Evidence map›Paper›PMID 21203394›Full record

ArticlePloS one2010

A new and unified nomenclature for male fertility restorer (RF) proteins in higher plants.

Simeon O Kotchoni, Jose C Jimenez-Lopez, Emma W Gachomo, Manfredo J Seufferheld

Abstract read
In one paragraph

Article in PloS one, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

  1. FromiScience · 2024
    Article
  2. Identification of a CandidateInternational journal of molecular sciences · 2022
    Article
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
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

4 authors.

Simeon O KotchoniDepartment of Agronomy, Purdue University, Lilly Hall, West Lafayette, Indiana, United States of America. skotchon@purdue.edu
Jose C Jimenez-Lopez
Emma W Gachomo
Manfredo J Seufferheld

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The male fertility restorer (RF) proteins belong to extended protein families associated with the cytoplasmic male sterility in higher plants. Up till now, there is no devised nomenclature for naming the RF proteins. The systematic sequencing of new plant species in recent years has uncovered the existence of several novel RF genes and their encoded proteins. Their naming has been simply arbitrary and could not be adequately handled in the context of comparative functional genomics. We propose in this study a unified nomenclature for the RF extended protein families across all plant species. This new and unified nomenclature relies upon previously developed nomenclature for the first ever characterized RF gene, RF2A/ALDH2B2, a member of ALDH gene superfamily, and adheres to the guidelines issued by the ALDH Genome Nomenclature Committees. The proposed nomenclature reveals that RF gene superfamily encodes currently members of 51 families. This unified nomenclature accommodates functional RF genes and pseudogenes, and offers the flexibility needed to incorporate additional RFs as they become available in future. In addition, we provide a phylogenetic relationship between the RF extended families and use computational protein modeling to demonstrate the high divergence of RF functional specializations through specific structural features of selected members of RF superfamily.

Indexed as

Aldehyde Dehydrogenase 1 FamilyComputational BiologyDatabases, ProteinGenes, PlantGenomicsIsoenzymesMolecular ConformationOpen Reading FramesPhylogenyPlant InfertilityPlant ProteinsPlantsProtein ConformationPseudogenesRetinal DehydrogenaseSoftwareAldehyde Dehydrogenase 1 FamilyIsoenzymesPlant ProteinsRetinal Dehydrogenase

Identifiers

PMID21203394
PMCPMC3011004

What OpenQuestion holds

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LicenceCC BY
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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.