Evidence map›Paper›PMID 27344651›Full record

ReviewPhotosynthesis research2016

Cyanobacterial ultrastructure in light of genomic sequence data.

C R Gonzalez-Esquer, J Smarda, R Rippka, S D Axen, G Guglielmi, M Gugger, C A Kerfeld

Abstract readComparative StudyReview
PubMed Publisher
In one paragraph

Review in Photosynthesis research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing 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

20 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. iScience · 2024
    Article
  5. Article
  6. Review
  7. Review
  8. Emendation of the Coccoid Cyanobacterial GenusFrontiers in microbiology · 2021
    Article
  9. Review
  10. Review
  11. Article
  12. Review
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. A bioarchitectonic approach to the modular engineering of metabolism.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017
    Article
  19. Article
  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

7 authors.

C R Gonzalez-EsquerMSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI, USA.
J SmardaDepartment of Biology, Faculty of Medicine, Masaryk University, University Campus, Building A6, Kamenice 5, 625 00, Brno, Czech Republic.
R RippkaUnité des Cyanobactéries, Institut Pasteur, Centre National de la Recherche Scientifique (CNRS) Unité de Recherche Associée (URA) 2172, 75724, Paris Cedex 15, France.
S D AxenBioinformatics Graduate Group, University of California, San Francisco, CA, 94158, USA.
G GuglielmiInstitut de Biologie de l'ENS, IBENS, Inserm, U1024, CNRS, UMR 8197, Ecole Normale Supérieure, 75005, Paris, France.
M GuggerUnité des Cyanobactéries, Institut Pasteur, Centre National de la Recherche Scientifique (CNRS) Unité de Recherche Associée (URA) 2172, 75724, Paris Cedex 15, France.
C A KerfeldMSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI, USA. ckerfeld@lbl.gov.ORCID http://orcid.org/0000-0002-9977-8482

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Cyanobacteria are physiologically and morphologically diverse photosynthetic microbes that play major roles in the carbon and nitrogen cycles of the biosphere. Recently, they have gained attention as potential platforms for the production of biofuels and other renewable chemicals. Many cyanobacteria were characterized morphologically prior to the advent of genome sequencing. Here, we catalog cyanobacterial ultrastructure within the context of genomic sequence information, including high-magnification transmission electron micrographs that represent the diversity in cyanobacterial morphology. We place the image data in the context of tabulated protein domains-which are the structural, functional, and evolutionary units of proteins-from the 126 cyanobacterial genomes comprising the CyanoGEBA dataset. In particular, we identify the correspondence between ultrastructure and the occurrence of genes encoding protein domains related to the formation of cyanobacterial inclusions. This compilation of images and genome-level domain occurrence will prove useful for a variety of analyses of cyanobacterial sequence data and provides a guidebook to morphological features.

Indexed as

CyanobacteriaGenomicsBacterial ProteinsComputational BiologyGenome, BacterialMicroscopy, Electron, TransmissionPhylogenyProtein DomainsSequence Analysis, DNABacterial ProteinsBioinformaticsCarboxysomeCyanobacteriaCyanophycinGas vesiclesGlycogenLipid dropletsMorphologyPHBPolyphosphateProtein domainTransmission electron microscopyUltrastructure

Identifiers

What OpenQuestion holds

Textmetadata
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.