MIBiG 4.0 : advancing biosynthetic gene cluster curation through global collaboration

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Zdouc, Mitja M and Blin, Kai and Louwen, Nico L L and Navarro, Jorge and Loureiro, Catarina and Bader, Chantal D and Bailey, Constance B and Barra, Lena and Booth, Thomas J and Bozhüyük, Kenan A J and Cediel-Becerra, José D D and Charlop-Powers, Zachary and Chevrette, Marc G and Chooi, Yit Heng and D'Agostino, Paul M and de Rond, Tristan and Del Pup, Elena and Duncan, Katherine R and Gu, Wenjia and Hanif, Novriyandi and Helfrich, Eric J N and Jenner, Matthew and Katsuyama, Yohei and Korenskaia, Aleksandra and Krug, Daniel and Libis, Vincent and Lund, George A and Mantri, Shrikant and Morgan, Kalindi D and Owen, Charlotte and Phan, Chin-Soon and Philmus, Benjamin and Reitz, Zachary L and Robinson, Serina L and Singh, Kumar Saurabh and Teufel, Robin and Tong, Yaojun and Tugizimana, Fidele and Ulanova, Dana and Winter, Jaclyn M and Aguilar, César and Akiyama, Daniel Y and Al-Salihi, Suhad A A and Alanjary, Mohammad and Alberti, Fabrizio and Aleti, Gajender and Alharthi, Shumukh A and Rojo, Mariela Y Arias and Arishi, Amr A and Augustijn, Hannah E and Avalon, Nicole E and Avelar-Rivas, J Abraham and Axt, Kyle K and Barbieri, Hellen B and Barbosa, Julio Cesar J and Barboza Segato, Lucas Gabriel and Barrett, Susanna E and Baunach, Martin and Beemelmanns, Christine and Beqaj, Dardan and Berger, Tim and Bernaldo-Agüero, Jordan and Bettenbühl, Sandra M and Bielinski, Vincent A and Biermann, Friederike and Borges, Ricardo M and Borriss, Rainer and Breitenbach, Milena and Bretscher, Kevin M and Brigham, Michael W and Buedenbender, Larissa and Bulcock, Brodie W and Cano-Prieto, Carolina and Capela, João and Carrion, Victor J and Carter, Riley S and Castelo-Branco, Raquel and Castro-Falcón, Gabriel and Chagas, Fernanda O and Charria-Girón, Esteban and Chaudhri, Ayesha Ahmed and Chaudhry, Vasvi and Choi, Hyukjae and Choi, Yukyung and Choupannejad, Roya and Chromy, Jakub and Donahey, Melinda S Chue and Collemare, Jérôme and Connolly, Jack A and Creamer, Kaitlin E and Crüsemann, Max and Cruz, Andres Arredondo and Cumsille, Andres and Dallery, Jean-Felix and Damas-Ramos, Luis Caleb and Damiani, Tito and de Kruijff, Martinus and Martín, Belén Delgado and Sala, Gerardo Della and Dillen, Jelle and Doering, Drew T and Dommaraju, Shravan R and Durusu, Suhan and Egbert, Susan and Ellerhorst, Mark and Faussurier, Baptiste and Fetter, Artem and Feuermann, Marc and Fewer, David P and Foldi, Jonathan and Frediansyah, Andri and Garza, Erin A and Gavriilidou, Athina and Gentile, Andrea and Gerke, Jennifer and Gerstmans, Hans and Gomez-Escribano, Juan Pablo and González-Salazar, Luz A and Grayson, Natalie E and Greco, Claudio and Gomez, Juan E Gris and Guerra, Sebastian and Flores, Shaday Guerrero and Gurevich, Alexey and Gutiérrez-García, Karina and Hart, Lauren and Haslinger, Kristina and He, Beibei and Hebra, Teo and Hemmann, Jethro L and Hindra, Hindra and Höing, Lars and Holland, Darren C and Holme, Jonathan E and Horch, Therese and Hrab, Pavlo and Hu, Jie 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McBride, Christina M and McLellan, Rose M and Bhatt, Khyati Mehta and Melkonian, Chrats and Merrild, Aske and Metsä-Ketelä, Mikko and Mitchell, Douglas A and Müller, Alison V and Nguyen, Giang-Son and Nguyen, Hera T and Niedermeyer, Timo H J and O'Hare, Julia H and Ossowicki, Adam and Ostash, Bohdan O and Otani, Hiroshi and Padva, Leo and Paliyal, Sunaina and Pan, Xinya and Panghal, Mohit and Parade, Dana S and Park, Jiyoon and Parra, Jonathan and Rubio, Marcos Pedraza and Pham, Huong T and Pidot, Sacha J and Piel, Jörn and Pourmohsenin, Bita and Rakhmanov, Malik and Ramesh, Sangeetha and Rasmussen, Michelle H and Rego, Adriana and Reher, Raphael and Rice, Andrew J and Rigolet, Augustin and Romero-Otero, Adriana and Rosas-Becerra, Luis Rodrigo and Rosiles, Pablo Y and Rutz, Adriano and Ryu, Byeol and Sahadeo, Libby-Ann and Saldanha, Murrel and Salvi, Luca and Sánchez-Carvajal, Eduardo and Santos-Medellin, Christian and Sbaraini, Nicolau and Schoellhorn, Sydney M and Schumm, Clemens and Sehnal, Ludek and Selem, Nelly and Shah, Anjali D and Shishido, Tania K and Sieber, Simon and Silviani, Velina and Singh, Garima and Singh, Hemant and Sokolova, Nika and Sonnenschein, Eva C and Sosio, Margherita and Sowa, Sven T and Steffen, Karin and Stegmann, Evi and Streiff, Alena B and Strüder, Alena and Surup, Frank and Svenningsen, Tiziana and Sweeney, Douglas and Szenei, Judit and Tagirdzhanov, Azat and Tan, Bin and Tarnowski, Matthew J and Terlouw, Barbara R and Rey, Thomas and Thome, Nicola U and Torres Ortega, Laura Rosina and Tørring, Thomas and Trindade, Marla and Truman, Andrew W and Tvilum, Marie and Udwary, Daniel W and Ulbricht, Christoph and Vader, Lisa and van Wezel, Gilles P and Walmsley, Max and Warnasinghe, Randika and Weddeling, Heiner G and Weir, Angus N M and Williams, Katherine and Williams, Sam E and Witte, Thomas E and Rocca, Steffaney M Wood and Yamada, Keith and Yang, Dong and Yang, Dongsoo and Yu, Jingwei and Zhou, Zhenyi and Ziemert, Nadine and Zimmer, Lukas and Zimmermann, Alina and Zimmermann, Christian and van der Hooft, Justin J J and Linington, Roger G and Weber, Tilmann and Medema, Marnix H (2025) MIBiG 4.0 : advancing biosynthetic gene cluster curation through global collaboration. Nucleic Acids Research, 53 (D1). D678–D690. ISSN 1362-4962 (https://doi.org/10.1093/nar/gkae1115)

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Abstract

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/.

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