Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Standardization for natural product synthetic biology.

Literature DB >> 27313083

Standardization for natural product synthetic biology.

Abstract

Standardization is one of the foundational features of modern-day engineering, and the use of standardized parts and processes is a key element that distinguishes bona fide synthetic biology from traditional genetic engineering. Here, we discuss the role of standardization in natural product synthetic biology, focusing on standardization of data on biosynthetic pathways and gene clusters, as well as the role of standardization in the process of biosynthetic gene cluster engineering.

Entities: Chemical Disease Species

Mesh：

Substances：
Biological Products

Year: 2016 PMID： 27313083 PMCID： PMC4963270 DOI： 10.1039/c6np00030d

Source DB: PubMed Journal: Nat Prod Rep ISSN： 0265-0568 Impact factor: 13.423

36 in total

1. Computational discovery of specificity-conferring sites in non-ribosomal peptide synthetases.

Authors: Michael Knudsen; Dan Søndergaard; Claus Tofting-Olesen; Frederik T Hansen; Ditlev Egeskov Brodersen; Christian N S Pedersen
Journal: Bioinformatics Date: 2015-10-14 Impact factor: 6.937

2. Design, construction and characterisation of a synthetic promoter library for fine-tuned gene expression in actinomycetes.

Authors: Theresa Siegl; Bogdan Tokovenko; Maksym Myronovskyi; Andriy Luzhetskyy
Journal: Metab Eng Date: 2013-07-20 Impact factor: 9.783

3. Standards for plant synthetic biology: a common syntax for exchange of DNA parts.

Authors: Nicola J Patron; Diego Orzaez; Sylvestre Marillonnet; Heribert Warzecha; Colette Matthewman; Mark Youles; Oleg Raitskin; Aymeric Leveau; Gemma Farré; Christian Rogers; Alison Smith; Julian Hibberd; Alex A R Webb; James Locke; Sebastian Schornack; Jim Ajioka; David C Baulcombe; Cyril Zipfel; Sophien Kamoun; Jonathan D G Jones; Hannah Kuhn; Silke Robatzek; H Peter Van Esse; Dale Sanders; Giles Oldroyd; Cathie Martin; Rob Field; Sarah O'Connor; Samantha Fox; Brande Wulff; Ben Miller; Andy Breakspear; Guru Radhakrishnan; Pierre-Marc Delaux; Dominique Loqué; Antonio Granell; Alain Tissier; Patrick Shih; Thomas P Brutnell; W Paul Quick; Heiko Rischer; Paul D Fraser; Asaph Aharoni; Christine Raines; Paul F South; Jean-Michel Ané; Björn R Hamberger; Jane Langdale; Jens Stougaard; Harro Bouwmeester; Michael Udvardi; James A H Murray; Vardis Ntoukakis; Patrick Schäfer; Katherine Denby; Keith J Edwards; Anne Osbourn; Jim Haseloff
Journal: New Phytol Date: 2015-07-14 Impact factor: 10.151

4. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

Authors: Pelin Yilmaz; Renzo Kottmann; Dawn Field; Rob Knight; James R Cole; Linda Amaral-Zettler; Jack A Gilbert; Ilene Karsch-Mizrachi; Anjanette Johnston; Guy Cochrane; Robert Vaughan; Christopher Hunter; Joonhong Park; Norman Morrison; Philippe Rocca-Serra; Peter Sterk; Manimozhiyan Arumugam; Mark Bailey; Laura Baumgartner; Bruce W Birren; Martin J Blaser; Vivien Bonazzi; Tim Booth; Peer Bork; Frederic D Bushman; Pier Luigi Buttigieg; Patrick S G Chain; Emily Charlson; Elizabeth K Costello; Heather Huot-Creasy; Peter Dawyndt; Todd DeSantis; Noah Fierer; Jed A Fuhrman; Rachel E Gallery; Dirk Gevers; Richard A Gibbs; Inigo San Gil; Antonio Gonzalez; Jeffrey I Gordon; Robert Guralnick; Wolfgang Hankeln; Sarah Highlander; Philip Hugenholtz; Janet Jansson; Andrew L Kau; Scott T Kelley; Jerry Kennedy; Dan Knights; Omry Koren; Justin Kuczynski; Nikos Kyrpides; Robert Larsen; Christian L Lauber; Teresa Legg; Ruth E Ley; Catherine A Lozupone; Wolfgang Ludwig; Donna Lyons; Eamonn Maguire; Barbara A Methé; Folker Meyer; Brian Muegge; Sara Nakielny; Karen E Nelson; Diana Nemergut; Josh D Neufeld; Lindsay K Newbold; Anna E Oliver; Norman R Pace; Giriprakash Palanisamy; Jörg Peplies; Joseph Petrosino; Lita Proctor; Elmar Pruesse; Christian Quast; Jeroen Raes; Sujeevan Ratnasingham; Jacques Ravel; David A Relman; Susanna Assunta-Sansone; Patrick D Schloss; Lynn Schriml; Rohini Sinha; Michelle I Smith; Erica Sodergren; Aymé Spo; Jesse Stombaugh; James M Tiedje; Doyle V Ward; George M Weinstock; Doug Wendel; Owen White; Andrew Whiteley; Andreas Wilke; Jennifer R Wortman; Tanya Yatsunenko; Frank Oliver Glöckner
Journal: Nat Biotechnol Date: 2011-05 Impact factor: 54.908

5. 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

Standardization for natural product synthetic biology.

1. Computational discovery of specificity-conferring sites in non-ribosomal peptide synthetases.

2. Design, construction and characterisation of a synthetic promoter library for fine-tuned gene expression in actinomycetes.

3. Standards for plant synthetic biology: a common syntax for exchange of DNA parts.

4. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

5. Minimum Information about a Biosynthetic Gene cluster.

6. UniProt Knowledgebase: a hub of integrated protein data.

7. NRPSpredictor2--a web server for predicting NRPS adenylation domain specificity.

8. Re-refinement from deposited X-ray data can deliver improved models for most PDB entries.

9. Activation and characterization of a cryptic polycyclic tetramate macrolactam biosynthetic gene cluster.

10. Standardized description of scientific evidence using the Evidence Ontology (ECO).

1. The natural productome.

2. Correlating chemical diversity with taxonomic distance for discovery of natural products in myxobacteria.

Review 3. Beyond natural: synthetic expansions of botanical form and function.