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Related Experiment Videos

Plant snoRNA database.

John W S Brown1, Manuel Echeverria, Liang-Hu Qu

  • 1Gene Expression Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, UK. jbrown@scri.sari.ac.uk

Nucleic Acids Research
|January 10, 2003
PubMed
Summary
This summary is machine-generated.

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The Plant snoRNA database offers comprehensive data on small nucleolar RNAs (snoRNAs) across 19 plant species. It details snoRNA sequences, expression, modification sites, and gene organization for enhanced plant genomics research.

Area of Science:

  • * Plant genomics and molecular biology.
  • * RNA biology and bioinformatics.

Background:

  • * Small nucleolar RNAs (snoRNAs) are crucial non-coding RNAs involved in RNA modification.
  • * Understanding plant snoRNA diversity and function is essential for gene regulation studies.
  • * Existing resources for plant snoRNAs were fragmented, necessitating a centralized database.

Purpose of the Study:

  • * To create a comprehensive, publicly accessible database for plant small nucleolar RNAs (snoRNAs).
  • * To consolidate information on snoRNA sequences, gene organization, and modification targets.
  • * To establish a standardized nomenclature for plant snoRNAs, facilitating cross-species comparisons.

Main Methods:

  • * Data compilation from public resources and literature for 19 plant species.

Related Experiment Videos

  • * Bioinformatic analysis of snoRNA sequences, including identification of gene organization (polycistronic, single, intronic) and variants.
  • * Annotation of methylation and pseudouridylation target modification sites.
  • * Alignment of orthologous snoRNA genes across different plant species.
  • * Development of a standardized nomenclature system.

    • Main Results:

    • * The Plant snoRNA database now hosts information for Arabidopsis and 18 other plant species.
    • * Detailed data includes sequences, expression patterns, modification targets, and gene organization.
    • * Orthologous gene alignments and a standardized nomenclature are provided.
    • * Arabidopsis snoRNAs are categorized by box C/D and box H/ACA, and by their targets (rRNA, snRNA, unknown).

    Conclusions:

    • * The Plant snoRNA database serves as a valuable resource for plant researchers.
    • * It facilitates comparative genomics and functional studies of snoRNAs in plants.
    • * Standardized nomenclature enhances the usability and consistency of plant snoRNA data.