284 results on '"Clarke JA"'
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2. Erratum to: EuPRAXIA Conceptual Design Report
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Assmann, RW, Weikum, MK, Akhter, T, Alesini, D, Alexandrova, AS, Anania, MP, Andreev, NE, Andriyash, I, Artioli, M, Aschikhin, A, Audet, T, Bacci, A, Barna, IF, Bartocci, S, Bayramian, A, Beaton, A, Beck, A, Bellaveglia, M, Beluze, A, Bernhard, A, Biagioni, A, Bielawski, S, Bisesto, FG, Bonatto, A, Boulton, L, Brandi, F, Brinkmann, R, Briquez, F, Brottier, F, Bruendermann, E, Buescher, M, Buonomo, B, Bussmann, MH, Bussolino, G, Campana, P, Cantarella, S, Cassou, K, Chance, A, Chen, M, Chiadroni, E, Cianchi, A, Cioeta, F, Clarke, JA, Cole, JM, Costa, G, Couprie, M-E, Cowley, J, Croia, M, Cros, B, Crump, PA, D'Arcy, R, Dattoli, G, Del Dotto, A, Delerue, N, Del Franco, M, Delinikolas, P, De Nicola, S, Dias, JM, Di Giovenale, D, Diomede, M, Di Pasquale, E, Di Pirro, G, Di Raddo, G, Dorda, U, Erlandson, AC, Ertel, K, Esposito, A, Falcoz, F, Falone, A, Fedele, R, Ferran Pousa, A, Ferrario, M, Filippi, F, Fils, J, Fiore, G, Fiorito, R, Fonseca, RA, Franzini, G, Galimberti, M, Gallo, A, Galvin, TC, Ghaith, A, Ghigo, A, Giove, D, Giribono, A, Gizzi, LA, Gruener, FJ, Habib, AF, Haefner, C, Heinemann, T, Helm, A, Hidding, B, Holzer, BJ, Hooker, SM, Hosokai, T, Huebner, M, Ibison, M, Incremona, S, Irman, A, Iungo, F, Jafarinia, FJ, Jakobsson, O, Jaroszynski, DA, Jaster-Merz, S, Joshi, C, Kaluza, M, Kando, M, Karger, OS, Karsch, S, Khazanov, E, Khikhlukha, D, Kirchen, M, Kirwan, G, Kitegi, C, Knetsch, A, Kocon, D, Koester, P, Kononenko, OS, Korn, G, Kostyukov, I, Kruchinin, KO, Labate, L, Le Blanc, C, Lechner, C, Lee, P, Leemans, W, Lehrach, A, Li, X, Li, Y, Libov, V, Lifschitz, A, Lindstrom, CA, Litvinenko, V, Lu, W, Lundh, O, Maier, AR, Malka, V, Manahan, GG, Mangles, SPD, Marcelli, A, Marchetti, B, Marcouille, O, Marocchino, A, Marteau, F, Martinez de la Ossa, A, Martins, JL, Mason, PD, Massimo, F, Mathieu, F, Maynard, G, Mazzotta, Z, Mironov, S, Molodozhentsev, AY, Morante, S, Mosnier, A, Mostacci, A, Mueller, A-S, Murphy, CD, Najmudin, Z, Nghiem, PAP, Nguyen, F, Niknejadi, P, Nutter, A, Osterhoff, J, Oumbarek Espinos, D, Paillard, J-L, Papadopoulos, DN, Patrizi, B, Pattathil, R, Pellegrino, L, Petralia, A, Petrillo, V, Piersanti, L, Pocsai, MA, Poder, K, Pompili, R, Pribyl, L, Pugacheva, D, Reagan, BA, Resta-Lopez, J, Ricci, R, Romeo, S, Rossetti Conti, M, Rossi, AR, Rossmanith, R, Rotundo, U, Roussel, E, Sabbatini, L, Santangelo, P, Sarri, G, Schaper, L, Scherkl, P, Schramm, U, Schroeder, CB, Scifo, J, Serafini, L, Sharma, G, Sheng, ZM, Shpakov, V, Siders, CW, Silva, LO, Silva, T, Simon, C, Simon-Boisson, C, Sinha, U, Sistrunk, E, Specka, A, Spinka, TM, Stecchi, A, Stella, A, Stellato, F, Streeter, MJV, Sutherland, A, Svystun, EN, Symes, D, Szwaj, C, Tauscher, GE, Terzani, D, Toci, G, Tomassini, P, Torres, R, Ullmann, D, Vaccarezza, C, Valleau, M, Vannini, M, Vannozzi, A, Vescovi, S, Vieira, JM, Villa, F, Wahlstrom, C-G, Walczak, R, Walker, PA, Wang, K, Welsch, A, Welsch, CP, Weng, SM, Wiggins, SM, Wolfenden, J, Xia, G, Yabashi, M, Zhang, H, Zhao, Y, Zhu, J, Zigler, A, Engineering & Physical Science Research Council (EPSRC), Commission of the European Communities, and Science and Technology Facilities Council (STFC)
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Science & Technology ,02 Physical Sciences ,Physics ,Fluids & Plasmas ,Physical Sciences ,Physics, Multidisciplinary ,ddc:530 ,01 Mathematical Sciences ,Applied Physics - Abstract
Figure 20.1 was not correct in the published article. The original article has been corrected. The published apologizes for the inconvenience.
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- 2020
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3. Use in practice
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Clarke, JA, primary
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- 2001
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4. Energy-related subsystems
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Clarke, JA, primary
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- 2001
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5. Processing the building energy equations
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Clarke, JA, primary
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- 2001
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6. Building simulation
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Clarke, JA, primary
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- 2001
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7. Fluid flow
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Clarke, JA, primary
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- 2001
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8. HVAC, renewable energy conversion and control systems
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Clarke, JA, primary
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- 2001
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9. Introduction
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Clarke, JA, primary
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- 2001
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10. Integrative modelling methods
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Clarke, JA, primary
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- 2001
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11. Future trends
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Clarke, JA, primary
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- 2001
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12. Status of the Horizon 2020 EuPRAXIA conceptual design study
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Weikum, MK, Akhter, T, Alesini, D, Alexandrova, AS, Anania, MP, Andreev, NE, Andriyash, IA, Aschikhin, A, Assmann, RW, Audet, T, Bacci, A, Barna, IF, Beaton, A, Beck, A, Beluze, A, Bernhard, A, Bielawski, S, Bisesto, FG, Brandi, F, Brinkmann, R, Bruendermann, E, Buescher, M, Bussmann, MH, Bussolino, G, Chance, A, Chen, M, Chiadroni, E, Cianchi, A, Clarke, JA, Cole, J, Couprie, ME, Croia, M, Cros, B, Crump, PA, Dattoli, G, Del Dotto, A, Delerue, N, De Nicola, S, Dias, JM, Dorda, U, Fedele, R, Pousa, A Ferran, Ferrario, M, Filippi, F, Fiore, G, Fonseca, RA, Galimberti, M, Gallo, A, Ghaith, A, Giove, D, Giribono, A, Gizzi, LA, Gruener, FJ, Habib, AF, Haefner, C, Heinemann, T, Hidding, B, Holzer, BJ, Hooker, SM, Hosokai, T, Huebner, M, Irman, A, Jafarinia, FJ, Jaroszynski, DA, Joshi, C, Kaluza, M, Kando, M, Karger, OS, Karsch, S, Khazanov, E, Khikhlukha, D, Knetsch, A, Kocon, D, Koester, P, Kononenko, OS, Korn, G, Kostyukov, I, Kruchinin, KO, Labate, L, Le Blanc, C, Lechner, C, Leemans, W, Lehrach, A, Li, X, Libov, V, Lifschitz, A, Litvinenko, V, Lu, W, Lundh, O, Maier, AR, Malka, V, Manahan, GG, Mangles, SPD, Marchetti, B, de la Ossa, A Martinez, Martins, JL, Mason, PD, Massimo, F, Mathieu, F, Maynard, G, Mazzotta, Z, Molodozhentsev, AY, Mostacci, A, Mueller, A-S, Murphy, CD, Najmudin, Z, Nghiem, PAP, Nguyen, F, Niknejadi, P, Osterhoff, J, Espinos, D Oumbarek, Papadopoulos, DN, Patrizi, B, Petrillo, V, Pocsai, MA, Poder, K, Pompili, R, Pribyl, L, Pugacheva, D, Rajeev, PP, Romeo, S, Conti, M Rossetti, Rossi, AR, Rossmanith, R, Roussel, E, Sahai, AA, Sarri, G, Schaper, L, Scherkl, P, Schramm, U, Schroeder, CB, Scifo, J, Serafini, L, Sheng, ZM, Siders, C, Silva, LO, Silva, T, Simon, C, Sinha, U, Specka, A, Streeter, MJV, Svystun, EN, Symes, D, Szwaj, C, Tauscher, GE, Terzani, D, Thompson, N, Toci, G, Tomassini, P, Torres, R, Ullmann, D, Vaccarezza, C, Vannini, M, Vieira, JM, Villa, F, Wahlstrom, C-G, Walczak, R, Walker, PA, Wang, K, Welsch, CP, Wiggins, SM, Wolfenden, J, Xia, G, Yabashi, M, Zhu, J, Zigler, A, IOP, Synchrotron SOLEIL (SSOLEIL), Centre National de la Recherche Scientifique (CNRS), Laboratoire de physique des gaz et des plasmas (LPGP), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Laboratoire Leprince-Ringuet (LLR), Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-École polytechnique (X)-Centre National de la Recherche Scientifique (CNRS), Laboratoire pour l'utilisation des lasers intenses (LULI), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-École polytechnique (X)-Sorbonne Université (SU)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Physique des Lasers, Atomes et Molécules - UMR 8523 (PhLAM), Université de Lille-Centre National de la Recherche Scientifique (CNRS), Institut de Recherches sur les lois Fondamentales de l'Univers (IRFU), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, Laboratoire de l'Accélérateur Linéaire (LAL), Université Paris-Sud - Paris 11 (UP11)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Laboratoire d'optique appliquée (LOA), Centre National de la Recherche Scientifique (CNRS)-École polytechnique (X)-École Nationale Supérieure de Techniques Avancées (ENSTA Paris), École polytechnique (X), Centre National de la Recherche Scientifique (CNRS)-École polytechnique (X)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-École polytechnique (X)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université Paris-Sud - Paris 11 (UP11), École Nationale Supérieure de Techniques Avancées (ENSTA Paris)-École polytechnique (X)-Centre National de la Recherche Scientifique (CNRS), Weikum, M. K., Akhter, T., Alesini, D., Alexandrova, A. S., Anania, M. P., Andreev, N. E., Andriyash, I. A., Aschikhin, A., Assmann, R. W., Audet, T., Bacci, A., Barna, I. F., Beaton, A., Beck, A., Beluze, A., Bernhard, A., Bielawski, S., Bisesto, F. G., Brandi, F., Brinkmann, R., Bruendermann, E., Buscher, M., Bussmann, M. H., Bussolino, G., Chance, A., Chen, M., Chiadroni, E., Cianchi, A., Clarke, J. A., Cole, J., Couprie, M. E., Croia, M., Cros, B., Crump, P. A., Dattoli, G., Del Dotto, A., Delerue, N., De Nicola, S., Dias, J. M., Dorda, U., Fedele, R., Ferran Pousa, A., Ferrario, M., Filippi, F., Fiore, G., Fonseca, R. A., Galimberti, M., Gallo, A., Ghaith, A., Giove, D., Giribono, A., Gizzi, L. A., Gruner, F. J., Habib, A. F., Haefner, C., Heinemann, T., Hidding, B., Holzer, B. J., Hooker, S. M., Hosokai, T., Huebner, M., Irman, A., Jafarinia, F. J., Jaroszynski, D. A., Joshi, C., Kaluza, M., Kando, M., Karger, O. S., Karsch, S., Khazanov, E., Khikhlukha, D., Knetsch, A., Kocon, D., Koester, P., Kononenko, O. S., Korn, G., Kostyukov, I., Kruchinin, K. O., Labate, L., Blanc, C. L., Lechner, C., Leemans, W., Lehrach, A., Li, X., Libov, V., Lifschitz, A., Litvinenko, V., Lu, W., Lundh, O., Maier, A. R., Malka, V., Manahan, G. G., Mangles, S. P. D., Marchetti, B., Martinez De La Ossa, A., Martins, J. L., Mason, P. D., Massimo, F., Mathieu, F., Maynard, G., Mazzotta, Z., Molodozhentsev, A. Y., Mostacci, A., Mueller, A. -S., Murphy, C. D., Najmudin, Z., Nghiem, P. A. P., Nguyen, F., Niknejadi, P., Osterhoff, J., Oumbarek Espinos, D., Papadopoulos, D. N., Patrizi, B., Petrillo, V., Pocsai, M. A., Poder, K., Pompili, R., Pribyl, L., Pugacheva, D., Rajeev, P. P., Romeo, S., Rossetti Conti, M., Rossi, A. R., Rossmanith, R., Roussel, E., Sahai, A. A., Sarri, G., Schaper, L., Scherkl, P., Schramm, U., Schroeder, C. B., Scifo, J., Serafini, L., Sheng, Z. M., Siders, C., Silva, L. O., Silva, T., Simon, C., Sinha, U., Specka, A., Streeter, M. J. V., Svystun, E. N., Symes, D., Szwaj, C., Tauscher, G. E., Terzani, D., Thompson, N., Toci, G., Tomassini, P., Torres, R., Ullmann, D., Vaccarezza, C., Vannini, M., Vieira, J. M., Villa, F., Wahlstrom, C. -G., Walczak, R., Walker, P. A., Wang, K., Welsch, C. P., Wiggins, S. M., Wolfenden, J., Xia, G., Yabashi, M., Zhu, J., Zigler, A., Weikum, M K, Akhter, T, Alesini, D, Alexandrova, A S, Anania, M P, Andreev, N E, Andriyash, I A, Aschikhin, A, Assmann, R W, Audet, T, Bacci, A, Barna, I F, Beaton, A, Beck, A, Beluze, A, Bernhard, A, Bielawski, S, Bisesto, F G, Brandi, F, Brinkmann, R, Bruendermann, E, Büscher, M, Bussmann, M H, Bussolino, G, Chance, A, Chen, M, Chiadroni, E, Cianchi, A, Clarke, J A, Cole, J, Couprie, M E, Croia, M, Cros, B, Crump, P A, Dattoli, G, Del Dotto, A, Delerue, N, De Nicola, S, Dias, J M, Dorda, U, Fedele, R, Ferran Pousa, A, Ferrario, M, Filippi, F, Fiore, G, Fonseca, R A, Galimberti, M, Gallo, A, Ghaith, A, Giove, D, Giribono, A, Gizzi, L A, Grüner, F J, Habib, A F, Haefner, C, Heinemann, T, Hidding, B, Holzer, B J, Hooker, S M, Hosokai, T, Huebner, M, Irman, A, Jafarinia, F J, Jaroszynski, D A, Joshi, C, Kaluza, M, Kando, M, Karger, O S, Karsch, S, Khazanov, E, Khikhlukha, D, Knetsch, A, Kocon, D, Koester, P, Kononenko, O S, Korn, G, Kostyukov, I, Kruchinin, K O, Labate, L, Blanc, C Le, Lechner, C, Leemans, W, Lehrach, A, Li, X, Libov, V, Lifschitz, A, Litvinenko, V, Lu, W, Lundh, O, Maier, A R, Malka, V, Manahan, G G, Mangles, S P D, Marchetti, B, Martinez de la Ossa, A, Martins, J L, Mason, P D, Massimo, F, Mathieu, F, Maynard, G, Mazzotta, Z, Molodozhentsev, A Y, Mostacci, A, Mueller, A - S, Murphy, C D, Najmudin, Z, Nghiem, P A P, Nguyen, F, Niknejadi, P, Osterhoff, J, Oumbarek Espinos, D, Papadopoulos, D N, Patrizi, B, Petrillo, V, Pocsai, M A, Poder, K, Pompili, R, Pribyl, L, Pugacheva, D, Rajeev, P P, Romeo, S, Rossetti Conti, M, Rossi, A R, Rossmanith, R, Roussel, E, Sahai, A A, Sarri, G, Schaper, L, Scherkl, P, Schramm, U, Schroeder, C B, Scifo, J, Serafini, L, Sheng, Z M, Siders, C, Silva, L O, Silva, T, Simon, C, Sinha, U, Specka, A, Streeter, M J V, Svystun, E N, Symes, D, Szwaj, C, Tauscher, G E, Terzani, Davide, Thompson, N, Toci, G, Tomassini, P, Torres, R, Ullmann, D, Vaccarezza, C, Vannini, M, Vieira, J M, Villa, F, Wahlstrom, C - G, Walczak, R, Walker, P A, Wang, K, Welsch, C P, Wiggins, S M, Wolfenden, J, Xia, G, Yabashi, M, Zhu, J, and Zigler, A
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electron ,History ,[PHYS.PHYS.PHYS-ACC-PH]Physics [physics]/Physics [physics]/Accelerator Physics [physics.acc-ph] ,Physics and Astronomy(all) ,01 natural sciences ,7. Clean energy ,Plasmas, accelerators ,010305 fluids & plasmas ,Education ,Accelerator Physics ,Acceleration ,accelerators ,Conceptual design ,0103 physical sciences ,site ,ddc:530 ,010306 general physics ,plasma ,QC ,Open innovation ,Focus (computing) ,Detector ,acceleration ,Plasma acceleration ,Accelerators and Storage Rings ,Computer Science Applications ,laser ,MC3: Novel Particle Sources and Acceleration Techniques ,Plasmas ,Systems engineering ,Physics::Accelerator Physics ,Plasmas (physics) | Lasers | Laser wakefield - Abstract
The Horizon 2020 Project EuPRAXIA (European Plasma Research Accelerator with eXcellence In Applications) is producing a conceptual design report for a highly compact and cost-effective European facility with multi-GeV electron beams accelerated using plasmas. EuPRAXIA will be set up as a distributed Open Innovation platform with two construction sites, one with a focus on beam-driven plasma acceleration (PWFA) and another site with a focus on laser-driven plasma acceleration (LWFA). User areas at both sites will provide access to FEL pilot experiments, positron generation and acceleration, compact radiation sources, and test beams for HEP detector development. Support centres in four different countries will complement the pan-European implementation of this infrastructure., Proceedings of the 10th Int. Particle Accelerator Conf., IPAC2019, Melbourne, Australia
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- 2019
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13. Phylogenetically vetted and stratigraphically constrained fossil calibrations within Aves
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Ksepka, DT, primary and Clarke, JA, additional
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- 2015
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14. Stratigraphy and vertebrate paleoecology of upper cretaceous-? Lowest paleogene strata on vega island, antarctica
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Roberts, EM, Lamanna, MC, Clarke, JA, Meng, J, Gorscak, E, Sertich, JJW, O'Connor, PM, Claeson, KM, MacPhee, RDE, Roberts, EM, Lamanna, MC, Clarke, JA, Meng, J, Gorscak, E, Sertich, JJW, O'Connor, PM, Claeson, KM, and MacPhee, RDE
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The Upper Cretaceous (Maastrichtian) Sandwich Bluff Member of the López de Bertodano Formation is well exposed on Vega Island in the James Ross Basin off the northeastern coast of the Antarctic Peninsula. Although this unit is one of the richest sources of end-Cretaceous vertebrate fossils in Antarctica, it is also one of the least sedimentologically and stratigraphically characterized units in the basin. New facies and stratigraphic analyses of the Sandwich Bluff Member and the underlying Cape Lamb Member of the Snow Hill Island Formation were performed in tandem with intensive prospecting for fossil vertebrates and stratigraphic assessment of historic paleontological localities on Vega Island. This effort has led to a revised stratigraphy for the Sandwich Bluff Member and the precise stratigraphic placement of important terrestrial and marine vertebrate fossil localities.Facies analysis reveals a fining and shallowing upward trend through the section that culminates in a newly recognized sequence boundary near the top of the Sandwich Bluff Member, followed by the deposition of a previously unrecognized, 6. m-thick, matrix-supported pebble-cobble conglomerate of probable alluvial origin. Immediately overlying this unit, well-developed Thalassinoides burrow networks in fine-grained transgressive sandstones and siltstones indicate a rapid return to marine conditions. A similar stratigraphic pattern is well documented at the top of the López de Bertodano Formation and the base of the overlying (Paleocene) Sobral Formation on Seymour Island in the southern part of the basin. Although no fossils were recovered to constrain the age of the upper 10-15. m of the succession on Vega Island that preserves the newly recognized upper sequence boundary, strata below this level can be confidently placed within the Manumiella bertodano interval zone, which extends to a short distance below the K-Pg boundary on Seymour Island. Hence, based on sequence stratigraphic and lithostratig
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- 2014
15. Comment 2 on ‘Fast and accurate simulation of long-term daylight availability using the radiosity method’ by B Geebelen, M van der Voorden and H Neuckermans
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Clarke, JA, primary
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- 2005
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16. Traction for low-back pain with or without sciatica
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Clarke, JA, primary, van Tulder, MW, additional, Blomberg, SEI, additional, de Vet, HCW, additional, van der Heijden, GJMG, additional, and Bronfort, G, additional
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- 2005
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17. Integrated modelling of low energy buildings
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Clarke, JA, primary, Grant, AD, additional, Johnstone, CM, additional, and Macdonald, I, additional
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- 1998
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18. Severe skin loss after meningococcal septicaemia: complications in treatment
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Huang, S., primary and Clarke, JA, additional
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- 1997
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19. The Use of a Polymeric Film for the Culture and Transfer of Sub-Confluent Autologous Keratinocytes to Patients
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Barlow, YM, primary, Burt, AM, additional, Clarke, JA, additional, McGrouther, DA, additional, and Lang, SM, additional
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- 1992
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20. A reappraisal of the role of cerium in burn wound management.
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Lansdown ABG, Myers SR, Clarke JA, and O'Sullivan P
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- 2003
21. Disablement resulting from motorcycle crashes.
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Clarke JA and Langley JD
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- 1995
22. Product evaluation. Dermasorb versus Jelonet in patients with burns skin graft donor sites.
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Cadier MA and Clarke JA
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- 1996
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23. Carotid Body Structure and Function in Atherosclerotic Rabbits
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Angell-James, JE, primary, Clarke, JA, additional, De B Daly, M, additional, and Taton, A, additional
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- 1988
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24. 1022 Single-shot SSFP can identify myocardial edema in patients
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Friedrich Matthias G, Clarke James R, and Green Jordin D
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Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Published
- 2008
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25. Measuring ultracool properties from the UKIDSS Large Area Survey
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Jenkins James, Lucas Phil, Gallardo Jose, Jones Hugh, Ruiz Maria-Teresa, Deacon Nial, Burningham Ben, Zhang Zenghua, Pinfield David, Marocco Federico, Day-Jones Avril, Gomes Joana, Folkes Stuart, and Clarke James
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Physics ,QC1-999 - Abstract
We discuss the properties and of ultracool and brown dwarfs that can be measured from current large area surveys and how fundamental parameters, such as the mass function and formation history can be measured, describing our own first measurement of the formation history in the sub-stellar regime using data from the UKIDSS Large Area Survey.
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- 2013
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26. Comparison of long and short axis quantification of left ventricular volume parameters by cardiovascular magnetic resonance, with ex-vivo validation
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Childs Helene, Ma Lucia, Ma Michael, Clarke James, Cocker Myra, Green Jordin, Strohm Oliver, and Friedrich Matthias G
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Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
Abstract Background The purpose of the study was to compare the accuracy and evaluation time of quantifying left ventricular (LV), left atrial (LA) volume and LV mass using short axis (SAX) and long axis (LAX) methods when using cardiovascular magnetic resonance (CMR). Materials and methods We studied 12 explanted canine hearts and 46 patients referred for CMR (29 male, age 47 ± 18 years) in a clinical 1.5 T CMR system, using standard cine sequences. In standard short axis stacks of various slice thickness values in dogs and 8 mm slice thickness (gap 2 mm) in patients, we measured LV volumes using reference slices in a perpendicular, long axis orientation using certified software. Volumes and mass were also measured in six radial long axis (LAX) views. LV parameters were also assessed for intra- and inter-observer variability. In 24 patients, we also analyzed reproducibility and evaluation time of two very experienced (> 10 years of CMR reading) readers for SAX and LAX. Results In the explanted dog hearts, there was excellent agreement between ex vivo data and LV mass and volume data as measured by all methods for both, LAX (r2 = 0.98) and SAX (r2 = 0.88 to 0.98). LA volumes, however, were underestimated by 13% using the LAX views. In patients, there was a good correlation between all three assessed methods (r2 ≥ 0.95 for all). In experienced clinical readers, left-ventricular volumes and ejection fraction as measured in LAX views showed a better inter-observer reproducibility and a 27% shorter evaluation time. Conclusion When compared to an ex vivo standard, both, short axis and long axis techniques are highly accurate for the quantification of left ventricular volumes and mass. In clinical settings, however, the long axis approach may be more reproducible and more time-efficient. Therefore, the rotational long axis approach is a viable alternative for the clinical assessment of cardiac volumes, function and mass.
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- 2011
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27. Emergency Department Boarding Time Is Associated with Functional Decline in Older Adults Six Months Post Discharge.
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Duquette CL, Andrew MK, Kuchel GA, Clarke JA, Ohle R, and Verschoor CP
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- Humans, Female, Male, Aged, Aged, 80 and over, Time Factors, Length of Stay statistics & numerical data, Frailty, Functional Status, Emergency Service, Hospital, Patient Discharge, Frail Elderly, Geriatric Assessment methods
- Abstract
Functional decline following hospitalization remains an important problem in health care, especially for frail older adults. Modifiable factors related to reduction in harms of hospitalization are not well described. One particularly pervasive factor is emergency department (ED) boarding time; time waiting from decision to admit, until transfer to an in-patient medical unit. We sought to investigate how the functional status of frail older adults correlated with the length of time spent boarded in the ED. We found that patients who waited for 24 hours or more exhibited functional decline in both the Barthel Index and Hierarchical Assessment of Balance and Mobility and an increase in the Clinical Frailty Scale from discharge to 6 months post discharge. In conclusion, there is a need for additional investigation into ED focused interventions to reduce ED boarding time for this population or to improve access to specialized geriatric services within the ED.
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- 2024
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28. Bison mother-offspring acoustic communication.
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Clarke JA
- Abstract
Mother-offspring communication is especially crucial for social species in order to synchronize activities essential for early survival including nursing, resting, maintaining proximity during group movements between food or water sources, and locating one another if separated in a large social group. One of the most social ungulate species in North America is the American Bison ( Bison bison ), formerly known as buffalo. Adult female bison associate with their young for over a year and communication between mother and offspring is likely essential for establishing and maintaining a bond upon which the life of a calf depends. One goal of this study was to quantify and compare the acoustic form of vocalizations of adult female, subadult, and calf bison and to determine how age classes differed in call structure. The other goal was to identify the contexts in which bison vocalized. Vocalizations of 101 bison (53 adult females, 15 subadults, 33 calves) in a semi-free-ranging herd in Montana were analyzed and found to be pulsatile sounds, unlike vocalizations of bison bulls or domestic cows and calves. Vocalizations of bison cows, subadults, and calves differed significantly in total duration, numbers of pulses, pulse duration, and pulse rate. Seven distinct call contexts were identified. The majority of calls were "moving-on calls" (39%), when a cow called and her calf ran to her side and the 2 moved on together, and "contact calls" (21%) when a cow called and her calf called back but neither changed their location. "Imprinting calls" and "nursing calls" were also identified. Mother-offspring acoustic communication in bison appears especially critical for coordinating movements. Understanding the role of acoustic communication in maintaining the bond between bison mothers and their offspring can contribute to the humane management and welfare of this iconic species., Competing Interests: None declared., (© The Author(s) 2024. Published by Oxford University Press on behalf of the American Society of Mammalogists.)
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- 2024
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29. A new Paleogene fossil and a new dataset for waterfowl (Aves: Anseriformes) clarify phylogeny, ecological evolution, and avian evolution at the K-Pg Boundary.
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Musser G and Clarke JA
- Subjects
- Animals, Birds anatomy & histology, Birds classification, Fossils anatomy & histology, Phylogeny, Biological Evolution, Anseriformes anatomy & histology, Anseriformes classification, Anseriformes genetics
- Abstract
Despite making up one of the most ecologically diverse groups of living birds, comprising soaring, diving and giant flightless taxa, the evolutionary relationships and ecological evolution of Anseriformes (waterfowl) remain unresolved. Although Anseriformes have a comparatively rich, global Cretaceous and Paleogene fossil record, morphological datasets for this group that include extinct taxa report conflicting relationships for all known extinct taxa. Correct placement of extinct taxa is necessary to understand whether ancestral anseriform feeding ecology was more terrestrial or one of a set of diverse aquatic ecologies and to better understand avian evolution around the K-T boundary. Here, we present a new morphological dataset for Anseriformes that includes more extant and extinct taxa than any previous anseriform-focused dataset and describe a new anseriform species from the early Eocene Green River Formation of North America. The new taxon has a mediolaterally narrow bill which is rarely found in previously described anseriform fossils. The matrix created to assess the placement of this taxon comprises 41 taxa and 719 discrete morphological characters describing skeletal morphology, musculature, syringeal morphology, ecology, and behavior. We additionally combine the morphological dataset with published sequences using Bayesian methods and perform ancestral state reconstruction for select morphological, ecological and behavioral characters. We recover the new Eocene taxon as the sister taxon to (Anseranatidae+Anatidae) across all analyses, and find that the new taxon represents a novel ecology within known Anseriformes and the Green River taxa. Results provide insight into avian evolution during and following the K-Pg mass extinction and indicate that Anseriformes were likely ancestrally aquatic herbivores with rhamphothecal lamellae.., Competing Interests: The authors have declared that no competing interests exist., (Copyright: © 2024 Musser, Clarke. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
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- 2024
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30. Development and application of an urban solar photovoltaic opportunity mapping tool.
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McGhee R, Clarke JA, and Svehla K
- Abstract
A Geospatial Opportunity Mapping (GOMap) tool was created to identify policy unconstrained land in urban cities that is technically feasible for the deployment of solar photovoltaic power stations; and identify buildings with north- or south-facing orientation for the installation of building integrated PV (BIPV). Collaboration with a local Governing authority and a local electricity provider enabled the process to elicit comprehensive policy and technical aspect information respectively that would impact the site selection process. Five policy and four technical aspects are comprised of a total of 36 individual factors displayable by GOMap on a high-resolution city grid with a scoring system implemented to distinguish between factors that encourage or inhibits solar PV deployment. Weightings can be applied, and different scenarios explored including alternative policy changes and infrastructure upgrades. GOMap generates opportunity maps in the form of available land estimates which can be extrapolated by an in-built solar PV model to quantify annual energy generation based on local weather data, array spacing, panel type and array tilt angle. Three scenarios were devised to identify unconstrained land for solar PV deployment with varying levels of policy and technical factor relaxation, and a fourth scenario to identify dwellings for potential BIPV. These scenarios aim to tackle Glasgow City's growing energy demand and fuel poverty issue, the latter of which can supply energy to dwellings categorised as 'hard-to-heat' once heating is electrified due to the Scottish Government's Energy Strategy commitment., Competing Interests: The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (© 2024 The Authors. Published by Elsevier Ltd.)
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- 2024
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31. A balance of clinical assessment and use of diagnostic imaging: A CT colonography comparative case report.
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Clarke JA, Benning J, Isaacs J, and Angell-Clarke S
- Abstract
Computer tomography colonography (CTC) is a non-invasive procedure which has replaced barium enema. CTC uses helical images of a cleansed and gas-distended colon for the diagnosis and treatment of colonic neoplasms. This case study compares 2 patients: one with positive pathology (patient A) and another as comparator (patient B) with a similar pathology to discuss and debate possible treatment pathways. Patient (A) CTC showed 2 polyps: 6 mm and 10 mm, which the colorectal surgeons thought only needed follow-up. Our comparator (patient B) displayed a similar pathology which measured 9 mm. In this case (patient B), there was mutual agreement with the surgeons for polypectomy but without haematology involvement which was atypical of the usual pathway. The surgeons did not see the 9 mm polyp at polypectomy which could be due to observer error or radiology reporter error. Given that conventional colonoscopy is more sensitive in detecting polyps; a repeat of both tests could confirm the presence of polyp, however, the surgeons gave patient (B) a virtual appointment and requested a repeat CTC in 12 months. In colorectal medicine there can be variations in the treatment of patients with polyps. While a repeat of both tests could confirm the presence of polyp in patient (B), the surgeons' decisions regarding the patient's treatment reflected a balance of confidence in clinical assessment and use of diagnostic imaging which can reduce unnecessary requests and use of diagnostic tests., (© 2024 The Authors.)
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- 2024
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32. Evolution of the syrinx of Apodiformes, including the vocal-learning Trochilidae (Aves: Strisores).
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Legendre LJ, Rodríguez-Saltos CA, Eliason CM, and Clarke JA
- Abstract
The vocal organ of birds, the syrinx, represents a key innovation in the evolutionary history of vertebrate communication. Three major avian clades: passerines, parrots, and hummingbirds, independently acquired both specialized syringeal structures and vocal-production learning, between which a functional relationship has been proposed but remains poorly understood. In hummingbirds, the syrinx has never been studied comparatively alongside non-learning relatives in the parent clade Strisores. Here we describe the anatomy of the syrinx in three swift species using enhanced-contrast computed tomography, which reveals structures previously unreported in the clade. We also tested for correlations between syringeal and acoustic traits in a sample of hummingbirds and swifts using phylogenetically informed regressions. The swift syrinx presents lateral labia located on the first pair of bronchial half-rings, which are present in hummingbirds and may be ancestral to Strisores. The further enlarged lateral labia of hummingbirds are found to be significantly correlated to the reduction in length of their trachea and m. tracheolateralis. Acquisition of intrinsic muscles and loss of the sternotrachealis muscle co-occur with these shifts. We recover a significant negative correlation between tracheal elongation and maximum vocalization frequency, suggesting that tracheal shortening in hummingbirds facilitated the acquisition of high-frequency vocalizing., Competing Interests: The authors declare no conflict of interest., (© The Author(s) 2024. Published by Oxford University Press on behalf of The Linnean Society of London. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.)
- Published
- 2024
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33. Homology and the evolution of vocal folds in the novel avian voice box.
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Longtine C, Eliason CM, Mishkind D, Lee C, Chiappone M, Goller F, Love J, Kingsley EP, Clarke JA, and Tabin CJ
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- Animals, Birds anatomy & histology, Trachea anatomy & histology, Sound, Vocalization, Animal, Vocal Cords anatomy & histology, Larynx anatomy & histology
- Abstract
The origin of novel traits, those that are not direct modifications of a pre-existing ancestral structure, remains a fundamental problem in evolutionary biology. For example, little is known about the evolutionary and developmental origins of the novel avian vocal organ, the syrinx. Located at the tracheobronchial junction, the syrinx is responsible for avian vocalization, but it is unclear whether avian vocal folds are homologous to the laryngeal vocal folds in other tetrapods or convergently evolved. Here, we identify a core developmental program involved in avian vocal fold formation and infer the morphology of the syrinx of the ancestor of modern birds. We find that this ancestral syrinx had paired sound sources induced by a conserved developmental pathway and show that shifts in these signals correlate with syringeal diversification. We show that, despite being derived from different developmental tissues, vocal folds in the syrinx and larynx have similar tissue composition and are established through a strikingly similar developmental program, indicating that co-option of an ancestral developmental program facilitated the origin of vocal folds in the avian syrinx., Competing Interests: Declaration of interests The authors declare no competing interests., (Copyright © 2023. Published by Elsevier Inc.)
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- 2024
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34. Description of natal down of the ostrich (Struthio camelus) and comparison with common quail (Coturnix coturnix): Developmental and evolutionary implications.
- Author
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Urban CA, Legendre LJ, and Clarke JA
- Subjects
- Animals, Biological Evolution, Coturnix, Feathers, Quail, Struthioniformes, Dinosaurs
- Abstract
Natal down is a feather stage that differs in both form and function from the definitive feathers of adult birds. It has a simpler structure that has been speculated to be similar to the body coverings of non-avian dinosaurs. However, inference of the evolution of natal down has been limited by our understanding of its structural variation in extant birds. Most descriptive work has focused on neognathous birds, limiting our knowledge of the full diversity of feathers in extant taxa. Here, we describe the natal down of a post-hatch ostrich (Struthio camelus) and compare it to that of a post-hatch quail (Coturnix coturnix). We confirm the presence of featherless spaces (apteria) in S. camelus and the lack of barbules on the tips of natal down in both species. We also find differences between dorsal and ventral natal down structures, such as barbule density in S. camelus and the extent of the bare portion of the barb in both species. Surprisingly, we do not find that the neoptiles of either species follow the ideal morphologies for increasing insulation. Finally, we hypothesize that the different barb types present in S. camelus natal down result from a large addition of new barb ridges during development, which is not known except in feathers with a rachis. These results have implications for our understanding of how structure informs function and development in understudied feather types, such as those shared by non-avian dinosaurs., (© 2023 Anatomical Society.)
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- 2023
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35. Vetting of medical imaging referrals: A scoping review of the radiographers' role.
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Clarke JA, Akudjedu TN, and Salifu Y
- Subjects
- Humans, Radiography, Referral and Consultation, Clinical Competence, Allied Health Personnel
- Abstract
Introduction: Vetting and treatment verification, are now an expectation of threshold radiography competencies at qualification. Radiographer-led vetting contributes to the expedition of patients' treatment and management. However, the current state and the role of the radiographer in vetting medical imaging referrals remains unclear. This review aims to explore the current state and associated challenges to a radiographer-led vetting and offer directions for future research by addressing knowledge gaps., Method: The Arksey and O'Malley methodological framework was employed for this review. This includes a comprehensive search using key terms relating to radiographer-led vetting across relevant databases: Medline, PubMed, AMED and Cumulative Index to Nursing and Allied Health Literature (CINAHL). Articles were screened for eligibility and information extracted and analysed descriptively to map the available evidence., Results: 1149 studies were identified with 12 articles included for this review after duplicates were removed. The findings indicate existence of some radiographer-led vetting activities in practice; however, the scope of this practice is associated with a large variance across settings. Key challenges relating to radiographer-led vetting include referral selectivity, medical professional dominance, and lack of clinical indication on referrals., Conclusion: Radiographers vet various categories of referrals depending on jurisdictional policies and more clarity in regulation, advanced practice training and change in workplace culture is needed to support radiographer-led vetting., Implication for Practice: Radiographer-led vetting should be championed across settings through formalised training to widen the scope of advance practice and career progression pathways for radiographers as a means of ensuring optimal use of resources., Competing Interests: Conflict of interest statement None., (Crown Copyright © 2023. Published by Elsevier Ltd. All rights reserved.)
- Published
- 2023
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36. Discussion of Identity and Implicit Bias: A Strategy to Address Racism and Social Justice in Pediatric Nursing Education.
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Stevens KE, Choma EG, Clarke JA, and Walsh JM
- Abstract
Abstract: Nurse educators must weave discussions of systemic racism, social justice, social determinants of health, and psychosocial influences throughout the curriculum. For an online pediatric course, an activity was developed to raise awareness of implicit bias. This experience interfused assigned readings from the literature, introspection of identity, and guided discussion. Framed by principles of transformative learning, faculty facilitated an online dialogue involving groups of 5 to 10 students through aggregated self-descriptors and open prompts. Ground rules for the discussion established psychological safety. This activity complements other schoolwide racial justice initiatives., Competing Interests: The authors have declared no conflict of interest., (Copyright © 2023 National League for Nursing.)
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- 2023
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37. Molecular exploration of fossil eggshell uncovers hidden lineage of giant extinct bird.
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Grealy A, Miller GH, Phillips MJ, Clarke SJ, Fogel M, Patalwala D, Rigby P, Hubbard A, Demarchi B, Collins M, Mackie M, Sakalauskaite J, Stiller J, Clarke JA, Legendre LJ, Douglass K, Hansford J, Haile J, and Bunce M
- Subjects
- Animals, Extinction, Biological, Birds classification, Egg Shell, Fossils
- Abstract
The systematics of Madagascar's extinct elephant birds remains controversial due to large gaps in the fossil record and poor biomolecular preservation of skeletal specimens. Here, a molecular analysis of 1000-year-old fossil eggshells provides the first description of elephant bird phylogeography and offers insight into the ecology and evolution of these flightless giants. Mitochondrial genomes from across Madagascar reveal genetic variation that is correlated with eggshell morphology, stable isotope composition, and geographic distribution. The elephant bird crown is dated to ca. 30 Mya, when Madagascar is estimated to have become less arid as it moved northward. High levels of between-clade genetic variation support reclassifying Mullerornis into a separate family. Low levels of within-clade genetic variation suggest there were only two elephant bird genera existing in southern Madagascar during the Holocene. However, we find an eggshell collection from Madagascar's far north that represents a unique lineage of Aepyornis. Furthermore, divergence within Aepyornis coincides with the aridification of Madagascar during the early Pleistocene ca. 1.5 Ma, and is consistent with the fragmentation of populations in the highlands driving diversification and the evolution of extreme gigantism over shorts timescales. We advocate for a revision of their taxonomy that integrates palaeogenomic and palaeoecological perspectives., (© 2023. The Author(s).)
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- 2023
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38. Early diversification of avian limb morphology and the role of modularity in the locomotor evolution of crown birds.
- Author
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Eliason CM, Proffitt JV, and Clarke JA
- Subjects
- Animals, Phylogeny, Forelimb anatomy & histology, Lower Extremity, Birds anatomy & histology, Biological Evolution, Dinosaurs anatomy & histology
- Abstract
High disparity among avian forelimb and hind limb segments in crown birds relative to non-avialan theropod dinosaurs, potentially driven by the origin of separate forelimb and hind limb locomotor modules, has been linked to the evolution of diverse avian locomotor behaviors. However, this hypothesized relationship has rarely been quantitatively investigated in a phylogenetic framework. We assessed the relationship between the evolution of limb morphology and locomotor behavior by comparing a numerical proxy for locomotor disparity to morphospace sizes derived from a dataset of 1,241 extant species. We then estimated how limb disparity accumulated during the crown avian radiation. Lastly, we tested whether limb segments evolved independently between each limb module using phylogenetically informed regressions. Hind limb disparity increased significantly with locomotor disparity after accounting for clade age and species richness. We found that forelimb disparity accumulated rapidly early in avian evolution, whereas hind limb disparity accumulated later, in more recent divergences. We recovered little support for strong correlations between forelimb and hind limb morphology. We posit that these findings support independent evolution of locomotor modules that enabled the striking morphological and behavioral disparity of extant birds., (© The Author(s) 2022. Published by Oxford University Press on behalf of The Society for the Study of Evolution (SSE). All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.)
- Published
- 2023
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39. Wrinkle nanostructures generate a novel form of blue structural color in great argus flight feathers.
- Author
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Eliason CM, Clarke JA, and Kane SA
- Abstract
Currently known structural colors in feathers are caused by light scattering from periodic or amorphous arrangements of keratin, melanin, and air within barbs and barbules that comprise the feather vane. Structural coloration in the largest part of the feather, the central rachis, is rare. Here, we report on an investigation of the physical mechanisms underlying the only known case of structural coloration in the rachis, the blue rachis of great argus ( Argusianus argus) flight feathers. Spectrophotometry revealed a reflectance peak at 344 nm that is diffuse and well matched to the blue and UV-sensitive cone sensitivities of this species' visual system. A combination of electron microscopy and optical modeling confirmed blue coloration is generated by scattering from amorphous wrinkle nanostructures 125 nm deep and 385 nm apart, a new avian coloration mechanism. These findings have implications for understanding how novel courtship phenotypes arise through evolutionary modification of existing ontogenetic templates., Competing Interests: The authors declare no competing interests., (© 2023 The Authors.)
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- 2022
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40. Excess Mortality Among Solid Organ Transplant Recipients in the United States During the COVID-19 Pandemic.
- Author
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Clarke JA, Wiemken TL, and Korenblat KM
- Subjects
- United States epidemiology, Humans, Transplant Recipients, Pandemics, COVID-19, Kidney Transplantation adverse effects, Organ Transplantation adverse effects
- Abstract
Background: The COVID-19 pandemic is the first sustained respiratory disease pandemic to arise since the start of solid organ transplantation (SOT). Prior studies have demonstrated that SOT recipients are at greater risk for severe complications of infection and are less likely to respond to vaccination., Methods: The Scientific Registry of Transplant Recipients Standard Analysis Files was used to assess the cumulative excess mortality in SOT recipients during the first 20 mo of the pandemic., Results: Compared with excess mortality rates in the US population (25.9 deaths/10 000; confidence interval [CI], 10.9-41.1), the excess mortality per 10 000 was higher in all SOT groups: kidney (188.5; CI, 150.7-225.6), lung (173.6; CI, 17-334.7), heart (123.7; CI, 56-191.4), and liver (105.1; CI, 64.6-146). The higher rates persisted even with attempts to control for population age structure and renal allograft failure. Excess mortality was also higher in Black (236.8; CI, 186.1-287) and Hispanic (256.9; CI, 208.1-305.2) organ recipients compared with other racial and ethnic groups in the Scientific Registry of Transplant Recipients and compared with the Black and Hispanic populations in the United States., Conclusions: Studies of excess mortality provide insight into the health and survival of specialized populations like SOT recipients during major health events like the COVID-19 pandemic., Competing Interests: T.L.W. is an employee of Pfizer, Inc. The other authors declare no conflicts of interest., (Copyright © 2022 Wolters Kluwer Health, Inc. All rights reserved.)
- Published
- 2022
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41. Edge effects and vertical stratification of aerial insectivorous bats across the interface of primary-secondary Amazonian rainforest.
- Author
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Yoh N, Clarke JA, López-Baucells A, Mas M, Bobrowiec PED, Rocha R, and Meyer CFJ
- Subjects
- Animals, Biodiversity, Conservation of Natural Resources, Ecosystem, Eulipotyphla, Forests, Trees, Chiroptera, Rainforest
- Abstract
Edge effects, abiotic and biotic changes associated with habitat boundaries, are key drivers of community change in fragmented landscapes. Their influence is heavily modulated by matrix composition. With over half of the world's tropical forests predicted to become forest edge by the end of the century, it is paramount that conservationists gain a better understanding of how tropical biota is impacted by edge gradients. Bats comprise a large fraction of tropical mammalian fauna and are demonstrably sensitive to habitat modification. Yet, knowledge about how bat assemblages are affected by edge effects remains scarce. Capitalizing on a whole-ecosystem manipulation in the Central Amazon, the aims of this study were to i) assess the consequences of edge effects for twelve aerial insectivorous bat species across the interface of primary and secondary forest, and ii) investigate if the activity levels of these species differed between the understory and canopy and if they were modulated by distance from the edge. Acoustic surveys were conducted along four 2-km transects, each traversing equal parts of primary and ca. 30-year-old secondary forest. Five models were used to assess the changes in the relative activity of forest specialists (three species), flexible forest foragers (three species), and edge foragers (six species). Modelling results revealed limited evidence of edge effects, except for forest specialists in the understory. No significant differences in activity were found between the secondary or primary forest but almost all species exhibited pronounced vertical stratification. Previously defined bat guilds appear to hold here as our study highlights that forest bats are more edge-sensitive than edge foraging bats. The absence of pronounced edge effects and the comparable activity levels between primary and old secondary forests indicates that old secondary forest can help ameliorate the consequences of fragmentation on tropical aerial insectivorous bats., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2022
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42. The diverse terminology of reptile eggshell microstructure and its effect on phylogenetic comparative analyses.
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Legendre LJ, Choi S, and Clarke JA
- Subjects
- Animals, Birds, Fossils, Phylogeny, Reptiles, Dinosaurs, Egg Shell chemistry
- Abstract
Reptile eggshell ensures water and gas exchange during incubation and plays a key role in reproductive success. The diversity of reptilian incubation and life history strategies has led to many clade-specific structural adaptations of their eggshell, which have been studied in extant taxa (i.e. birds, crocodilians, turtles, and lepidosaurs). Most studies on non-avian eggshells were performed over 30 years ago and categorized reptile eggshells into two main types: "hard" and "soft" - sometimes with a third intermediate category, "semi-rigid." In recent years, however, debate over the evolution of eggshell structure of major reptile clades has revealed how definitions of hard and soft eggshells influence inferred deep-time evolutionary patterns. Here, we review the diversity of extant and fossil eggshell with a focus on major reptile clades, and the criteria that have been used to define hard, soft, and semi-rigid eggshells. We show that all scoring approaches that retain these categories discretize continuous quantitative traits (e.g. eggshell thickness) and do not consider independent variation of other functionally important microstructural traits (e.g. degree of calcification, shell unit inner structure). We demonstrate the effect of three published approaches to discretizing eggshell type into hard, semi-rigid, and soft on ancestral state reconstructions using 200+ species representing all major extant and extinct reptile clades. These approaches result in different ancestral states for all major clades including Archosauria and Dinosauria, despite a difference in scoring for only 1-4% of the sample. Proposed scenarios of reptile eggshell evolution are highly conditioned by sampling, tree calibration, and lack of congruence between definitions of eggshell type. We conclude that the traditional "soft/hard/semi-rigid" classification of reptilian eggshells should be abandoned and provide guidelines for future descriptions focusing on specific functionally relevant characteristics (e.g. inner structures of shell units, pores, and membrane elements), analyses of these traits in a phylogenetic context, and sampling of previously undescribed taxa, including fossil eggs., (© 2022 Anatomical Society.)
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- 2022
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43. Analysis of Streptomyces Volatilomes Using Global Molecular Networking Reveals the Presence of Metabolites with Diverse Biological Activities.
- Author
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Liu J, Clarke JA, McCann S, Hillier NK, and Tahlan K
- Subjects
- Agriculture, Streptomyces metabolism, Volatile Organic Compounds analysis, Volatile Organic Compounds chemistry, Volatile Organic Compounds metabolism
- Abstract
Streptomyces species produce a wide variety of specialized metabolites, some of which are used for communication or competition for resources in their natural environments. In addition, many natural products used in medicine and industry are derived from Streptomyces , and there has been interest in their capacity to produce volatile organic compounds (VOCs) for different industrial and agricultural applications. Recently, a machine-learning workflow called MSHub/GNPS was developed, which enables auto-deconvolution of gas chromatography-mass spectrometry (GC-MS) data, molecular networking, and library search capabilities, but it has not been applied to Streptomyces volatilomes. In this study, 131 Streptomyces isolates from the island of Newfoundland were phylogenetically typed, and 37 were selected based on their phylogeny and growth characteristics for VOC analysis using both a user-guided (conventional) and an MSHub/GNPS-based approach. More VOCs were annotated by MSHub/GNPS than by the conventional method. The number of unknown VOCs detected by the two methods was higher than those annotated, suggesting that many novel compounds remain to be identified. The molecular network generated by GNPS can be used to guide the annotation of such unknown VOCs in future studies. However, the number of overlapping VOCs annotated by the two methods is relatively small, suggesting that a combination of analysis methods might be required for robust volatilome analysis. More than half of the VOCs annotated with high confidence by the two approaches are plant-associated, many with reported bioactivities such as insect behavior modulation. Details regarding the properties and reported functions of such VOCs are described. IMPORTANCE This study represents the first detailed analysis of Streptomyces volatilomes using MSHub/GNPS, which in combination with a routinely used conventional method led to many annotations. More VOCs could be annotated using MSHub/GNPS as compared to the conventional method, many of which have known antimicrobial, anticancer, and insect behavior-modulating activities. The identification of numerous plant-associated VOCs by both approaches in the current study suggests that their production could be a more widespread phenomenon by members of the genus, highlighting opportunities for their large-scale production using Streptomyces. Plant-associated VOCs with antimicrobial activities, such as 1-octen-3-ol, octanol, and phenylethyl alcohol, have potential applications as fumigants. Furthermore, many of the annotated VOCs are reported to influence insect behavior, alluding to a possible explanation for their production based on the functions of other recently described Streptomyces VOCs in dispersal and nutrient acquisition.
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- 2022
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44. Perceived and unmet needs for health and social services among families coping with dementia in China: A descriptive study.
- Author
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Sun T, Jia R, Clarke JA, Zhu M, Dobbs D, Di Y, Dong X, and Meng H
- Subjects
- Activities of Daily Living, Adaptation, Psychological, Adult, Aged, Aged, 80 and over, Caregivers psychology, China, Cross-Sectional Studies, Female, Health Services Needs and Demand, Humans, Male, Middle Aged, Social Work, Dementia psychology
- Abstract
Objectives: To describe the perceived and unmet needs for health and social services and their relative importance among families coping with dementia in urban China., Methods: We used data from a cross-sectional survey conducted between 2018 and 2019 in two cities in eastern China. Trained staff conducted structured interviews of family caregivers of people living with dementia at home to obtain individual characteristics as well as types of service needs of families coping with dementia. Service needs and utilization in 24 types of services across five domains (daily living, medical/nursing, rehabilitation, mental health, and other) were examined. Descriptive statistics were used to describe characteristics of the dyads and the ranking of services based on the percentage of respondents with perceived/unmet needs., Results: A total of 170 (87.6%) family caregivers completed the interviews. The mean age of the care recipient was 77.2 years (range: 60-102) and 65.3% were female. The mean age of family caregivers was 58.4 years (range: 28-90), and 57.1% were female. The top five services used by the care recipients were: primary care, medication management, housekeeping, activities of daily living assistance, and adult day service. The five services with the most unmet needs were: legal assistance (42.7%), hospice care (44.7%), respiratory secretion management (expectoration) (57.6%), life enrichment activities (65.4%), and companion care (67.0%). Except for transportation and dressing/grooming, working and nonworking caregivers reported similar relative importance of service needs., Conclusions: The findings suggest that people living with dementia and their family require a wide range of services and supports to live in the community. Future research and policy efforts should target the unmet needs of families to improve dementia care in the community and promote aging-in-place.
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- 2022
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45. Convergent evolution in dippers (Aves, Cinclidae): The only wing-propelled diving songbirds.
- Author
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Smith NA, Koeller KL, Clarke JA, Ksepka DT, Mitchell JS, Nabavizadeh A, Ridgley RC, and Witmer LM
- Subjects
- Animals, Biological Evolution, Flight, Animal, Fossils, Osteology, Swimming, Wings, Animal anatomy & histology, Songbirds
- Abstract
Of the more than 6,000 members of the most speciose avian clade, Passeriformes (perching birds), only the five species of dippers (Cinclidae, Cinclus) use their wings to swim underwater. Among nonpasserine wing-propelled divers (alcids, diving petrels, penguins, and plotopterids), convergent evolution of morphological characteristics related to this highly derived method of locomotion have been well-documented, suggesting that the demands of this behavior exert strong selective pressure. However, despite their unique anatomical attributes, dippers have been the focus of comparatively few studies and potential convergence between dippers and nonpasseriform wing-propelled divers has not been previously examined. In this study, a suite of characteristics that are shared among many wing-propelled diving birds were identified and the distribution of those characteristics across representatives of all clades of extant and extinct wing-propelled divers were evaluated to assess convergence. Putatively convergent characteristics were drawn from a relatively wide range of sources including osteology, myology, endocranial anatomy, integument, and ethology. Comparisons reveal that whereas nonpasseriform wing-propelled divers do in fact share some anatomical characteristics putatively associated with the biomechanics of underwater "flight", dippers have evolved this highly derived method of locomotion without converging on the majority of concomitant changes observed in other taxa. Changes in the flight musculature and feathers, reduction of the keratin bounded external nares and an increase in subcutaneous fat are shared with other wing-propelled diving birds, but endocranial anatomy shows no significant shifts and osteological modifications are limited. Muscular and integumentary novelties may precede skeletal and neuroendocranial morphology in the acquisition of this novel locomotory mode, with implications for understanding potential biases in the fossil record of other such transitions. Thus, dippers represent an example of a highly derived and complex behavioral convergence that is not fully associated with the anatomical changes observed in other wing-propelled divers, perhaps owing to the relative recency of their divergence from nondiving passeriforms., (© 2021 The Authors. The Anatomical Record published by Wiley Periodicals LLC on behalf of American Association for Anatomy.)
- Published
- 2022
- Full Text
- View/download PDF
46. Estimating the distribution of carotenoid coloration in skin and integumentary structures of birds and extinct dinosaurs.
- Author
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Davis SN and Clarke JA
- Subjects
- Animals, Birds, Carotenoids metabolism, Feathers metabolism, Phylogeny, Pigmentation, Dinosaurs
- Abstract
Carotenoids are pigments responsible for most bright yellow, red, and orange hues in birds. Their distribution has been investigated in avian plumage, but the evolution of their expression in skin and other integumentary structures has not been approached in detail. Here, we investigate the expression of carotenoid-consistent coloration across tissue types in all extant, nonpasserine species (n = 4022) and archelosaur outgroups in a phylogenetic framework. We collect dietary data for a subset of birds and investigate how dietary carotenoid intake may relate to carotenoid expression in various tissues. We find that carotenoid-consistent expression in skin or nonplumage keratin has a 50% probability of being present in the most recent common ancestor of Archosauria. Skin expression has a similar probability at the base of the avian crown clade, but plumage expression is unambiguously absent in that ancestor and shows hundreds of independent gains within nonpasserine neognaths, consistent with previous studies. Although our data do not support a strict sequence of tissue expression in nonpasserine birds, we find support that expression of carotenoid-consistent color in nonplumage integument structures might evolve in a correlated manner and feathers are rarely the only region of expression. Taxa with diets high in carotenoid content also show expression in more body regions and tissue types. Our results may inform targeted assays for carotenoids in tissues other than feathers, and expectations of these pigments in nonavian dinosaurs. In extinct groups, bare-skin regions and the rhamphotheca, especially in species with diets rich in plants, may express these pigments, which are not expected in feathers or feather homologues., (© 2021 The Authors. Evolution © 2021 The Society for the Study of Evolution.)
- Published
- 2022
- Full Text
- View/download PDF
47. Estimating pediatric cases of COVID-19 over time in the United States: Filling in a gap in public use data.
- Author
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Wiemken TL, Niemotka SL, Clarke JA, Prener CG, and Rutschman AS
- Subjects
- Child, Humans, Incidence, SARS-CoV-2, United States epidemiology, Vaccination, COVID-19
- Abstract
Background: COVID-19 continues to disturb nearly all aspects of life, leaving us striving to reach herd immunity. Currently, only weekly standardized incidence rate data per age group are publicly available, limiting assessment of herd immunity. Here, we estimate the time-series case counts of COVID-19 among age groups currently ineligible for vaccination in the USA., Methods: This was a secondary analysis of publicly available data. COVID-19 case counts by age groups were computed using incidence rate data from the CDC and population estimates from the US Census Bureau. We also created a web-based application to allow on demand analysis., Results: A total of 78 weeks of data were incorporated in the analysis, suggesting the highest peak in cases within the 5-11-year age group on week ending 2021-01-09 (n = 61,095) followed by the 12-15-year age group (n = 58,093). As of July 24, 2021, case counts in the 5-11-year age group have expanded beyond other groups rapidly., Discussion: This study suggests it is possible to estimate pediatric case counts of COVID-19. National agencies should report COVID-19 time series case counts for pediatric age cohorts. These data will enhance our ability to estimate the population at risk and tailor interventions accordingly., (Copyright © 2021 Association for Professionals in Infection Control and Epidemiology, Inc. Published by Elsevier Inc. All rights reserved.)
- Published
- 2022
- Full Text
- View/download PDF
48. Congenital Giant Megaureter in a 16-Year-Old Female Presenting With Abdominal Pain: A Case Report and Review of Literature.
- Author
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Clarke JA, Melkonian V, Phillips T, Saliba C, Miyata S, and Greenspon J
- Subjects
- Abdominal Pain etiology, Adolescent, Dilatation, Pathologic complications, Dilatation, Pathologic congenital, Female, Humans, Ureteral Diseases complications, Ureteral Diseases congenital, Ureteral Diseases pathology, Ureteral Diseases diagnosis
- Abstract
We describe a case of congenital giant megaureter in a 16-year-old female. She presented with a 5-day history of abdominal distention, right flank pain and tenderness. Right pyelonephritis was suspected. Computerized tomography showed a large cystic abdominal mass with no appreciably functioning left kidney causing secondary compression of the contralateral right ureter. A left upper nephroureterectomy was performed, draining over 3.5 L of fluid. Our experience suggests that congenital giant megaureter should be considered in the differential for pediatric patients presenting with a cystic abdominal mass., (Copyright © 2021 Elsevier Inc. All rights reserved.)
- Published
- 2022
- Full Text
- View/download PDF
49. Bird neurocranial and body mass evolution across the end-Cretaceous mass extinction: The avian brain shape left other dinosaurs behind.
- Author
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Torres CR, Norell MA, and Clarke JA
- Subjects
- Animals, Biological Evolution, Birds, Brain, Extinction, Biological, Fossils, Phylogeny, Skull anatomy & histology, Dinosaurs anatomy & histology
- Abstract
Birds today are the most diverse clade of terrestrial vertebrates, and understanding why extant birds (Aves) alone among dinosaurs survived the Cretaceous-Paleogene mass extinction is crucial to reconstructing the history of life. Hypotheses proposed to explain this pattern demand identification of traits unique to Aves. However, this identification is complicated by a lack of data from non-avian birds. Here, we interrogate survivorship hypotheses using data from a new, nearly complete skull of Late Cretaceous (~70 million years) bird Ichthyornis and reassess shifts in bird body size across the Cretaceous-Paleogene boundary. Ichthyornis exhibited a wulst and segmented palate, previously proposed to have arisen within extant birds. The origin of Aves is marked by larger, reshaped brains indicating selection for relatively large telencephala and eyes but not by uniquely small body size. Sensory system differences, potentially linked to these shifts, may help explain avian survivorship relative to other dinosaurs., (Copyright © 2021 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC).)
- Published
- 2021
- Full Text
- View/download PDF
50. Shifts in eggshell thickness are related to changes in locomotor ecology in dinosaurs.
- Author
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Legendre LJ and Clarke JA
- Subjects
- Animals, Biological Evolution, Fossils, Linear Models, Models, Genetic, Phylogeny, Birds anatomy & histology, Dinosaurs anatomy & histology, Egg Shell anatomy & histology, Locomotion genetics
- Abstract
Birds share an array of unique characteristics among extant land vertebrates. Among these, external and microstructural characteristics of extant bird eggs have been linked to changes in reproductive strategy that arose among non-avian theropod dinosaurs. More recently, differences in egg proportions recovered in crown birds relative to other dinosaurs were suggested as possibly linked to avian flight, but dense sampling close to its proposed origin was lacking. Here we assess the evolution of eggshell thickness in a targeted sample of 114 dinosaurs including birds, and test the relationship of eggshell thickness with potential life history correlates and locomotor mode using phylogenetic comparative methods. Only egg mass and flight are identified as significant predictors of eggshell thickness. While a high correlation between egg mass and eggshell thickness is expected, that relationship is much stronger in flying taxa, which show a significantly higher slope and lower residual variance than flightless species. This suggests stabilizing selection of eggshell thickness among theropods, as recovered for other traits in extant birds (e.g. genome size, metabolic rate). Within living birds, Eufalconimorphae present an apomorphic increase in relative eggshell thickness which remains unexplained, as few morphological synapomorphies of this clade have been identified., (© 2021 The Authors. Evolution © 2021 The Society for the Study of Evolution.)
- Published
- 2021
- Full Text
- View/download PDF
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