Evidence map›Paper›PMID 25888176›Full record

ArticleApplied and environmental microbiology2015

Expanded natural product diversity revealed by analysis of lanthipeptide-like gene clusters in actinobacteria.

Qi Zhang, James R Doroghazi, Xiling Zhao, Mark C Walker, Wilfred A van der Donk

Abstract read
In one paragraph

Article in Applied and environmental microbiology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.

0numbers the graph read from it
0cells of the map it votes in
38citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

38 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Isolation of Thermophilic BacteriaInternational journal of dentistry · 2024
    Article
  5. Article
  6. Article
  7. Applied and environmental microbiology · 2023
    Article
  8. Review
  9. Review
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. AApplied and environmental microbiology · 2021
    Article
  16. Mining and Biosynthesis of Bioactive Lanthipeptides From Microorganisms.Frontiers in bioengineering and biotechnology · 2021
    Review
  17. Review
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors.

Qi ZhangDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
James R DoroghaziInstitute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
Xiling ZhaoDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
Mark C WalkerDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
Wilfred A van der DonkDepartment of Chemistry and Howard Hughes Medical Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA vddonk@illinois.edu.ORCID http://orcid.org/0000-0002-5467-7071

Funding

Structural Elucidation and Biosynthesis P01GM077596 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI ZHAO, HUIMIN · 2007 to 2016
$15.3M
Posttranslational Modifications in Natural Product BiosynthesisR01GM058822 · NIGMS · UNIVERSITY OF ILLINOIS URBANA-CHAMPAIGN · PI VAN DER DONK, WILFRED A. · 1999 to 2015
$3.8M
4800 Plus MALDI TOF/TOF AnalyzerS10RR027109 · NCRR · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI VAN DER DONK, WILFRED A. · 2010 to 2010
$395k
Targeting protein-protein interactions through directed evolution of lanthipeptidF32GM112284 · NIGMS · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI WALKER, MARK CHALFANT · 2014 to 2016
$164k
NCRR NIH HHS S10 RR027109NCRR NIH HHS S10RR027109NIGMS NIH HHS 1 F32 GM 0112284-01NIGMS NIH HHS F32 GM112284NIGMS NIH HHS P01 GM077596NIGMS NIH HHS P01GM077596NIGMS NIH HHS R01 GM058822PHS HHS R01 058822
6 · The paper itself

Abstract

Lanthionine-containing peptides (lanthipeptides) are a rapidly growing family of polycyclic peptide natural products belonging to the large class of ribosomally synthesized and posttranslationally modified peptides (RiPPs). Lanthipeptides are widely distributed in taxonomically distant species, and their currently known biosynthetic systems and biological activities are diverse. Building on the recent natural product gene cluster family (GCF) project, we report here large-scale analysis of lanthipeptide-like biosynthetic gene clusters from Actinobacteria. Our analysis suggests that lanthipeptide biosynthetic pathways, and by extrapolation the natural products themselves, are much more diverse than currently appreciated and contain many different posttranslational modifications. Furthermore, lanthionine synthetases are much more diverse in sequence and domain topology than currently characterized systems, and they are used by the biosynthetic machineries for natural products other than lanthipeptides. The gene cluster families described here significantly expand the chemical diversity and biosynthetic repertoire of lanthionine-related natural products. Biosynthesis of these novel natural products likely involves unusual and unprecedented biochemistries, as illustrated by several examples discussed in this study. In addition, class IV lanthipeptide gene clusters are shown not to be silent, setting the stage to investigate their biological activities.

Indexed as

Multigene FamilyActinobacteriaAlanineBiological ProductsBiosynthetic PathwaysSulfidesAlanineBiological ProductslanthionineSulfides

Identifiers

PMID25888176
PMCPMC4475899

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.