, S.H., additional, Espiñeira, M., additional, Fanali, C., additional, Fiehn, O., additional, Fraiture, M.-A., additional, Giusti, M.M., additional, Herman, P., additional, Holroyd, S.E., additional, Lachenmeier, D.W., additional, Lago, F., additional, Laursen, K.H., additional, Maestri, E., additional, Mafra, I., additional, Mannina, L., additional, Marmiroli, N., additional, Martelo-Vidal, M.J., additional, Meira, L., additional, Mondello, L., additional, Muilwijk, M., additional, Nader, W.F., additional, Namieśnik, J., additional, Nur Azira, T., additional, Oliveira, M.B.P.P., additional, Oliveri, P., additional, Parvathy, V.A., additional, Pustjens, A.M., additional, Riddellova, K., additional, Rinke, P., additional, Rodriguez-Saona, L.E., additional, Roosens, N.H., additional, Roßmann, A., additional, Sasikumar, B., additional, Schubbert, R., additional, Sheeja, T.E., additional, Shotts, M., additional, Showalter, M.R., additional, Simonetti, R., additional, Śliwińska, M., additional, Sobolev, A.P., additional, Swetha, V.P., additional, Taverniers, I., additional, Ulberth, F., additional, van Ruth, S.M., additional, Vázquez, M., additional, Wardencki, W., additional, Weesepoel, Y., additional, and Wiśniewska, P., additional

Published
2016
Full Text
View/download PDF

32. Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies

Author

Collier, D. A., De Marco, A., Ferreira, I. A. T. M., Meng, B., Datir, R. P., Walls, A. C., Kemp, S. A., Bassi, J., Pinto, D., Silacci-Fregni, C., Bianchi, S., Tortorici, M. A., Bowen, J., Culap, K., Jaconi, S., Cameroni, E., Snell, G., Pizzuto, M. S., Pellanda, A. F., Garzoni, C., Riva, A., Baker, S., Dougan, G., Hess, C., Kingston, N., Lehner, P. J., Lyons, P. A., Matheson, N. J., Owehand, W. H., Saunders, C., Summers, C., Thaventhiran, J. E. D., Toshner, M., Weekes, M. P., Bucke, A., Calder, J., Canna, L., Domingo, J., Elmer, A., Fuller, S., Harris, J., Hewitt, S., Kennet, J., Jose, S., Kourampa, J., Meadows, A., O'Brien, C., Price, J., Publico, C., Rastall, R., Ribeiro, C., Rowlands, J., Ruffolo, V., Tordesillas, H., Bullman, B., Dunmore, B. J., Fawke, S., Graf, S., Hodgson, J., Huang, C., Hunter, K., Jones, E., Legchenko, E., Matara, C., Martin, J., Mescia, F., O'Donnell, C., Pointon, L., Pond, N., Shih, J., Sutcliffe, R., Tilly, T., Treacy, C., Tong, Z., Wood, J., Wylot, M., Bergamaschi, L., Betancourt, A., Bower, G., Cossetti, C., De Sa, A., Epping, M., Grenfell, R., Hinch, A., Huhn, O., Jackson, S., Jarvis, I., Lewis, D., Marsden, J., Nice, F., Okecha, G., Omarjee, O., Perera, M., Richoz, N., Romashova, V., Yarkoni, N. S., Sharma, R., Stefanucci, L., Stephens, J., Strezlecki, M., Turner, L., De Bie, E. M. D. D., Bunclark, K., Josipovic, M., Mackay, M., Rossi, S., Selvan, M., Spencer, S., Yong, C., Ansaripour, A., Michael, A., Mwaura, L., Patterson, C., Polwarth, G., Polgarova, P., di Stefano, G., Fahey, C., Michel, R., Bong, S. -H., Coudert, J. D., Holmes, E., Allison, J., Butcher, H., Caputo, D., Clapham-Riley, D., Dewhurst, E., Furlong, A., Graves, B., Gray, J., Ivers, T., Kasanicki, M., Le Gresley, E., Linger, R., Meloy, S., Muldoon, F., Ovington, N., Papadia, S., Phelan, I., Stark, H., Stirrups, K. E., Townsend, P., Walker, N., Webster, J., Mccoy, L. E., Smith, K. G. C., Bradley, J. R., Temperton, N., Ceron-Gutierrez, L., Barcenas-Morales, G., Robson, S. C., Loman, N. J., Connor, T. R., Golubchik, T., Martinez Nunez, R. T., Ludden, C., Corden, S., Johnston, I., Bonsall, D., Smith, C. P., Awan, A. R., Bucca, G., Torok, M. E., Saeed, K., Prieto, J. A., Jackson, D. K., Hamilton, W. L., Snell, L. B., Moore, C., Harrison, E. M., Goncalves, S., Fairley, D. J., Loose, M. W., Watkins, J., Livett, R., Moses, S., Amato, R., Nicholls, S., Bull, M., Smith, D. L., Barrett, J., Aanensen, D. M., Curran, M. D., Parmar, S., Aggarwal, D., Shepherd, J. G., Parker, M. D., Glaysher, S., Bashton, M., Underwood, A. P., Pacchiarini, N., Loveson, K. F., Carabelli, A. M., Templeton, K. E., Langford, C. F., Sillitoe, J., de Silva, T. I., Wang, D., Kwiatkowski, D., Rambaut, A., O'Grady, J., Cottrell, S., Holden, M. T. G., Thomson, E. C., Osman, H., Andersson, M., Chauhan, A. J., Hassan-Ibrahim, M. O., Lawniczak, M., Alderton, A., Chand, M., Constantinidou, C., Unnikrishnan, M., Darby, A. C., Hiscox, J. A., Paterson, S., Martincorena, I., Robertson, D. L., Volz, E. M., Page, A. J., Pybus, O. G., Bassett, A. R., Ariani, C. V., Spencer Chapman, M. H., K. K., Li, Shah, R. N., Jesudason, N. G., Taha, Y., Mchugh, M. P., Dewar, R., Jahun, A. S., Mcmurray, C., Pandey, S., Mckenna, J. P., Nelson, A., Young, G. R., Mccann, C. M., Elliott, S., Lowe, H., Temperton, B., Roy, S., Price, A., Rey, S., Wyles, M., Rooke, S., Shaaban, S., de Cesare, M., Letchford, L., Silveira, S., Pelosi, E., Wilson-Davies, E., Hosmillo, M., O'Toole, A., Hesketh, A. R., Stark, R., du Plessis, L., Ruis, C., Adams, H., Bourgeois, Y., Michell, S. L., Gramatopoulos, D., Edgeworth, J., Breuer, J., Todd, J. A., Fraser, C., Buck, D., John, M., Kay, G. L., Palmer, S., Peacock, S. J., Heyburn, D., Weldon, D., Robinson, E., Mcnally, A., Muir, P., Vipond, I. B., Boyes, J., Sivaprakasam, V., Salluja, T., Dervisevic, S., Meader, E. J., Park, N. R., Oliver, K., Jeffries, A. R., Ott, S., da Silva Filipe, A., Simpson, D. A., Williams, C., Masoli, J. A. H., Knight, B. A., Jones, C. R., Koshy, C., Ash, A., Casey, A., Bosworth, A., Ratcliffe, L., Xu-McCrae, L., Pymont, H. M., Hutchings, S., Berry, L., Jones, K., Halstead, F., Davis, T., Holmes, C., Iturriza-Gomara, M., Lucaci, A. O., Randell, P. A., Cox, A., Madona, P., Harris, K. A., Brown, J. R., Mahungu, T. W., Irish-Tavares, D., Haque, T., Hart, J., Witele, E., Fenton, M. L., Liggett, S., Graham, C., Swindells, E., Collins, J., Eltringham, G., Campbell, S., Mcclure, P. C., Clark, G., Sloan, T. J., Jones, C., Lynch, J., Warne, B., Leonard, S., Durham, J., Williams, T., Haldenby, S. T., Storey, N., Alikhan, N. -F., Holmes, N., Carlile, M., Perry, M., Craine, N., Lyons, R. A., Beckett, A. H., Goudarzi, S., Fearn, C., Cook, K., Dent, H., Paul, H., Davies, R., Blane, B., Girgis, S. T., Beale, M. A., Bellis, K. L., Dorman, M. J., Drury, E., Kane, L., Kay, S., Mcguigan, S., Nelson, R., Prestwood, L., Rajatileka, S., Batra, R., Williams, R. J., Kristiansen, M., Green, A., Justice, A., Mahanama, A. I. K., Samaraweera, B., Hadjirin, N. F., Quick, J., Poplawski, R., Kermack, L. M., Reynolds, N., Hall, G., Chaudhry, Y., Pinckert, M. L., Georgana, I., Moll, R. J., Thornton, A., Myers, R., Stockton, J., Williams, C. A., Yew, W. C., Trotter, A. J., Trebes, A., MacIntyre-Cockett, G., Birchley, A., Adams, A., Plimmer, A., Gatica-Wilcox, B., Mckerr, C., Hilvers, E., Jones, H., Asad, H., Coombes, J., Evans, J. M., Fina, L., Gilbert, L., Graham, L., Cronin, M., Kumziene-Summerhayes, S., Taylor, S., Jones, S., Groves, D. C., Zhang, P., Gallis, M., Louka, S. F., Starinskij, I., Jackson, C., Gourtovaia, M., Tonkin-Hill, G., Lewis, K., Tovar-Corona, J. M., James, K., Baxter, L., Alam, M. T., Orton, R. J., Hughes, J., Vattipally, S., Ragonnet-Cronin, M., Nascimento, F. F., Jorgensen, D., Boyd, O., Geidelberg, L., Zarebski, A. E., Raghwani, J., Kraemer, M. U. G., Southgate, J., Lindsey, B. B., Freeman, T. M., Keatley, J. -P., Singer, J. B., de Oliveira Martins, L., Yeats, C. A., Abudahab, K., Taylor, B. E. W., Menegazzo, M., Danesh, J., Hogsden, W., Eldirdiri, S., Kenyon, A., Mason, J., Robinson, T. I., Holmes, A., Hartley, J. A., Curran, T., Mather, A. E., Shankar, G., Jones, R., Howe, R., Morgan, S., Wastenge, E., Chapman, M. R., Mookerjee, S., Stanley, R., Smith, W., Peto, T., Eyre, D., Crook, D., Vernet, G., Kitchen, C., Gulliver, H., Merrick, I., Guest, M., Munn, R., Bradley, D. T., Wyatt, T., Beaver, C., Foulser, L., Churcher, C. M., Brooks, E., Smith, K. S., Galai, K., Mcmanus, G. M., Bolt, F., Coll, F., Meadows, L., Attwood, S. W., Davies, A., De Lacy, E., Downing, F., Edwards, S., Scarlett, G. P., Jeremiah, S., Smith, N., Leek, D., Sridhar, S., Forrest, S., Cormie, C., Gill, H. K., Dias, J., Higginson, E. E., Maes, M., Young, J., Wantoch, M., Jamrozy, D., Lo, S., Patel, M., Hill, V., Bewshea, C. M., Ellard, S., Auckland, C., Harrison, I., Bishop, C., Chalker, V., Richter, A., Beggs, A., Best, A., Percival, B., Mirza, J., Megram, O., Mayhew, M., Crawford, L., Ashcroft, F., Moles-Garcia, E., Cumley, N., Hopes, R., Asamaphan, P., Niebel, M. O., Gunson, R. N., Bradley, A., Maclean, A., Mollett, G., Blacow, R., Bird, P., Helmer, T., Fallon, K., Tang, J., Hale, A. D., Macfarlane-Smith, L. R., Harper, K. L., Carden, H., Machin, N. W., Jackson, K. A., Ahmad, S. S. Y., George, R. P., Turtle, L., O'Toole, E., Watts, J., Breen, C., Cowell, A., Alcolea-Medina, A., Charalampous, T., Patel, A., Levett, L. J., Heaney, J., Rowan, A., Taylor, G. P., Shah, D., Atkinson, L., Lee, J. C. D., Westhorpe, A. P., Jannoo, R., Lowe, H. L., Karamani, A., Ensell, L., Chatterton, W., Pusok, M., Dadrah, A., Symmonds, A., Sluga, G., Molnar, Z., Baker, P., Bonner, S., Essex, S., Barton, E., Padgett, D., Scott, G., Greenaway, J., Payne, B. A. I., Burton-Fanning, S., Waugh, S., Raviprakash, V., Sheriff, N., Blakey, V., Williams, L. -A., Moore, J., Stonehouse, S., Smith, L., Davidson, R. K., Bedford, L., Coupland, L., Wright, V., Chappell, J. G., Tsoleridis, T., Ball, J., Khakh, M., Fleming, V. M., Lister, M. M., Howson-Wells, H. C., Boswell, T., Joseph, A., Willingham, I., Duckworth, N., Walsh, S., Wise, E., Moore, N., Mori, M., Cortes, N., Kidd, S., Williams, R., Gifford, L., Bicknell, K., Wyllie, S., Lloyd, A., Impey, R., Malone, C. S., Cogger, B. J., Levene, N., Monaghan, L., Keeley, A. J., Partridge, D. G., Raza, M., Evans, C., Johnson, K., Betteridge, E., Farr, B. W., Goodwin, S., Quail, M. A., Scott, C., Shirley, L., Thurston, S. A. J., Rajan, D., Bronner, I. F., Aigrain, L., Redshaw, N. M., Lensing, S. V., Mccarthy, S., Makunin, A., Balcazar, C. E., Gallagher, M. D., Williamson, K. A., Stanton, T. D., Michelsen, M. L., Warwick-Dugdale, J., Manley, R., Farbos, A., Harrison, J. W., Sambles, C. M., Studholme, D. J., Lackenby, A., Mbisa, T., Platt, S., Miah, S., Bibby, D., Manso, C., Hubb, J., Dabrera, G., Ramsay, M., Bradshaw, D., Schaefer, U., Groves, N., Gallagher, E., Lee, D., Williams, D., Ellaby, N., Hartman, H., Manesis, N., Patel, V., Ledesma, J., Twohig, K. A., Allara, E., Pearson, C., Cheng, J. K. J., Bridgewater, H. E., Frost, L. R., Taylor-Joyce, G., Brown, P. E., Tong, L., Broos, A., Mair, D., Nichols, J., Carmichael, S. N., Smollett, K. L., Nomikou, K., Aranday-Cortes, E., Johnson, N., Nickbakhsh, S., Vamos, E. E., Hughes, M., Rainbow, L., Eccles, R., Nelson, C., Whitehead, M., Gregory, R., Gemmell, M., Wierzbicki, C., Webster, H. J., Fisher, C. L., Signell, A. W., Betancor, G., Wilson, H. D., Nebbia, G., Flaviani, F., Cerda, A. C., Merrill, T. V., Wilson, R. E., Cotic, M., Bayzid, N., Thompson, T., Acheson, E., Rushton, S., O'Brien, S., Baker, D. J., Rudder, S., Aydin, A., Sang, F., Debebe, J., Francois, S., Vasylyeva, T. I., Zamudio, M. E., Gutierrez, B., Marchbank, A., Maksimovic, J., Spellman, K., Mccluggage, K., Morgan, M., Beer, R., Afifi, S., Workman, T., Fuller, W., Bresner, C., Angyal, A., Green, L. R., Parsons, P. J., Tucker, R. M., Brown, R., Whiteley, M., Bonfield, J., Puethe, C., Whitwham, A., Liddle, J., Rowe, W., Siveroni, I., Le-Viet, T., Gaskin, A., Johnson, R., Abnizova, I., Ali, M., Allen, L., Anderson, R., Ariani, C., Austin-Guest, S., Bala, S., Bassett, A., Battleday, K., Beal, J., Beale, M., Bellany, S., Bellerby, T., Bellis, K., Berger, D., Berriman, M., Bevan, P., Binley, S., Bishop, J., Blackburn, K., Boughton, N., Bowker, S., Brendler-Spaeth, T., Bronner, I., Brooklyn, T., Buddenborg, S. K., Bush, R., Caetano, C., Cagan, A., Carter, N., Cartwright, J., Monteiro, T. C., Chapman, L., Chillingworth, T. -J., Clapham, P., Clark, R., Clarke, A., Clarke, C., Cole, D., Cook, E., Coppola, M., Cornell, L., Cornwell, C., Corton, C., Crackett, A., Cranage, A., Craven, H., Craw, S., Crawford, M., Cutts, T., Dabrowska, M., Davies, M., Dawson, J., Day, C., Densem, A., Dibling, T., Dockree, C., Dodd, D., Dogga, S., Dougherty, M., Dove, A., Drummond, L., Dudek, M., Durrant, L., Easthope, E., Eckert, S., Ellis, P., Farr, B., Fenton, M., Ferrero, M., Flack, N., Fordham, H., Forsythe, G., Francis, M., Fraser, A., Freeman, A., Galvin, A., Garcia-Casado, M., Gedny, A., Girgis, S., Glover, J., Gould, O., Gray, A., Gray, E., Griffiths, C., Gu, Y., Guerin, F., Hamilton, W., Hanks, H., Harrison, E., Harrott, A., Harry, E., Harvison, J., Heath, P., Hernandez-Koutoucheva, A., Hobbs, R., Holland, D., Holmes, S., Hornett, G., Hough, N., Huckle, L., Hughes-Hallet, L., Hunter, A., Inglis, S., Iqbal, S., Jackson, A., Jackson, D., Verdejo, C. J., Jones, M., Kallepally, K., Kay, K., Keatley, J., Keith, A., King, A., Kitchin, L., Kleanthous, M., Klimekova, M., Korlevic, P., Krasheninnkova, K., Lane, G., Langford, C., Laverack, A., Law, K., Lensing, S., Lewis-Wade, A., Lin, Q., Lindsay, S., Linsdell, S., Long, R., Lovell, J., Mack, J., Maddison, M., Mamun, I., Mansfield, J., Marriott, N., Martin, M., Mayho, M., Mcclintock, J., Mchugh, S., Mcminn, L., Meadows, C., Mobley, E., Moll, R., Morra, M., Morrow, L., Murie, K., Nash, S., Nathwani, C., Naydenova, P., Neaverson, A., Nerou, E., Nicholson, J., Nimz, T., Noell, G. G., O'Meara, S., Ohan, V., Olney, C., Ormond, D., Oszlanczi, A., Pang, Y. F., Pardubska, B., Park, N., Parmar, A., Patel, G., Payne, M., Peacock, S., Petersen, A., Plowman, D., Preston, T., Quail, M., Rance, R., Rawlings, S., Redshaw, N., Reynolds, J., Reynolds, M., Rice, S., Richardson, M., Roberts, C., Robinson, K., Robinson, M., Robinson, D., Rogers, H., Rojo, E. M., Roopra, D., Rose, M., Rudd, L., Sadri, R., Salmon, N., Saul, D., Schwach, F., Seekings, P., Simms, A., Sinnott, M., Sivadasan, S., Siwek, B., Sizer, D., Skeldon, K., Skelton, J., Slater-Tunstill, J., Sloper, L., Smerdon, N., Smith, C., Smith, J., Smith, K., Smith, M., Smith, S., Smith, T., Sneade, L., Soria, C. D., Sousa, C., Souster, E., Sparkes, A., Spencer-Chapman, M., Squares, J., Steed, C., Stickland, T., Still, I., Stratton, M., Strickland, M., Swann, A., Swiatkowska, A., Sycamore, N., Swift, E., Symons, E., Szluha, S., Taluy, E., Tao, N., Taylor, K., Thompson, S., Thompson, M., Thomson, M., Thomson, N., Thurston, S., Toombs, D., Topping, B., Tovar-Corona, J., Ungureanu, D., Uphill, J., Urbanova, J., Van, P. J., Vancollie, V., Voak, P., Walker, D., Walker, M., Waller, M., Ward, G., Weatherhogg, C., Webb, N., Wells, A., Wells, E., Westwood, L., Whipp, T., Whiteley, T., Whitton, G., Widaa, S., Williams, M., Wilson, M., Wright, S., Harvey, W., Virgin, H. W., Lanzavecchia, A., Piccoli, L., Doffinger, R., Wills, M., Veesler, D., Corti, D., and Gupta, R. K.

Subjects
0301 basic medicine, Male, Models, Molecular, Passive, Antibodies, Viral, Neutralization, 0302 clinical medicine, Models, Monoclonal, 80 and over, Viral, Neutralizing antibody, Neutralizing, Aged, 80 and over, Vaccines, Vaccines, Synthetic, Multidisciplinary, biology, Antibodies, Monoclonal, C500, Middle Aged, C700, Spike Glycoprotein, Vaccination, Spike Glycoprotein, Coronavirus, Female, Angiotensin-Converting Enzyme 2, Antibody, Aged, Antibodies, Neutralizing, COVID-19, COVID-19 Vaccines, HEK293 Cells, Humans, Immune Evasion, Immunization, Passive, Mutation, Neutralization Tests, SARS-CoV-2, medicine.drug_class, B100, Monoclonal antibody, Antibodies, Virus, 03 medical and health sciences, Immune system, medicine, COVID-19 Serotherapy, QR355, Synthetic, Molecular, Virology, Coronavirus, 030104 developmental biology, Immunization, biology.protein, 030217 neurology & neurosurgery
Abstract

Transmission of SARS-CoV-2 is uncontrolled in many parts of the world; control is compounded in some areas by the higher transmission potential of the B.1.1.7 variant1, which has now been reported in 94 countries. It is unclear whether the response of the virus to vaccines against SARS-CoV-2 on the basis of the prototypic strain will be affected by the mutations found in B.1.1.7. Here we assess the immune responses of individuals after vaccination with the mRNA-based vaccine BNT162b22. We measured neutralizing antibody responses after the first and second immunizations using pseudoviruses that expressed the wild-type spike protein or a mutated spike protein that contained the eight amino acid changes found in the B.1.1.7 variant. The sera from individuals who received the vaccine exhibited a broad range of neutralizing titres against the wild-type pseudoviruses that were modestly reduced against the B.1.1.7 variant. This reduction was also evident in sera from some patients who had recovered from COVID-19. Decreased neutralization of the B.1.1.7 variant was also observed for monoclonal antibodies that target the N-terminal domain (9 out of 10) and the receptor-binding motif (5 out of 31), but not for monoclonal antibodies that recognize the receptor-binding domain that bind outside the receptor-binding motif. Introduction of the mutation that encodes the E484K substitution in the B.1.1.7 background to reflect a newly emerged variant of concern (VOC 202102/02) led to a more-substantial loss of neutralizing activity by vaccine-elicited antibodies and monoclonal antibodies (19 out of 31) compared with the loss of neutralizing activity conferred by the mutations in B.1.1.7 alone. The emergence of the E484K substitution in a B.1.1.7 background represents a threat to the efficacy of the BNT162b2 vaccine.

Published
2021

33. The genome sequence of the European golden eagle, Aquila chrysaetos chrysaetos Linnaeus 1758.

Author

Mead, D, Ogden, R, Meredith, A, Peniche, G, Smith, M, Corton, C, Oliver, K, Skelton, J, Betteridge, E, Doulcan, J, Holmes, N, Wright, V, Loose, M, Quail, MA, McCarthy, SA, Howe, K, Chow, W, Torrance, J, Collins, J, Challis, R, Durbin, R, Blaxter, M, Mead, D, Ogden, R, Meredith, A, Peniche, G, Smith, M, Corton, C, Oliver, K, Skelton, J, Betteridge, E, Doulcan, J, Holmes, N, Wright, V, Loose, M, Quail, MA, McCarthy, SA, Howe, K, Chow, W, Torrance, J, Collins, J, Challis, R, Durbin, R, and Blaxter, M

Abstract

We present a genome assembly from an individual female Aquila chrysaetos chrysaetos (the European golden eagle; Chordata; Aves; Accipitridae). The genome sequence is 1.23 gigabases in span. The majority of the assembly is scaffolded into 28 chromosomal pseudomolecules, including the W and Z sex chromosomes.

Published
2021

35. The Ariel payload electrical and electronic architecture: a summary of the current design and implementation status

Author

Coyle, Laura E., Matsuura, Shuji, Perrin, Marshall D., Focardi, M., Noce, V., Merola, P., Di Giorgio, A., Ligori, S., Corcione, L., Capobianco, V., Bonino, D., V. Nunez, M., Chiarucci, S., Medinaceli, E., Auricchio, N., Farina, M., Giusi, G., Russi, A., Tortora, A., Serafini, L., Pannocchia, A., Giglio, G., Passerai, M., Verna, M., Del Vecchio Blanco, C., Morgante, G., Ateca, J., Bosch, J., Carmona, M., Casas, A., Gomez, J. M., Lopez, P., Marti, L., Royo, A., Ruiz, O., Serre, C., Skup, K. R., Rutkowski, K., Sobiecki, M., Ber, K., Sobolewski, M., Thernstrom, N., Winklera, M., Ciarka, M., Berthé, M., Cara, C., Fontignie, J., Martignac, J., Kaszubiak, G., Leguay, N., Grimoldi, R., Ober, G., Goullioud, R., Holmes, W., Swain, M., Vasisht, G., Cho, H., Mulder, J., Allen, G. D., Runkle, A., Guzman, E., Weilert, M., Weber, C., Tan, P., Morales, J., Hunacek, J., Rieck, A., Bolduc, A., Aaron, K., Turner, A., Krohn, B., Lew, M., Cillis, A., Foltz, R., Hewagama, T., Loose, M., Crook, M., Hills, M., Gilley, G., Mäkinen, S., Caldwell, A., Bishop, G., Desjonqueres, L., Drummond, R., Eccleston, P., Davidson, A., Umesh, P., Pace, E., Preti, G., Micela, G., Malaguti, G., and Tinetti, G.

Published
2024
Full Text
View/download PDF

36. Effect of Different Media on the Bactericidal Activity of Colistin and on the Synergistic Combination With Azidothymidine Against mcr-1-Positive Colistin-Resistant Escherichia coli

Author

Loose, M, Naber, KG, Coates, A, Wagenlehner, FME, and Hu, Y

Abstract

Antimicrobial susceptibility testing (AST) performed according to defined guidelines is important to identify resistance and to predict the clinical success or failure of specific antibiotic therapy. However, these guidelines do not cover all physiological conditions that can have a tremendous impact on in vivo resistance. In this study, we tested the susceptibility of thirteen mcr-1-positive Escherichia coli strains against colistin, one of the last resort antibiotics for treating multi-drug resistant pathogens, in media recommended for ASTs as well as – physiologically more relevant – in human serum and artificial urine (AU). Minimal inhibitory concentration (MIC) values in heat-inactivated human serum were similar to those in cation-adjusted Mueller-Hinton broth (CAMHB), but reduced in native serum for almost all strains that could grow in this media. In AU MIC values for mcr-1 positive E. coli were increased significantly up to 16-fold compared to that in CAMBH, which did not apply to the colistin-susceptible E. coli strains tested. Although different growth media could affect the MIC of colistin alone, their impact on the synergistic effect of the combination with the antiviral drug azidothymidine was minimal. The higher divalent cation concentration combined with acidic pH values is most likely responsible for the increased MIC values of the mcr-1 harboring E. coli strains tested against colistin in AU compared to that in CAMHB. Antimicrobial susceptibility screening procedures for colistin using CAMHB only could lead to an underestimation of resistance under different physiological conditions. Therefore, not only pharmacokinetic but also pharmacodynamic studies in urine are as important as in serum or plasma.

Published
2020

43. Citizen science astronomy with a network of small telescopes: the launch and deployment of JWST

Author

Marshall, Heather K., Spyromilio, Jason, Usuda, Tomonori, Lambert, R. A., Marchis, F., Asencio, J., Blaclard, G., Sgro, L. A., Giorgini, J. D., Plavchan, P., White, T., Verveen, A., Goto, T., Kuossari, P., Sethu, N., Loose, M. A., Will, S., Sibbernsen, K., Pickering, J. W., Randolph, J., Fukui, K., Huet, P., Guillet, B., Clerget, O., Stahl, S., Yoblonsky, N., Lauvernier, M., Matsumura, T., Yamato, M., Laugier, J.-M., Brodt-Vilain, O., Espudo, A., Kukita, R., Iida, S., Kardel, S., Green, D., Tikkanen, P., Douvas, A., Billiani, M., Knight, G., Ryno, M., Simard, G., Knight, R., Primm, M., Wildhagen, B., Poncet, J., Frachon, T., Shimizu, M., Jackson, A., Parker, B., Redfern, G., Nikiforov, P., Friday, E., Lincoln, K., Sweitzer, J., Mitsuoka, R., Cabral, K., Katterfeld, A., and Fairfax, M.

Published
2022
Full Text
View/download PDF

44. Packaging design and test of cryogenic readout electronics for the Euclid Near Infrared Spectrophotometer

Author

Holland, Andrew D., Beletic, James, Holmes, W., Aghakians, H., Avasapian, S., Bahraman, A., Berg, A., Beyer, A., Boehmer, E., Calvet, R., Cheung, S., Cho, B., Cho, H., Cillis, A., DelCastillo, L., Dickie, M., Delo, G., Farris, M., Feizi, A., Ferraro, N., Fischer, L., Foltz, R., Hambarsoumian, N., Hong, K., Huang, T., Jhabvala, M., Kan, Er., Kopp, R., Krohn, B., Lewis, D., Loose, M., MacNeal, K., Maiten, J., Markley, D., Maldonado, G., Mehta, J., Melendez, J., Morgan, A. R., Mulder, J., Ngyuen, M., Ovee, N., Pniel, M., Pravdo, S., Randall, D., Riendeau, J., Runkle, A., Runyan, M., Seiffert, M., Skalare, M., Tan, P., Turner, A., Van Nostrand, S., Waczynski, A., and Wu, J.

Published
2022
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results