Evidence map›Paper›PMID 25049384›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2014

Complete genome of a nonphotosynthetic cyanobacterium in a diatom reveals recent adaptations to an intracellular lifestyle.

Takuro Nakayama, Ryoma Kamikawa, Goro Tanifuji, Yuichiro Kashiyama, Naohiko Ohkouchi, John M Archibald, Yuji Inagaki

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.

0numbers the graph read from it
0cells of the map it votes in
51citing papers in PubMed
5.4field-weighted citation impact, top 3% 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

51 citing papers in PubMed, 143 citations in OpenAlex.

  1. Review
  2. Genomes of NBMC genomics · 2026
    Article
  3. Review
  4. Article
  5. Ecosystem consequences of a nitrogen-fixing proto-organelle.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  6. Genomes of nitrogen-fixing eukaryotes reveal an alternate path for organellogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  7. Article
  8. Article
  9. Review
  10. Article
  11. Article
  12. The genome sequences of the marine diatomWellcome open research · 2024
    Article
  13. The endosymbiont ofISME communications · 2024
    Article
  14. Article
  15. Article
  16. Fungal systematics and evolution · 2022
    Article
  17. Article
  18. 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

7 authors at 5 institutions in 2 countries.

Takuro NakayamaCenter for Computational Sciences, University of Tsukuba, Tsukuba 305-8577, Japan;Department of Biochemistry and Molecular Biology, Canadian Institute for Advanced Research, Program in Integrated Microbial Biodiversity, Dalhousie University, Halifax, NS, Canada B3H 4R2;National Institute for Environmental Studies, Tsukuba 305-8506, Japan; ntakuro@ccs.tsukuba.ac.jp.
Ryoma KamikawaGraduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba 305-8572, Japan;Graduate School of Global Environmental Studies, Graduate School of Human and Environmental Studies, Kyoto University, Kyoto 606-8501, Japan;
Goro TanifujiDepartment of Biochemistry and Molecular Biology, Canadian Institute for Advanced Research, Program in Integrated Microbial Biodiversity, Dalhousie University, Halifax, NS, Canada B3H 4R2;Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba 305-8572, Japan;
Yuichiro KashiyamaJapan Agency for Marine-Earth Science and Technology, Yokosuka 237-0061, Japan;Department of Environmental and Biological Chemistry, Fukui University of Technology, Fukui 910-8505, Japan; andPrecursory Research for Embryonic Science and Technology, Japan Science and Technology Agency, Chiyoda 153-8902, Japan.
Naohiko OhkouchiJapan Agency for Marine-Earth Science and Technology, Yokosuka 237-0061, Japan;
John M ArchibaldDepartment of Biochemistry and Molecular Biology, Canadian Institute for Advanced Research, Program in Integrated Microbial Biodiversity, Dalhousie University, Halifax, NS, Canada B3H 4R2;
Yuji InagakiCenter for Computational Sciences, University of Tsukuba, Tsukuba 305-8577, Japan;Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba 305-8572, Japan;
Canadian Institute for Advanced Research · CAFukui University of Technology · JPJapan Agency for Marine-Earth Science and Technology · JPKyoto University · JPUniversity of Tsukuba · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The evolution of mitochondria and plastids from bacterial endosymbionts were key events in the origin and diversification of eukaryotic cells. Although the ancient nature of these organelles makes it difficult to understand the earliest events that led to their establishment, the study of eukaryotic cells with recently evolved obligate endosymbiotic bacteria has the potential to provide important insight into the transformation of endosymbionts into organelles. Diatoms belonging to the family Rhopalodiaceae and their endosymbionts of cyanobacterial origin (i.e., "spheroid bodies") are emerging as a useful model system in this regard. The spheroid bodies, which appear to enable rhopalodiacean diatoms to use gaseous nitrogen, became established after the divergence of extant diatom families. Here we report what is, to our knowledge, the first complete genome sequence of a spheroid body, that of the rhopalodiacean diatom Epithemia turgida. The E. turgida spheroid body (EtSB) genome was found to possess a gene set for nitrogen fixation, as anticipated, but is reduced in size and gene repertoire compared with the genomes of their closest known free-living relatives. The presence of numerous pseudogenes in the EtSB genome suggests that genome reduction is ongoing. Most strikingly, our genomic data convincingly show that the EtSB has lost photosynthetic ability and is metabolically dependent on its host cell, unprecedented characteristics among cyanobacteria, and cyanobacterial symbionts. The diatom-spheroid body endosymbiosis is thus a unique system for investigating the processes underlying the integration of a bacterial endosymbiont into eukaryotic cells.

Indexed as

Adaptation, PhysiologicalChromosomes, BacterialCyanobacteriaDiatomsElectron TransportGenome, BacterialGenome SizeIntracellular SpaceMolecular Sequence DataNitrogen FixationOrganellesPhotosynthesisSymbiosisThylakoidsorganelle evolutionphotosynthesispseudogenization

Identifiers

PMID25049384
PMCPMC4128115
OpenAlexW2128312826

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.