Ribosomally synthesized and post-translationally modified peptide natural products: Overview and recommendations for a universal nomenclature
Paul G. Arnison,Mervyn J. Bibb,Gabriele Bierbaum,Albert A. Bowers,Tim S. Bugni,Grzegorz Bulaj,Julio A. Camarero,Dominic J. Campopiano,Gregory L. Challis,Jon Clardy,Paul D. Cotter,David J. Craik,Michael J. Dawson,Elke Dittmann,Stefano Donadio,Pieter C. Dorrestein,K. D. Entian,Michael A. Fischbach,John S. Garavelli,Ulf Göransson,Christian W. Gruber,Daniel H. Haft,Thomas Hemscheidt,Christian Hertweck,Colin Hill,Alexander R. Horswill,Marcel Jaspars,Wendy L. Kelly,Judith P. Klinman,Oscar P. Kuipers,A. James Link,Wen Liu,Mohamed A. Marahiel,Douglas A. Mitchell,Gert N. Moll,Bradley S. Moore,Rolf Müller,Satish K. Nair,Ingolf F. Nes,Gillian E. Norris,Baldomero M. Olivera,Hiroyasu Onaka,Mark L. Patchett,Joern Piel,Joern Piel,Martin J. T. Reaney,Sylvie Rebuffat,R. Paul Ross,Hans-Georg Sahl,Eric W. Schmidt,Michael E. Selsted,Konstantin Severinov,Ben Shen,Kaarina Sivonen,Leif Smith,Torsten Stein,Roderich D. Süssmuth,John R. Tagg,Gong-Li Tang,Andrew W. Truman,John C. Vederas,Christopher T. Walsh,Jonathan D. Walton,Silke C. Wenzel,Joanne M. Willey,Wilfred A. van der Donk +65 more
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TLDR
This review presents recommended nomenclature for the biosynthesis of ribosomally synthesized and post-translationally modified peptides (RiPPs), a rapidly growing class of natural products.About:
This article is published in Natural Product Reports.The article was published on 2013-01-01 and is currently open access. It has received 1560 citations till now. The article focuses on the topics: Plantazolicin.read more
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antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters
Tilmann Weber,Kai Blin,Srikanth Duddela,Daniel Krug,Hyun Uk Kim,Robert E. Bruccoleri,Sang Yup Lee,Sang Yup Lee,Michael A. Fischbach,Rolf Müller,Wolfgang Wohlleben,Rainer Breitling,Eriko Takano,Marnix H. Medema,Marnix H. Medema +14 more
TL;DR: AntiSMASH as mentioned in this paper is a web server and stand-alone tool for the automatic genomic identification and analysis of biosynthetic gene clusters, available at http://antismash.org.
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Bacteriocins — a viable alternative to antibiotics?
TL;DR: Although the application of specific bacteriocins might be curtailed by the development of resistance, an understanding of the mechanisms by which such resistance could emerge will enable researchers to develop strategies to minimize this potential problem.
Journal ArticleDOI
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters.
Peter Cimermancic,Marnix H. Medema,Jan Claesen,Kenji L. Kurita,Laura C. Brown,Konstantinos Mavrommatis,Amrita Pati,Paul A. Godfrey,Michael Koehrsen,Jon Clardy,Bruce W. Birren,Eriko Takano,Andrej Sali,Andrej Sali,Roger G. Linington,Michael A. Fischbach +15 more
TL;DR: A novel algorithm is used to systematically identify BGCs in the extensive extant microbial sequencing data, indicating for the first time the important roles these compounds play in Gram-negative cell biology.
Journal ArticleDOI
Discovery of microbial natural products by activation of silent biosynthetic gene clusters.
TL;DR: This Review discusses the strategies that have been developed in bacteria and fungi to identify and induce the expression of silent BGCs, and briefly summarize methods for the isolation and structural characterization of their metabolic products.
Journal ArticleDOI
Minimum Information about a Biosynthetic Gene cluster.
Marnix H. Medema,Marnix H. Medema,Renzo Kottmann,Pelin Yilmaz,Matthew Cummings,John B. Biggins,Kai Blin,Irene de Bruijn,Yit-Heng Chooi,Yit-Heng Chooi,Jan Claesen,R. Cameron Coates,Pablo Cruz-Morales,Srikanth Duddela,Stephanie Düsterhus,Daniel J. Edwards,David P. Fewer,Neha Garg,Christoph Geiger,Juan Pablo Gomez-Escribano,Anja Greule,Michalis Hadjithomas,Anthony S. Haines,Eric J. N. Helfrich,Matthew L. Hillwig,Keishi Ishida,Adam C. Jones,Carla S. Jones,Katrin Jungmann,Carsten Kegler,Hyun Uk Kim,Hyun Uk Kim,Peter Kötter,Daniel Krug,Joleen Masschelein,Alexey V. Melnik,Simone M. Mantovani,Emily A. Monroe,Marcus A. Moore,Nathan A. Moss,Hans-Wilhelm Nützmann,Guohui Pan,Amrita Pati,Daniel Petras,F. Jerry Reen,Federico Rosconi,Zhe Rui,Zhenhua Tian,Nicholas J. Tobias,Yuta Tsunematsu,Yuta Tsunematsu,Philipp Wiemann,Elizabeth E. Wyckoff,Xiaohui Yan,Grace Yim,Fengan Yu,Yunchang Xie,Bertrand Aigle,Alexander Kristian Apel,Carl J. Balibar,Emily P. Balskus,Francisco Barona-Gómez,Andreas Bechthold,Helge B. Bode,Rainer Borriss,Sean F. Brady,Axel A. Brakhage,Patrick Caffrey,Yi-Qiang Cheng,Jon Clardy,Russell J. Cox,Russell J. Cox,René De Mot,Stefano Donadio,Mohamed S. Donia,Wilfred A. van der Donk,Wilfred A. van der Donk,Pieter C. Dorrestein,Sean Doyle,Arnold J. M. Driessen,Monika Ehling-Schulz,K. D. Entian,Michael A. Fischbach,Lena Gerwick,William H. Gerwick,Harald Gross,Bertolt Gust,Christian Hertweck,Christian Hertweck,Monica Höfte,Susan E. Jensen,Jianhua Ju,Leonard Katz,Leonard Kaysser,Jonathan L. Klassen,Nancy P. Keller,Jan Kormanec,Oscar P. Kuipers,Tomohisa Kuzuyama,Nikos C. Kyrpides,Nikos C. Kyrpides,Hyung Jin Kwon,Sylvie Lautru,Rob Lavigne,Chia Y. Lee,Bai Linquan,Xinyu Liu,Wen Liu,Andriy Luzhetskyy,Taifo Mahmud,Yvonne Mast,Carmen Méndez,Mikko Metsä-Ketelä,Jason Micklefield,Douglas A. Mitchell,Bradley S. Moore,Leonilde M. Moreira,Rolf Müller,Brett A. Neilan,Markus Nett,Jens Nielsen,Jens Nielsen,Fergal O'Gara,Fergal O'Gara,Hideaki Oikawa,Anne Osbourn,Marcia S. Osburne,Bohdan Ostash,Shelley M. Payne,Jean-Luc Pernodet,Miroslav Petricek,Jörn Piel,Olivier Ploux,Jos M. Raaijmakers,José A. Salas,Esther K. Schmitt,Barry Scott,Ryan F. Seipke,Ben Shen,David H. Sherman,Kaarina Sivonen,Michael J. Smanski,Margherita Sosio,Evi Stegmann,Roderich D. Süssmuth,Kapil Tahlan,Christopher M. Thomas,Yi Tang,Andrew W. Truman,Muriel Viaud,Jonathan D. Walton,Christopher T. Walsh,Tilmann Weber,Gilles P. van Wezel,Barrie Wilkinson,Joanne M. Willey,Wolfgang Wohlleben,Gerard D. Wright,Nadine Ziemert,Changsheng Zhang,Sergey B. Zotchev,Rainer Breitling,Eriko Takano,Frank Oliver Glöckner,Frank Oliver Glöckner +164 more
TL;DR: This work proposes the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard, to facilitate consistent and systematic deposition and retrieval of data on biosynthetic gene clusters.
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