Evidence map›Paper›PMID 15317772›Full record

ArticleJournal of bacteriology2004

CO2-responsive expression and gene organization of three ribulose-1,5-bisphosphate carboxylase/oxygenase enzymes and carboxysomes in Hydrogenovibrio marinus strain MH-110.

Yoichi Yoshizawa, Koichi Toyoda, Hiroyuki Arai, Masaharu Ishii, Yasuo Igarashi

Abstract read
In one paragraph

Article in Journal of bacteriology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing 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

31 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. "Frontiers in microbiology · 2023
    Article
  5. Atypical Carboxysome Loci: JEEPs or Junk?Frontiers in microbiology · 2022
    Review
  6. Mixed electron donors synergistically enhance COEnvironmental science and pollution research international · 2021
    Article
  7. Article
  8. Article
  9. Review
  10. COEnvironmental microbiology · 2017
    Article
  11. Review
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Article
  19. Evolutionary context for understanding and manipulating plant responses to past, present and future atmospheric [CO2].Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2012
    Review
  20. Carboxylases in natural and synthetic microbial pathways.Applied and environmental microbiology · 2011
    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

5 authors.

Yoichi YoshizawaDepartment of Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo-ku, Tokyo 113-8657, Japan.
Koichi Toyoda
Hiroyuki Arai
Masaharu Ishii
Yasuo Igarashi

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Hydrogenovibrio marinus strain MH-110, an obligately lithoautotrophic hydrogen-oxidizing bacterium, fixes CO2 by the Calvin-Benson-Bassham cycle. Strain MH-110 possesses three different sets of genes for ribulose-1,5-bisphosphate carboxylase/oxygenase (RubisCO): CbbLS-1 and CbbLS-2, which belong to form I (L8S8), and CbbM, which belongs to form II (Lx). In this paper, we report that the genes for CbbLS-1 (cbbLS-1) and CbbM (cbbM) are both followed by the cbbQO genes and preceded by the cbbR genes encoding LysR-type regulators. In contrast, the gene for CbbLS-2 (cbbLS-2) is followed by genes encoding carboxysome shell peptides. We also characterized the three RubisCOs in vivo by examining their expression profiles in environments with different CO2 availabilities. Immunoblot analyses revealed that when strain MH-110 was cultivated in 15% CO2, only the form II RubisCO, CbbM, was expressed. When strain MH-110 was cultivated in 2% CO2, CbbLS-1 was expressed in addition to CbbM. In the 0.15% CO2 culture, the expression of CbbM decreased and that of CbbLS-1 disappeared, and CbbLS-2 was expressed. In the atmospheric CO2 concentration of approximately 0.03%, all three RubisCOs were expressed. Transcriptional analyses of mRNA by reverse transcription-PCR showed that the regulation was at the transcriptional level. Electron microscopic observation of MH-110 cells revealed the formation of carboxysomes in the 0.15% CO2 concentration. The results obtained here indicate that strain MH-110 adapts well to various CO2 concentrations by using different types of RubisCO enzymes.

Indexed as

Gene Expression Regulation, BacterialAdaptation, PhysiologicalBacterial ProteinsCarbon DioxideCytoplasmDNA, BacterialDNA-Binding ProteinsGene OrderGenes, BacterialImmunoblottingMacromolecular SubstancesMolecular Sequence DataMultigene FamilyPiscirickettsiaceaeRibulose-Bisphosphate CarboxylaseRNA, BacterialBacterial ProteinsCarbon DioxidecfxR protein, bacteriaDNA, BacterialDNA-Binding ProteinsMacromolecular SubstancesRibulose-Bisphosphate CarboxylaseRNA, BacterialRNA, MessengerTranscription Factors

Identifiers

PMID15317772
PMCPMC516815

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.