Literature DB >> 26350080

Informatic search strategies to discover analogues and variants of natural product archetypes.

Chad W Johnston1,2, Alex D Connaty1,2, Michael A Skinnider1,2, Yong Li1,2, Alyssa Grunwald3,4, Morgan A Wyatt1,2, Russell G Kerr3,4, Nathan A Magarvey5,6.   

Abstract

Natural products are a crucial source of antimicrobial agents, but reliance on low-resolution bioactivity-guided approaches has led to diminishing interest in discovery programmes. Here, we demonstrate that two in-house automated informatic platforms can be used to target classes of biologically active natural products, specifically, peptaibols. We demonstrate that mass spectrometry-based informatic approaches can be used to detect natural products with high sensitivity, identifying desired agents present in complex microbial extracts. Using our specialised software packages, we could elaborate specific branches of chemical space, uncovering new variants of trichopolyn and demonstrating a way forward in mining natural products as a valuable source of potential pharmaceutical agents.

Keywords:  Informatic platforms; LC–MS/MS; Natural products; Nonribosomal peptides; Peptaibols

Mesh:

Substances:

Year:  2015        PMID: 26350080     DOI: 10.1007/s10295-015-1675-9

Source DB:  PubMed          Journal:  J Ind Microbiol Biotechnol        ISSN: 1367-5435            Impact factor:   3.346


  18 in total

Review 1.  Peptaibols: models for ion channels.

Authors:  J K Chugh; B A Wallace
Journal:  Biochem Soc Trans       Date:  2001-08       Impact factor: 5.407

Review 2.  An insight into the antifungal pipeline: selected new molecules and beyond.

Authors:  Luis Ostrosky-Zeichner; Arturo Casadevall; John N Galgiani; Frank C Odds; John H Rex
Journal:  Nat Rev Drug Discov       Date:  2010-08-20       Impact factor: 84.694

Review 3.  The evolving role of natural products in drug discovery.

Authors:  Frank E Koehn; Guy T Carter
Journal:  Nat Rev Drug Discov       Date:  2005-03       Impact factor: 84.694

Review 4.  New aspects of natural products in drug discovery.

Authors:  Kin S Lam
Journal:  Trends Microbiol       Date:  2007-04-11       Impact factor: 17.079

5.  One pathway, many products.

Authors:  Michael A Fischbach; Jon Clardy
Journal:  Nat Chem Biol       Date:  2007-07       Impact factor: 15.040

6.  Mass spectral molecular networking of living microbial colonies.

Authors:  Jeramie Watrous; Patrick Roach; Theodore Alexandrov; Brandi S Heath; Jane Y Yang; Roland D Kersten; Menno van der Voort; Kit Pogliano; Harald Gross; Jos M Raaijmakers; Bradley S Moore; Julia Laskin; Nuno Bandeira; Pieter C Dorrestein
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-14       Impact factor: 11.205

7.  Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases.

Authors:  Hosein Mohimani; Wei-Ting Liu; Joshua S Mylne; Aaron G Poth; Michelle L Colgrave; Dat Tran; Michael E Selsted; Pieter C Dorrestein; Pavel A Pevzner
Journal:  J Proteome Res       Date:  2011-09-07       Impact factor: 4.466

Review 8.  Microbial genome mining for accelerated natural products discovery: is a renaissance in the making?

Authors:  Brian O Bachmann; Steven G Van Lanen; Richard H Baltz
Journal:  J Ind Microbiol Biotechnol       Date:  2013-12-17       Impact factor: 3.346

9.  NRPquest: Coupling Mass Spectrometry and Genome Mining for Nonribosomal Peptide Discovery.

Authors:  Hosein Mohimani; Wei-Ting Liu; Roland D Kersten; Bradley S Moore; Pieter C Dorrestein; Pavel A Pevzner
Journal:  J Nat Prod       Date:  2014-08-12       Impact factor: 4.050

10.  Automated genome mining of ribosomal peptide natural products.

Authors:  Hosein Mohimani; Roland D Kersten; Wei-Ting Liu; Mingxun Wang; Samuel O Purvine; Si Wu; Heather M Brewer; Ljiljana Pasa-Tolic; Nuno Bandeira; Bradley S Moore; Pavel A Pevzner; Pieter C Dorrestein
Journal:  ACS Chem Biol       Date:  2014-05-23       Impact factor: 5.100

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  5 in total

Review 1.  Natural product discovery: past, present, and future.

Authors:  Leonard Katz; Richard H Baltz
Journal:  J Ind Microbiol Biotechnol       Date:  2016-01-06       Impact factor: 3.346

Review 2.  Gifted microbes for genome mining and natural product discovery.

Authors:  Richard H Baltz
Journal:  J Ind Microbiol Biotechnol       Date:  2016-08-12       Impact factor: 3.346

Review 3.  Recent metabolomics and gene editing approaches for synthesis of microbial secondary metabolites for drug discovery and development.

Authors:  Rajeshwari Sinha; Babita Sharma; Arun Kumar Dangi; Pratyoosh Shukla
Journal:  World J Microbiol Biotechnol       Date:  2019-10-22       Impact factor: 3.312

4.  Legionella shows a diverse secondary metabolism dependent on a broad spectrum Sfp-type phosphopantetheinyl transferase.

Authors:  Nicholas J Tobias; Tilman Ahrendt; Ursula Schell; Melissa Miltenberger; Hubert Hilbi; Helge B Bode
Journal:  PeerJ       Date:  2016-11-24       Impact factor: 2.984

Review 5.  The secondary metabolite bioinformatics portal: Computational tools to facilitate synthetic biology of secondary metabolite production.

Authors:  Tilmann Weber; Hyun Uk Kim
Journal:  Synth Syst Biotechnol       Date:  2016-02-05
  5 in total

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