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PlaMoM: a comprehensive database compiles plant mobile macromolecules.

Daogang Guan1,2,3, Bin Yan4,5, Christoph Thieme6

  • 1Department of Biology, Hong Kong Baptist University, Kowloon, Hong Kong.

Nucleic Acids Research
|December 8, 2016
PubMed
Summary
This summary is machine-generated.

Plant mobile macromolecules like RNAs and proteins are crucial long-distance signals. The new PlaMoM database centralizes information on these mobile signaling molecules, aiding plant science research.

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Area of Science:

  • Plant molecular biology
  • Bioinformatics
  • Genomics

Background:

  • Phloem-mobile macromolecules, including noncoding RNAs, mRNAs, and proteins, are vital long-distance signals in plants.
  • These signals regulate critical processes like flowering, growth, and stress responses.
  • Recent advances have identified many mobile macromolecules, but they lack centralized, searchable annotation.

Purpose of the Study:

  • To create a comprehensive, searchable database of plant mobile macromolecules (PlaMoM).
  • To facilitate the retrieval, analysis, and prediction of mobile RNAs and proteins.
  • To support research into plant signaling pathways and molecular communication.

Main Methods:

  • Compilation of data from published literature and high-throughput sequencing studies.
  • Development of an interactive database with search and analysis tools.
  • Inclusion of detailed information per entry: sequences, orthologs, functions, and literature.
  • Integration of tools for predicting RNA mobility signals and visualizing protein-protein interactions.

Main Results:

  • The PlaMoM database currently contains 17,991 mobile macromolecules from 14 plant species/ecotypes.
  • Provides detailed annotations, including sequences, orthologs, functions, and experimental data.
  • Offers interactive tools for data retrieval, analysis, and prediction of mobile molecules.
  • Includes specific features for Arabidopsis thaliana, such as interactive molecular networks.

Conclusions:

  • PlaMoM serves as a valuable, centralized resource for studying plant mobile signaling macromolecules.
  • The database enhances accessibility and facilitates further research into plant physiological and morphological transitions.
  • PlaMoM supports the identification and characterization of novel mobile RNAs and proteins critical for plant development and adaptation.