Literature DB >> 23706630

Metagenomic approaches for exploiting uncultivated bacteria as a resource for novel biosynthetic enzymology.

Micheal C Wilson1, Jörn Piel.   

Abstract

Most biologically active microbial natural products are known from strains that can be isolated and cultivated in the laboratory. However, the genomics era has revealed that cultured bacteria represent a mere fraction of total estimated bacterial biodiversity. With the development of community genomics, termed metagenomics, the uncultivated majority became accessible for functional analysis. Through metagenomic studies, novel biocatalysts and biosynthetic pathways are being discovered at a pace previously not possible using traditional molecular biology techniques. Additionally, the study of uncultivated bacteria has provided valuable insights into previously overlooked biocatalysts from cultured strains. This perspective highlights recent discoveries from metagenomics of uncultivated bacteria and discusses the impact of those findings on the field of natural products.
Copyright © 2013 Elsevier Ltd. All rights reserved.

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Year:  2013        PMID: 23706630     DOI: 10.1016/j.chembiol.2013.04.011

Source DB:  PubMed          Journal:  Chem Biol        ISSN: 1074-5521


  47 in total

1.  Targeted metagenomics: finding rare tryptophan dimer natural products in the environment.

Authors:  Fang-Yuan Chang; Melinda A Ternei; Paula Y Calle; Sean F Brady
Journal:  J Am Chem Soc       Date:  2015-05-04       Impact factor: 15.419

2.  Spongosine production by a Vibrio harveyi strain associated with the sponge Tectitethya crypta.

Authors:  Matthew J Bertin; Sarah L Schwartz; John Lee; Anton Korobeynikov; Pieter C Dorrestein; Lena Gerwick; William H Gerwick
Journal:  J Nat Prod       Date:  2015-02-10       Impact factor: 4.050

3.  Insights into the lifestyle of uncultured bacterial natural product factories associated with marine sponges.

Authors:  Gerald Lackner; Eike Edzard Peters; Eric J N Helfrich; Jörn Piel
Journal:  Proc Natl Acad Sci U S A       Date:  2017-01-03       Impact factor: 11.205

4.  A joint molecular networking study of a Smenospongia sponge and a cyanobacterial bloom revealed new antiproliferative chlorinated polyketides.

Authors:  Roberta Teta; Gerardo Della Sala; Germana Esposito; Christopher W Via; Carmela Mazzoccoli; Claudia Piccoli; Matthew J Bertin; Valeria Costantino; Alfonso Mangoni
Journal:  Org Chem Front       Date:  2019-04-11       Impact factor: 5.281

Review 5.  The re-emergence of natural products for drug discovery in the genomics era.

Authors:  Alan L Harvey; RuAngelie Edrada-Ebel; Ronald J Quinn
Journal:  Nat Rev Drug Discov       Date:  2015-01-23       Impact factor: 84.694

Review 6.  Natural product discovery from the human microbiome.

Authors:  Matthew R Wilson; Li Zha; Emily P Balskus
Journal:  J Biol Chem       Date:  2017-04-07       Impact factor: 5.157

7.  Bipartite interactions, antibiotic production and biosynthetic potential of the Arabidopsis leaf microbiome.

Authors:  Eric J N Helfrich; Christine M Vogel; Reiko Ueoka; Martin Schäfer; Florian Ryffel; Daniel B Müller; Silke Probst; Markus Kreuzer; Jörn Piel; Julia A Vorholt
Journal:  Nat Microbiol       Date:  2018-07-23       Impact factor: 17.745

Review 8.  Genome Mining as New Challenge in Natural Products Discovery.

Authors:  Luisa Albarano; Roberta Esposito; Nadia Ruocco; Maria Costantini
Journal:  Mar Drugs       Date:  2020-04-09       Impact factor: 5.118

9.  Minimum Information about a Biosynthetic Gene cluster.

Authors:  Marnix H Medema; Renzo Kottmann; Pelin Yilmaz; Matthew Cummings; John B Biggins; Kai Blin; Irene de Bruijn; 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; Peter Kötter; Daniel Krug; Joleen Masschelein; Alexey V Melnik; Simone M Mantovani; Emily A Monroe; Marcus Moore; Nathan Moss; Hans-Wilhelm Nützmann; Guohui Pan; Amrita Pati; Daniel Petras; F Jerry Reen; Federico Rosconi; Zhe Rui; Zhenhua Tian; Nicholas J Tobias; Yuta Tsunematsu; Philipp Wiemann; Elizabeth Wyckoff; Xiaohui Yan; Grace Yim; Fengan Yu; Yunchang Xie; Bertrand Aigle; Alexander K 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; René De Mot; Stefano Donadio; Mohamed S Donia; Wilfred A van der Donk; Pieter C Dorrestein; Sean Doyle; Arnold J M Driessen; Monika Ehling-Schulz; Karl-Dieter Entian; Michael A Fischbach; Lena Gerwick; William H Gerwick; Harald Gross; Bertolt Gust; 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; 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; 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
Journal:  Nat Chem Biol       Date:  2015-09       Impact factor: 15.040

10.  Computational approaches to natural product discovery.

Authors:  Marnix H Medema; Michael A Fischbach
Journal:  Nat Chem Biol       Date:  2015-09       Impact factor: 15.040

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