Evidence map›Paper›PMID 25724908›Full record

ArticleMolecular & cellular proteomics : MCP2015

Proteomic analysis of the soybean symbiosome identifies new symbiotic proteins.

Victoria C Clarke, Patrick C Loughlin, Aleksandr Gavrin, Chi Chen, Ella M Brear, David A Day, Penelope M C Smith

Abstract read
In one paragraph

Article in Molecular & cellular proteomics : MCP, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.

0numbers the graph read from it
0cells of the map it votes in
35citing 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

35 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Review
  7. NPF and NRT2 fromPlants (Basel, Switzerland) · 2024
    Review
  8. Structure, Function, and Applications of Soybean Calcium Transporters.International journal of molecular sciences · 2022
    Review
  9. Article
  10. Review
  11. Review
  12. Article
  13. Article
  14. Iron Transport across Symbiotic Membranes of Nitrogen-Fixing Legumes.International journal of molecular sciences · 2021
    Review
  15. TheFrontiers in plant science · 2021
    Article
  16. Review
  17. Article
  18. The rhizobial autotransporter determines the symbiotic nitrogen fixation activity ofProceedings of the National Academy of Sciences of the United States of America · 2020
    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.

Victoria C ClarkeFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia;
Patrick C LoughlinFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia;
Aleksandr GavrinFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia;
Chi ChenFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia;
Ella M BrearFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia;
David A DayFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia; §Flinders University, School of Biological Sciences, Adelaide Australia.
Penelope M C SmithFrom the ‡University of Sydney, School of Biological Sciences, Sydney Australia; penny.smith@sydney.edu.au.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Legumes form a symbiosis with rhizobia in which the plant provides an energy source to the rhizobia bacteria that it uses to fix atmospheric nitrogen. This nitrogen is provided to the legume plant, allowing it to grow without the addition of nitrogen fertilizer. As part of the symbiosis, the bacteria in the infected cells of a new root organ, the nodule, are surrounded by a plant-derived membrane, the symbiosome membrane, which becomes the interface between the symbionts. Fractions containing the symbiosome membrane (SM) and material from the lumen of the symbiosome (peribacteroid space or PBS) were isolated from soybean root nodules and analyzed using nongel proteomic techniques. Bicarbonate stripping and chloroform-methanol extraction of isolated SM were used to reduce complexity of the samples and enrich for hydrophobic integral membrane proteins. One hundred and ninety-seven proteins were identified as components of the SM, with an additional fifteen proteins identified from peripheral membrane and PBS protein fractions. Proteins involved in a range of cellular processes such as metabolism, protein folding and degradation, membrane trafficking, and solute transport were identified. These included a number of proteins previously localized to the SM, such as aquaglyceroporin nodulin 26, sulfate transporters, remorin, and Rab7 homologs. Among the proteome were a number of putative transporters for compounds such as sulfate, calcium, hydrogen ions, peptide/dicarboxylate, and nitrate, as well as transporters for which the substrate is not easy to predict. Analysis of the promoter activity for six genes encoding putative SM proteins showed nodule specific expression, with five showing expression only in infected cells. Localization of two proteins was confirmed using GFP-fusion experiments. The data have been deposited to the ProteomeXchange with identifier PXD001132. This proteome will provide a rich resource for the study of the legume-rhizobium symbiosis.

Indexed as

Amino Acid SequenceBiological TransportCarrier ProteinsCell MembraneGlycine maxLiquid-Liquid ExtractionMembrane ProteinsMembrane Transport ProteinsMetabolic Networks and PathwaysMolecular Sequence AnnotationMolecular Sequence DataPhosphoproteinsPlant CellsPlant ProteinsProteomerab7 GTP-Binding ProteinsCarrier ProteinsMembrane ProteinsMembrane Transport ProteinsnodulinPhosphoproteinsPlant ProteinsProteomerab7 GTP-Binding Proteinsrab GTP-Binding Proteinsremorin

Identifiers

PMID25724908
PMCPMC4424401

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.