MIBiG 4.0: advancing biosynthetic gene cluster curation through global collaboration
2025
Zdouc, Mitja M | Blin, Kai | Louwen, Nico L L | Navarro, Jorge | Loureiro, Catarina | Bader, Chantal D | Bailey, Constance B | Barra, Lena | Booth, Thomas J | Bozhüyük, Kenan A J | Cediel-Becerra, José D D | Charlop-Powers, Zachary | Chevrette, Marc G | Chooi, Yit Heng | D'Agostino, Paul M | de Rond, Tristan | Del Pup, Elena | Duncan, Katherine R | Gu, Wenjia | Hanif, Novriyandi | Helfrich, Eric J N | Jenner, Matthew | Katsuyama, Yohei | Korenskaia, Aleksandra | Krug, Daniel | Libis, Vincent | Lund, George A | Mantri, Shrikant | Morgan, Kalindi D | Owen, Charlotte | Phan, Chin-Soon | Philmus, Benjamin | Reitz, Zachary L | Robinson, Serina L | Singh, Kumar Saurabh | Teufel, Robin | Tong, Yaojun | Tugizimana, Fidele | Ulanova, Dana | Winter, Jaclyn M | Aguilar, César | Akiyama, Daniel Y | Al-Salihi, Suhad A A | Alanjary, Mohammad | Alberti, Fabrizio | Aleti, Gajender | Alharthi, Shumukh A | Rojo, Mariela Y Arias | Arishi, Amr A | Augustijn, Hannah E | Avalon, Nicole E | Avelar-Rivas, J Abraham | Axt, Kyle K | Barbieri, Hellen B | Barbosa, Julio Cesar J | Barboza Segato, Lucas Gabriel | Barrett, Susanna E | Baunach, Martin | Beemelmanns, Christine | Beqaj, Dardan | Berger, Tim | Bernaldo-Agüero, Jordan | Bettenbühl, Sandra M | Bielinski, Vincent A | Biermann, Friederike | Borges, Ricardo M | Borriss, Rainer | Breitenbach, Milena | Bretscher, Kevin M | Brigham, Michael W | Buedenbender, Larissa | Bulcock, Brodie W | Cano-Prieto, Carolina | Capela, João | Carrion, Victor J | Carter, Riley S | Castelo-Branco, Raquel | Castro-Falcón, Gabriel | Chagas, Fernanda O | Charria-Girón, Esteban | Chaudhri, Ayesha Ahmed | Chaudhry, Vasvi | Choi, Hyukjae | Choi, Yukyung | Choupannejad, Roya | Chromy, Jakub | Donahey, Melinda S Chue | Collemare, Jérôme | Connolly, Jack A | Creamer, Kaitlin E | Crüsemann, Max | Cruz, Andres Arredondo | Cumsille, Andres | Dallery, Jean-Felix | Damas-Ramos, Luis Caleb | Damiani, Tito | de Kruijff, Martinus | Martín, Belén Delgado | Sala, Gerardo Della | Dillen, Jelle | Doering, Drew T | Dommaraju, Shravan R | Durusu, Suhan | Egbert, Susan | Ellerhorst, Mark | Faussurier, Baptiste | Fetter, Artem | Feuermann, Marc | Fewer, David P | Foldi, Jonathan | Frediansyah, Andri | Garza, Erin A | Gavriilidou, Athina | Gentile, Andrea | Gerke, Jennifer | Gerstmans, Hans | Gomez-Escribano, Juan Pablo | González-Salazar, Luz A | Grayson, Natalie E | Greco, Claudio | Gomez, Juan E Gris | Guerra, Sebastian | Flores, Shaday Guerrero | Gurevich, Alexey | Gutiérrez-García, Karina | Hart, Lauren | Haslinger, Kristina | He, Beibei | Hebra, Teo | Hemmann, Jethro L | Hindra, Hindra | Höing, Lars | Holland, Darren C | Holme, Jonathan E | Horch, Therese | Hrab, Pavlo | Hu, Jie | Huynh, Thanh-Hau | Hwang, Ji-Yeon | Iacovelli, Riccardo | Iftime, Dumitrita | Iorio, Marianna | Jayachandran, Sidharth | Jeong, Eunah | Jing, Jiayi | Jung, Jung J | Kakumu, Yuya | Kalkreuter, Edward | Kang, Kyo Bin | Kang, Sangwook | Kim, Wonyong | Kim, Geum Jin | Kim, Hyunwoo | Kim, Hyun Uk | Klapper, Martin | Koetsier, Robert A | Kollten, Cassandra | Kovács, Ákos T | Kriukova, Yelyzaveta | Kubach, Noel | Kunjapur, Aditya M | Kushnareva, Aleksandra K | Kust, Andreja | Lamber, Jessica | Larralde, Martin | Larsen, Niels J | Launay, Adrien P | Le, Ngoc-Thao-Hien | Lebeer, Sarah | Lee, Byung Tae | Lee, Kyungha | Lev, Katherine L | Li, Shu-Ming | Li, Yong-Xin | Licona-Cassani, Cuauhtémoc | Lien, Annette | Liu, Jing | Lopez, Julius Adam V | Machushynets, Nataliia V | Macias, Marla I | Mahmud, Taifo | Maleckis, Matiss | Martinez-Martinez, Añadir Maharai | Mast, Yvonne | Maximo, Marina F | McBride, Christina M | McLellan, Rose M | Bhatt, Khyati Mehta | Melkonian, Chrats | Merrild, Aske | Metsä-Ketelä, Mikko | Mitchell, Douglas A | Müller, Alison V | Nguyen, Giang-Son | Nguyen, Hera T | Niedermeyer, Timo H J | O'Hare, Julia H | Ossowicki, Adam | Ostash, Bohdan O | Otani, Hiroshi | Padva, Leo | Paliyal, Sunaina | Pan, Xinya | Panghal, Mohit | Parade, Dana S | Park, Jiyoon | Parra, Jonathan | Rubio, Marcos Pedraza | Pham, Huong T | Pidot, Sacha J | Piel, Jörn | Pourmohsenin, Bita | Rakhmanov, Malik | Ramesh, Sangeetha | Rasmussen, Michelle H | Rego, Adriana | Reher, Raphael | Rice, Andrew J | Rigolet, Augustin | Romero-Otero, Adriana | Rosas-Becerra, Luis Rodrigo | Rosiles, Pablo Y | Rutz, Adriano | Ryu, Byeol | Sahadeo, Libby-Ann | Saldanha, Murrel | Salvi, Luca | Sánchez-Carvajal, Eduardo | Santos-Medellin, Christian | Sbaraini, Nicolau | Schoellhorn, Sydney M | Schumm, Clemens | Sehnal, Ludek | Selem, Nelly | Shah, Anjali D | Shishido, Tania K | Sieber, Simon | Silviani, Velina | Singh, Garima | Singh, Hemant | Sokolova, Nika | Sonnenschein, Eva C | Sosio, Margherita | Sowa, Sven T | Steffen, Karin | Stegmann, Evi | Streiff, Alena B | Strüder, Alena | Surup, Frank | Svenningsen, Tiziana | Sweeney, Douglas | Szenei, Judit | Tagirdzhanov, Azat | Tan, Bin | Tarnowski, Matthew J | Terlouw, Barbara R | Rey, Thomas | Thome, Nicola U | Torres Ortega, Laura Rosina | Tørring, Thomas | Trindade, Marla | Truman, Andrew W | Tvilum, Marie | Udwary, Daniel W | Ulbricht, Christoph | Vader, Lisa | van Wezel, Gilles P | Walmsley, Max | Warnasinghe, Randika | Weddeling, Heiner G | Weir, Angus N M | Williams, Katherine | Williams, Sam E | Witte, Thomas E | Rocca, Steffaney M Wood | Yamada, Keith | Yang, Dong | Yang, Dongsoo | Yu, Jingwei | Zhou, Zhenyi | Ziemert, Nadine | Zimmer, Lukas | Zimmermann, Alina | Zimmermann, Christian | van der Hooft, Justin J J | Linington, Roger G | Weber, Tilmann | Medema, Marnix H | European Commission | German Research Foundation | University of Sydney | Novo Nordisk Foundation | Australian Research Council | Ministerio de Ciencia, Innovación y Universidades (España) | Fundação de Amparo à Pesquisa do Estado de São Paulo | National Research Foundation of Korea | Carlsberg Foundation | Agencia Estatal de Investigación (España) | Danish National Research Foundation | Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
The MIBiG repository is available at https://mibig.secondarymetabolites.org/. Files in JSON format following the MIBiG data standard (https://github.com/mibig-secmet/mibig-json) can be found on the MIBiG webpage (https://mibig.secondarymetabolites.org/download) and on the MIBiG Zenodo Community page (https://doi.org/10.5281/zenodo.13367755). Further materials are available on GitHub (https://github.com/mibig-secmet). All data are freely available with no restrictions for academic and commercial reuse under the OSI-approved CC BY 4.0 Open Source license (https://creativecommons.org/licenses/by/4.0/).
Show more [+] Less [-]Specialized or secondary metabolites are small molecules of biological origin, often showing potent biological activities with applications in agriculture, engineering and medicine. Usually, the biosynthesis of these natural products is governed by sets of co-regulated and physically clustered genes known as biosynthetic gene clusters (BGCs). To share information about BGCs in a standardized and machine-readable way, the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard and repository was initiated in 2015. Since its conception, MIBiG has been regularly updated to expand data coverage and remain up to date with innovations in natural product research. Here, we describe MIBiG version 4.0, an extensive update to the data repository and the underlying data standard. In a massive community annotation effort, 267 contributors performed 8304 edits, creating 557 new entries and modifying 590 existing entries, resulting in a new total of 3059 curated entries in MIBiG. Particular attention was paid to ensuring high data quality, with automated data validation using a newly developed custom submission portal prototype, paired with a novel peer-reviewing model. MIBiG 4.0 also takes steps towards a rolling release model and a broader involvement of the scientific community. MIBiG 4.0 is accessible online at https://mibig.secondarymetabolites.org/.
Show more [+] Less [-]M.M.Z. was supported by the NWO Grant KICH1.LWV04.21.013 and by the Horizon 2020 Grant 101000392; C.L. was supported by the NWO Open Science Project 'BiG-CODEC' No. OSF.23.1.044; C.D.B was supported by the German Research Foundation Grant No. 547394769; C.B.B. was supported by the University of Sydney Drug Discovery Initiative; T.J.B was supported by the Novo Nodisk Foundation Grant NNF22OC0078997; Y.H.C. was supported by the Australian Research Council Industry Fellowship IM230100154; P.M.D. was supported by the Hans Fischer Society; K.R.D. was supported by the UK Government Department for Environment, Food & Rural Affairs (DEFRA) Global Centre on Biodiversity for the Climate and by the United Kingdom Research and Innovation (EP/X03142X/1) and by the Horizon Europe Marie Skłodowska-Curie grant agreement No 101072485; N.H. was supported by the Indonesia Endowment Fund for Education Agency (LPDP) and National Research and Innovation Agency (BRIN) of the Republic of Indonesia (106/IV/KS/11/2023 and 41644/IT3/PT.01.03/P/B/2023) and by the the Ministry of Education, Culture, Research, and Technology of the Republic of Indonesia
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This bibliographic record has been provided by Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora