Evidence map›Paper›PMID 29608558›Full record

ArticlePLoS genetics2018

High-throughput interaction screens illuminate the role of c-di-AMP in cyanobacterial nighttime survival.

Benjamin E Rubin, TuAnh Ngoc Huynh, David G Welkie, Spencer Diamond, Ryan Simkovsky, Emily C Pierce, Arnaud Taton, Laura C Lowe, Jenny J Lee, Scott A Rifkin and 2 more

Open access · goldAbstract read
In one paragraph

Article in PLoS genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
9.7field-weighted citation impact, top 2% of its field
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

26 citing papers in PubMed, 50 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Bacterial cell volume regulation and the importance of cyclic di-AMP.Microbiology and molecular biology reviews : MMBR · 2024
    Review
  7. Review
  8. Genomic Distribution of Pro-VirulentInternational journal of molecular sciences · 2023
    Article
  9. Review
  10. Review
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Improved photosynthetic capacity and photosystem I oxidation via heterologous metabolism engineering in cyanobacteria.Proceedings of the National Academy of Sciences of the United States of America · 2021
    Article
  17. Article
  18. Gene Regulation and Transcriptomics.Current issues in molecular biology · 2021
    Article
  19. Review
  20. Review
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

12 authors at 2 institutions in 1 country.

Benjamin E RubinDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.
TuAnh Ngoc HuynhDepartment of Microbiology, University of Washington, Seattle, WA, United States of America.
David G WelkieCenter for Circadian Biology, University of California San Diego, La Jolla, CA, United States of America.ORCID 0000-0003-0173-1457
Spencer DiamondDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.ORCID 0000-0003-4131-341X
Ryan SimkovskyCenter for Circadian Biology, University of California San Diego, La Jolla, CA, United States of America.ORCID 0000-0001-6837-0460
Emily C PierceDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.ORCID 0000-0002-9960-0270
Arnaud TatonDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.
Laura C LoweCenter for Circadian Biology, University of California San Diego, La Jolla, CA, United States of America.
Jenny J LeeDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.
Scott A RifkinDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.
Joshua J WoodwardDepartment of Microbiology, University of Washington, Seattle, WA, United States of America.
Susan S GoldenDivision of Biological Sciences, University of California San Diego, La Jolla, CA, United States of America.ORCID 0000-0002-4264-7019
University of California San Diego · USUniversity of Washington · US

Funding

GENETIC MECHANISMS AND REGULATIONT32GM007240 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMPTON, RANDOLPH Y. · 1985 to 2019
$23.8M
Undergraduate Summer Research Experience: Molecular and cellular mechanisms of circadian timekeeping in a prokaryote modelR35GM118290 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI GOLDEN, SUSAN S · 2016 to 2025
$6.7M
Listeria monocytogenes physiology and host pathogen interactionsR01AI116669 · NIAID · UNIVERSITY OF WASHINGTON · PI WOODWARD, JOSHUA · 2015 to 2024
$4.4M
INTERDISCIPLINARY PROGRAM IN BACTERIAL PATHOGENESIST32AI055396 · NIAID · UNIVERSITY OF WASHINGTON · PI FANG, FERRIC C · 2003 to 2019
$2.8M
NIAID NIH HHS R01 AI116669NIAID NIH HHS T32 AI055396NIGMS NIH HHS R35 GM118290NIGMS NIH HHS T32 GM007240NIH HHS 5T32AI055396NIH HHS R01AI116669NIH HHS R35GM118290NIH HHS T32GM007240
6 · The paper itself

Abstract

The broadly conserved signaling nucleotide cyclic di-adenosine monophosphate (c-di-AMP) is essential for viability in most bacteria where it has been studied. However, characterization of the cellular functions and metabolism of c-di-AMP has largely been confined to the class Bacilli, limiting our functional understanding of the molecule among diverse phyla. We identified the cyclase responsible for c-di-AMP synthesis and characterized the molecule's role in survival of darkness in the model photosynthetic cyanobacterium Synechococcus elongatus PCC 7942. In addition to the use of traditional genetic, biochemical, and proteomic approaches, we developed a high-throughput genetic interaction screen (IRB-Seq) to determine pathways where the signaling nucleotide is active. We found that in S. elongatus c-di-AMP is produced by an enzyme of the diadenylate cyclase family, CdaA, which was previously unexplored experimentally. A cdaA-null mutant experiences increased oxidative stress and death during the nighttime portion of day-night cycles, in which potassium transport is implicated. These findings suggest that c-di-AMP is biologically active in cyanobacteria and has non-canonical roles in the phylum including oxidative stress management and day-night survival. The pipeline and analysis tools for IRB-Seq developed for this study constitute a quantitative high-throughput approach for studying genetic interactions.

Indexed as

Bacterial ProteinsCyclic AMPHigh-Throughput Screening AssaysMutationOxidative StressPhosphorus-Oxygen LyasesProteomicsSignal TransductionSynechococcusBacterial ProteinsCyclic AMPPhosphorus-Oxygen Lyases

Identifiers

PMID29608558
PMCPMC5897029
OpenAlexW2796082724

What OpenQuestion holds

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LicenceCC BY
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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.