The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update

Autor: Abueg, L.A.L., Afgan, E., Allart, O., Awan, A.H., Bacon, W.A., Baker, D., Bassetti, M., Batut, B., Bernt, M., Blankenberg, D., Bombarely, A., Bretaudeau, A., Bromhead, C.J., Burke, M.L., Capon, P.K., Čech, M., Chavero-Díez, M., Chilton, J.M., Collins, T.J., Coppens, F., Coraor, N., Cuccuru, G., Cumbo, F., Davis, J., De Geest, P.F., de Koning, W., Demko, M., DeSanto, A., Domínguez Begines, J.M., Doyle, M.A., Droesbeke, B., Erxleben-Eggenhofer, A., Föll, M.C., Formenti, G., Fouilloux, A., Gangazhe, R., Genthon, T., Goecks, J., Gonzalez Beltran, A.N., Goonasekera, N.A., Goué, N., Griffin, T.J., Grüning, B.A., Guerler, A., Gundersen, S., Gustafsson, O.J.R., Hall, C., Harrop, T.W., Hecht, H., Heidari, A., Heisner, T., Heyl, F., Hiltemann, S., Hotz, H.-R., Hyde, C.J., Jagtap, P.D., Jakiela, J., Johnson, J.E., Joshi, J., Jossé, M., Jum'ah, Khaled, Kalaš, M., Kamieniecka, Katarzyna, Kayikcioglu, T., Konkol, M., Kostrykin, L., Kucher, N., Kumar, A., Kuntz, M., Lariviere, D., Lazarus, R., Le Bras, Y., Le Corguillé, G., Lee, J., Leo, S., Liborio, L., Libouban, R., López Tabernero, D., Lopez-Delisle, L., Los, L.S., Mahmoud, A., Makunin, I., Marin, P., Mehta, S., Mok, W., Moreno, P.A., Morier-Genoud, F., Mosher, S., Müller, T., Nasr, E., Nekrutenko, A., Nelson, T.M., Oba, A.J., Ostrovsky, A., Polunina, P.V., Poterlowicz, Krzysztof, Price, E.J., Price, G.R., Rasche, H., Raubenolt, B., Royaux, C., Sargent, L., Savage, M.T., Savchenko, V., Savchenko, D., Schatz, M.C., Seguineau, P., Serrano-Solano, B., Soranzo, N., Srikakulam, S.K., Suderman, K., Syme, A.E., Tangaro, M.A., Tedds, J.A., Tekman, M., Thang, W.C.M., Thanki, A.S., Uhl, M., van den Beek, M., Varshney, D., Vessio, J., Videm, P., Von Kuster, G., Watson, G.R., Whitaker-Allen, N., Winter, U., Wolstencroft, M., Zambelli, F., Zierep, P., Zoabi, R.

Yes
Galaxy (https://galaxyproject.org) is deployed globally, predominantly through free-to-use services, supporting user-driven research that broadens in scope each year. Users are attracted to public Galaxy services by platform stability, tool

Externí odkaz: http://hdl.handle.net/10454/19930

Miracle Fruit Pulp Transcriptomes Identify Genetic Variants in Support of Discovery Research and Breeding

Autor: Vincent Njung’e Michael, Lynhe Demesyeux, Aureliano Bombarely, Xingbo Wu, Alan Chambers

Publikováno v: Journal of the American Society for Horticultural Science, Vol 148, Iss 5, Pp 201-208 (2023)

Miracle fruit (Synsepalum dulcificum) is the botanical source of miraculin, a natural, noncaloric sweetener. Miracle fruit plants have a bush-like architecture and produce multiple flushes of attractive red berries each year. The berries consist of a

Externí odkaz: https://doaj.org/article/64a9e564d2cb4373a1bd6f0c7e385f4e

Genomics in neglected and underutilized fruit crops: A chromosome‐scale genome sequence of cherimoya (Annona cherimola)

Autor: Alicia Talavera, Noe Fernandez‐Pozo, Antonio J. Matas, Jose I. Hormaza, Aureliano Bombarely

Publikováno v: Plants, People, Planet, Vol 5, Iss 3, Pp 408-423 (2023)

Societal Impact Statement Cherimoya has been an important food source since Pre‐Columbian times in the Americas. Although it is currently considered an underutilized fruit crop, it is still important at the local level in several regions of Central

Externí odkaz: https://doaj.org/article/fb13fdb0b9c842fe8558740232dba175

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The era of reference genomes in conservation genomics

Autor: Formenti, Giulio, Theissinger, Kathrin, Fernandes, Carlos, Bista, Iliana, Bombarely, Aureliano, Bleidorn, Christoph, Čiampor, Fedor, Ciofi, Claudio, Crottini, Angelica, Godoy, José A., Hoglund, Jacob, Malukiewicz, Joanna, Mouton, Alice, Oomen, Rebekah A., Paez, Sadye, Palsbøll, Per, Pampoulie, Christophe, Ruiz-López, María José, Svardal, Hannes, Theofanopoulou, Constantina, de Vries, Jan, Waldvogel, Ann-Marie, Zhang, Goujie, Mazzoni, Camila J., Jarvis, Erich, Bálint, Miklós, Aghayan, Sargis A., Alioto, Tyler S., Almudi, Isabel, Alvarez, Nadir, Alves, Paulo C., Amorim, Isabel R., Antunes, Agostinho, Arribas, Paula, Baldrian, Petr, Berg, Paul R., Bertorelle, Giorgio, Böhne, Astrid, Bonisoli-Alquati, Andrea, Boštjančić, Ljudevit L., Boussau, Bastien, Breton, Catherine M., Buzan, Elena, Campos, Paula F., Carreras, Carlos, Castro, L. FIlipe, Chueca, Luis J., Conti, Elena, Cook-Deegan, Robert, Croll, Daniel, Cunha, Mónica V., Delsuc, Frédéric, Dennis, Alice B., Dimitrov, Dimitar, Faria, Rui, Favre, Adrien, Fedrigo, Olivier D., Fernández, Rosa, Ficetola, Gentile Francesco, Flot, Jean-François, Gabaldón, Toni, Galea Agius, Dolores R., Gallo, Guido R., Giani, Alice M., Gilbert, M. Thomas P., Grebenc, Tine, Guschanski, Katerina, Guyot, Romain, Hausdorf, Bernhard, Hawlitschek, Oliver, Heintzman, Peter D., Heinze, Berthold, Hiller, Michael, Husemann, Martin, Iannucci, Alessio, Irisarri, Iker, Jakobsen, Kjetill S., Jentoft, Sissel, Klinga, Peter, Kloch, Agnieszka, Kratochwil, Claudius F., Kusche, Henrik, Layton, Kara K.S., Leonard, Jennifer A., Lerat, Emmanuelle, Liti, Gianni, Manousaki, Tereza, Marques-Bonet, Tomas, Matos-Maraví, Pável, Matschiner, Michael, Maumus, Florian, Mc Cartney, Ann M., Meiri, Shai, Melo-Ferreira, José, Mengual, Ximo, Monaghan, Michael T., Montagna, Matteo, Mysłajek, Robert W., Neiber, Marco T., Nicolas, Violaine, Novo, Marta, Ozretić, Petar, Palero, Ferran, Pârvulescu, Lucian, Pascual, Marta, Paulo, Octávio S., Pavlek, Martina, Pegueroles, Cinta, Pellissier, Loïc, Pesole, Graziano, Primmer, Craig R., Riesgo, Ana, Rüber, Lukas, Rubolini, Diego, Salvi, Daniele, Seehausen, Ole, Seidel, Matthias, Secomandi, Simona, Studer, Bruno, Theodoridis, Spyros, Thines, Marco, Urban, Lara, Vasemägi, Anti, Vella, Adriana, Vella, Noel, Vernes, Sonja C., Vernesi, Cristiano, Vieites, David R., Waterhouse, Robert M., Wheat, Christopher W., Wörheide, Gert, Wurm, Yannick, Zammit, Gabrielle, Höglund, Jacob, Palsbøll, Per J., Ruiz-López, María J., Zhang, Guojie, Jarvis, Erich D.

Publikováno v: In Trends in Ecology & Evolution March 2022 37(3):197-202