Literature DB >> 27112429

Plant metabolic clusters - from genetics to genomics.

Hans-Wilhelm Nützmann1, Ancheng Huang1, Anne Osbourn1.   

Abstract

Contents 771 I. 771 II. 772 III. 780 IV. 781 V. 786 786 References 786
SUMMARY: Plant natural products are of great value for agriculture, medicine and a wide range of other industrial applications. The discovery of new plant natural product pathways is currently being revolutionized by two key developments. First, breakthroughs in sequencing technology and reduced cost of sequencing are accelerating the ability to find enzymes and pathways for the biosynthesis of new natural products by identifying the underlying genes. Second, there are now multiple examples in which the genes encoding certain natural product pathways have been found to be grouped together in biosynthetic gene clusters within plant genomes. These advances are now making it possible to develop strategies for systematically mining multiple plant genomes for the discovery of new enzymes, pathways and chemistries. Increased knowledge of the features of plant metabolic gene clusters - architecture, regulation and assembly - will be instrumental in expediting natural product discovery. This review summarizes progress in this area.
© 2016 The Authors. New Phytologist © 2016 New Phytologist Trust.

Entities:  

Keywords:  biosynthetic gene clusters; chromatin; genome mining; natural products; operons

Mesh:

Substances:

Year:  2016        PMID: 27112429      PMCID: PMC5449196          DOI: 10.1111/nph.13981

Source DB:  PubMed          Journal:  New Phytol        ISSN: 0028-646X            Impact factor:   10.151


  135 in total

1.  Why biosynthetic genes for chemical defense compounds cluster.

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3.  Plant science. Dynamic metabolons.

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Journal:  Science       Date:  2010-12-03       Impact factor: 47.728

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Journal:  Blood       Date:  2008-08-08       Impact factor: 22.113

5.  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

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Journal:  Plant J       Date:  2011-04       Impact factor: 6.417

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Authors:  Guillaume A W Beaudoin; Peter J Facchini
Journal:  Planta       Date:  2014-03-27       Impact factor: 4.116

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Authors:  David K Liscombe; Peter J Facchini
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  81 in total

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Journal:  Plant Cell       Date:  2017-04-13       Impact factor: 11.277

Review 2.  Bioinformatics tools for the identification of gene clusters that biosynthesize specialized metabolites.

Authors:  Arvind K Chavali; Seung Y Rhee
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3.  Phylogenomic Synteny Network Analysis of MADS-Box Transcription Factor Genes Reveals Lineage-Specific Transpositions, Ancient Tandem Duplications, and Deep Positional Conservation.

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Journal:  Plant Cell       Date:  2017-06-05       Impact factor: 11.277

4.  Genome-Wide Prediction of Metabolic Enzymes, Pathways, and Gene Clusters in Plants.

Authors:  Pascal Schläpfer; Peifen Zhang; Chuan Wang; Taehyong Kim; Michael Banf; Lee Chae; Kate Dreher; Arvind K Chavali; Ricardo Nilo-Poyanco; Thomas Bernard; Daniel Kahn; Seung Y Rhee
Journal:  Plant Physiol       Date:  2017-02-22       Impact factor: 8.340

5.  A Pathogen-Responsive Gene Cluster for Highly Modified Fatty Acids in Tomato.

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Review 7.  Using natural products for drug discovery: the impact of the genomics era.

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8.  Active and repressed biosynthetic gene clusters have spatially distinct chromosome states.

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Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-03       Impact factor: 11.205

Review 9.  Using Gene Expression to Study Specialized Metabolism-A Practical Guide.

Authors:  Riccardo Delli-Ponti; Devendra Shivhare; Marek Mutwil
Journal:  Front Plant Sci       Date:  2021-01-12       Impact factor: 5.753

10.  Mutually Regulated AP2/ERF Gene Clusters Modulate Biosynthesis of Specialized Metabolites in Plants.

Authors:  Priyanka Paul; Sanjay Kumar Singh; Barunava Patra; Xiaoyu Liu; Sitakanta Pattanaik; Ling Yuan
Journal:  Plant Physiol       Date:  2019-11-14       Impact factor: 8.340

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