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3,325 results on '"Himmel, A."'

2. Secretion of the fungal toxin candidalysin is dependent on conserved precursor peptide sequences

Author

Müller, Rita, König, Annika, Groth, Sabrina, Zarnowski, Robert, Visser, Corissa, Handrianz, Tom, Maufrais, Corinne, Krüger, Thomas, Himmel, Maximilian, Lee, Sejeong, Priest, Emily L., Yildirim, Deniz, Richardson, Jonathan P., Blango, Matthew G., Bougnoux, Marie-Elisabeth, Kniemeyer, Olaf, d’Enfert, Christophe, Brakhage, Axel A., Andes, David R., Trümper, Verena, Nehls, Christian, Kasper, Lydia, Mogavero, Selene, Gutsmann, Thomas, Naglik, Julian R., Allert, Stefanie, and Hube, Bernhard

Published
2024
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4. Streamlining heterologous expression of top carbonic anhydrases in Escherichia coli: bioinformatic and experimental approaches

Author

Hui Wei, Vladimir V. Lunin, Markus Alahuhta, Michael E. Himmel, Shu Huang, Yannick J. Bomble, and Min Zhang

Subjects
Carbonic anhydrase, Protein expression, Protein solubility prediction, Phylogenetic tree analysis, Escherichia coli, Microbiology, QR1-502
Abstract

Abstract Background Carbonic anhydrase (CA) enzymes facilitate the reversible hydration of CO2 to bicarbonate ions and protons. Identifying efficient and robust CAs and expressing them in model host cells, such as Escherichia coli, enables more efficient engineering of these enzymes for industrial CO2 capture. However, expression of CAs in E. coli is challenging due to the possible formation of insoluble protein aggregates, or inclusion bodies. This makes the production of soluble and active CA protein a prerequisite for downstream applications. Results In this study, we streamlined the process of CA expression by selecting seven top CA candidates and used two bioinformatic tools to predict their solubility for expression in E. coli. The prediction results place these enzymes in two categories: low and high solubility. Our expression of high solubility score CAs (namely CA5-SspCA, CA6-SazCAtrunc, CA7-PabCA and CA8-PhoCA) led to significantly higher protein yields (5 to 75 mg purified protein per liter) in flask cultures, indicating a strong correlation between the solubility prediction score and protein expression yields. Furthermore, phylogenetic tree analysis demonstrated CA class-specific clustering patterns for protein solubility and production yields. Unexpectedly, we also found that the unique N-terminal, 11-amino acid segment found after the signal sequence (not present in its homologs), was essential for CA6-SazCA activity. Conclusions Overall, this work demonstrated that protein solubility prediction, phylogenetic tree analysis, and experimental validation are potent tools for identifying top CA candidates and then producing soluble, active forms of these enzymes in E. coli. The comprehensive approaches we report here should be extendable to the expression of other heterogeneous proteins in E. coli.

Published
2024
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5. RNAscope in situ hybridization reveals microvascular sequestration of Plasmodium relictum pSGS1 blood stages but absence of exo-erythrocytic dormant stages during latent infection of Serinus canaria

Author

Tanja Himmel, Josef Harl, Julia Matt, Nora Nedorost, Tatjana Iezhova, Mikas Ilgūnas, Gediminas Valkiūnas, and Herbert Weissenböck

Subjects
Parasitaemia, Relapse, Recrudescence, Dormant stages, Exo-erythrocytic stages, Erythrocytic merogony, Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background Birds chronically infected with avian malaria parasites often show relapses of parasitaemia after latent stages marked by absence of parasites in the peripheral circulation. These relapses are assumed to result from the activation of dormant exo-erythrocytic stages produced during secondary (post-erythrocytic) merogony of avian Plasmodium spp. Yet, there is no morphological proof of persistent or dormant tissue stages in the avian host during latent infections. This study investigated persistence of Plasmodium relictum pSGS1 in birds with latent infections during winter, with the goal to detect presumed persisting tissue stages using a highly sensitive RNAscope® in situ hybridization technology. Methods Fourteen domestic canaries were infected with P. relictum pSGS1 by blood-inoculation in spring, and blood films examined during the first 4 months post infection, and during winter and spring of the following year. After parasitaemia was no longer detectable, half of the birds were dissected, and tissue samples investigated for persisting tissue stages using RNAscope ISH and histology. The remaining birds were blood-checked and dissected after re-appearance of parasitaemia, and their tissues equally examined. Results Systematic examination of tissues showed no exo-erythrocytic stages in birds exhibiting latent infections by blood-film microscopy, indicating absence of dormant tissue stages in P. relictum pSGS1-infected canaries. Instead, RNAscope ISH revealed rare P. relictum blood stages in capillaries of various tissues and organs, demonstrating persistence of the parasites in the microvasculature. Birds examined after re-appearance of parasitemia showed higher numbers of P. relictum blood stages in both capillaries and larger blood vessels, indicating replication during early spring and re-appearance in the peripheral circulation. Conclusions The findings suggest that persistence of P. relictum pSGS1 during latent infection is mediated by continuous low-level erythrocytic merogony and possibly tissue sequestration of infected blood cells. Re-appearance of parasitaemia in spring seems to result from increased erythrocytic merogony, therefore representing recrudescence and not relapse in blood-inoculated canaries. Further, the study highlights strengths and limitations of the RNAscope ISH technology for the detection of rare parasite stages in tissues, providing directions for future research on persistence and tissue sequestration of avian malaria and related haemosporidian parasites.

Published
2024
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6. Corrigendum to 'Unexpected absence of exo-erythrocytic merogony during high gametocytaemia in two species of Haemoproteus (Haemosporida: Haemoproteidae), including description of Haemoproteus angustus n. sp. (lineage hCWT7) and a report of previously unknown residual bodies during in vitro gametogenesis' [Int. J. Parasitol.: Parasites and Wildlife 23 (April 2024) 100905]

Author

Gediminas Valkiūnas, Tatjana Iezhova, Mikas Ilgūnas, Mélanie Tchoumbou, Mélanie Duc, Dovilė Bukauskaitė, Tanja Himmel, Josef Harl, and Herbert Weissenböck

Subjects
Zoology, QL1-991
Published
2024
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8. Exo-erythrocytic development of Leucocytozoon parasites (Haemosporida, Leucocytozoidae) in song thrushes Turdus philomelos

Author

Carolina Romeiro Fernandes Chagas, Mélanie Duc, Tanja Himmel, Vytautas Eigirdas, Herbert Weissenböck, and Gediminas Valkiūnas

Subjects
Leucocytozoon, Meront, Megalomeront, Plasmodium, Haemoproteus, Pathogenicity, Zoology, QL1-991
Abstract

Leucocytozoon parasites (Haemosporida, Leucocytozoidae) are haemosporidians whose diversity, exo-erythrocytic development and potential vectors are the least studied. The knowledge about their exo-erythrocytic development and pathogenicity is fragmentary, resulting in an incomplete comprehension of the impact of these parasites on avian hosts. For a long time, Leucocytozoon infections were considered benign to wild birds, even though they were virulent in poultry and responsible for some wild bird population declines. This study aimed to investigate the presence of Leucocytozoon species exo-erythrocytic stages in song thrushes Turdus philomelos using conventional histological techniques (sections stained by H&E) and chromogenic in situ hybridization (CISH). Tissues from ten birds (seven naturally infected and three opportunistic samplings) were examined using both methods. Parasite lineages were identified from blood samples using PCR-based techniques. Leucocytozoon species meronts were found in five individuals (in four birds using H&E staining protocol, and in three in CISH-treated histological sections). Meronts were found mainly in the kidneys, but some meronts were also present in the lungs. It was possible to observe different maturation stages of meronts in the same bird individual, indicating an asynchronous development. Cytomeres were readily visible in developing meronts. One megalomeront-like structure was present close to a blood vessel in the heart. It was covered with a prominent capsular-like wall. No inflammatory reaction or necrosis was seen in the tissues surrounding the meronts or the megalomeront-like structure. We could confirm the transmission of three Leucocytozoon lineages (lTUPHI14, lSTUR1 and lTUPHI13) in Europe, and add evidence of the transmission of two Plasmodium lineages, including Plasmodium circumflexum (pTURDUS1), and Haemoproteus asymmetricus (hTUPHI01). We call for further research to better understand Leucocytozoon parasite exo-erythrocytic development.

Published
2023
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9. Performance of a Modular Ton-Scale Pixel-Readout Liquid Argon Time Projection Chamber

Author

A. Abed Abud, B. Abi, R. Acciarri, M. A. Acero, M. R. Adames, G. Adamov, M. Adamowski, D. Adams, M. Adinolfi, C. Adriano, A. Aduszkiewicz, J. Aguilar, B. Aimard, F. Akbar, K. Allison, S. Alonso Monsalve, M. Alrashed, A. Alton, R. Alvarez, T. Alves, H. Amar, P. Amedo, J. Anderson, D. A. Andrade, C. Andreopoulos, M. Andreotti, M. P. Andrews, F. Andrianala, S. Andringa, N. Anfimov, A. Ankowski, M. Antoniassi, M. Antonova, A. Antoshkin, A. Aranda-Fernandez, L. Arellano, E. Arrieta Diaz, M. A. Arroyave, J. Asaadi, A. Ashkenazi, D. Asner, L. Asquith, E. Atkin, D. Auguste, A. Aurisano, V. Aushev, D. Autiero, F. Azfar, A. Back, H. Back, J. J. Back, I. Bagaturia, L. Bagby, N. Balashov, S. Balasubramanian, P. Baldi, W. Baldini, J. Baldonedo, B. Baller, B. Bambah, R. Banerjee, F. Barao, G. Barenboim, P. B̃arham Alzás, G. J. Barker, W. Barkhouse, G. Barr, J. Barranco Monarca, A. Barros, N. Barros, D. Barrow, J. L. Barrow, A. Basharina-Freshville, A. Bashyal, V. Basque, C. Batchelor, L. Bathe-Peters, J. B. R. Battat, F. Battisti, F. Bay, M. C. Q. Bazetto, J. L. L. Bazo Alba, J. F. Beacom, E. Bechetoille, B. Behera, E. Belchior, G. Bell, L. Bellantoni, G. Bellettini, V. Bellini, O. Beltramello, N. Benekos, C. Benitez Montiel, D. Benjamin, F. Bento Neves, J. Berger, S. Berkman, J. Bernal, P. Bernardini, A. Bersani, S. Bertolucci, M. Betancourt, A. Betancur Rodríguez, A. Bevan, Y. Bezawada, A. T. Bezerra, T. J. Bezerra, A. Bhat, V. Bhatnagar, J. Bhatt, M. Bhattacharjee, M. Bhattacharya, S. Bhuller, B. Bhuyan, S. Biagi, J. Bian, K. Biery, B. Bilki, M. Bishai, A. Bitadze, A. Blake, F. D. Blaszczyk, G. C. Blazey, E. Blucher, J. Bogenschuetz, J. Boissevain, S. Bolognesi, T. Bolton, L. Bomben, M. Bonesini, C. Bonilla-Diaz, F. Bonini, A. Booth, F. Boran, S. Bordoni, R. Borges Merlo, A. Borkum, N. Bostan, J. Bracinik, D. Braga, B. Brahma, D. Brailsford, F. Bramati, A. Branca, A. Brandt, J. Bremer, C. Brew, S. J. Brice, V. Brio, C. Brizzolari, C. Bromberg, J. Brooke, A. Bross, G. Brunetti, M. Brunetti, N. Buchanan, H. Budd, J. Buergi, D. Burgardt, S. Butchart, G. Caceres V., I. Cagnoli, T. Cai, R. Calabrese, J. Calcutt, M. Calin, L. Calivers, E. Calvo, A. Caminata, A. F. Camino, W. Campanelli, A. Campani, A. Campos Benitez, N. Canci, J. Capó, I. Caracas, D. Caratelli, D. Carber, J. M. Carceller, G. Carini, B. Carlus, M. F. Carneiro, P. Carniti, I. Caro Terrazas, H. Carranza, N. Carrara, L. Carroll, T. Carroll, A. Carter, E. Casarejos, D. Casazza, J. F. Castaño Forero, F. A. Castaño, A. Castillo, C. Castromonte, E. Catano-Mur, C. Cattadori, F. Cavalier, F. Cavanna, S. Centro, G. Cerati, C. Cerna, A. Cervelli, A. Cervera Villanueva, K. Chakraborty, S. Chakraborty, M. Chalifour, A. Chappell, N. Charitonidis, A. Chatterjee, H. Chen, M. Chen, W. C. Chen, Y. Chen, Z. Chen-Wishart, D. Cherdack, C. Chi, R. Chirco, N. Chitirasreemadam, K. Cho, S. Choate, D. Chokheli, P. S. Chong, B. Chowdhury, D. Christian, A. Chukanov, M. Chung, E. Church, M. F. Cicala, M. Cicerchia, V. Cicero, R. Ciolini, P. Clarke, G. Cline, T. E. Coan, A. G. Cocco, J. A. B. Coelho, A. Cohen, J. Collazo, J. Collot, E. Conley, J. M. Conrad, M. Convery, S. Copello, P. Cova, C. Cox, L. Cremaldi, L. Cremonesi, J. I. Crespo-Anadón, M. Crisler, E. Cristaldo, J. Crnkovic, G. Crone, R. Cross, A. Cudd, C. Cuesta, Y. Cui, F. Curciarello, D. Cussans, J. Dai, O. Dalager, R. Dallavalle, W. Dallaway, H. da Motta, Z. A. Dar, R. Darby, L. Da Silva Peres, Q. David, G. S. Davies, S. Davini, J. Dawson, R. De Aguiar, P. De Almeida, P. Debbins, I. De Bonis, M. P. Decowski, A. de Gouvêa, P. C. De Holanda, I. L. De Icaza Astiz, P. De Jong, P. Del Amo Sanchez, A. De la Torre, G. De Lauretis, A. Delbart, D. Delepine, M. Delgado, A. Dell’Acqua, G. Delle Monache, N. Delmonte, P. De Lurgio, R. Demario, G. De Matteis, J. R. T. de Mello Neto, D. M. DeMuth, S. Dennis, C. Densham, P. Denton, G. W. Deptuch, A. De Roeck, V. De Romeri, J. P. Detje, J. Devine, R. Dharmapalan, M. Dias, A. Diaz, J. S. Díaz, F. Díaz, F. Di Capua, A. Di Domenico, S. Di Domizio, S. Di Falco, L. Di Giulio, P. Ding, L. Di Noto, E. Diociaiuti, C. Distefano, R. Diurba, M. Diwan, Z. Djurcic, D. Doering, S. Dolan, F. Dolek, M. J. Dolinski, D. Domenici, L. Domine, S. Donati, Y. Donon, S. Doran, D. Douglas, T. A. Doyle, A. Dragone, F. Drielsma, L. Duarte, D. Duchesneau, K. Duffy, K. Dugas, P. Dunne, B. Dutta, H. Duyang, D. A. Dwyer, A. S. Dyshkant, S. Dytman, M. Eads, A. Earle, S. Edayath, D. Edmunds, J. Eisch, P. Englezos, A. Ereditato, T. Erjavec, C. O. Escobar, J. J. Evans, E. Ewart, A. C. Ezeribe, K. Fahey, L. Fajt, A. Falcone, M. Fani’, C. Farnese, S. Farrell, Y. Farzan, D. Fedoseev, J. Felix, Y. Feng, E. Fernandez-Martinez, G. Ferry, L. Fields, P. Filip, A. Filkins, F. Filthaut, R. Fine, G. Fiorillo, M. Fiorini, S. Fogarty, W. Foreman, J. Fowler, J. Franc, K. Francis, D. Franco, J. Franklin, J. Freeman, J. Fried, A. Friedland, S. Fuess, I. K. Furic, K. Furman, A. P. Furmanski, R. Gaba, A. Gabrielli, A. M. Gago, F. Galizzi, H. Gallagher, A. Gallas, N. Gallice, V. Galymov, E. Gamberini, T. Gamble, F. Ganacim, R. Gandhi, S. Ganguly, F. Gao, S. Gao, D. Garcia-Gamez, M. Á. García-Peris, F. Gardim, S. Gardiner, D. Gastler, A. Gauch, J. Gauvreau, P. Gauzzi, S. Gazzana, G. Ge, N. Geffroy, B. Gelli, S. Gent, L. Gerlach, Z. Ghorbani-Moghaddam, T. Giammaria, D. Gibin, I. Gil-Botella, S. Gilligan, A. Gioiosa, S. Giovannella, C. Girerd, A. K. Giri, C. Giugliano, V. Giusti, D. Gnani, O. Gogota, S. Gollapinni, K. Gollwitzer, R. A. Gomes, L. V. Gomez Bermeo, L. S. Gomez Fajardo, F. Gonnella, D. Gonzalez-Diaz, M. Gonzalez-Lopez, M. C. Goodman, S. Goswami, C. Gotti, J. Goudeau, E. Goudzovski, C. Grace, E. Gramellini, R. Gran, E. Granados, P. Granger, C. Grant, D. R. Gratieri, G. Grauso, P. Green, S. Greenberg, J. Greer, W. C. Griffith, F. T. Groetschla, K. Grzelak, L. Gu, W. Gu, V. Guarino, M. Guarise, R. Guenette, E. Guerard, M. Guerzoni, D. Guffanti, A. Guglielmi, B. Guo, Y. Guo, A. Gupta, V. Gupta, G. Gurung, D. Gutierrez, P. Guzowski, M. M. Guzzo, S. Gwon, A. Habig, H. Hadavand, L. Haegel, R. Haenni, L. Hagaman, A. Hahn, J. Haiston, J. Hakenmueller, T. Hamernik, P. Hamilton, J. Hancock, F. Happacher, D. A. Harris, J. Hartnell, T. Hartnett, J. Harton, T. Hasegawa, C. Hasnip, R. Hatcher, K. Hayrapetyan, J. Hays, E. Hazen, M. He, A. Heavey, K. M. Heeger, J. Heise, S. Henry, M. A. Hernandez Morquecho, K. Herner, V. Hewes, A. Higuera, C. Hilgenberg, S. J. Hillier, A. Himmel, E. Hinkle, L. R. Hirsch, J. Ho, J. Hoff, A. Holin, T. Holvey, E. Hoppe, S. Horiuchi, G. A. Horton-Smith, M. Hostert, T. Houdy, B. Howard, R. Howell, I. Hristova, M. S. Hronek, J. Huang, R. G. Huang, Z. Hulcher, M. Ibrahim, G. Iles, N. Ilic, A. M. Iliescu, R. Illingworth, G. Ingratta, A. Ioannisian, B. Irwin, L. Isenhower, M. Ismerio Oliveira, R. Itay, C. M. Jackson, V. Jain, E. James, W. Jang, B. Jargowsky, D. Jena, I. Jentz, X. Ji, C. Jiang, J. Jiang, L. Jiang, A. Jipa, F. R. Joaquim, W. Johnson, C. Jollet, B. Jones, R. Jones, D. José Fernández, N. Jovancevic, M. Judah, C. K. Jung, T. Junk, Y. Jwa, M. Kabirnezhad, A. C. Kaboth, I. Kadenko, I. Kakorin, A. Kalitkina, D. Kalra, M. Kandemir, D. M. Kaplan, G. Karagiorgi, G. Karaman, A. Karcher, Y. Karyotakis, S. Kasai, S. P. Kasetti, L. Kashur, I. Katsioulas, A. Kauther, N. Kazaryan, L. Ke, E. Kearns, P. T. Keener, K. J. Kelly, E. Kemp, O. Kemularia, Y. Kermaidic, W. Ketchum, S. H. Kettell, M. Khabibullin, N. Khan, A. Khvedelidze, D. Kim, J. Kim, M. Kim, B. King, B. Kirby, M. Kirby, A. Kish, J. Klein, J. Kleykamp, A. Klustova, T. Kobilarcik, L. Koch, K. Koehler, L. W. Koerner, D. H. Koh, L. Kolupaeva, D. Korablev, M. Kordosky, T. Kosc, U. Kose, V. A. Kostelecký, K. Kothekar, I. Kotler, M. Kovalcuk, V. Kozhukalov, W. Krah, R. Kralik, M. Kramer, L. Kreczko, F. Krennrich, I. Kreslo, T. Kroupova, S. Kubota, M. Kubu, Y. Kudenko, V. A. Kudryavtsev, G. Kufatty, S. Kuhlmann, J. Kumar, P. Kumar, S. Kumaran, P. Kunze, J. Kunzmann, R. Kuravi, N. Kurita, C. Kuruppu, V. Kus, T. Kutter, J. Kvasnicka, T. Labree, T. Lackey, A. Lambert, B. J. Land, C. E. Lane, N. Lane, K. Lang, T. Langford, M. Langstaff, F. Lanni, O. Lantwin, J. Larkin, P. Lasorak, D. Last, A. Laudrain, A. Laundrie, G. Laurenti, E. Lavaut, A. Lawrence, P. Laycock, I. Lazanu, M. Lazzaroni, T. Le, S. Leardini, J. Learned, T. LeCompte, C. Lee, V. Legin, G. Lehmann Miotto, R. Lehnert, M. A. Leigui de Oliveira, M. Leitner, D. Leon Silverio, L. M. Lepin, J.-Y. Li, S. W. Li, Y. Li, H. Liao, C. S. Lin, D. Lindebaum, S. Linden, R. A. Lineros, J. Ling, A. Lister, B. R. Littlejohn, H. Liu, J. Liu, Y. Liu, S. Lockwitz, M. Lokajicek, I. Lomidze, K. Long, T. V. Lopes, J. Lopez, I. López de Rego, N. López-March, T. Lord, J. M. LoSecco, W. C. Louis, A. Lozano Sanchez, X.-G. Lu, K. B. Luk, B. Lunday, X. Luo, E. Luppi, J. Maalmi, D. MacFarlane, A. A. Machado, P. Machado, C. T. Macias, J. R. Macier, M. MacMahon, A. Maddalena, A. Madera, P. Madigan, S. Magill, C. Magueur, K. Mahn, A. Maio, A. Major, K. Majumdar, M. Man, R. C. Mandujano, J. Maneira, S. Manly, A. Mann, K. Manolopoulos, M. Manrique Plata, S. Manthey Corchado, V. N. Manyam, M. Marchan, A. Marchionni, W. Marciano, D. Marfatia, C. Mariani, J. Maricic, F. Marinho, A. D. Marino, T. Markiewicz, F. Das Chagas Marques, C. Marquet, D. Marsden, M. Marshak, C. M. Marshall, J. Marshall, L. Martina, J. Martín-Albo, N. Martinez, D. A. Martinez Caicedo, F. Martínez López, P. Martínez Miravé, S. Martynenko, V. Mascagna, C. Massari, A. Mastbaum, F. Matichard, S. Matsuno, G. Matteucci, J. Matthews, C. Mauger, N. Mauri, K. Mavrokoridis, I. Mawby, R. Mazza, A. Mazzacane, T. McAskill, N. McConkey, K. S. McFarland, C. McGrew, A. McNab, L. Meazza, V. C. N. Meddage, B. Mehta, P. Mehta, P. Melas, O. Mena, H. Mendez, P. Mendez, D. P. Méndez, A. Menegolli, G. Meng, A. C. E. A. Mercuri, A. Meregaglia, M. D. Messier, S. Metallo, J. Metcalf, W. Metcalf, M. Mewes, H. Meyer, T. Miao, A. Miccoli, G. Michna, V. Mikola, R. Milincic, F. Miller, G. Miller, W. Miller, O. Mineev, A. Minotti, L. Miralles, O. G. Miranda, C. Mironov, S. Miryala, S. Miscetti, C. S. Mishra, S. R. Mishra, A. Mislivec, M. Mitchell, D. Mladenov, I. Mocioiu, A. Mogan, N. Moggi, R. Mohanta, T. A. Mohayai, N. Mokhov, J. Molina, L. Molina Bueno, E. Montagna, A. Montanari, C. Montanari, D. Montanari, D. Montanino, L. M. Montaño Zetina, M. Mooney, A. F. Moor, Z. Moore, D. Moreno, O. Moreno-Palacios, L. Morescalchi, D. Moretti, R. Moretti, C. Morris, C. Mossey, M. Mote, C. A. Moura, G. Mouster, W. Mu, L. Mualem, J. Mueller, M. Muether, F. Muheim, A. Muir, M. Mulhearn, D. Munford, L. J. Munteanu, H. Muramatsu, J. Muraz, M. Murphy, T. Murphy, J. Muse, A. Mytilinaki, J. Nachtman, Y. Nagai, S. Nagu, R. Nandakumar, D. Naples, S. Narita, A. Nath, A. Navrer-Agasson, N. Nayak, M. Nebot-Guinot, A. Nehm, J. K. Nelson, O. Neogi, J. Nesbit, M. Nessi, D. Newbold, M. Newcomer, R. Nichol, F. Nicolas-Arnaldos, A. Nikolica, J. Nikolov, E. Niner, K. Nishimura, A. Norman, A. Norrick, P. Novella, J. A. Nowak, M. Oberling, J. P. Ochoa-Ricoux, S. Oh, S. B. Oh, A. Olivier, A. Olshevskiy, T. Olson, Y. Onel, Y. Onishchuk, A. Oranday, M. Osbiston, J. A. Osorio Vélez, L. Otiniano Ormachea, J. Ott, L. Pagani, G. Palacio, O. Palamara, S. Palestini, J. M. Paley, M. Pallavicini, C. Palomares, S. Pan, P. Panda, W. Panduro Vazquez, E. Pantic, V. Paolone, V. Papadimitriou, R. Papaleo, A. Papanestis, D. Papoulias, S. Paramesvaran, A. Paris, S. Parke, E. Parozzi, S. Parsa, Z. Parsa, S. Parveen, M. Parvu, D. Pasciuto, S. Pascoli, L. Pasqualini, J. Pasternak, C. Patrick, L. Patrizii, R. B. Patterson, T. Patzak, A. Paudel, L. Paulucci, Z. Pavlovic, G. Pawloski, D. Payne, V. Pec, E. Pedreschi, S. J. M. Peeters, W. Pellico, A. Pena Perez, E. Pennacchio, A. Penzo, O. L. G. Peres, Y. F. Perez Gonzalez, L. Pérez-Molina, C. Pernas, J. Perry, D. Pershey, G. Pessina, G. Petrillo, C. Petta, R. Petti, M. Pfaff, V. Pia, L. Pickering, F. Pietropaolo, V. L. Pimentel, G. Pinaroli, J. Pinchault, K. Pitts, K. Plows, R. Plunkett, C. Pollack, T. Pollman, D. Polo-Toledo, F. Pompa, X. Pons, N. Poonthottathil, V. Popov, F. Poppi, J. Porter, M. Potekhin, R. Potenza, J. Pozimski, M. Pozzato, T. Prakash, C. Pratt, M. Prest, F. Psihas, D. Pugnere, X. Qian, J. L. Raaf, V. Radeka, J. Rademacker, B. Radics, A. Rafique, E. Raguzin, M. Rai, S. Rajagopalan, M. Rajaoalisoa, I. Rakhno, L. Rakotondravohitra, L. Ralte, M. A. Ramirez Delgado, B. Ramson, A. Rappoldi, G. Raselli, P. Ratoff, R. Ray, H. Razafinime, E. M. Rea, J. S. Real, B. Rebel, R. Rechenmacher, M. Reggiani-Guzzo, J. Reichenbacher, S. D. Reitzner, H. Rejeb Sfar, E. Renner, A. Renshaw, S. Rescia, F. Resnati, D. Restrepo, C. Reynolds, M. Ribas, S. Riboldi, C. Riccio, G. Riccobene, J. S. Ricol, M. Rigan, E. V. Rincón, A. Ritchie-Yates, S. Ritter, D. Rivera, R. Rivera, A. Robert, J. L. Rocabado Rocha, L. Rochester, M. Roda, P. Rodrigues, M. J. Rodriguez Alonso, J. Rodriguez Rondon, S. Rosauro-Alcaraz, P. Rosier, D. Ross, M. Rossella, M. Rossi, M. Ross-Lonergan, N. Roy, P. Roy, C. Rubbia, A. Ruggeri, G. Ruiz Ferreira, B. Russell, D. Ruterbories, A. Rybnikov, A. Saa-Hernandez, R. Saakyan, S. Sacerdoti, S. K. Sahoo, N. Sahu, P. Sala, N. Samios, O. Samoylov, M. C. Sanchez, A. Sánchez Bravo, P. Sanchez-Lucas, V. Sandberg, D. A. Sanders, S. Sanfilippo, D. Sankey, D. Santoro, N. Saoulidou, P. Sapienza, C. Sarasty, I. Sarcevic, I. Sarra, G. Savage, V. Savinov, G. Scanavini, A. Scaramelli, A. Scarff, T. Schefke, H. Schellman, S. Schifano, P. Schlabach, D. Schmitz, A. W. Schneider, K. Scholberg, A. Schukraft, B. Schuld, A. Segade, E. Segreto, A. Selyunin, C. R. Senise, J. Sensenig, M. H. Shaevitz, P. Shanahan, P. Sharma, R. Kumar, K. Shaw, T. Shaw, K. Shchablo, J. Shen, C. Shepherd-Themistocleous, A. Sheshukov, W. Shi, S. Shin, S. Shivakoti, I. Shoemaker, D. Shooltz, R. Shrock, B. Siddi, M. Siden, J. Silber, L. Simard, J. Sinclair, G. Sinev, Jaydip Singh, J. Singh, L. Singh, P. Singh, V. Singh, S. Singh Chauhan, R. Sipos, C. Sironneau, G. Sirri, K. Siyeon, K. Skarpaas, J. Smedley, E. Smith, J. Smith, P. Smith, J. Smolik, M. Smy, M. Snape, E. L. Snider, P. Snopok, D. Snowden-Ifft, M. Soares Nunes, H. Sobel, M. Soderberg, S. Sokolov, C. J. Solano Salinas, S. Söldner-Rembold, S. R. Soleti, N. Solomey, V. Solovov, W. E. Sondheim, M. Sorel, A. Sotnikov, J. Soto-Oton, A. Sousa, K. Soustruznik, F. Spinella, J. Spitz, N. J. C. Spooner, K. Spurgeon, D. Stalder, M. Stancari, L. Stanco, J. Steenis, R. Stein, H. M. Steiner, A. F. Steklain Lisbôa, A. Stepanova, J. Stewart, B. Stillwell, J. Stock, F. Stocker, T. Stokes, M. Strait, T. Strauss, L. Strigari, A. Stuart, J. G. Suarez, J. Subash, A. Surdo, L. Suter, C. M. Sutera, K. Sutton, Y. Suvorov, R. Svoboda, S. K. Swain, B. Szczerbinska, A. M. Szelc, A. Sztuc, A. Taffara, N. Talukdar, J. Tamara, H. A. Tanaka, S. Tang, N. Taniuchi, A. M. Tapia Casanova, B. Tapia Oregui, A. Tapper, S. Tariq, E. Tarpara, E. Tatar, R. Tayloe, D. Tedeschi, A. M. Teklu, J. Tena Vidal, P. Tennessen, M. Tenti, K. Terao, F. Terranova, G. Testera, T. Thakore, A. Thea, A. Thiebault, S. Thomas, A. Thompson, C. Thorn, S. C. Timm, E. Tiras, V. Tishchenko, N. Todorović, L. Tomassetti, A. Tonazzo, D. Torbunov, M. Torti, M. Tortola, F. Tortorici, N. Tosi, D. Totani, M. Toups, C. Touramanis, D. Tran, R. Travaglini, J. Trevor, E. Triller, S. Trilov, J. Truchon, D. Truncali, W. H. Trzaska, Y. Tsai, Y.-T. Tsai, Z. Tsamalaidze, K. V. Tsang, N. Tsverava, S. Z. Tu, S. Tufanli, C. Tunnell, J. Turner, M. Tuzi, J. Tyler, E. Tyley, M. Tzanov, M. A. Uchida, J. Ureña González, J. Urheim, T. Usher, H. Utaegbulam, S. Uzunyan, M. R. Vagins, P. Vahle, S. Valder, G. A. Valdiviesso, E. Valencia, R. Valentim, Z. Vallari, E. Vallazza, J. W. F. Valle, R. Van Berg, R. G. Van de Water, D. V. Forero, A. Vannozzi, M. Van Nuland-Troost, F. Varanini, D. Vargas Oliva, S. Vasina, N. Vaughan, K. Vaziri, A. Vázquez-Ramos, J. Vega, S. Ventura, A. Verdugo, S. Vergani, M. Verzocchi, K. Vetter, M. Vicenzi, H. Vieira de Souza, C. Vignoli, C. Vilela, E. Villa, S. Viola, B. Viren, A. Vizcaya-Hernandez, T. Vrba, Q. Vuong, A. V. Waldron, M. Wallbank, J. Walsh, T. Walton, H. Wang, J. Wang, L. Wang, M. H. L. S. Wang, X. Wang, Y. Wang, K. Warburton, D. Warner, L. Warsame, M. O. Wascko, D. Waters, A. Watson, K. Wawrowska, A. Weber, C. M. Weber, M. Weber, H. Wei, A. Weinstein, H. Wenzel, S. Westerdale, M. Wetstein, K. Whalen, J. Whilhelmi, A. White, L. H. Whitehead, D. Whittington, M. J. Wilking, A. Wilkinson, C. Wilkinson, F. Wilson, R. J. Wilson, P. Winter, W. Wisniewski, J. Wolcott, J. Wolfs, T. Wongjirad, A. Wood, K. Wood, E. Worcester, M. Worcester, M. Wospakrik, K. Wresilo, C. Wret, S. Wu, W. Wu, M. Wurm, J. Wyenberg, Y. Xiao, I. Xiotidis, B. Yaeggy, N. Yahlali, E. Yandel, K. Yang, T. Yang, A. Yankelevich, N. Yershov, K. Yonehara, T. Young, B. Yu, H. Yu, J. Yu, Y. Yu, W. Yuan, R. Zaki, J. Zalesak, L. Zambelli, B. Zamorano, A. Zani, O. Zapata, L. Zazueta, G. P. Zeller, J. Zennamo, K. Zeug, C. Zhang, S. Zhang, M. Zhao, E. Zhivun, E. D. Zimmerman, S. Zucchelli, J. Zuklin, V. Zutshi, R. Zwaska, and on behalf of the DUNE Collaboration

Subjects
neutrino, near detector, Deep Underground Neutrino Experiment, DUNE, Physics, QC1-999, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

The Module-0 Demonstrator is a single-phase 600 kg liquid argon time projection chamber operated as a prototype for the DUNE liquid argon near detector. Based on the ArgonCube design concept, Module-0 features a novel 80k-channel pixelated charge readout and advanced high-coverage photon detection system. In this paper, we present an analysis of an eight-day data set consisting of 25 million cosmic ray events collected in the spring of 2021. We use this sample to demonstrate the imaging performance of the charge and light readout systems as well as the signal correlations between the two. We also report argon purity and detector uniformity measurements and provide comparisons to detector simulations.

Published
2024
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10. Enhancing Peer Mediation among Linguistically Diverse Learners during Peer Led Small Group Discussions in Elementary Science and Social Studies Classrooms

Author

Himmel, Jennifer Gisi

Abstract

Findings from qualitative studies reveal an array of discursive supports that peers employ to mediate language and literacy for one another during collaborative and cooperative learning. Quantitative studies posit that enhanced literacy outcomes can result from students participating in these peer mediated tasks. Studies also suggest that the quality of talk employed by learners during these peer mediated tasks can be measured, and that higher quality talk can lead to enhanced learning. However, no study to date investigates both the discursive supports offered during peer mediated learning and robustly describes how they can lead to higher quality talk among elementary students who are learning in a second language. Moreover, little is known about how student uptake of these supports differs for elementary learners according to their English learner (EL) status. As a result, teachers do not have the pedagogical knowledge necessary to leverage all the benefits that peer interaction confers upon elementary ELs specifically. To address this gap in the research, my study explored and analyzed the impact of discursive supports on 52 third and fourth grade learners from two linguistically diverse classrooms during peer mediated small group discussions within science and social studies lessons. My embedded case study qualitatively explored how peers provided and responded to discursive supports from those in both an instructional and a peer role during small group discussions on informational texts. My study also probed the relationship between peer mediation and discussions that were more exploratory in nature. I coded and evaluated the types of discursive supports offered by students identified as ELs and non-ELs during small group discussions. I measured the frequency of the discursive supports provided during peer mediation and investigated student uptake of the supports. Using classroom observation data, field notes, instructional artifacts, and interview data, I examined the relations among the frequencies of different discursive supports for ELs and non-ELs, focusing on those that occurred in talk characterized as exploratory. My analyses reveal that ELs provided similar discursive supports as non-ELs, including support that is more likely to lead to exploratory talk. The findings also suggest a relationship between student uptake of discursive supports during peer mediated learning and exploratory talk, and that student uptake of supports might be an important mechanism to explore further in order to better understand how peer mediation enhances learning for ELs. I offer recommendations for future research and for classroom teachers who wish to implement peer led small group discussions on informational texts in elementary classrooms. [The dissertation citations contained here are published with the permission of ProQuest LLC. Further reproduction is prohibited without permission. Copies of dissertations may be obtained by Telephone (800) 1-800-521-0600. Web page: http://www.proquest.com/en-US/products/dissertations/individuals.shtml.]

Published
2023

13. Spatial distribution of tumor-associated macrophages in an orthotopic prostate cancer mouse model

Author

Korie A. Grayson, Joshua D. Greenlee, Lauren E. Himmel, Lauren A. Hapach, Cynthia A. Reinhart-King, and Michael R. King

Subjects
tumor-associated macrophages, TRAIL, liposomes, prostate cancer, pathologic analysis, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282, Pathology, RB1-214
Abstract

Mounting evidence suggests that the immune landscape within prostate tumors influences progression, metastasis, treatment response, and patient outcomes. In this study, we investigated the spatial density of innate immune cell populations within NOD.SCID orthotopic prostate cancer xenografts following microinjection of human DU145 prostate cancer cells. Our laboratory has previously developed nanoscale liposomes that attach to leukocytes via conjugated E-selectin (ES) and kill cancer cells via TNF-related apoptosis inducing ligand (TRAIL). Immunohistochemistry (IHC) staining was performed on tumor samples to identify and quantify leukocyte infiltration for different periods of tumor growth and E-selectin/TRAIL (EST) liposome treatments. We examined the spatial-temporal dynamics of three different immune cell types infiltrating tumors using QuPath image analysis software. IHC staining revealed that F4/80+ tumor-associated macrophages (TAMs) were the most abundant immune cells in all groups, irrespective of time or treatment. The density of TAMs decreased over the course of tumor growth and decreased in response to EST liposome treatments. Intratumoral versus marginal analysis showed a greater presence of TAMs in the marginal regions at 3 weeks of tumor growth which became more evenly distributed over time and in tumors treated with EST liposomes. TUNEL staining indicated that EST liposomes significantly increased cell apoptosis in treated tumors. Additionally, confocal microscopy identified liposome-coated TAMs in both the core and periphery of tumors, highlighting the ability of liposomes to infiltrate tumors by “piggybacking” on macrophages. The results of this study indicate that TAMs represent the majority of innate immune cells within NOD.SCID orthotopic prostate tumors, and spatial density varies widely as a function of tumor size, duration of tumor growth, and treatment of EST liposomes.

Published
2024
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14. Unexpected absence of exo-erythrocytic merogony during high gametocytaemia in two species of Haemoproteus (Haemosporida: Haemoproteidae), including description of Haemoproteus angustus n. sp. (lineage hCWT7) and a report of previously unknown residual bodies during in vitro gametogenesis

Author

Gediminas Valkiūnas, Tatjana Iezhova, Mikas Ilgūnas, Mélanie Tchoumbou, Mélanie Duc, Dovilė Bukauskaitė, Tanja Himmel, Josef Harl, and Herbert Weissenböck

Subjects
Avian haemosporidian parasites, New species, Tissue merogony, In vitro gametogenesis, Chromogenic in situ hybridization, DNA haplotype network, Zoology, QL1-991
Abstract

Neglected avian blood parasites of the genus Haemoproteus (Haemoproteidae) have recently attracted attention due to the application of molecular diagnostic tools, which unravelled remarkable diversity of their exo-erythrocytic (or tissue) stages both regarding morphology and organ tropism levels. The development of haemoproteids might result in pathologies of internal organs, however the exo-erythrocytic development (EED) of most Haemoproteus species remains unknown. Seven individual birds - Curruca communis (1) and Phylloscopus trochilus (6) – with high gametocytaemia (between 1% and 24%) of Haemoproteus angustus n. sp. (hCWT7) and Haemoproteus palloris (lineage hWW1) were sampled in Lithuania, and their internal organs were examined extensively by parallel application of histology and chromogenic in situ hybridization methods. Tissue stages were apparently absent, suggesting that the parasitaemia was not accompanied by detectable tissue merogony. Haemoproteus angustus n. sp. was described and characterized morphologically and molecularly. Sexual process and ookinete development of the new species readily occurred in vitro, and a unique character for Haemoproteus parasites was discovered – the obligatory development of several tiny residual bodies, which were associated with intracellular transformation of both macrogametocytes and microgametocytes before their escape from the host cells and formation of gametes. A DNA haplotype network was constructed with lineages that cluster in one clade with the lineage hCWT7. This clade consists of lineages mostly found in Curruca birds, indicating specificity for birds of this genus. The lineage hCWT7 is mainly a parasite of C. communis. Most reports of this lineage came from Turkey, with only a few records in Europe, mostly in birds wintering in Africa where transmission probably occurs. This study highlights unexpected difficulties in the research of EED even when using sensitive molecular diagnostic tools and extends information about transformation in early stages of gametogenesis in haemosporidian parasites.

Published
2024
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15. Unexpected absence of exo-erythrocytic merogony during high gametocytaemia in two species of Haemoproteus (Haemosporida: Haemoproteidae), including description of Haemoproteus angustus n. sp. (lineage hCWT7) and a report of previously unknown residual bodies during in vitro gametogenesis

Author

Valkiūnas, Gediminas, Iezhova, Tatjana, Ilgūnas, Mikas, Tchoumbou, Mélanie, Duc, Mélanie, Bukauskaitė, Dovilė, Himmel, Tanja, Harl, Josef, and Weissenböck, Herbert

Published
2024
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20. The 18S rRNA genes of Haemoproteus (Haemosporida, Apicomplexa) parasites from European songbirds with remarks on improved parasite diagnostics

Author

Josef Harl, Tanja Himmel, Mikas Ilgūnas, Gediminas Valkiūnas, and Herbert Weissenböck

Subjects
Birth-and-death evolution, Semi-concerted evolution, Parahaemoproteus, Ribosomal genes, Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background The nuclear ribosomal RNA genes of Plasmodium parasites are assumed to evolve according to a birth-and-death model with new variants originating by duplication and others becoming deleted. For some Plasmodium species, it has been shown that distinct variants of the 18S rRNA genes are expressed differentially in vertebrate hosts and mosquito vectors. The central aim was to evaluate whether avian haemosporidian parasites of the genus Haemoproteus also have substantially distinct 18S variants, focusing on lineages belonging to the Haemoproteus majoris and Haemoproteus belopolskyi species groups. Methods The almost complete 18S rRNA genes of 19 Haemoproteus lineages of the subgenus Parahaemoproteus, which are common in passeriform birds from the Palaearctic, were sequenced. The PCR products of 20 blood and tissue samples containing 19 parasite lineages were subjected to molecular cloning, and ten clones in mean were sequenced each. The sequence features were analysed and phylogenetic trees were calculated, including sequence data published previously from eight additional Parahaemoproteus lineages. The geographic and host distribution of all 27 lineages was visualised as CytB haplotype networks and pie charts. Based on the 18S sequence data, species-specific oligonucleotide probes were designed to target the parasites in host tissue by in situ hybridization assays. Results Most Haemoproteus lineages had two or more variants of the 18S gene like many Plasmodium species, but the maximum distances between variants were generally lower. Moreover, unlike in most mammalian and avian Plasmodium species, the 18S sequences of all but one parasite lineage clustered into reciprocally monophyletic clades. Considerably distinct 18S clusters were only found in Haemoproteus tartakovskyi hSISKIN1 and Haemoproteus sp. hROFI1. The presence of chimeric 18S variants in some Haemoproteus lineages indicates that their ribosomal units rather evolve in a semi-concerted fashion than according to a strict model of birth-and-death evolution. Conclusions Parasites of the subgenus Parahaemoproteus contain distinct 18S variants, but the intraspecific variability is lower than in most mammalian and avian Plasmodium species. The new 18S data provides a basis for more thorough investigations on the development of Haemoproteus parasites in host tissue using in situ hybridization techniques targeting specific parasite lineages.

Published
2023
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21. Reconstruction of interactions in the ProtoDUNE-SP detector with Pandora

Author

A. Abed Abud, B. Abi, R. Acciarri, M. A. Acero, M. R. Adames, G. Adamov, M. Adamowski, D. Adams, M. Adinolfi, C. Adriano, A. Aduszkiewicz, J. Aguilar, Z. Ahmad, J. Ahmed, B. Aimard, F. Akbar, B. Ali-Mohammadzadeh, K. Allison, S. Alonso Monsalve, M. AlRashed, C. Alt, A. Alton, R. Alvarez, P. Amedo, J. Anderson, C. Andreopoulos, M. Andreotti, M. Andrews, F. Andrianala, S. Andringa, N. Anfimov, A. Ankowski, M. Antoniassi, M. Antonova, A. Antoshkin, S. Antusch, A. Aranda-Fernandez, L. Arellano, L. O. Arnold, M. A. Arroyave, J. Asaadi, L. Asquith, A. Aurisano, V. Aushev, D. Autiero, V. Ayala Lara, M. Ayala-Torres, F. Azfar, A. Back, H. Back, J. J. Back, C. Backhouse, I. Bagaturia, L. Bagby, N. Balashov, S. Balasubramanian, P. Baldi, B. Baller, B. Bambah, F. Barao, G. Barenboim, G. Barker, W. Barkhouse, C. Barnes, G. Barr, J. Barranco Monarca, A. Barros, N. Barros, J. L. Barrow, A. Basharina-Freshville, A. Bashyal, V. Basque, C. Batchelor, J. Battat, F. Battisti, F. Bay, M. C. Q. Bazetto, J. L. Bazo Alba, J. F. Beacom, E. Bechetoille, B. Behera, E. Belchior Batista das Chagas, L. Bellantoni, G. Bellettini, V. Bellini, O. Beltramello, N. Benekos, C. Benitez Montiel, F. Bento Neves, J. Berger, S. Berkman, P. Bernardini, R. M. Berner, A. Bersani, S. Bertolucci, M. Betancourt, A. Betancur Rodríguez, A. Bevan, Y. Bezawada, A. T. Bezerra, T. J. Bezerra, A. Bhardwaj, V. Bhatnagar, M. Bhattacharjee, D. Bhattarai, S. Bhuller, B. Bhuyan, S. Biagi, J. Bian, M. Biassoni, K. Biery, B. Bilki, M. Bishai, A. Bitadze, A. Blake, F. D. M. Blaszczyk, G. C. Blazey, E. Blucher, J. Boissevain, S. Bolognesi, T. Bolton, L. Bomben, M. Bonesini, C. Bonilla-Diaz, F. Bonini, A. Booth, F. Boran, S. Bordoni, A. Borkum, N. Bostan, P. Bour, D. Boyden, J. Bracinik, D. Braga, D. Brailsford, A. Branca, A. Brandt, J. Bremer, C. Brew, S. J. Brice, C. Brizzolari, C. Bromberg, J. Brooke, A. Bross, G. Brunetti, M. Brunetti, N. Buchanan, H. Budd, I. Butorov, I. Cagnoli, T. Cai, D. Caiulo, R. Calabrese, P. Calafiura, J. Calcutt, M. Calin, S. Calvez, E. Calvo, A. Caminata, A. Campos Benitez, D. Caratelli, D. Carber, J. M. Carceller, G. Carini, B. Carlus, M. F. Carneiro, P. Carniti, I. Caro Terrazas, H. Carranza, T. Carroll, J. F. Castaño Forero, A. Castillo, C. Castromonte, E. Catano-Mur, C. Cattadori, F. Cavalier, G. Cavallaro, F. Cavanna, S. Centro, G. Cerati, A. Cervelli, A. Cervera Villanueva, M. Chalifour, A. Chappell, E. Chardonnet, N. Charitonidis, A. Chatterjee, S. Chattopadhyay, M. S. Chavarry Neyra, H. Chen, M. Chen, Y. Chen, Z. Chen, Z. Chen-Wishart, Y. Cheon, D. Cherdack, C. Chi, S. Childress, R. Chirco, A. Chiriacescu, K. Cho, S. Choate, D. Chokheli, P. S. Chong, A. Christensen, D. Christian, G. Christodoulou, A. Chukanov, M. Chung, E. Church, V. Cicero, P. Clarke, G. Cline, T. E. Coan, A. G. Cocco, J. Coelho, J. Collot, N. Colton, E. Conley, R. Conley, J. Conrad, M. Convery, S. Copello, P. Cova, L. Cremaldi, L. Cremonesi, J. I. Crespo-Anadón, M. Crisler, E. Cristaldo, J. Crnkovic, R. Cross, A. Cudd, C. Cuesta, Y. Cui, D. Cussans, J. Dai, O. Dalager, H. Da Motta, L. Da Silva Peres, C. David, Q. David, G. S. Davies, S. Davini, J. Dawson, K. De, S. De, P. Debbins, I. De Bonis, M. Decowski, A. De Gouvea, P. C. De Holanda, I. L. De Icaza Astiz, A. Deisting, P. De Jong, A. Delbart, V. De Leo, D. Delepine, M. Delgado, A. Dell’Acqua, N. Delmonte, P. De Lurgio, J. R. De Mello Neto, D. M. DeMuth, S. Dennis, C. Densham, G. W. Deptuch, A. De Roeck, V. De Romeri, G. De Souza, R. Devi, R. Dharmapalan, M. Dias, J. Diaz, F. Díaz, F. Di Capua, A. Di Domenico, S. Di Domizio, L. Di Giulio, P. Ding, L. Di Noto, G. Dirkx, C. Distefano, R. Diurba, M. Diwan, Z. Djurcic, D. Doering, S. Dolan, F. Dolek, M. Dolinski, L. Domine, Y. Donon, D. Douglas, A. Dragone, G. Drake, F. Drielsma, L. Duarte, D. Duchesneau, K. Duffy, P. Dunne, B. Dutta, H. Duyang, O. Dvornikov, D. Dwyer, A. Dyshkant, M. Eads, A. Earle, D. Edmunds, J. Eisch, L. Emberger, S. Emery, P. 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Kobilarcik, K. Koehler, L. W. Koerner, D. H. Koh, S. Kohn, P. P. Koller, L. Kolupaeva, D. Korablev, M. Kordosky, T. Kosc, U. Kose, V. Kostelecky, K. Kothekar, R. Kralik, L. Kreczko, F. Krennrich, I. Kreslo, W. Kropp, T. Kroupova, S. Kubota, Y. Kudenko, V. A. Kudryavtsev, S. Kuhlmann, S. Kulagin, J. Kumar, P. Kumar, P. Kunze, R. Kuravi, N. Kurita, C. Kuruppu, V. Kus, T. Kutter, J. Kvasnicka, D. Kwak, A. Lambert, B. Land, C. E. Lane, K. Lang, T. Langford, M. Langstaff, J. Larkin, P. Lasorak, D. Last, A. Laundrie, G. Laurenti, A. Lawrence, I. Lazanu, R. LaZur, M. Lazzaroni, T. Le, S. Leardini, J. Learned, P. LeBrun, T. LeCompte, C. Lee, S. Lee, G. Lehmann Miotto, R. Lehnert, M. Leigui de Oliveira, M. Leitner, L. M. Lepin, S. Li, Y. Li, H. Liao, C. Lin, Q. Lin, S. Lin, R. A. Lineros, J. Ling, A. Lister, B. R. Littlejohn, J. Liu, Y. Liu, S. Lockwitz, T. Loew, M. Lokajicek, I. Lomidze, K. Long, T. Lord, J. LoSecco, W. C. Louis, X. Lu, K. Luk, B. Lunday, X. Luo, E. Luppi, T. Lux, V. P. Luzio, J. Maalmi, D. MacFarlane, A. Machado, P. Machado, C. Macias, J. Macier, A. Maddalena, A. Madera, P. Madigan, S. Magill, K. Mahn, A. Maio, A. Major, J. A. Maloney, G. Mandrioli, R. C. Mandujano, J. C. Maneira, L. Manenti, S. Manly, A. Mann, K. Manolopoulos, M. Manrique Plata, V. N. Manyam, M. Marchan, A. Marchionni, W. Marciano, D. Marfatia, C. Mariani, J. Maricic, R. Marie, F. Marinho, A. D. Marino, T. Markiewicz, D. Marsden, M. Marshak, C. Marshall, J. Marshall, J. Marteau, J. Martín-Albo, N. Martinez, D. A. Martinez Caicedo, P. Martínez Miravé, S. Martynenko, V. Mascagna, K. Mason, A. Mastbaum, F. Matichard, S. Matsuno, J. Matthews, C. Mauger, N. Mauri, K. Mavrokoridis, I. Mawby, R. Mazza, A. Mazzacane, E. Mazzucato, T. McAskill, E. McCluskey, N. McConkey, K. S. McFarland, C. McGrew, A. McNab, A. Mefodiev, P. Mehta, P. Melas, O. Mena, H. Mendez, P. Mendez, D. P. Méndez, A. Menegolli, G. Meng, M. Messier, W. Metcalf, M. Mewes, H. Meyer, T. Miao, G. Michna, V. Mikola, R. Milincic, G. Miller, W. Miller, J. Mills, O. Mineev, A. Minotti, O. G. Miranda, S. Miryala, C. Mishra, S. Mishra, A. Mislivec, M. Mitchell, D. Mladenov, I. Mocioiu, K. Moffat, N. Moggi, R. Mohanta, T. A. Mohayai, N. Mokhov, J. A. Molina, L. Molina Bueno, E. Montagna, A. Montanari, C. Montanari, D. Montanari, D. Montanino, L. M. Montaño Zetina, S. Moon, M. Mooney, A. F. Moor, D. Moreno, D. Moretti, C. Morris, C. Mossey, M. Mote, E. Motuk, C. A. Moura, J. Mousseau, G. Mouster, W. Mu, L. Mualem, J. Mueller, M. Muether, S. Mufson, F. Muheim, A. Muir, M. Mulhearn, D. Munford, H. Muramatsu, M. Murphy, S. Murphy, J. Musser, J. Nachtman, Y. Nagai, S. Nagu, M. Nalbandyan, R. Nandakumar, D. Naples, S. Narita, A. Nath, A. Navrer-Agasson, N. Nayak, M. Nebot-Guinot, K. Negishi, J. K. Nelson, J. Nesbit, M. Nessi, D. Newbold, M. Newcomer, H. Newton, R. Nichol, F. Nicolas-Arnaldos, A. Nikolica, E. Niner, K. Nishimura, A. Norman, A. Norrick, R. Northrop, P. Novella, J. A. Nowak, M. Oberling, J. Ochoa-Ricoux, A. Olivier, A. Olshevskiy, Y. Onel, Y. Onishchuk, J. Ott, L. Pagani, G. Palacio, O. Palamara, S. Palestini, J. M. Paley, M. Pallavicini, C. Palomares, W. Panduro Vazquez, E. Pantic, V. Paolone, V. Papadimitriou, R. Papaleo, A. Papanestis, S. Paramesvaran, S. Parke, E. Parozzi, Z. Parsa, M. Parvu, S. Pascoli, L. Pasqualini, J. Pasternak, J. Pater, C. Patrick, L. Patrizii, R. B. Patterson, S. Patton, T. Patzak, A. Paudel, B. Paulos, L. Paulucci, Z. Pavlovic, G. Pawloski, D. Payne, V. Pec, S. J. Peeters, A. Pena Perez, E. Pennacchio, A. Penzo, O. L. Peres, J. Perry, D. Pershey, G. Pessina, G. Petrillo, C. Petta, R. Petti, V. Pia, F. Piastra, L. Pickering, F. Pietropaolo, V. L. Pimentel, G. Pinaroli, K. Plows, R. Plunkett, F. Pompa, X. Pons, N. Poonthottathil, F. Poppi, S. Pordes, J. Porter, S. Porzio, M. Potekhin, R. Potenza, B. V. Potukuchi, J. Pozimski, M. Pozzato, S. Prakash, T. Prakash, M. Prest, S. Prince, F. Psihas, D. Pugnere, X. Qian, J. Raaf, V. Radeka, J. Rademacker, B. Radics, A. Rafique, E. Raguzin, M. Rai, M. Rajaoalisoa, I. Rakhno, A. Rakotonandrasana, L. Rakotondravohitra, R. Rameika, M. Ramirez Delgado, B. Ramson, A. Rappoldi, G. Raselli, P. Ratoff, S. Raut, H. Razafinime, R. Razakamiandra, E. M. Rea, J. S. Real, B. Rebel, R. Rechenmacher, M. Reggiani-Guzzo, J. Reichenbacher, S. D. Reitzner, H. Rejeb Sfar, A. Renshaw, S. Rescia, F. Resnati, M. Ribas, S. Riboldi, C. Riccio, G. Riccobene, L. C. Rice, J. S. Ricol, A. Rigamonti, Y. Rigaut, E. V. Rincón, H. Ritchie-Yates, D. Rivera, A. Robert, J. Rocabado Rocha, L. Rochester, M. Roda, P. Rodrigues, J. V. Rodrigues da Silva Leite, M. J. Rodriguez Alonso, J. Rodriguez Rondon, S. Rosauro-Alcaraz, P. Rosier, B. Roskovec, M. Rossella, M. Rossi, J. Rout, P. Roy, A. Rubbia, C. Rubbia, B. Russell, D. Ruterbories, A. Rybnikov, A. Saa-Hernandez, R. Saakyan, S. Sacerdoti, N. Sahu, P. Sala, N. Samios, O. Samoylov, M. Sanchez, V. Sandberg, D. A. Sanders, D. Sankey, N. Saoulidou, P. Sapienza, C. Sarasty, I. Sarcevic, G. Savage, V. Savinov, A. Scaramelli, A. Scarff, A. Scarpelli, T. Schefke, H. Schellman, S. Schifano, P. Schlabach, D. Schmitz, A. W. Schneider, K. Scholberg, A. Schukraft, E. Segreto, A. Selyunin, C. R. Senise, J. Sensenig, D. Sgalaberna, M. Shaevitz, S. Shafaq, F. Shaker, M. Shamma, R. Sharankova, H. R. Sharma, R. Sharma, R. K. Sharma, K. Shaw, T. Shaw, K. Shchablo, C. Shepherd-Themistocleous, A. Sheshukov, S. Shin, I. Shoemaker, D. Shooltz, R. Shrock, H. Siegel, L. Simard, J. Sinclair, G. Sinev, J. Singh, L. Singh, P. Singh, V. Singh, R. Sipos, F. Sippach, G. Sirri, A. Sitraka, K. Siyeon, K. Skarpaas, E. Smith, P. Smith, J. Smolik, M. Smy, E. Snider, P. Snopok, D. Snowden-Ifft, M. Soares Nunes, H. Sobel, M. Soderberg, S. Sokolov, C. J. Solano Salinas, S. Söldner-Rembold, S. Soleti, N. Solomey, V. Solovov, W. E. Sondheim, M. Sorel, A. Sotnikov, J. Soto-Oton, F. Soto Ugaldi, A. Sousa, K. Soustruznik, F. Spagliardi, M. Spanu, J. Spitz, N. J. C. Spooner, K. Spurgeon, M. Stancari, L. Stanco, C. Stanford, R. Stein, H. Steiner, A. F. Steklain Lisbôa, J. Stewart, B. Stillwell, J. Stock, F. Stocker, T. Stokes, M. Strait, T. Strauss, L. Strigari, A. Stuart, J. G. Suarez, J. Suárez Sunción, H. Sullivan, A. Surdo, V. Susic, L. Suter, C. Sutera, Y. Suvorov, R. Svoboda, B. Szczerbinska, A. M. Szelc, N. Talukdar, H. Tanaka, S. Tang, B. Tapia Oregui, A. Tapper, S. Tariq, E. Tarpara, N. Tata, E. Tatar, R. Tayloe, A. Teklu, P. Tennessen, M. Tenti, K. Terao, C. A. Ternes, F. Terranova, G. Testera, T. Thakore, A. Thea, C. Thorn, S. Timm, V. Tishchenko, L. Tomassetti, A. Tonazzo, D. Torbunov, M. Torti, M. Tortola, F. Tortorici, N. Tosi, D. Totani, M. Toups, C. Touramanis, R. Travaglini, J. Trevor, S. Trilov, W. H. Trzaska, Y. Tsai, Z. Tsamalaidze, K. Tsang, N. Tsverava, S. Z. Tu, S. Tufanli, C. Tull, J. Tyler, E. Tyley, M. Tzanov, L. Uboldi, M. A. Uchida, J. Urheim, T. Usher, S. Uzunyan, M. R. Vagins, P. Vahle, S. Valder, G. D. Valdiviesso, E. Valencia, R. Valentim, Z. Vallari, E. Vallazza, J. W. Valle, S. Vallecorsa, R. Van Berg, R. G. Van de Water, D. Vanegas Forero, D. Vannerom, F. Varanini, D. Vargas Oliva, G. Varner, J. Vasel, S. Vasina, G. Vasseur, N. Vaughan, K. Vaziri, S. Ventura, A. Verdugo, S. Vergani, M. A. Vermeulen, M. Verzocchi, M. Vicenzi, H. Vieira de Souza, C. Vignoli, C. Vilela, B. Viren, T. Vrba, T. Wachala, A. V. Waldron, M. Wallbank, C. Wallis, T. Walton, H. Wang, J. Wang, L. Wang, M. H. Wang, X. Wang, Y. Wang, K. Warburton, D. Warner, M. Wascko, D. Waters, A. Watson, K. Wawrowska, P. Weatherly, A. Weber, M. Weber, H. Wei, A. Weinstein, D. Wenman, M. Wetstein, A. White, L. H. Whitehead, D. Whittington, M. J. Wilking, A. Wilkinson, C. Wilkinson, Z. Williams, F. Wilson, R. J. Wilson, W. Wisniewski, J. Wolcott, T. Wongjirad, A. Wood, K. Wood, E. Worcester, M. Worcester, K. Wresilo, C. Wret, W. Wu, Y. Xiao, B. Yaeggy, E. Yandel, G. Yang, K. Yang, T. Yang, A. Yankelevich, N. Yershov, K. Yonehara, Y. Yoon, T. Young, B. Yu, H. Yu, J. Yu, Y. Yu, W. Yuan, R. Zaki, J. Zalesak, L. Zambelli, B. Zamorano, A. Zani, L. Zazueta, G. Zeller, J. Zennamo, K. Zeug, C. Zhang, S. Zhang, Y. Zhang, M. Zhao, E. Zhivun, G. Zhu, E. D. Zimmerman, S. Zucchelli, J. Zuklin, V. Zutshi, R. Zwaska, and DUNE Collaboration

Subjects
Astrophysics, QB460-466, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

Abstract The Pandora Software Development Kit and algorithm libraries provide pattern-recognition logic essential to the reconstruction of particle interactions in liquid argon time projection chamber detectors. Pandora is the primary event reconstruction software used at ProtoDUNE-SP, a prototype for the Deep Underground Neutrino Experiment far detector. ProtoDUNE-SP, located at CERN, is exposed to a charged-particle test beam. This paper gives an overview of the Pandora reconstruction algorithms and how they have been tailored for use at ProtoDUNE-SP. In complex events with numerous cosmic-ray and beam background particles, the simulated reconstruction and identification efficiency for triggered test-beam particles is above 80% for the majority of particle type and beam momentum combinations. Specifically, simulated 1 GeV/c charged pions and protons are correctly reconstructed and identified with efficiencies of 86.1 $$\pm 0.6$$ ± 0.6 % and 84.1 $$\pm 0.6$$ ± 0.6 %, respectively. The efficiencies measured for test-beam data are shown to be within 5% of those predicted by the simulation.

Published
2023
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26. Isospora and Lankesterella Parasites (Eimeriidae, Apicomplexa) of Passeriform Birds in Europe: Infection Rates, Phylogeny, and Pathogenicity

Author

Carina Keckeisen, Alžbeta Šujanová, Tanja Himmel, Julia Matt, Nora Nedorost, Carolina R. F. Chagas, Herbert Weissenböck, and Josef Harl

Subjects
Isospora, Lankesterella, tissue stages, wild birds, chromogenic in situ hybridization, cytochrome b, Medicine
Abstract

Wild birds are common hosts to numerous intracellular parasites such as single-celled eukaryotes of the family Eimeriidae (order Eucoccidiorida, phylum Apicomplexa). We investigated the infection rates, phylogeny, and pathogenicity of Isospora and Lankesterella parasites in wild and captive passerine birds. Blood and tissue samples of 815 wild and 15 deceased captive birds from Europe were tested using polymerase chain reaction and partial sequencing of the mitochondrial cytochrome b and cytochrome c oxidase I and the nuclear 18S rRNA gene. The infection rate for Lankesterella in wild birds was 10.7% compared to 5.8% for Isospora. Chromogenic in situ hybridization with probes targeting the parasites’ 18S rRNA was employed to identify the parasites’ presence in multiple organs, and hematoxylin–eosin staining was performed to visualize the parasite stages and assess associated lesions. Isospora parasites were mainly identified in the intestine, spleen, and liver. Extraintestinal tissue stages of Isospora were accompanied by predominantly lymphohistiocytic inflammation of varying severity. Lankesterella was most frequently detected in the spleen, lung, and brain; however, infected birds presented only a low parasite burden without associated pathological changes. These findings contribute to our understanding of Isospora and Lankesterella parasites in wild birds.

Published
2024
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27. Fast Parameterized Preprocessing for Polynomial-Time Solvable Graph Problems.

Author

Himmel, Anne-Sophie, Mertzios, George B., Nichterlein, André, and Niedermeier, Rolf

Subjects
*PARAMETERIZATION, *POLYNOMIAL time algorithms, *NP-hard problems, *COMPUTATIONAL complexity, *DATA structures
Abstract

This article examines the angle of parameterized preprocessing to overcome complexity barriers for polynomial-time solvable problems. Three concepts of parameterized preprocessing are explored in detail in this research- parameterized size reduction, parameterized structure simplification, and parameterized data structure design.

Published
2024
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29. Reconstruction of interactions in the ProtoDUNE-SP detector with Pandora

Author

Abud, A. Abed, Abi, B., Acciarri, R., Acero, M. A., Adames, M. R., Adamov, G., Adamowski, M., Adams, D., Adinolfi, M., Adriano, C., Aduszkiewicz, A., Aguilar, J., Ahmad, Z., Ahmed, J., Aimard, B., Akbar, F., Ali-Mohammadzadeh, B., Allison, K., Monsalve, S. Alonso, AlRashed, M., Alt, C., Alton, A., Alvarez, R., Amedo, P., Anderson, J., Andreopoulos, C., Andreotti, M., Andrews, M., Andrianala, F., Andringa, S., Anfimov, N., Ankowski, A., Antoniassi, M., Antonova, M., Antoshkin, A., Antusch, S., Aranda-Fernandez, A., Arellano, L., Arnold, L. O., Arroyave, M. A., Asaadi, J., Asquith, L., Aurisano, A., Aushev, V., Autiero, D., Ayala Lara, V., Ayala-Torres, M., Azfar, F., Back, A., Back, H., Back, J. J., Backhouse, C., Bagaturia, I., Bagby, L., Balashov, N., Balasubramanian, S., Baldi, P., Baller, B., Bambah, B., Barao, F., Barenboim, G., Barker, G., Barkhouse, W., Barnes, C., Barr, G., Monarca, J. Barranco, Barros, A., Barros, N., Barrow, J. 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Published
2023
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30. Molecular and epidemiological surveillance of Plasmodium spp. during a mortality event affecting Humboldt penguins (Spheniscus humboldti) at a zoo in the UK

Author

Merit González-Olvera, Arturo Hernandez-Colina, Tanja Himmel, Lindsay Eckley, Javier Lopez, Julian Chantrey, Matthew Baylis, and Andrew P. Jackson

Subjects
Avian malaria, Culex, Mosquito, Penguin, Plasmodium, Spheniscus, Zoology, QL1-991
Abstract

In 2017, a mortality event affected Humboldt penguins at Chester Zoo (UK), which coincided with the diagnosis of avian malaria (AM) in some birds. AM is found worldwide wherever a competent mosquito vector is present, but the disease is particularly severe in penguins and other species that originate from non-endemic regions. To better understand the role of AM and manage its threat to penguin collections, Plasmodium was surveyed through PCR at Chester Zoo in mosquitoes, penguins, and dead free-living wild birds during and around the mortality event. Additional sequences were obtained from penguin fatalities from four other UK zoological collections. All sequences were integrated into phylogenetic analyses to determine parasite species and lineages. In total, 753/6459 positive mosquitoes were recorded (11.7% prevalence), reaching a weekly peak of 30% prevalence in mid-summer. Among penguin fatalities at Chester Zoo, several penguins presented signs and lesions compatible with AM; nevertheless, exoerythrocytic meronts were identified in only one case and Plasmodium spp. was identified in 5/22 birds. Phylogenetic analysis revealed at least five parasite cytb lineages of three Plasmodium species (P. matutinum, P. relictum and P. vaughani) circulating in mosquitoes at Chester Zoo; however, infections in free-living wild birds and penguins were only from P. matutinum. Plasmodium matutinum was confirmed as the cause of death of one penguin and was highly suspected to be the cause of death of another three. The lineage LINN1 was associated with 4/5 penguin infections. AM had a key role in the penguin multicausal mortality event. Understanding the risk of AM to penguin collections at Chester Zoo and elsewhere requires long-term surveillance to examine the association between Plasmodium infection and penguin mortality and the variability in parasite virulence. Surveillance of Plasmodium spp. in mosquitoes and local birds provides information about the parasite's transmission cycle locally, and could warn about infection risks to species of interest, which is essential for efficient disease control and prevention.

Published
2022
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32. Separation of track- and shower-like energy deposits in ProtoDUNE-SP using a convolutional neural network

Author

A. Abed Abud, B. Abi, R. Acciarri, M. A. Acero, M. R. Adames, G. Adamov, M. Adamowski, D. Adams, M. Adinolfi, A. Aduszkiewicz, J. Aguilar, Z. Ahmad, J. Ahmed, B. Aimard, B. Ali-Mohammadzadeh, T. Alion, K. Allison, S. Alonso Monsalve, M. AlRashed, C. Alt, A. Alton, R. Alvarez, P. Amedo, J. Anderson, C. Andreopoulos, M. Andreotti, M. Andrews, F. Andrianala, S. Andringa, N. Anfimov, A. Ankowski, M. Antoniassi, M. Antonova, A. Antoshkin, S. Antusch, A. Aranda-Fernandez, L. Arellano, L. O. Arnold, M. A. Arroyave, J. Asaadi, L. Asquith, A. Aurisano, V. Aushev, D. Autiero, V. Ayala Lara, M. Ayala-Torres, F. Azfar, M. Babicz, A. Back, H. Back, J. J. Back, C. Backhouse, I. Bagaturia, L. Bagby, N. Balashov, S. Balasubramanian, P. Baldi, B. Baller, B. Bambah, F. Barao, G. Barenboim, G. Barker, W. Barkhouse, C. Barnes, G. Barr, J. Barranco Monarca, A. Barros, N. Barros, J. L. Barrow, A. Basharina-Freshville, A. Bashyal, V. Basque, C. Batchelor, E. Batista das Chagas, J. Battat, F. Battisti, F. Bay, M. C. Q. Bazetto, J. Bazo Alba, J. F. Beacom, E. Bechetoille, B. Behera, C. Beigbeder, L. Bellantoni, G. Bellettini, V. Bellini, O. Beltramello, N. Benekos, C. Benitez Montiel, F. Bento Neves, J. Berger, S. Berkman, P. Bernardini, R. M. Berner, A. Bersani, S. Bertolucci, M. Betancourt, A. Betancur Rodríguez, A. Bevan, Y. Bezawada, T. S. Bezerra, A. Bhardwaj, V. Bhatnagar, M. Bhattacharjee, D. Bhattarai, S. Bhuller, B. Bhuyan, S. Biagi, J. Bian, M. Biassoni, K. Biery, B. Bilki, M. Bishai, A. Bitadze, A. Blake, F. Blaszczyk, G. Blazey, E. Blucher, J. Boissevain, S. Bolognesi, T. Bolton, L. Bomben, M. Bonesini, M. Bongrand, C. Bonilla-Diaz, F. Bonini, A. Booth, F. Boran, S. Bordoni, A. Borkum, N. Bostan, P. Bour, C. Bourgeois, D. Boyden, J. Bracinik, D. Braga, D. Brailsford, A. Branca, A. Brandt, J. Bremer, D. Breton, C. Brew, S. J. Brice, C. Brizzolari, C. Bromberg, J. Brooke, A. Bross, G. Brunetti, M. Brunetti, N. Buchanan, H. Budd, I. Butorov, I. Cagnoli, T. Cai, D. Caiulo, R. Calabrese, P. Calafiura, J. Calcutt, M. Calin, S. Calvez, E. Calvo, A. Caminata, M. Campanelli, D. Caratelli, D. Carber, J. Carceller, G. Carini, B. Carlus, M. F. Carneiro, P. Carniti, I. Caro Terrazas, H. Carranza, T. Carroll, J. F. Castaño Forero, A. Castillo, C. Castromonte, E. Catano-Mur, C. Cattadori, F. Cavalier, G. Cavallaro, F. Cavanna, S. Centro, G. Cerati, A. Cervelli, A. Cervera Villanueva, M. Chalifour, A. Chappell, E. Chardonnet, N. Charitonidis, A. Chatterjee, S. Chattopadhyay, M. Chavarry Neyra, H. Chen, M. Chen, Y. Chen, Z. Chen, Z. Chen-Wishart, Y. Cheon, D. Cherdack, C. Chi, S. Childress, R. Chirco, A. Chiriacescu, G. Chisnall, K. Cho, S. Choate, D. Chokheli, P. S. Chong, A. Christensen, D. Christian, G. Christodoulou, A. Chukanov, M. Chung, E. Church, V. Cicero, P. Clarke, G. Cline, T. E. Coan, A. G. Cocco, J. Coelho, N. Colton, E. Conley, R. Conley, J. Conrad, M. Convery, S. Copello, P. Cova, L. Cremaldi, L. Cremonesi, J. I. Crespo-Anadón, M. Crisler, E. Cristaldo, J. Crnkovic, R. Cross, A. Cudd, C. Cuesta, Y. Cui, D. Cussans, O. Dalager, H. Da Motta, L. Da Silva Peres, C. David, Q. David, G. S. Davies, S. Davini, J. Dawson, K. De, S. De, P. Debbins, I. De Bonis, M. Decowski, A. De Gouvea, P. C. De Holanda, I. L. De Icaza Astiz, A. Deisting, P. De Jong, A. Delbart, D. Delepine, M. Delgado, A. Dell’Acqua, N. Delmonte, P. De Lurgio, J. R. De Mello Neto, D. M. DeMuth, S. Dennis, C. Densham, G. W. Deptuch, A. De Roeck, V. De Romeri, G. De Souza, R. Devi, R. Dharmapalan, M. Dias, F. Diaz, J. Diaz, S. Di Domizio, L. Di Giulio, P. Ding, L. Di Noto, G. Dirkx, C. Distefano, R. Diurba, M. Diwan, Z. Djurcic, D. Doering, S. Dolan, F. Dolek, M. Dolinski, L. Domine, Y. Donon, D. Douglas, D. Douillet, A. Dragone, G. Drake, F. Drielsma, L. Duarte, D. Duchesneau, K. Duffy, P. Dunne, B. Dutta, H. Duyang, O. Dvornikov, D. Dwyer, A. Dyshkant, M. Eads, A. Earle, D. Edmunds, J. Eisch, L. Emberger, S. Emery, P. Englezos, A. Ereditato, T. Erjavec, C. Escobar, G. Eurin, J. J. Evans, E. Ewart, A. C. Ezeribe, K. Fahey, A. Falcone, M. Fani’, C. Farnese, Y. Farzan, D. Fedoseev, J. Felix, Y. Feng, E. Fernandez-Martinez, P. Fernandez Menendez, M. Fernandez Morales, F. Ferraro, L. Fields, P. Filip, F. Filthaut, M. Fiorini, V. Fischer, R. S. Fitzpatrick, W. Flanagan, B. Fleming, R. Flight, S. Fogarty, W. Foreman, J. Fowler, W. Fox, J. Franc, K. Francis, D. Franco, J. Freeman, J. Freestone, J. Fried, A. Friedland, F. Fuentes Robayo, S. Fuess, I. K. Furic, K. Furman, A. P. Furmanski, A. Gabrielli, A. Gago, H. Gallagher, A. Gallas, A. Gallego-Ros, N. Gallice, V. Galymov, E. Gamberini, T. Gamble, F. Ganacim, R. Gandhi, R. Gandrajula, F. Gao, S. Gao, D. Garcia-Gamez, M. Á. García-Peris, S. Gardiner, D. Gastler, J. Gauvreau, G. Ge, N. Geffroy, B. Gelli, A. Gendotti, S. Gent, Z. Ghorbani-Moghaddam, P. Giammaria, T. Giammaria, N. Giangiacomi, D. Gibin, I. Gil-Botella, S. Gilligan, C. Girerd, A. Giri, D. Gnani, O. Gogota, M. Gold, S. Gollapinni, K. Gollwitzer, R. A. Gomes, L. Gomez Bermeo, L. S. Gomez Fajardo, F. Gonnella, D. Gonzalez-Diaz, M. Gonzalez-Lopez, M. C. Goodman, O. Goodwin, S. Goswami, C. Gotti, E. Goudzovski, C. Grace, R. Gran, E. Granados, P. Granger, A. Grant, C. Grant, D. Gratieri, P. Green, L. Greenler, J. Greer, J. Grenard, C. Griffith, M. Groh, J. Grudzinski, K. Grzelak, W. Gu, E. Guardincerri, V. Guarino, M. Guarise, R. Guenette, E. Guerard, M. Guerzoni, D. Guffanti, A. Guglielmi, B. Guo, A. Gupta, V. Gupta, K. Guthikonda, R. Gutierrez, P. Guzowski, M. M. Guzzo, S. Gwon, C. Ha, K. Haaf, A. Habig, H. Hadavand, R. Haenni, A. Hahn, J. Haiston, P. Hamacher-Baumann, T. Hamernik, P. Hamilton, J. Han, D. A. Harris, J. Hartnell, T. Hartnett, J. Harton, T. Hasegawa, C. Hasnip, R. Hatcher, K. W. Hatfield, A. Hatzikoutelis, C. Hayes, K. Hayrapetyan, J. Hays, E. Hazen, M. He, A. Heavey, K. M. Heeger, J. Heise, S. Henry, M. Hernandez Morquecho, K. Herner, J. Hewes, C. Hilgenberg, T. Hill, S. J. Hillier, A. Himmel, E. Hinkle, L. R. Hirsch, J. Ho, J. Hoff, A. Holin, E. Hoppe, G. A. Horton-Smith, M. Hostert, A. Hourlier, B. Howard, R. Howell, J. Hoyos, I. Hristova, M. S. Hronek, J. Huang, Z. Hulcher, G. Iles, N. Ilic, A. M. Iliescu, R. Illingworth, G. Ingratta, A. Ioannisian, B. Irwin, L. Isenhower, R. Itay, C. M. Jackson, V. Jain, E. James, W. Jang, B. Jargowsky, F. Jediny, D. Jena, Y. Jeong, C. Jesús-Valls, X. Ji, L. Jiang, S. Jiménez, A. Jipa, R. Johnson, W. Johnson, N. Johnston, B. Jones, S. Jones, M. Judah, C. Jung, T. Junk, Y. Jwa, M. Kabirnezhad, A. Kaboth, I. Kadenko, I. Kakorin, A. Kalitkina, D. Kalra, F. Kamiya, N. Kaneshige, D. M. Kaplan, G. Karagiorgi, G. Karaman, A. Karcher, M. Karolak, Y. Karyotakis, S. Kasai, S. P. Kasetti, L. Kashur, N. Kazaryan, E. Kearns, P. Keener, K. J. Kelly, E. Kemp, O. Kemularia, W. Ketchum, S. H. Kettell, M. Khabibullin, A. Khotjantsev, A. Khvedelidze, D. Kim, B. King, B. Kirby, M. Kirby, J. Klein, A. Klustova, T. Kobilarcik, K. Koehler, L. W. Koerner, D. H. Koh, S. Kohn, P. P. Koller, L. Kolupaeva, D. Korablev, M. Kordosky, T. Kosc, U. Kose, V. Kostelecky, K. Kothekar, R. Kralik, L. Kreczko, F. Krennrich, I. Kreslo, W. Kropp, T. Kroupova, S. Kubota, Y. Kudenko, V. A. Kudryavtsev, S. Kulagin, J. Kumar, P. Kumar, P. Kunze, N. Kurita, C. Kuruppu, V. Kus, T. Kutter, J. Kvasnicka, D. Kwak, A. Lambert, B. Land, C. E. Lane, K. Lang, T. Langford, M. Langstaff, J. Larkin, P. Lasorak, D. Last, A. Laundrie, G. Laurenti, A. Lawrence, I. Lazanu, R. LaZur, M. Lazzaroni, T. Le, S. Leardini, J. Learned, P. LeBrun, T. LeCompte, C. Lee, S. Lee, G. Lehmann Miotto, R. Lehnert, M. Leigui de Oliveira, M. Leitner, L. M. Lepin, S. Li, Y. Li, H. Liao, C. Lin, Q. Lin, S. Lin, R. A. Lineros, J. Ling, A. Lister, B. R. Littlejohn, J. Liu, Y. Liu, S. Lockwitz, T. Loew, M. Lokajicek, I. Lomidze, K. Long, T. Lord, J. LoSecco, W. C. Louis, X. Lu, K. Luk, B. Lunday, X. Luo, E. Luppi, T. Lux, V. P. Luzio, J. Maalmi, D. MacFarlane, A. Machado, P. Machado, C. Macias, J. Macier, A. Maddalena, A. Madera, P. Madigan, S. Magill, K. Mahn, A. Maio, A. Major, J. A. Maloney, G. Mandrioli, R. C. Mandujano, J. C. Maneira, L. Manenti, S. Manly, A. Mann, K. Manolopoulos, M. Manrique Plata, V. N. Manyam, L. Manzanillas, M. Marchan, A. Marchionni, W. Marciano, D. Marfatia, C. Mariani, J. Maricic, R. Marie, F. Marinho, A. D. Marino, D. Marsden, M. Marshak, C. Marshall, J. Marshall, J. Marteau, J. Martin-Albo, N. Martinez, D. A. Martinez Caicedo, P. Martínez Miravé, S. Martynenko, V. Mascagna, K. Mason, A. Mastbaum, F. Matichard, S. Matsuno, J. Matthews, C. Mauger, N. Mauri, K. Mavrokoridis, I. Mawby, R. Mazza, A. Mazzacane, E. Mazzucato, T. McAskill, E. McCluskey, N. McConkey, K. S. McFarland, C. McGrew, A. McNab, A. Mefodiev, P. Mehta, P. Melas, O. Mena, H. Mendez, P. Mendez, D. P. Méndez, A. Menegolli, G. Meng, M. Messier, W. Metcalf, T. Mettler, M. Mewes, H. Meyer, T. Miao, G. Michna, T. Miedema, V. Mikola, R. Milincic, G. Miller, W. Miller, J. Mills, O. Mineev, A. Minotti, O. G. Miranda, S. Miryala, C. Mishra, S. Mishra, A. Mislivec, M. Mitchell, D. Mladenov, I. Mocioiu, K. Moffat, N. Moggi, R. Mohanta, T. A. Mohayai, N. Mokhov, J. A. Molina, L. Molina Bueno, E. Montagna, A. Montanari, C. Montanari, D. Montanari, L. M. Montano Zetina, S. Moon, M. Mooney, A. F. Moor, D. Moreno, D. Moretti, C. Morris, C. Mossey, M. Mote, E. Motuk, C. A. Moura, J. Mousseau, G. Mouster, W. Mu, L. Mualem, J. Mueller, M. Muether, S. Mufson, F. Muheim, A. Muir, M. Mulhearn, D. Munford, H. Muramatsu, S. Murphy, J. Musser, J. Nachtman, S. Nagu, M. Nalbandyan, R. Nandakumar, D. Naples, S. Narita, A. Nath, A. Navrer-Agasson, N. Nayak, M. Nebot-Guinot, K. Negishi, J. K. Nelson, J. Nesbit, M. Nessi, D. Newbold, M. Newcomer, H. Newton, R. Nichol, F. Nicolas-Arnaldos, A. Nikolica, E. Niner, K. Nishimura, A. Norman, A. Norrick, R. Northrop, P. Novella, J. A. Nowak, M. Oberling, J. Ochoa-Ricoux, A. Olivier, A. Olshevskiy, Y. Onel, Y. Onishchuk, J. Ott, L. Pagani, G. Palacio, O. Palamara, S. Palestini, J. M. Paley, M. Pallavicini, C. Palomares, W. Panduro Vazquez, E. Pantic, V. Paolone, V. Papadimitriou, R. Papaleo, A. Papanestis, S. Paramesvaran, S. Parke, E. Parozzi, Z. Parsa, M. Parvu, S. Pascoli, L. Pasqualini, J. Pasternak, J. Pater, C. Patrick, L. Patrizii, R. B. Patterson, S. Patton, T. Patzak, A. Paudel, B. Paulos, L. Paulucci, Z. Pavlovic, G. Pawloski, D. Payne, V. Pec, S. J. Peeters, A. Pena Perez, E. Pennacchio, A. Penzo, O. L. Peres, J. Perry, D. Pershey, G. Pessina, G. Petrillo, C. Petta, R. Petti, V. Pia, F. Piastra, L. Pickering, F. Pietropaolo, V. L. Pimentel, G. Pinaroli, K. Plows, R. Plunkett, R. Poling, F. Pompa, X. Pons, N. Poonthottathil, F. Poppi, S. Pordes, J. Porter, M. Potekhin, R. Potenza, B. V. Potukuchi, J. Pozimski, M. Pozzato, S. Prakash, T. Prakash, M. Prest, S. Prince, F. Psihas, D. Pugnere, X. Qian, J. Raaf, V. Radeka, J. Rademacker, B. Radics, A. Rafique, E. Raguzin, M. Rai, M. Rajaoalisoa, I. Rakhno, A. Rakotonandrasana, L. Rakotondravohitra, R. Rameika, M. Ramirez Delgado, B. Ramson, A. Rappoldi, G. Raselli, P. Ratoff, S. Raut, R. Razakamiandra, E. Rea, J. Real, B. Rebel, R. Rechenmacher, M. Reggiani-Guzzo, J. Reichenbacher, S. D. Reitzner, H. Rejeb Sfar, A. Renshaw, S. Rescia, F. Resnati, A. Reynolds, M. Ribas, S. Riboldi, C. Riccio, G. Riccobene, L. C. Rice, J. Ricol, A. Rigamonti, Y. Rigaut, E. V. Rincón, H. Ritchie-Yates, D. Rivera, A. Robert, L. Rochester, M. Roda, P. Rodrigues, M. J. Rodriguez Alonso, E. Rodriguez Bonilla, J. Rodriguez Rondon, S. Rosauro-Alcaraz, M. Rosenberg, P. Rosier, B. Roskovec, M. Rossella, M. Rossi, J. Rout, P. Roy, A. Rubbia, C. Rubbia, B. Russell, D. Ruterbories, A. Rybnikov, A. Saa-Hernandez, R. Saakyan, S. Sacerdoti, T. Safford, N. Sahu, P. Sala, N. Samios, O. Samoylov, M. Sanchez, V. Sandberg, D. A. Sanders, D. Sankey, S. Santana, M. Santos-Maldonado, N. Saoulidou, P. Sapienza, C. Sarasty, I. Sarcevic, G. Savage, V. Savinov, A. Scaramelli, A. Scarff, A. Scarpelli, T. Schefke, H. Schellman, S. Schifano, P. Schlabach, D. Schmitz, A. W. Schneider, K. Scholberg, A. Schukraft, E. Segreto, A. Selyunin, C. R. Senise, J. Sensenig, A. Sergi, D. Sgalaberna, M. Shaevitz, S. Shafaq, F. Shaker, M. Shamma, R. Sharankova, H. R. Sharma, R. Sharma, R. K. Sharma, T. Shaw, K. Shchablo, C. Shepherd-Themistocleous, A. Sheshukov, S. Shin, I. Shoemaker, D. Shooltz, R. Shrock, H. Siegel, L. Simard, J. Sinclair, G. Sinev, J. Singh, L. Singh, P. Singh, V. Singh, R. Sipos, F. Sippach, G. Sirri, A. Sitraka, K. Siyeon, K. Skarpaas, A. Smith, E. Smith, P. Smith, J. Smolik, M. Smy, E. Snider, P. Snopok, D. Snowden-Ifft, M. Soares Nunes, H. Sobel, M. Soderberg, S. Sokolov, C. J. Solano Salinas, S. Söldner-Rembold, S. Soleti, N. Solomey, V. Solovov, W. E. Sondheim, M. Sorel, A. Sotnikov, J. Soto-Oton, F. Soto Ugaldi, A. Sousa, K. Soustruznik, F. Spagliardi, M. Spanu, J. Spitz, N. J. C. Spooner, K. Spurgeon, M. Stancari, L. Stanco, C. Stanford, D. Stefan, R. Stein, H. Steiner, A. F. Steklain Lisbôa, J. Stewart, B. Stillwell, J. Stock, F. Stocker, T. Stokes, M. Strait, T. Strauss, L. Strigari, A. Stuart, J. G. Suarez, J. Suárez Sunción, R. Sulej, H. Sullivan, D. Summers, A. Surdo, V. Susic, L. Suter, C. Sutera, R. Svoboda, B. Szczerbinska, A. M. Szelc, H. Tanaka, S. Tang, A. Tapia, B. Tapia Oregui, A. Tapper, S. Tariq, E. Tarpara, N. Tata, E. Tatar, R. Tayloe, A. Teklu, P. Tennessen, M. Tenti, K. Terao, C. A. Ternes, F. Terranova, G. Testera, T. Thakore, A. Thea, J. L. Thompson, C. Thorn, S. Timm, V. Tishchenko, L. Tomassetti, A. Tonazzo, D. Torbunov, M. Torti, M. Tortola, F. Tortorici, N. Tosi, D. Totani, M. Toups, C. Touramanis, R. Travaglini, J. Trevor, S. Trilov, W. H. Trzaska, Y. Tsai, Z. Tsamalaidze, K. Tsang, N. Tsverava, S. Tufanli, C. Tull, E. Tyley, M. Tzanov, L. Uboldi, M. A. Uchida, J. Urheim, T. Usher, S. Uzunyan, M. R. Vagins, P. Vahle, S. Valder, G. A. Valdiviesso, E. Valencia, R. Valentim, Z. Vallari, E. Vallazza, J. W. Valle, S. Vallecorsa, R. Van Berg, R. G. Van de Water, D. Vanegas Forero, D. Vannerom, F. Varanini, D. Vargas, G. Varner, J. Vasel, S. Vasina, G. Vasseur, N. Vaughan, K. Vaziri, S. Ventura, A. Verdugo, S. Vergani, M. A. Vermeulen, M. Verzocchi, M. Vicenzi, H. Vieira de Souza, C. Vignoli, C. Vilela, B. Viren, T. Vrba, T. Wachala, A. V. Waldron, M. Wallbank, C. Wallis, H. Wang, J. Wang, L. Wang, M. H. Wang, X. Wang, Y. Wang, K. Warburton, D. Warner, M. Wascko, D. Waters, A. Watson, K. Wawrowska, P. Weatherly, A. Weber, M. Weber, H. Wei, A. Weinstein, D. Wenman, M. Wetstein, A. White, L. H. Whitehead, D. Whittington, M. J. Wilking, A. Wilkinson, C. Wilkinson, Z. Williams, F. Wilson, R. J. Wilson, W. Wisniewski, J. Wolcott, T. Wongjirad, A. Wood, K. Wood, E. Worcester, M. Worcester, K. Wresilo, C. Wret, W. Wu, Y. Xiao, F. Xie, B. Yaeggy, E. Yandel, G. Yang, K. Yang, T. Yang, A. Yankelevich, N. Yershov, K. Yonehara, Y. Yoon, T. Young, B. Yu, H. Yu, J. Yu, Y. Yu, W. Yuan, R. Zaki, J. Zalesak, L. Zambelli, B. Zamorano, A. Zani, L. Zazueta, G. Zeller, J. Zennamo, K. Zeug, C. Zhang, S. Zhang, Y. Zhang, M. Zhao, E. Zhivun, G. Zhu, E. D. Zimmerman, S. Zucchelli, J. Zuklin, V. Zutshi, and R. Zwaska

Subjects
Astrophysics, QB460-466, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

Abstract Liquid argon time projection chamber detector technology provides high spatial and calorimetric resolutions on the charged particles traversing liquid argon. As a result, the technology has been used in a number of recent neutrino experiments, and is the technology of choice for the Deep Underground Neutrino Experiment (DUNE). In order to perform high precision measurements of neutrinos in the detector, final state particles need to be effectively identified, and their energy accurately reconstructed. This article proposes an algorithm based on a convolutional neural network to perform the classification of energy deposits and reconstructed particles as track-like or arising from electromagnetic cascades. Results from testing the algorithm on experimental data from ProtoDUNE-SP, a prototype of the DUNE far detector, are presented. The network identifies track- and shower-like particles, as well as Michel electrons, with high efficiency. The performance of the algorithm is consistent between experimental data and simulation.

Published
2022
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33. Prospects for engineering Ralstonia eutropha and Zymomonas mobilis for the autotrophic production of 2,3-butanediol from CO2 and H2

Author

Hui Wei, Wei Wang, Yat-Chen Chou, Michael E. Himmel, Xiaowen Chen, Yannick J. Bomble, and Min Zhang

Subjects
Ralstonia eutropha, Zymomonas mobilis, Butanediol, CO2 fixation, CO2 sequestration, Metabolic engineering, Biotechnology, TP248.13-248.65, Microbiology, QR1-502
Abstract

The decarbonization of the chemical industry and a shift toward circular economies because of high global CO2 emissions make CO2 an attractive feedstock for manufacturing chemicals. Moreover, H2 is a low-cost and carbon-free reductant because technologies such as solar-driven electrolysis and supercritical water (scH2O) gasification enable sustainable production of molecular hydrogen (H2). We review the recent advances in engineering Ralstonia eutropha, the representative species of “Knallgas” bacteria, for utilizing CO2 and H2 to autotrophically produce 2,3-butanediol (2,3-BDO). This assessment is focused on state-of-the-art approaches for splitting H2 to supply energy in the form of ATP and NADH to power cellular reactions and employing the Calvin-Benson-Bassham cycle for CO2 fixation. Major challenges and opportunities for application and future perspectives are discussed in the context of developing other promising CO2 and H2-utilizing microorganisms, exemplified by Zymomonas mobilis.

Published
2023
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34. Scintillation light detection in the 6-m drift-length ProtoDUNE Dual Phase liquid argon TPC

Author

A. Abed Abud, B. Abi, R. Acciarri, M. A. Acero, M. R. Adames, G. Adamov, M. Adamowski, D. Adams, M. Adinolfi, A. Aduszkiewicz, J. Aguilar, Z. Ahmad, J. Ahmed, B. Aimard, B. Ali-Mohammadzadeh, T. Alion, K. Allison, S. Alonso Monsalve, M. AlRashed, C. Alt, A. Alton, R. Alvarez, P. Amedo, J. Anderson, C. Andreopoulos, M. Andreotti, M. Andrews, F. Andrianala, S. Andringa, N. Anfimov, A. Ankowski, M. Antoniassi, M. Antonova, A. Antoshkin, S. Antusch, A. Aranda-Fernandez, L. Arellano, L. O. Arnold, M. A. Arroyave, J. Asaadi, L. Asquith, A. Aurisano, V. Aushev, D. Autiero, V. Ayala Lara, M. Ayala-Torres, F. Azfar, A. Back, H. Back, J. J. Back, C. Backhouse, I. Bagaturia, L. Bagby, N. Balashov, S. Balasubramanian, P. Baldi, B. Baller, B. Bambah, F. Barao, G. Barenboim, P. Barham Alzas, G. Barker, W. Barkhouse, C. Barnes, G. Barr, J. Barranco Monarca, A. Barros, N. Barros, J. L. Barrow, A. Basharina-Freshville, A. Bashyal, V. Basque, C. Batchelor, E. Batista das Chagas, J. B. R. Battat, F. Battisti, F. Bay, M. C. Q. Bazetto, J. L. L. Bazo Alba, J. F. Beacom, E. Bechetoille, B. Behera, C. Beigbeder, L. Bellantoni, G. Bellettini, V. Bellini, O. Beltramello, N. Benekos, C. Benitez Montiel, F. Bento Neves, J. Berger, S. Berkman, P. Bernardini, R. M. Berner, A. Bersani, S. Bertolucci, M. Betancourt, A. Betancur Rodríguez, A. Bevan, Y. Bezawada, T. J. C. Bezerra, A. Bhardwaj, V. Bhatnagar, M. Bhattacharjee, D. Bhattarai, S. Bhuller, B. Bhuyan, S. Biagi, J. Bian, M. Biassoni, K. Biery, B. Bilki, M. Bishai, A. Bitadze, A. Blake, F. Blaszczyk, G. C. Blazey, E. Blucher, J. Boissevain, S. Bolognesi, T. Bolton, L. Bomben, M. Bonesini, M. Bongrand, C. Bonilla-Diaz, F. Bonini, A. Booth, F. Boran, S. Bordoni, A. Borkum, N. Bostan, P. Bour, C. Bourgeois, D. Boyden, J. Bracinik, D. Braga, D. Brailsford, A. Branca, A. Brandt, J. Bremer, D. Breton, C. Brew, S. J. Brice, C. Brizzolari, C. Bromberg, J. Brooke, A. Bross, G. Brunetti, M. Brunetti, N. Buchanan, H. Budd, I. Butorov, I. Cagnoli, T. Cai, D. Caiulo, R. Calabrese, P. Calafiura, J. Calcutt, M. Calin, S. Calvez, E. Calvo, A. Caminata, M. Campanelli, D. Caratelli, D. Carber, J. C. Carceller, G. Carini, B. Carlus, M. F. Carneiro, P. Carniti, I. Caro Terrazas, H. Carranza, T. Carroll, J. F. Castaño Forero, A. Castillo, C. Castromonte, E. Catano-Mur, C. Cattadori, F. Cavalier, G. Cavallaro, F. Cavanna, S. Centro, G. Cerati, A. Cervelli, A. Cervera Villanueva, M. Chalifour, A. Chappell, E. Chardonnet, N. Charitonidis, A. Chatterjee, S. Chattopadhyay, M. S. S. Chavarry Neyra, H. Chen, M. Chen, Y. Chen, Z. Chen, Z. Chen-Wishart, Y. Cheon, D. Cherdack, C. Chi, S. Childress, R. Chirco, A. Chiriacescu, G. Chisnall, K. Cho, S. Choate, D. Chokheli, P. S. Chong, A. Christensen, D. Christian, G. Christodoulou, A. Chukanov, M. Chung, E. Church, V. Cicero, P. Clarke, G. Cline, T. E. Coan, A. G. Cocco, J. A. B. Coelho, N. Colton, E. Conley, R. Conley, J. Conrad, M. Convery, S. Copello, P. Cova, L. Cremaldi, L. Cremonesi, J. I. Crespo-Anadón, M. Crisler, E. Cristaldo, J. Crnkovic, R. Cross, A. Cudd, C. Cuesta, Y. Cui, D. Cussans, O. Dalager, H. da Motta, L. Da Silva Peres, C. David, Q. David, G. S. Davies, S. Davini, J. Dawson, K. De, S. De, P. Debbins, I. De Bonis, M. P. Decowski, A. De Gouvêa, P. C. De Holanda, I. L. De Icaza Astiz, A. Deisting, P. De Jong, A. Delbart, D. Delepine, M. Delgado, A. Dell’Acqua, N. Delmonte, P. De Lurgio, J. R. T. de Mello Neto, D. M. DeMuth, S. Dennis, C. Densham, G. W. Deptuch, A. De Roeck, V. De Romeri, G. De Souza, R. Devi, R. Dharmapalan, M. Dias, F. Diaz, J. S. Díaz, S. Di Domizio, L. Di Giulio, P. Ding, L. Di Noto, G. Dirkx, C. Distefano, R. Diurba, M. Diwan, Z. Djurcic, D. Doering, S. Dolan, F. Dolek, M. Dolinski, L. Domine, Y. Donon, D. Douglas, D. Douillet, A. Dragone, G. Drake, F. Drielsma, L. Duarte, D. Duchesneau, K. Duffy, P. Dunne, B. Dutta, H. Duyang, O. Dvornikov, D. Dwyer, A. Dyshkant, M. Eads, A. Earle, D. Edmunds, J. Eisch, L. Emberger, S. Emery, P. Englezos, A. Ereditato, T. Erjavec, C. Escobar, G. Eurin, J. J. Evans, E. Ewart, A. C. Ezeribe, K. Fahey, A. Falcone, M. Fani’, C. Farnese, Y. Farzan, D. Fedoseev, J. Felix, Y. Feng, E. Fernandez-Martinez, P. Fernandez Menendez, M. Fernandez Morales, F. Ferraro, L. Fields, P. Filip, F. Filthaut, M. Fiorini, V. Fischer, R. S. Fitzpatrick, W. Flanagan, B. Fleming, R. Flight, S. Fogarty, W. Foreman, J. Fowler, W. Fox, J. Franc, K. Francis, D. Franco, J. Freeman, J. Freestone, J. Fried, A. Friedland, F. Fuentes Robayo, S. Fuess, I. K. Furic, K. Furman, A. P. Furmanski, A. Gabrielli, A. Gago, H. Gallagher, A. Gallas, A. Gallego-Ros, N. Gallice, V. Galymov, E. Gamberini, T. Gamble, F. Ganacim, R. Gandhi, R. Gandrajula, F. Gao, S. Gao, D. Garcia-Gamez, M. Á. García-Peris, S. Gardiner, D. Gastler, J. Gauvreau, G. Ge, N. Geffroy, B. Gelli, A. Gendotti, S. Gent, Z. Ghorbani-Moghaddam, P. Giammaria, T. Giammaria, N. Giangiacomi, D. Gibin, I. Gil-Botella, S. Gilligan, C. Girerd, A. K. Giri, D. Gnani, O. Gogota, M. Gold, S. Gollapinni, K. Gollwitzer, R. A. Gomes, L. V. Gomez Bermeo, L. S. Gomez Fajardo, F. Gonnella, D. Gonzalez-Diaz, M. Gonzalez-Lopez, M. C. Goodman, O. Goodwin, S. Goswami, C. Gotti, E. Goudzovski, C. Grace, R. Gran, E. Granados, P. Granger, A. Grant, C. Grant, D. Gratieri, P. Green, L. Greenler, J. Greer, J. Grenard, W. C. Griffith, M. Groh, J. Grudzinski, K. Grzelak, W. Gu, E. Guardincerri, V. Guarino, M. Guarise, R. Guenette, E. Guerard, M. Guerzoni, D. Guffanti, A. Guglielmi, B. Guo, A. Gupta, V. Gupta, K. K. Guthikonda, R. Gutierrez, P. Guzowski, M. M. Guzzo, S. Gwon, C. Ha, K. Haaf, A. Habig, H. Hadavand, R. Haenni, A. Hahn, J. Haiston, P. Hamacher-Baumann, T. Hamernik, P. Hamilton, J. Han, D. A. Harris, J. Hartnell, T. Hartnett, J. Harton, T. Hasegawa, C. Hasnip, R. Hatcher, K. W. Hatfield, A. Hatzikoutelis, C. Hayes, K. Hayrapetyan, J. Hays, E. Hazen, M. He, A. Heavey, K. M. Heeger, J. Heise, S. Henry, M. A. Hernandez Morquecho, K. Herner, J. Hewes, C. Hilgenberg, T. Hill, S. J. Hillier, A. Himmel, E. Hinkle, L. R. Hirsch, J. Ho, J. Hoff, A. Holin, E. Hoppe, G. A. Horton-Smith, M. Hostert, A. Hourlier, B. Howard, R. Howell, J. Hoyos, I. Hristova, M. S. Hronek, J. Huang, Z. Hulcher, G. Iles, N. Ilic, A. M. Iliescu, R. Illingworth, G. Ingratta, A. Ioannisian, B. Irwin, L. Isenhower, R. Itay, C. M. Jackson, V. Jain, E. James, W. Jang, B. Jargowsky, F. Jediny, D. Jena, Y. S. Jeong, C. Jesús-Valls, X. Ji, L. Jiang, S. Jiménez, A. Jipa, R. Johnson, W. Johnson, N. Johnston, B. Jones, S. Jones, M. Judah, C. K. Jung, T. Junk, Y. Jwa, M. Kabirnezhad, A. Kaboth, I. Kadenko, I. Kakorin, A. Kalitkina, D. Kalra, F. Kamiya, N. Kaneshige, D. M. Kaplan, G. Karagiorgi, G. Karaman, A. Karcher, M. Karolak, Y. Karyotakis, S. Kasai, S. P. Kasetti, L. Kashur, N. Kazaryan, E. Kearns, P. Keener, K. J. Kelly, E. Kemp, O. Kemularia, W. Ketchum, S. H. Kettell, M. Khabibullin, A. Khotjantsev, A. Khvedelidze, D. Kim, B. King, B. Kirby, M. Kirby, J. Klein, A. Klustova, T. Kobilarcik, K. Koehler, L. W. Koerner, D. H. Koh, S. Kohn, P. P. Koller, L. Kolupaeva, D. Korablev, M. Kordosky, T. Kosc, U. Kose, V. A. Kostelecký, K. Kothekar, R. Kralik, L. Kreczko, F. Krennrich, I. Kreslo, W. Kropp, T. Kroupova, S. Kubota, Y. Kudenko, V. A. Kudryavtsev, S. Kulagin, J. Kumar, P. Kumar, P. Kunze, N. Kurita, C. Kuruppu, V. Kus, T. Kutter, J. Kvasnicka, D. Kwak, A. Lambert, B. Land, C. E. Lane, K. Lang, T. Langford, M. Langstaff, J. Larkin, P. Lasorak, D. Last, A. Laundrie, G. Laurenti, A. Lawrence, I. Lazanu, R. LaZur, M. Lazzaroni, T. Le, S. Leardini, J. Learned, P. LeBrun, T. LeCompte, C. Lee, S. Y. Lee, G. Lehmann Miotto, R. Lehnert, M. A. Leigui de Oliveira, M. Leitner, L. M. Lepin, S. W. Li, Y. Li, H. Liao, C. S. Lin, Q. Lin, S. Lin, R. A. Lineros, J. Ling, A. Lister, B. R. Littlejohn, J. Liu, Y. Liu, S. Lockwitz, T. Loew, M. Lokajicek, I. Lomidze, K. Long, T. Lord, J. M. LoSecco, W. C. Louis, X.-G. Lu, K. B. Luk, B. Lunday, X. Luo, E. Luppi, T. Lux, V. P. Luzio, J. Maalmi, D. MacFarlane, A. A. Machado, P. Machado, C. T. Macias, J. R. Macier, A. Maddalena, A. Madera, P. Madigan, S. Magill, K. Mahn, A. Maio, A. Major, J. A. Maloney, G. Mandrioli, R. C. Mandujano, J. Maneira, L. Manenti, S. Manly, A. Mann, K. Manolopoulos, M. Manrique Plata, V. N. Manyam, L. Manzanillas, M. Marchan, A. Marchionni, W. Marciano, D. Marfatia, C. Mariani, J. Maricic, R. Marie, F. Marinho, A. D. Marino, D. Marsden, M. Marshak, C. Marshall, J. Marshall, J. Marteau, J. Martín-Albo, N. Martinez, D. A. Martinez Caicedo, P. Martínez Miravé, S. Martynenko, V. Mascagna, K. Mason, A. Mastbaum, F. Matichard, S. Matsuno, J. Matthews, C. Mauger, N. Mauri, K. Mavrokoridis, I. Mawby, R. Mazza, A. Mazzacane, E. Mazzucato, T. McAskill, E. McCluskey, N. McConkey, K. S. McFarland, C. McGrew, A. McNab, A. Mefodiev, P. Mehta, P. Melas, O. Mena, H. Mendez, P. Mendez, D. P. Méndez, A. Menegolli, G. Meng, M. D. Messier, W. Metcalf, T. Mettler, M. Mewes, H. Meyer, T. Miao, G. Michna, T. Miedema, V. Mikola, R. Milincic, G. Miller, W. Miller, J. Mills, O. Mineev, A. Minotti, O. G. Miranda, S. Miryala, C. S. Mishra, S. R. Mishra, A. Mislivec, M. Mitchell, D. Mladenov, I. Mocioiu, K. Moffat, N. Moggi, R. Mohanta, T. A. Mohayai, N. Mokhov, J. Molina, L. Molina Bueno, E. Montagna, A. Montanari, C. Montanari, D. Montanari, L. M. Montañno Zetina, S. H. Moon, M. Mooney, A. F. Moor, D. Moreno, D. Moretti, C. Morris, C. Mossey, M. Mote, E. Motuk, C. A. Moura, J. Mousseau, G. Mouster, W. Mu, L. Mualem, J. Mueller, M. Muether, S. Mufson, F. Muheim, A. Muir, M. Mulhearn, D. Munford, H. Muramatsu, S. Murphy, J. Musser, J. Nachtman, S. Nagu, M. Nalbandyan, R. Nandakumar, D. Naples, S. Narita, A. Nath, A. Navrer-Agasson, N. Nayak, M. Nebot-Guinot, K. Negishi, J. K. Nelson, J. Nesbit, M. Nessi, D. Newbold, M. Newcomer, H. Newton, R. Nichol, F. Nicolas-Arnaldos, A. Nikolica, E. Niner, K. Nishimura, A. Norman, A. Norrick, R. Northrop, P. Novella, J. A. Nowak, M. Oberling, J. Ochoa-Ricoux, A. Olivier, A. Olshevskiy, Y. Onel, Y. Onishchuk, J. Ott, L. Pagani, G. Palacio, O. Palamara, S. Palestini, J. M. Paley, M. Pallavicini, C. Palomares, W. Panduro Vazquez, E. Pantic, V. Paolone, V. Papadimitriou, R. Papaleo, A. Papanestis, S. Paramesvaran, S. Parke, E. Parozzi, Z. Parsa, M. Parvu, S. Pascoli, L. Pasqualini, J. Pasternak, J. Pater, C. Patrick, L. Patrizii, R. B. Patterson, S. J. Patton, T. Patzak, A. Paudel, B. Paulos, L. Paulucci, Z. Pavlovic, G. Pawloski, D. Payne, V. Pec, S. J. M. Peeters, A. Pena Perez, E. Pennacchio, A. Penzo, O. L. G. Peres, J. Perry, D. Pershey, G. Pessina, G. Petrillo, C. Petta, R. Petti, V. Pia, F. Piastra, L. Pickering, F. Pietropaolo, V. L. Pimentel, G. Pinaroli, K. Plows, R. Plunkett, R. Poling, F. Pompa, X. Pons, N. Poonthottathil, F. Poppi, S. Pordes, J. Porter, M. Potekhin, R. Potenza, B. V. K. S. Potukuchi, J. Pozimski, M. Pozzato, S. Prakash, T. Prakash, M. Prest, S. Prince, F. Psihas, D. Pugnere, X. Qian, J. L. Raaf, V. Radeka, J. Rademacker, B. Radics, A. Rafique, E. Raguzin, M. Rai, M. Rajaoalisoa, I. Rakhno, A. Rakotonandrasana, L. Rakotondravohitra, R. Rameika, M. A. Ramirez Delgado, B. Ramson, A. Rappoldi, G. Raselli, P. Ratoff, S. Raut, R. F. Razakamiandra, E. M. Rea, J. S. Real, B. Rebel, R. Rechenmacher, M. Reggiani-Guzzo, J. Reichenbacher, S. D. Reitzner, H. Rejeb Sfar, A. Renshaw, S. Rescia, F. Resnati, M. Ribas, S. Riboldi, C. Riccio, G. Riccobene, L. C. J. Rice, J. S. Ricol, A. Rigamonti, Y. Rigaut, E. V. Rincón, H. Ritchie-Yates, D. Rivera, A. Robert, L. Rochester, M. Roda, P. Rodrigues, M. J. Rodriguez Alonso, E. Rodriguez Bonilla, J. Rodriguez Rondon, S. Rosauro-Alcaraz, M. Rosenberg, P. Rosier, B. Roskovec, M. Rossella, M. Rossi, J. Rout, P. Roy, A. Rubbia, C. Rubbia, B. Russell, D. Ruterbories, A. Rybnikov, A. Saa-Hernandez, R. Saakyan, S. Sacerdoti, T. Safford, N. Sahu, K. Sakashita, P. Sala, N. Samios, O. Samoylov, M. C. Sanchez, V. Sandberg, D. A. Sanders, D. Sankey, S. Santana, M. Santos-Maldonado, N. Saoulidou, P. Sapienza, C. Sarasty, I. Sarcevic, G. Savage, V. Savinov, A. Scaramelli, A. Scarff, A. Scarpelli, T. Schefke, H. Schellman, S. Schifano, P. Schlabach, D. Schmitz, A. W. Schneider, K. Scholberg, A. Schukraft, E. Segreto, A. Selyunin, C. R. Senise, J. Sensenig, A. Sergi, D. Sgalaberna, M. H. Shaevitz, S. Shafaq, F. Shaker, M. Shamma, R. Sharankova, H. R. Sharma, R. Sharma, R. K. Sharma, T. Shaw, K. Shchablo, C. Shepherd-Themistocleous, A. Sheshukov, S. Shin, I. Shoemaker, D. Shooltz, R. Shrock, H. Siegel, L. Simard, J. Sinclair, G. Sinev, J. Singh, L. Singh, P. Singh, V. Singh, R. Sipos, F. W. Sippach, G. Sirri, A. Sitraka, K. Siyeon, K. Skarpaas, A. Smith, E. Smith, P. Smith, J. Smolik, M. Smy, E. Snider, P. Snopok, D. Snowden-Ifft, M. Soares Nunes, H. Sobel, M. Soderberg, S. Sokolov, C. J. Solano Salinas, S. Söldner-Rembold, S. R. Soleti, N. Solomey, V. Solovov, W. E. Sondheim, M. Sorel, A. Sotnikov, J. Soto-Oton, F. A. Soto Ugaldi, A. Sousa, K. Soustruznik, F. Spagliardi, M. Spanu, J. Spitz, N. J. C. Spooner, K. Spurgeon, M. Stancari, L. Stanco, C. Stanford, R. Stein, H. M. Steiner, A. F. Steklain Lisbôa, J. Stewart, B. Stillwell, J. Stock, F. Stocker, T. Stokes, M. Strait, T. Strauss, L. Strigari, A. Stuart, J. G. Suarez, J. M. Suárez Sunción, H. Sullivan, D. Summers, A. Surdo, V. Susic, L. Suter, C. M. Sutera, R. Svoboda, B. Szczerbinska, A. M. Szelc, H. Tanaka, S. Tang, A. Tapia, B. Tapia Oregui, A. Tapper, S. Tariq, E. Tarpara, N. Tata, E. Tatar, R. Tayloe, A. M. Teklu, P. Tennessen, M. Tenti, K. Terao, C. A. Ternes, F. Terranova, G. Testera, T. Thakore, A. Thea, J. L. Thompson, C. Thorn, S. C. Timm, V. Tishchenko, L. Tomassetti, A. Tonazzo, D. Torbunov, M. Torti, M. Tortola, F. Tortorici, N. Tosi, D. Totani, M. Toups, C. Touramanis, R. Travaglini, J. Trevor, S. Trilov, W. H. Trzaska, Y. Tsai, Y.-T. Tsai, Z. Tsamalaidze, K. V. Tsang, N. Tsverava, S. Tufanli, C. Tull, E. Tyley, M. Tzanov, L. Uboldi, M. A. Uchida, J. Urheim, T. Usher, S. Uzunyan, M. R. Vagins, P. Vahle, S. Valder, G. D. A. Valdiviesso, E. Valencia, R. Valentim, Z. Vallari, E. Vallazza, J. W. F. Valle, S. Vallecorsa, R. Van Berg, R. G. Van de Water, D. Vanegas Forero, D. Vannerom, F. Varanini, D. Vargas Oliva, G. Varner, J. Vasel, S. Vasina, G. Vasseur, N. Vaughan, K. Vaziri, S. Ventura, A. Verdugo, S. Vergani, M. A. Vermeulen, M. Verzocchi, M. Vicenzi, H. Vieira de Souza, C. Vignoli, C. Vilela, B. Viren, T. Vrba, T. Wachala, A. V. Waldron, M. Wallbank, C. Wallis, H. Wang, J. Wang, L. Wang, M. H. L. S. Wang, X. Wang, Y. Wang, K. Warburton, D. Warner, M. O. Wascko, D. Waters, A. Watson, K. Wawrowska, P. Weatherly, A. Weber, M. Weber, H. Wei, A. Weinstein, D. Wenman, M. Wetstein, A. White, L. H. Whitehead, D. Whittington, M. J. Wilking, A. Wilkinson, C. Wilkinson, Z. Williams, F. Wilson, R. J. Wilson, W. Wisniewski, J. Wolcott, T. Wongjirad, A. Wood, K. Wood, E. Worcester, M. Worcester, K. Wresilo, C. Wret, W. Wu, Y. Xiao, F. Xie, B. Yaeggy, E. Yandel, G. Yang, K. Yang, T. Yang, A. Yankelevich, N. Yershov, K. Yonehara, Y. S. Yoon, T. Young, B. Yu, H. Yu, J. Yu, Y. Yu, W. Yuan, R. Zaki, J. Zalesak, L. Zambelli, B. Zamorano, A. Zani, L. Zazueta, G. P. Zeller, J. Zennamo, K. Zeug, C. Zhang, S. Zhang, Y. Zhang, M. Zhao, E. Zhivun, G. Zhu, E. D. Zimmerman, S. Zucchelli, J. Zuklin, V. Zutshi, R. Zwaska, and DUNE Collaboration

Subjects
Astrophysics, QB460-466, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

Abstract DUNE is a dual-site experiment for long-baseline neutrino oscillation studies, neutrino astrophysics and nucleon decay searches. ProtoDUNE Dual Phase (DP) is a 6 $$\times $$ × 6 $$\times $$ × 6 m $$^3$$ 3 liquid argon time-projection-chamber (LArTPC) that recorded cosmic-muon data at the CERN Neutrino Platform in 2019–2020 as a prototype of the DUNE Far Detector. Charged particles propagating through the LArTPC produce ionization and scintillation light. The scintillation light signal in these detectors can provide the trigger for non-beam events. In addition, it adds precise timing capabilities and improves the calorimetry measurements. In ProtoDUNE-DP, scintillation and electroluminescence light produced by cosmic muons in the LArTPC is collected by photomultiplier tubes placed up to 7 m away from the ionizing track. In this paper, the ProtoDUNE-DP photon detection system performance is evaluated with a particular focus on the different wavelength shifters, such as PEN and TPB, and the use of Xe-doped LAr, considering its future use in giant LArTPCs. The scintillation light production and propagation processes are analyzed and a comparison of simulation to data is performed, improving understanding of the liquid argon properties.

Published
2022
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35. Diagnostic accuracy and feasibility of a rapid SARS-CoV-2 antigen test in general practice – a prospective multicenter validation and implementation study

Author

Jörn Rohde, Wolfgang Himmel, Clemens Hofinger, Thiên-Trí Lâm, Hanna Schrader, Julia Wallstabe, Oliver Kurzai, and Ildikó Gágyor

Subjects
COVID-19 testing, General practice, Sensitivity and specificity, Attitude of health personnel, Feasibility study, Medicine (General), R5-920
Abstract

Abstract Background PCR testing is considered the gold standard for SARS-CoV-2 diagnosis but its results are earliest available hours to days after testing. Rapid antigen tests represent a diagnostic tool enabling testing at the point of care. Rapid antigen tests have mostly been validated by the manufacturer or in controlled laboratory settings only. External validation at the point of care, particularly in general practice where the test is frequently used, is needed. Furthermore, it is unclear how well point of care tests are accepted by the practice staff. Methods In this prospective multicenter validation study in primary care, general practitioners included adult individuals presenting with symptoms suggesting COVID-19. Each patient was tested by the general practitioner, first with a nasopharyngeal swab for the point of care test (Roche SARS-CoV-2 Rapid Antigen Test) and then with a second swab for PCR testing. Using the RT-PCR result as a reference, we calculated specificity, sensitivity, positive predictive value and negative predictive value, with their 95% confidence intervals. General practitioners and medical assistants completed a survey to assess feasibility and usefulness of the point of care tests. Results In 40 practices in Würzburg, Germany, 1518 patients were recruited between 12/2020 and 06/2021. The point of care test achieved a sensitivity of 78.3% and a specificity of 99.5% compared to RT-PCR. With a prevalence of 9.5%, the positive predictive value was 93.9% and the negative predictive value was 97.8%. General practitioners rated the point of care test as a helpful tool to support diagnostics in patients with signs and symptoms suggestive for infection, particularly in situations where decision on further care is needed at short notice. Conclusion The point of care test used in this study showed a sensitivity below the manufacturer’s specification (Sensitivity 96.25%) in the practice but high values for specificity and high positive predictive value and negative predictive value. Although widely accepted in the practice, measures for further patient management require a sensitive interpretation of the point of care test results.

Published
2022
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36. Challenges and opportunities in decarbonizing the U.S. energy system

Author

Arent, Douglas J., Green, Peter, Abdullah, Zia, Barnes, Teresa, Bauer, Sage, Bernstein, Andrey, Berry, Derek, Berry, Joe, Burrell, Tony, Carpenter, Birdie, Cochran, Jaquelin, Cortright, Randy, Curry-Nkansah, Maria, Denholm, Paul, Gevorian, Vahan, Himmel, Michael, Livingood, Bill, Keyser, Matt, King, Jennifer, Kroposki, Ben, Mai, Trieu, Mehos, Mark, Muratori, Matteo, Narumanchi, Sreekant, Pivovar, Bryan, Romero-Lankao, Patty, Ruth, Mark, Stark, Greg, and Turchi, Craig

Published
2022
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37. A New Phenotype in Candida-Epithelial Cell Interaction Distinguishes Colonization- versus Vulvovaginal Candidiasis-Associated Strains

Author

Arianna Sala, Andrea Ardizzoni, Luca Spaggiari, Nikhil Vaidya, Jane van der Schaaf, Cosmeri Rizzato, Claudio Cermelli, Selene Mogavero, Thomas Krüger, Maximilian Himmel, Olaf Kniemeyer, Axel A. Brakhage, Benjamin L. King, Antonella Lupetti, Manola Comar, Francesco de Seta, Arianna Tavanti, Elisabetta Blasi, Robert T. Wheeler, and Eva Pericolini

Subjects
Candida albicans, epithelial cells, host-pathogen interactions, interferons, vulvovaginal candidiasis, Microbiology, QR1-502
Abstract

ABSTRACT Vulvovaginal candidiasis (VVC) affects nearly 3/4 of women during their lifetime, and its symptoms seriously reduce quality of life. Although Candida albicans is a common commensal, it is unknown if VVC results from a switch from a commensal to pathogenic state, if only some strains can cause VVC, and/or if there is displacement of commensal strains with more pathogenic strains. We studied a set of VVC and colonizing C. albicans strains to identify consistent in vitro phenotypes associated with one group or the other. We find that the strains do not differ in overall genetic profile or behavior in culture media (i.e., multilocus sequence type [MLST] profile, rate of growth, and filamentation), but they show strikingly different behaviors during their interactions with vaginal epithelial cells. Epithelial infections with VVC-derived strains yielded stronger fungal proliferation and shedding of fungi and epithelial cells. Transcriptome sequencing (RNA-seq) analysis of representative epithelial cell infections with selected pathogenic or commensal isolates identified several differentially activated epithelial signaling pathways, including the integrin, ferroptosis, and type I interferon pathways; the latter has been implicated in damage protection. Strikingly, inhibition of type I interferon signaling selectively increases fungal shedding of strains in the colonizing cohort, suggesting that increased shedding correlates with lower interferon pathway activation. These data suggest that VVC strains may intrinsically have enhanced pathogenic potential via differential elicitation of epithelial responses, including the type I interferon pathway. Therefore, it may eventually be possible to evaluate pathogenic potential in vitro to refine VVC diagnosis. IMPORTANCE Despite a high incidence of VVC, we still have a poor understanding of this female-specific disease whose negative impact on women’s quality of life has become a public health issue. It is not yet possible to determine by genotype or laboratory phenotype if a given Candida albicans strain is more or less likely to cause VVC. Here, we show that Candida strains causing VVC induce more fungal shedding from epithelial cells than strains from healthy women. This effect is also accompanied by increased epithelial cell detachment and differential activation of the type I interferon pathway. These distinguishing phenotypes suggest it may be possible to evaluate the VVC pathogenic potential of fungal isolates. This would permit more targeted antifungal treatments to spare commensals and could allow for displacement of pathogenic strains with nonpathogenic colonizers. We expect these new assays to provide a more targeted tool for identifying fungal virulence factors and epithelial responses that control fungal vaginitis.

Published
2023
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41. Intracellular pathways for lignin catabolism in white-rot fungi

Author

del Cerro, Carlos, Erickson, Erika, Dong, Tao, Wong, Allison R., Eder, Elizabeth K., Purvine, Samuel O., Mitchell, Hugh D., Weitz, Karl K., Markillie, Lye Meng, Burnet, Meagan C., Hoyt, David W., Chu, Rosalie K., Cheng, Jan-Fang, Ramirez, Kelsey J., Katahira, Rui, Xiong, Wei, Himmel, Michael E., Subramanian, Venkataramanan, Linger, Jeffrey G., and Salvachúa, Davinia

Published
2021

43. Small Cationic Boron and Boron‐Nitrogen Rings, Synthesized from Diboranes with Charge‐Delocalizing Guanidinate Substituents.

Author

Vogler, Daniel, Horn, Julian, Kaifer, Elisabeth, and Himmel, Hans‐Jörg

Subjects
BORON compounds, BORON, SKELETON
Abstract

We report the straightforward synthesis and characterization of small polycationic boron and boron‐nitrogen rings, stabilized by charge‐delocalizing guanidinate substituents. Reaction between a ditriflato‐diborane with two electron‐donating bridging bicyclic guanidinate substituents and the corresponding dihydrido‐diborane leads to a dicationic B4 ring with a 4c,4e‐bond in the planar rhomboid B4 skeleton. Reaction of the same ditriflato‐diborane with the corresponding diazido‐diborane gives a dicationic compound with a B4N2 core. On the basis of experimental data in combination with quantum‐chemical calculations, pathways leading to these dicationic boron and boron‐nitrogen rings are suggested, and further preliminary studies demonstrate the scope of this strategy for the synthesis of polycationic boron‐nitrogen rings. [ABSTRACT FROM AUTHOR]

Published
2024
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45. Avian haemosporidian parasites of accipitriform raptors

Author

Josef Harl, Tanja Himmel, Gediminas Valkiūnas, Mikas Ilgūnas, Nora Nedorost, Julia Matt, Anna Kübber-Heiss, Amer Alic, Cornelia Konicek, and Herbert Weissenböck

Subjects
Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background The order Accipitriformes comprises the largest group of birds of prey with 260 species in four families. So far, 21 haemosporidian parasite species have been described from or reported to occur in accipitriform birds. Only five of these parasite species have been characterized molecular genetically. The first part of this study involved molecular genetic screening of accipitriform raptors from Austria and Bosnia-Herzegovina and the first chromogenic in situ hybridization approach targeting parasites in this host group. The aim of the second part of this study was to summarize the CytB sequence data of haemosporidian parasites from accipitriform raptors and to visualize the geographic and host distribution of the lineages. Methods Blood and tissue samples of 183 accipitriform raptors from Austria and Bosnia-Herzegovina were screened for Plasmodium, Haemoproteus and Leucocytozoon parasites by nested PCR, and tissue samples of 23 PCR-positive birds were subjected to chromogenic in situ hybridization using genus-specific probes targeting the parasites’ 18S rRNAs. All published CytB sequence data from accipitriform raptors were analysed, phylogenetic trees were calculated, and DNA haplotype network analyses were performed with sequences from clades featuring multiple lineages detected in this host group. Results Of the 183 raptors from Austria and Bosnia-Herzegovina screened by PCR and sequencing, 80 individuals (44%) were infected with haemosporidian parasites. Among the 39 CytB lineages detected, 18 were found for the first time in the present study. The chromogenic in situ hybridization revealed exo-erythrocytic tissue stages of Leucocytozoon parasites belonging to the Leucocytozoon toddi species group in the kidneys of 14 infected birds. The total number of CytB lineages recorded in accipitriform birds worldwide was 57 for Leucocytozoon, 25 for Plasmodium, and 21 for Haemoproteus. Conclusion The analysis of the DNA haplotype networks allowed identifying numerous distinct groups of lineages, which have not yet been linked to morphospecies, and many of them likely belong to yet undescribed parasite species. Tissue stages of Leucocytozoon parasites developing in accipitriform raptors were discovered and described. The majority of Leucocytozoon and Haemoproteus lineages are specific to this host group, but most Plasmodium lineages were found in birds of other orders. This might indicate local transmission from birds kept at the same facilities (raptor rescue centres and zoos), likely resulting in abortive infections. To clarify the taxonomic and systematic problems, combined morphological and molecular genetic analyses on a wider range of accipitriform host species are needed.

Published
2022
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46. Structural screens identify candidate human homologs of insect chemoreceptors and cryptic Drosophila gustatory receptor-like proteins

Author

Richard Benton and Nathaniel J Himmel

Subjects
chemosensory receptor, ion channel, protein structure, phylogenetics, comparative genomics, insect, Medicine, Science, Biology (General), QH301-705.5
Abstract

Insect odorant receptors and gustatory receptors define a superfamily of seven transmembrane domain ion channels (referred to here as 7TMICs), with homologs identified across Animalia except Chordata. Previously, we used sequence-based screening methods to reveal conservation of this family in unicellular eukaryotes and plants (DUF3537 proteins) (Benton et al., 2020). Here, we combine three-dimensional structure-based screening, ab initio protein folding predictions, phylogenetics, and expression analyses to characterize additional candidate homologs with tertiary but little or no primary structural similarity to known 7TMICs, including proteins in disease-causing Trypanosoma. Unexpectedly, we identify structural similarity between 7TMICs and PHTF proteins, a deeply conserved family of unknown function, whose human orthologs display enriched expression in testis, cerebellum, and muscle. We also discover divergent groups of 7TMICs in insects, which we term the gustatory receptor-like (Grl) proteins. Several Drosophila melanogaster Grls display selective expression in subsets of taste neurons, suggesting that they are previously unrecognized insect chemoreceptors. Although we cannot exclude the possibility of remarkable structural convergence, our findings support the origin of 7TMICs in a eukaryotic common ancestor, counter previous assumptions of complete loss of 7TMICs in Chordata, and highlight the extreme evolvability of this protein fold, which likely underlies its functional diversification in different cellular contexts.

Published
2023
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47. Chloride-dependent mechanisms of multimodal sensory discrimination and nociceptive sensitization in Drosophila

Author

Nathaniel J Himmel, Akira Sakurai, Atit A Patel, Shatabdi Bhattacharjee, Jamin M Letcher, Maggie N Benson, Thomas R Gray, Gennady S Cymbalyuk, and Daniel N Cox

Subjects
nociception, thermosensation, chloride physiology, anoctamin/TMEM16, sensory multimodality, nociceptive sensitization, Medicine, Science, Biology (General), QH301-705.5
Abstract

Individual sensory neurons can be tuned to many stimuli, each driving unique, stimulus-relevant behaviors, and the ability of multimodal nociceptor neurons to discriminate between potentially harmful and innocuous stimuli is broadly important for organismal survival. Moreover, disruptions in the capacity to differentiate between noxious and innocuous stimuli can result in neuropathic pain. Drosophila larval class III (CIII) neurons are peripheral noxious cold nociceptors and innocuous touch mechanosensors; high levels of activation drive cold-evoked contraction (CT) behavior, while low levels of activation result in a suite of touch-associated behaviors. However, it is unknown what molecular factors underlie CIII multimodality. Here, we show that the TMEM16/anoctamins subdued and white walker (wwk; CG15270) are required for cold-evoked CT, but not for touch-associated behavior, indicating a conserved role for anoctamins in nociception. We also evidence that CIII neurons make use of atypical depolarizing chloride currents to encode cold, and that overexpression of ncc69—a fly homologue of NKCC1—results in phenotypes consistent with neuropathic sensitization, including behavioral sensitization and neuronal hyperexcitability, making Drosophila CIII neurons a candidate system for future studies of the basic mechanisms underlying neuropathic pain.

Published
2023
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48. Separation of track- and shower-like energy deposits in ProtoDUNE-SP using a convolutional neural network

Author

Abed Abud, A., Abi, B., Acciarri, R., Acero, M. A., Adames, M. R., Adamov, G., Adamowski, M., Adams, D., Adinolfi, M., Aduszkiewicz, A., Aguilar, J., Ahmad, Z., Ahmed, J., Aimard, B., Ali-Mohammadzadeh, B., Alion, T., Allison, K., Alonso Monsalve, S., AlRashed, M., Alt, C., Alton, A., Alvarez, R., Amedo, P., Anderson, J., Andreopoulos, C., Andreotti, M., Andrews, M., Andrianala, F., Andringa, S., Anfimov, N., Ankowski, A., Antoniassi, M., Antonova, M., Antoshkin, A., Antusch, S., Aranda-Fernandez, A., Arellano, L., Arnold, L. O., Arroyave, M. A., Asaadi, J., Asquith, L., Aurisano, A., Aushev, V., Autiero, D., Ayala Lara, V., Ayala-Torres, M., Azfar, F., Babicz, M., Back, A., Back, H., Back, J. J., Backhouse, C., Bagaturia, I., Bagby, L., Balashov, N., Balasubramanian, S., Baldi, P., Baller, B., Bambah, B., Barao, F., Barenboim, G., Barker, G., Barkhouse, W., Barnes, C., Barr, G., Barranco Monarca, J., Barros, A., Barros, N., Barrow, J. L., Basharina-Freshville, A., Bashyal, A., Basque, V., Batchelor, C., Batista das Chagas, E., Battat, J., Battisti, F., Bay, F., Bazetto, M. C. Q., Bazo Alba, J., Beacom, J. F., Bechetoille, E., Behera, B., Beigbeder, C., Bellantoni, L., Bellettini, G., Bellini, V., Beltramello, O., Benekos, N., Benitez Montiel, C., Bento Neves, F., Berger, J., Berkman, S., Bernardini, P., Berner, R. M., Bersani, A., Bertolucci, S., Betancourt, M., Betancur Rodríguez, A., Bevan, A., Bezawada, Y., Bezerra, T. S., Bhardwaj, A., Bhatnagar, V., Bhattacharjee, M., Bhattarai, D., Bhuller, S., Bhuyan, B., Biagi, S., Bian, J., Biassoni, M., Biery, K., Bilki, B., Bishai, M., Bitadze, A., Blake, A., Blaszczyk, F., Blazey, G., Blucher, E., Boissevain, J., Bolognesi, S., Bolton, T., Bomben, L., Bonesini, M., Bongrand, M., Bonilla-Diaz, C., Bonini, F., Booth, A., Boran, F., Bordoni, S., Borkum, A., Bostan, N., Bour, P., Bourgeois, C., Boyden, D., Bracinik, J., Braga, D., Brailsford, D., Branca, A., Brandt, A., Bremer, J., Breton, D., Brew, C., Brice, S. J., Brizzolari, C., Bromberg, C., Brooke, J., Bross, A., Brunetti, G., Brunetti, M., Buchanan, N., Budd, H., Butorov, I., Cagnoli, I., Cai, T., Caiulo, D., Calabrese, R., Calafiura, P., Calcutt, J., Calin, M., Calvez, S., Calvo, E., Caminata, A., Campanelli, M., Caratelli, D., Carber, D., Carceller, J., Carini, G., Carlus, B., Carneiro, M. F., Carniti, P., Caro Terrazas, I., Carranza, H., Carroll, T., Castaño Forero, J. F., Castillo, A., Castromonte, C., Catano-Mur, E., Cattadori, C., Cavalier, F., Cavallaro, G., Cavanna, F., Centro, S., Cerati, G., Cervelli, A., Cervera Villanueva, A., Chalifour, M., Chappell, A., Chardonnet, E., Charitonidis, N., Chatterjee, A., Chattopadhyay, S., Chavarry Neyra, M., Chen, H., Chen, M., Chen, Y., Chen, Z., Chen-Wishart, Z., Cheon, Y., Cherdack, D., Chi, C., Childress, S., Chirco, R., Chiriacescu, A., Chisnall, G., Cho, K., Choate, S., Chokheli, D., Chong, P. S., Christensen, A., Christian, D., Christodoulou, G., Chukanov, A., Chung, M., Church, E., Cicero, V., Clarke, P., Cline, G., Coan, T. E., Cocco, A. G., Coelho, J., Colton, N., Conley, E., Conley, R., Conrad, J., Convery, M., Copello, S., Cova, P., Cremaldi, L., Cremonesi, L., Crespo-Anadón, J. I., Crisler, M., Cristaldo, E., Crnkovic, J., Cross, R., Cudd, A., Cuesta, C., Cui, Y., Cussans, D., Dalager, O., Da Motta, H., Da Silva Peres, L., David, C., David, Q., Davies, G. S., Davini, S., Dawson, J., De, K., De, S., Debbins, P., De Bonis, I., Decowski, M., De Gouvea, A., De Holanda, P. C., De Icaza Astiz, I. L., Deisting, A., De Jong, P., Delbart, A., Delepine, D., Delgado, M., Dell’Acqua, A., Delmonte, N., De Lurgio, P., De Mello Neto, J. R., DeMuth, D. M., Dennis, S., Densham, C., Deptuch, G. W., De Roeck, A., De Romeri, V., De Souza, G., Devi, R., Dharmapalan, R., Dias, M., Diaz, F., Diaz, J., Di Domizio, S., Di Giulio, L., Ding, P., Di Noto, L., Dirkx, G., Distefano, C., Diurba, R., Diwan, M., Djurcic, Z., Doering, D., Dolan, S., Dolek, F., Dolinski, M., Domine, L., Donon, Y., Douglas, D., Douillet, D., Dragone, A., Drake, G., Drielsma, F., Duarte, L., Duchesneau, D., Duffy, K., Dunne, P., Dutta, B., Duyang, H., Dvornikov, O., Dwyer, D., Dyshkant, A., Eads, M., Earle, A., Edmunds, D., Eisch, J., Emberger, L., Emery, S., Englezos, P., Ereditato, A., Erjavec, T., Escobar, C., Eurin, G., Evans, J. J., Ewart, E., Ezeribe, A. C., Fahey, K., Falcone, A., Fani’, M., Farnese, C., Farzan, Y., Fedoseev, D., Felix, J., Feng, Y., Fernandez-Martinez, E., Fernandez Menendez, P., Fernandez Morales, M., Ferraro, F., Fields, L., Filip, P., Filthaut, F., Fiorini, M., Fischer, V., Fitzpatrick, R. S., Flanagan, W., Fleming, B., Flight, R., Fogarty, S., Foreman, W., Fowler, J., Fox, W., Franc, J., Francis, K., Franco, D., Freeman, J., Freestone, J., Fried, J., Friedland, A., Fuentes Robayo, F., Fuess, S., Furic, I. K., Furman, K., Furmanski, A. P., Gabrielli, A., Gago, A., Gallagher, H., Gallas, A., Gallego-Ros, A., Gallice, N., Galymov, V., Gamberini, E., Gamble, T., Ganacim, F., Gandhi, R., Gandrajula, R., Gao, F., Gao, S., Garcia-Gamez, D., García-Peris, M. Á., Gardiner, S., Gastler, D., Gauvreau, J., Ge, G., Geffroy, N., Gelli, B., Gendotti, A., Gent, S., Ghorbani-Moghaddam, Z., Giammaria, P., Giammaria, T., Giangiacomi, N., Gibin, D., Gil-Botella, I., Gilligan, S., Girerd, C., Giri, A., Gnani, D., Gogota, O., Gold, M., Gollapinni, S., Gollwitzer, K., Gomes, R. A., Gomez Bermeo, L., Gomez Fajardo, L. S., Gonnella, F., Gonzalez-Diaz, D., Gonzalez-Lopez, M., Goodman, M. C., Goodwin, O., Goswami, S., Gotti, C., Goudzovski, E., Grace, C., Gran, R., Granados, E., Granger, P., Grant, A., Grant, C., Gratieri, D., Green, P., Greenler, L., Greer, J., Grenard, J., Griffith, C., Groh, M., Grudzinski, J., Grzelak, K., Gu, W., Guardincerri, E., Guarino, V., Guarise, M., Guenette, R., Guerard, E., Guerzoni, M., Guffanti, D., Guglielmi, A., Guo, B., Gupta, A., Gupta, V., Guthikonda, K., Gutierrez, R., Guzowski, P., Guzzo, M. M., Gwon, S., Ha, C., Haaf, K., Habig, A., Hadavand, H., Haenni, R., Hahn, A., Haiston, J., Hamacher-Baumann, P., Hamernik, T., Hamilton, P., Han, J., Harris, D. A., Hartnell, J., Hartnett, T., Harton, J., Hasegawa, T., Hasnip, C., Hatcher, R., Hatfield, K. W., Hatzikoutelis, A., Hayes, C., Hayrapetyan, K., Hays, J., Hazen, E., He, M., Heavey, A., Heeger, K. M., Heise, J., Henry, S., Hernandez Morquecho, M., Herner, K., Hewes, J., Hilgenberg, C., Hill, T., Hillier, S. J., Himmel, A., Hinkle, E., Hirsch, L. R., Ho, J., Hoff, J., Holin, A., Hoppe, E., Horton-Smith, G. A., Hostert, M., Hourlier, A., Howard, B., Howell, R., Hoyos, J., Hristova, I., Hronek, M. S., Huang, J., Hulcher, Z., Iles, G., Ilic, N., Iliescu, A. M., Illingworth, R., Ingratta, G., Ioannisian, A., Irwin, B., Isenhower, L., Itay, R., Jackson, C. M., Jain, V., James, E., Jang, W., Jargowsky, B., Jediny, F., Jena, D., Jeong, Y., Jesús-Valls, C., Ji, X., Jiang, L., Jiménez, S., Jipa, A., Johnson, R., Johnson, W., Johnston, N., Jones, B., Jones, S., Judah, M., Jung, C., Junk, T., Jwa, Y., Kabirnezhad, M., Kaboth, A., Kadenko, I., Kakorin, I., Kalitkina, A., Kalra, D., Kamiya, F., Kaneshige, N., Kaplan, D. M., Karagiorgi, G., Karaman, G., Karcher, A., Karolak, M., Karyotakis, Y., Kasai, S., Kasetti, S. P., Kashur, L., Kazaryan, N., Kearns, E., Keener, P., Kelly, K. J., Kemp, E., Kemularia, O., Ketchum, W., Kettell, S. H., Khabibullin, M., Khotjantsev, A., Khvedelidze, A., Kim, D., King, B., Kirby, B., Kirby, M., Klein, J., Klustova, A., Kobilarcik, T., Koehler, K., Koerner, L. W., Koh, D. H., Kohn, S., Koller, P. P., Kolupaeva, L., Korablev, D., Kordosky, M., Kosc, T., Kose, U., Kostelecky, V., Kothekar, K., Kralik, R., Kreczko, L., Krennrich, F., Kreslo, I., Kropp, W., Kroupova, T., Kubota, S., Kudenko, Y., Kudryavtsev, V. A., Kulagin, S., Kumar, J., Kumar, P., Kunze, P., Kurita, N., Kuruppu, C., Kus, V., Kutter, T., Kvasnicka, J., Kwak, D., Lambert, A., Land, B., Lane, C. E., Lang, K., Langford, T., Langstaff, M., Larkin, J., Lasorak, P., Last, D., Laundrie, A., Laurenti, G., Lawrence, A., Lazanu, I., LaZur, R., Lazzaroni, M., Le, T., Leardini, S., Learned, J., LeBrun, P., LeCompte, T., Lee, C., Lee, S., Lehmann Miotto, G., Lehnert, R., Leigui de Oliveira, M., Leitner, M., Lepin, L. M., Li, S., Li, Y., Liao, H., Lin, C., Lin, Q., Lin, S., Lineros, R. A., Ling, J., Lister, A., Littlejohn, B. R., Liu, J., Liu, Y., Lockwitz, S., Loew, T., Lokajicek, M., Lomidze, I., Long, K., Lord, T., LoSecco, J., Louis, W. C., Lu, X., Luk, K., Lunday, B., Luo, X., Luppi, E., Lux, T., Luzio, V. P., Maalmi, J., MacFarlane, D., Machado, A., Machado, P., Macias, C., Macier, J., Maddalena, A., Madera, A., Madigan, P., Magill, S., Mahn, K., Maio, A., Major, A., Maloney, J. A., Mandrioli, G., Mandujano, R. C., Maneira, J. C., Manenti, L., Manly, S., Mann, A., Manolopoulos, K., Manrique Plata, M., Manyam, V. N., Manzanillas, L., Marchan, M., Marchionni, A., Marciano, W., Marfatia, D., Mariani, C., Maricic, J., Marie, R., Marinho, F., Marino, A. D., Marsden, D., Marshak, M., Marshall, C., Marshall, J., Marteau, J., Martin-Albo, J., Martinez, N., Martinez Caicedo, D. A., Martínez Miravé, P., Martynenko, S., Mascagna, V., Mason, K., Mastbaum, A., Matichard, F., Matsuno, S., Matthews, J., Mauger, C., Mauri, N., Mavrokoridis, K., Mawby, I., Mazza, R., Mazzacane, A., Mazzucato, E., McAskill, T., McCluskey, E., McConkey, N., McFarland, K. S., McGrew, C., McNab, A., Mefodiev, A., Mehta, P., Melas, P., Mena, O., Mendez, H., Mendez, P., Méndez, D. P., Menegolli, A., Meng, G., Messier, M., Metcalf, W., Mettler, T., Mewes, M., Meyer, H., Miao, T., Michna, G., Miedema, T., Mikola, V., Milincic, R., Miller, G., Miller, W., Mills, J., Mineev, O., Minotti, A., Miranda, O. G., Miryala, S., Mishra, C., Mishra, S., Mislivec, A., Mitchell, M., Mladenov, D., Mocioiu, I., Moffat, K., Moggi, N., Mohanta, R., Mohayai, T. A., Mokhov, N., Molina, J. A., Molina Bueno, L., Montagna, E., Montanari, A., Montanari, C., Montanari, D., Montano Zetina, L. M., Moon, S., Mooney, M., Moor, A. F., Moreno, D., Moretti, D., Morris, C., Mossey, C., Mote, M., Motuk, E., Moura, C. A., Mousseau, J., Mouster, G., Mu, W., Mualem, L., Mueller, J., Muether, M., Mufson, S., Muheim, F., Muir, A., Mulhearn, M., Munford, D., Muramatsu, H., Murphy, S., Musser, J., Nachtman, J., Nagu, S., Nalbandyan, M., Nandakumar, R., Naples, D., Narita, S., Nath, A., Navrer-Agasson, A., Nayak, N., Nebot-Guinot, M., Negishi, K., Nelson, J. K., Nesbit, J., Nessi, M., Newbold, D., Newcomer, M., Newton, H., Nichol, R., Nicolas-Arnaldos, F., Nikolica, A., Niner, E., Nishimura, K., Norman, A., Norrick, A., Northrop, R., Novella, P., Nowak, J. A., Oberling, M., Ochoa-Ricoux, J., Olivier, A., Olshevskiy, A., Onel, Y., Onishchuk, Y., Ott, J., Pagani, L., Palacio, G., Palamara, O., Palestini, S., Paley, J. M., Pallavicini, M., Palomares, C., Panduro Vazquez, W., Pantic, E., Paolone, V., Papadimitriou, V., Papaleo, R., Papanestis, A., Paramesvaran, S., Parke, S., Parozzi, E., Parsa, Z., Parvu, M., Pascoli, S., Pasqualini, L., Pasternak, J., Pater, J., Patrick, C., Patrizii, L., Patterson, R. B., Patton, S., Patzak, T., Paudel, A., Paulos, B., Paulucci, L., Pavlovic, Z., Pawloski, G., Payne, D., Pec, V., Peeters, S. J., Pena Perez, A., Pennacchio, E., Penzo, A., Peres, O. L., Perry, J., Pershey, D., Pessina, G., Petrillo, G., Petta, C., Petti, R., Pia, V., Piastra, F., Pickering, L., Pietropaolo, F., Pimentel, V. L., Pinaroli, G., Plows, K., Plunkett, R., Poling, R., Pompa, F., Pons, X., Poonthottathil, N., Poppi, F., Pordes, S., Porter, J., Potekhin, M., Potenza, R., Potukuchi, B. 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Published
2022
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49. A citizen science-based survey of avian mortality focusing on haemosporidian infections in wild passerine birds

Author

Tanja Himmel, Josef Harl, Julia Matt, and Herbert Weissenböck

Subjects
Citizen science, Dead bird, Plasmodium, Haemoproteus, Leuocytozoon, Exo-erythrocytic merogony, Arctic medicine. Tropical medicine, RC955-962, Infectious and parasitic diseases, RC109-216
Abstract

Abstract Background Haemosporidioses are common in birds and their manifestations range from subclinical infections to severe disease, depending on the involved parasite and bird species. Clinical haemosporidioses are often observed in non-adapted zoo or aviary birds, whereas in wild birds, particularly passerines, haemosporidian infections frequently seem to be asymptomatic. However, a recent study from Austria showed pathogenic haemosporidian infections in common blackbirds due to high parasite burdens of Plasmodium matutinum LINN1, a common parasite in this bird species, suggesting that virulent infections also occur in natural hosts. Based on these findings, the present study aimed to explore whether and to what extent other native bird species are possibly affected by pathogenic haemosporidian lineages, contributing to avian morbidity. Methods Carcasses of passerine birds and woodpeckers were collected during a citizen science-based survey for avian mortality in Austria, from June to October 2020. Tissue samples were taken and examined for haemosporidian parasites of the genera Plasmodium, Haemoproteus and Leucocytozoon by nested PCR and sequencing the mitochondrial cytb barcode region, histology, and chromogenic in situ hybridization applying genus-specific probes. Results From over 160 dead bird reportings, 83 carcasses of 25 avian species were submitted for investigation. Overall haemosporidian infection rate was 31%, with finches and tits prevailing species counts and infections. Sequence analyses revealed 17 different haplotypes (4 Plasmodium, 4 Haemoproteus, 9 Leucocytozoon), including 4 novel Leucocytozoon lineages. Most infected birds presented low parasite burdens in the peripheral blood and tissues, ruling out a significant contribution of haemosporidian infections to morbidity or death of the examined birds. However, two great tits showed signs of avian malaria, suggesting pathogenic effects of the detected species Plasmodium relictum SGS1 and Plasmodium elongatum GRW06. Further, exo-erythrocytic tissue stages of several haemosporidian lineages are reported. Conclusions While suggesting generally little contribution of haemosporidian infections to mortality of the investigated bird species, the findings indicate a possible role of certain haemosporidian lineages in overall clinical manifestation, either as main causes or as concurrent disease agents. Further, the study presents new data on exo-erythrocytic stages of previously reported lineages and shows how citizen science can be used in the field of haemosporidian research. Graphic abstract

Published
2021
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50. Hypoxia inducible factor signaling in breast tumors controls spontaneous tumor dissemination in a site-specific manner

Author

Vera M. Todd, Lawrence A. Vecchi, Miranda E. Clements, Katherine P. Snow, Cayla D. Ontko, Lauren Himmel, Christopher Pinelli, Marjan Rafat, and Rachelle W. Johnson

Subjects
Biology (General), QH301-705.5
Abstract

Todd et al employ a PyMT-driven spontaneous murine mammary carcinoma model with mammary-specific deletion of hypoxia inducible factors Hif1α, Hif2α, or von Hippel-Lindau factor to further investigate their role in bone and lung metastasis. They find that HIF signaling in breast tumours controls tumour dissemination in a site-specific manner, which could inform the development of therapies targeting metastasis.

Published
2021
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