Open Access
Nucleic Acids Research, volume 53, issue D1, pages D678-D690
MIBiG 4.0: advancing biosynthetic gene cluster curation through global collaboration
Mitja M Zdouc
1
,
Kai Blin
2
,
Nico L L Louwen
1
,
Chantal D Bader
3
,
Constance B Bailey
4
,
Lena Barra
5
,
Thomas J. Booth
2
,
Kenan A J Bozhüyük
3, 6
,
José D D Cediel-Becerra
7
,
Zachary Charlop-Powers
8
,
Marc G Chevrette
7, 9
,
Yit Heng Chooi
10
,
Paul M Dagostino
3, 11
,
Tristan De Rond
12
,
Elena Del Pup
1
,
Katherine R. Duncan
13
,
Wenjia Gu
14
,
Novriyandi Hanif
15
,
Eric J N Helfrich
16, 17, 18
,
Matthew Jenner
19, 20
,
Yohei Katsuyama
21, 22
,
Aleksandra Korenskaia
23
,
Daniel Krug
3, 24, 25
,
Vincent Libis
26, 27
,
George A. Lund
28
,
Shrikant Mantri
29, 30
,
Kalindi D Morgan
31
,
Charlotte Owen
32
,
Chin-Soon Phan
33
,
Benjamin Philmus
34
,
Zachary L Reitz
35
,
Serina L. Robinson
36
,
Kumar Saurabh Singh
1, 37, 38
,
Robin Teufel
39
,
Yaojun Tong
40
,
Fidele Tugizimana
41, 42
,
Dana Ulanova
43, 44
,
Jaclyn M Winter
45
,
César Aguilar
46, 47
,
Daniel Y. Akiyama
48
,
Suhad A A Al-Salihi
49
,
Mohammad Alanjary
1
,
Fabrizio Alberti
50
,
Gajender Aleti
51
,
Shumukh A. Alharthi
52
,
Mariela Y Arias Rojo
53
,
Amr A Arishi
10, 54
,
Hannah E Augustijn
1, 55
,
Nicole E Avalon
56
,
J Abraham Avelar-Rivas
57
,
Kyle K. Axt
34
,
Hellen B Barbieri
48
,
Julio Cesar J Barbosa
48
,
Lucas Gabriel Barboza Segato
58
,
Susanna E. Barrett
59, 60
,
Martin Baunach
61
,
Christine Beemelmanns
3, 24
,
Dardan Beqaj
62
,
Tim Berger
63
,
Jordan Bernaldo-Agüero
64, 65, 66
,
Sandra M Bettenbühl
16, 17
,
Vincent A Bielinski
67
,
Friederike Biermann
1, 16, 17
,
Ricardo M Borges
68
,
Rainer Borriss
69, 70
,
Milena Breitenbach
16, 17
,
Kevin M Bretscher
55, 71, 72
,
Michael W Brigham
73
,
Larissa Buedenbender
74
,
Brodie W. Bulcock
10
,
Carolina Cano-Prieto
2
,
João Capela
75
,
Victor J Carrion
55, 71, 76
,
Riley S. Carter
59, 60
,
Raquel Castelo-Branco
77
,
Gabriel Castro-Falcón
56
,
Fernanda O Chagas
68
,
Esteban Charria-Girón
25, 78
,
Ayesha Ahmed Chaudhri
16, 17
,
Vasvi Chaudhry
79
,
Hyukjae Choi
80, 81
,
Yukyung Choi
82
,
Roya Choupannejad
83
,
Jakub Chromy
84
,
Melinda S Chue Donahey
7
,
Melinda Chue Donahey
7
,
Jérôme Collemare
83
,
Jack A. Connolly
84
,
Kaitlin E Creamer
85, 86
,
Max Crüsemann
61
,
Andres Arredondo Cruz
53
,
Andres Cumsille
7
,
Jean-Felix Dallery
87
,
Luis Caleb Damas-Ramos
2
,
Tito Damiani
88
,
Martinus de Kruijff
3
,
Belén Delgado Martín
76
,
Gerardo Della Sala
89
,
Jelle Dillen
90
,
Drew T Doering
91
,
Shravan R Dommaraju
59, 60
,
Suhan Durusu
16, 17
,
Susan Egbert
58
,
Mark Ellerhorst
92
,
Baptiste Faussurier
26, 27
,
Artem Fetter
13
,
Marc Feuermann
93
,
David P. Fewer
94
,
Jonathan Foldi
84
,
Andri Frediansyah
95, 96
,
Erin A. Garza
97
,
Athina Gavriilidou
23
,
Andrea Gentile
98, 99
,
Jennifer Gerke
100
,
Hans Gerstmans
101, 102, 103
,
Juan Pablo Gomez-Escribano
104
,
Luz A. González-Salazar
46
,
Natalie E. Grayson
56
,
Claudio Greco
52
,
Juan E Gris Gomez
46
,
Sebastian Guerra
7, 9
,
Shaday Guerrero Flores
105
,
Alexey Gurevich
3, 24
,
Karina Gutiérrez-García
106
,
Lauren Hart
107, 108
,
Kristina Haslinger
109
,
Beibei He
110
,
Teo Hebra
88
,
Jethro L Hemmann
111
,
Hindra Hindra
112, 113
,
Lars Höing
39
,
Darren C. Holland
10
,
Jonathan E Holme
114
,
Therese Horch
2
,
Pavlo Hrab
1, 115
,
Jie Hu
116
,
Thanh-Hau Huynh
117, 118
,
Ji-Yeon Hwang
119
,
Riccardo Iacovelli
120
,
Dumitrita Iftime
62
,
Marianna Iorio
98
,
Sidharth Jayachandran
2
,
Eunah Jeong
82
,
Jiayi Jing
1
,
Jung J Jung
117, 118
,
Yuya Kakumu
16, 17
,
Edward Kalkreuter
121
,
Kyo Bin Kang
82
,
Sangwook Kang
117, 118
,
Wonyong Kim
122
,
Geum Jin Kim
81, 123
,
Hyunwoo Kim
124
,
Hyun Uk Kim
125
,
Martin Klapper
126
,
Robert A Koetsier
1
,
Cassandra Kollten
11
,
Ákos T. Kovács
55, 127
,
Yelyzaveta Kriukova
3, 11
,
Noel Kubach
23
,
Aditya M Kunjapur
128
,
Aleksandra K Kushnareva
3, 24
,
Andreja Kust
85, 86
,
Jessica Lamber
3, 24, 129
,
Martin Larralde
130
,
Niels J Larsen
2
,
Adrien P Launay
131
,
Ngoc-Thao-Hien Le
26
,
Sarah Lebeer
90, 132
,
Byung Tae Lee
125
,
Kyungha Lee
82
,
Katherine L Lev
107, 108
,
Shu-Ming Li
63
,
Yong-Xin Li
110
,
Cuauhtémoc Licona-Cassani
46, 133, 134
,
Annette Lien
1
,
Jing Liu
110
,
Julius Adam V Lopez
135, 136
,
Nataliia V Machushynets
55
,
Marla I Macias
137
,
Taifo Mahmud
34
,
Matiss Maleckis
138
,
Añadir Maharai Martinez-Martinez
46
,
Yvonne Mast
104, 139
,
Marina F. Maximo
48
,
Christina M Mcbride
107, 108
,
Rose M Mclellan
140, 141
,
Khyati Mehta Bhatt
83
,
Chrats Melkonian
1, 142
,
Aske Merrild
143
,
Mikko Metsä-Ketelä
144
,
Douglas A. Mitchell
59
,
Alison V. Müller
3, 24, 129
,
Giang-Son Nguyen
114
,
Hera T Nguyen
10
,
Timo H J Niedermeyer
145
,
Julia H O’Hare
68
,
Adam Ossowicki
71, 76
,
Bohdan O Ostash
146, 147
,
Hiroshi Otani
91, 148
,
Leo Padva
61
,
Sunaina Paliyal
29
,
Xinya Pan
55, 71, 72
,
Mohit Panghal
29, 30
,
Dana S Parade
3
,
Jiyoon Park
117, 118
,
Jonathan Parra
149, 150, 151
,
Marcos Pedraza Rubio
71, 76
,
Huong T. PHAM
82
,
Sacha J. Pidot
152
,
Jörn Piel
153
,
Bita Pourmohsenin
23
,
Malik Rakhmanov
39
,
Sangeetha Ramesh
154
,
Michelle H Rasmussen
155
,
Adriana Rego
77
,
Raphael Reher
63
,
Andrew J Rice
59
,
Augustin Rigolet
55
,
Adriana Romero-Otero
2, 138
,
Luis Rodrigo Rosas-Becerra
55, 57
,
Pablo Y Rosiles
131
,
Adriano Rutz
156
,
Byeol Ryu
56
,
Libby-Ann Sahadeo
58
,
Murrel Saldanha
7
,
LUCA SALVI
62
,
Eduardo Sánchez-Carvajal
157
,
Christian Santos-Medellin
116
,
Nicolau Sbaraini
10
,
Sydney M. Schoellhorn
158
,
Clemens Schumm
3, 129, 159
,
Ludek Sehnal
62, 160
,
Nelly Selem
105
,
Anjali D. Shah
161, 162
,
Tania K Shishido
83, 163
,
Simon Sieber
164
,
Velina Silviani
80, 81
,
Garima Singh
165, 166
,
Hemant Singh
29
,
Nika Sokolova
109
,
Eva C Sonnenschein
52
,
Margherita Sosio
98
,
Sven T Sowa
39
,
Karin Steffen
167
,
Evi Stegmann
62, 168
,
Alena B. Streiff
153
,
Alena Strüder
62
,
Frank Surup
25, 78
,
Tiziana Svenningsen
143
,
Douglas Sweeney
56
,
Judit Szenei
2
,
Azat Tagirdzhanov
3, 24
,
Bin Tan
16, 17
,
Matthew J. Tarnowski
52
,
Barbara R Terlouw
1
,
Thomas Rey
169, 170
,
Nicola U. Thome
55, 102
,
Laura Rosina Torres Ortega
1
,
Thomas Tørring
143
,
Marla Trindade
171
,
Andrew W Truman
172
,
Marie Tvilum
143
,
Daniel W Udwary
91
,
Christoph Ulbricht
61
,
Lisa Vader
2
,
Gilles P. van Wezel
55, 72
,
Max Walmsley
84
,
Randika Warnasinghe
58
,
Heiner G Weddeling
39
,
Angus N M Weir
101, 173
,
Katherine Williams
161, 174
,
Sam E Williams
2
,
Thomas E Witte
175
,
Steffaney M Wood Rocca
56, 97
,
Keith Yamada
144
,
Dong Yang
176
,
Dongsoo Yang
177
,
Jingwei Yu
178
,
Zhenyi Zhou
179
,
Nadine Ziemert
23
,
Lukas Zimmer
61
,
Alina Zimmermann
104
,
Christian Zimmermann
180
,
Justin J. J. van der Hooft
1, 41
,
Roger G Linington
181
,
Tilmann Weber
2
,
1
6
Myria Biosciences AG, Tech Park Basel , Hochbergstrasse 60C, 4057 Basel ,
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Ginkgo Bioworks , 27 Drydock Avenue, 8th Floor, Boston , MA 02210 ,
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Sutro Biopharma , 111 Oyster Point Blvd, South San Francisco , CA , 94080 ,
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LOEWE Center for Translational Biodiversity Genomics (TBG) , Senckenberganlage 25, 60325 Frankfurt am Main,
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27
Translational Genome Mining for Natural Products, Generare Bioscience , 75011 Paris , Île-de-France,
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29
Computational Biology Lab, National Agri-Food and Biomanufacturing Institute (NABI) , Sector 81, S.A.S. Nagar , Mohali , Punjab 140306 ,
30
Regional Centre for Biotechnology, NCR Biotech Science Cluster , 3rd Milestone, Faridabad -Gurugram Expressway, Faridabad - 121001 Haryana (NCR Delhi ),
35
Department of Ecology, Evolution and Marine Biology, University of California , 1169 Biological Sciences II, Santa Barbara , CA 93106 ,
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International Research and Development (R&D) Division , Omnia Nutriology, Omnia Holdings Ltd, Building H, Monte Circle, 178 Montecasino Blvd, Fourways , Sandton , 2055 ,
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Department of Applied Sciences, University of Technology , Al-Sina’a St., 10066 , Baghdad ,
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58
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Facultad de Ciencias Biológicas, Universidad Nacional Mayor de San Marcos , Av. Germán Amézaga S/N, Ciudad Universitaria, UNMSM, Lima 15081 ,
71
Department of Crop Protection, Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora” (IHSM-UMA-CSIC), Campus Universitario de Teatinos , 29010 , Málaga,
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76
Department of Microbiology, Faculty of Science, Campus Universitario de Teatinos s/n, University of Málaga , 29010 Málaga,
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80
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Fungal Natural Products, Westerdijk Fungal Biodiversity Institute , Uppsalalaan 8, 3584CT Utrecht ,
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86
Department of Earth and Planetary Science, University of California , 307 McCone Hall Berkeley, CA 94720-4767 ,
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88
IOCB Prague, Czech Academy of Science , Flemingovo náměstí 542/2, 160 00 Praha 6,
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97
Microbial and Environmental Genomics Group, J. Craig Venter Institute , 4120 Capricorn Lane, La Jolla , CA 92037,
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NAICONS Srl , viale Ortles 22/4, 20139 Milan ,
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Biosphere Sciences and Engineering Division, Carnegie Institution for Science , 3520 San Martin Dr, Baltimore , MD, 21218 ,
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Department of Biotechnology and Nanomedicine , SINTEF Industry , P.O.Box 4760 Torgard, N- 7465 Trondheim,
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Corteva Agriscience , 9330 Zionsville Road, Indianapolis , Indiana 46268 ,
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Bioinformatics department , Endogenomiks, El Marqués, Querétaro,
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132
U-MaMi Centre of Excellence , Middelheimlaan 1, 2020 Antwerp,
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134
Integrative Biology Research Unit, The Institute for Obesity Research , Tecnológico de Monterrey, Av. Eugenio Garza Sada 2501 sur , Nuevo Leon, 64700 .
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Department of Genetics and Biotechnology, Ivan Franko National University of Lviv , Hrushevskoho st 4, Lviv 79005 ,
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German-Ukrainian Core of Excellence in Natural Products Research , Zelena str. 20, Lviv 79005 ,
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150
Centro Nacional de Innovaciones Biotecnológicas (CENIBiot) , CeNAT-CONARE, 1174-1200 , San José,
169
DE SANGOSSE , Bonnel, 47480 , Pont-Du-Casse,
Publication type: Journal Article
Publication date: 2024-12-09
Journal:
Nucleic Acids Research
scimago Q1
wos Q1
SJR: 7.048
CiteScore: 27.1
Impact factor: 16.6
ISSN: 03051048, 13624962
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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