Evidence map›Paper›PMID 31822352›Full record

ReviewTrends in pharmacological sciences2020

Targeting Bacterial Genomes for Natural Product Discovery.

Edward Kalkreuter, Guohui Pan, Alexis J Cepeda, Ben Shen

Abstract readReview
In one paragraph

Review in Trends in pharmacological sciences, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers.

0numbers the graph read from it
0cells of the map it votes in
65citing 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

65 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Review
  5. DAP-seq Reveals Cluster-Situated Regulator Control of NumerousbioRxiv : the preprint server for biology · 2026
    Article
  6. Article
  7. Article
  8. Mapping the 3D Chromosome Organization of Streptomyces by Hi-C.Methods in molecular biology (Clifton, N.J.) · 2026
    Article
  9. Review
  10. Review
  11. Article
  12. iCASRED, a scarless DNA editing tool inSynthetic and systems biotechnology · 2025
    Article
  13. Genomic Insights intoInternational journal of molecular sciences · 2025
    Article
  14. mBio · 2025
    Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Genomic Comparisons Revealed the Key Genotypes ofBioengineering (Basel, Switzerland) · 2024
    Article

5 more citing papers are in PubMed but not listed here.

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

4 authors.

Edward KalkreuterDepartment of Chemistry, The Scripps Research Institute, Jupiter, FL 33458, USA.
Guohui PanDepartment of Chemistry, The Scripps Research Institute, Jupiter, FL 33458, USA.
Alexis J CepedaDepartment of Chemistry, The Scripps Research Institute, Jupiter, FL 33458, USA.
Ben ShenDepartment of Chemistry, The Scripps Research Institute, Jupiter, FL 33458, USA; Department of Molecular Medicine, The Scripps Research Institute, Jupiter, FL 33458, USA; Natural Products Library Initiative at The Scripps Research Institute, The Scripps Research Institute, Jupiter, FL 33458, USA. Electronic address: shenb@scripps.edu.

Funding

AT-less Type I Polyketide SynthasesR01CA106150 · NCI · UNIVERSITY OF WISCONSIN-MADISON · PI SHEN, BEN · 2004 to 2015
$3.3M
Genome Mining for Enediyne Natural Products from ActinomycetalsR01GM115575 · NIGMS · SCRIPPS FLORIDA · PI SHEN, BEN · 2016 to 2019
$1.9M
Discovery and biosynthesis of diterpenoid natural products in actinomycetalsR01GM114353 · NIGMS · SCRIPPS FLORIDA · PI SHEN, BEN · 2016 to 2019
$1.8M
Characterization of the Thioacid Biosynthetic Machinery and Isolation of a Novel Thioacid Enediyne Natural ProductF32GM134688 · NIGMS · UNIVERSITY OF FLORIDA · PI KALKREUTER, ROBERT EDWARD · 2019 to 2021
$192k
NCI NIH HHS R01 CA106150NIGMS NIH HHS F32 GM134688NIGMS NIH HHS R01 GM114353NIGMS NIH HHS R01 GM115575
6 · The paper itself

Abstract

Bacterial natural products (NPs) and their analogs constitute more than half of the new small molecule drugs developed over the past few decades. Despite this success, interest in natural products from major pharmaceutical companies has decreased even as genomics has uncovered the large number of biosynthetic gene clusters (BGCs) that encode for novel natural products. To date, there is still a lack of universal strategies and enabling technologies to discover natural products at scale and speed. This review highlights several of the opportunities provided by genome sequencing and bioinformatics, challenges associated with translating genomes into natural products, and examples of successful strain prioritization and BGC activation strategies that have been used in the genomic era for natural product discovery from cultivatable bacteria.

Indexed as

BacteriaBiological ProductsComputational BiologyDrug DiscoveryGenome, BacterialHumansSmall Molecule LibrariesBiological ProductsSmall Molecule Librariesbiosynthetic gene clustersdrug discoverygenome miningnatural productsnonribosomal peptidespolyketides

Identifiers

PMID31822352
PMCPMC6938545

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.