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Related Experiment Video

Updated: Feb 4, 2026

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Identification and functional characterization of intermediate-size non-coding RNAs in maize.

Dandan Li1, Huili Qiao1, Wujie Qiu1

  • 1China-UK-NYNU-RRes Joint Laboratory of insect biology, Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, 1638 Wolong Road, Nanyang, 473061, Henan, China.

BMC Genomics
|October 6, 2018
PubMed
Summary

Researchers identified 169 maize non-coding RNAs (ncRNAs), including 111 novel ones. Three ncRNAs show potential roles in maize stress response to drought and salt conditions.

Keywords:
Intermediate-size ncRNAsMaizeStress

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Area of Science:

  • Genomics
  • Molecular Biology
  • Plant Science

Background:

  • Eukaryotic genomes produce non-coding RNAs (ncRNAs) crucial for development and evolution.
  • Research on intermediate-size ncRNAs in maize (50-500 nucleotides) remains limited compared to microRNAs and long non-coding RNAs.

Purpose of the Study:

  • To perform a genome-wide identification and functional analysis of intermediate-size ncRNAs in maize.
  • To characterize novel ncRNAs and assess their potential roles in maize development and stress response.

Main Methods:

  • Construction of a homogenized cDNA library for 50-500 nt RNAs from maize inbred line Chang 7-2.
  • High-throughput sequencing for ncRNA identification.
  • Bioinformatic analysis including target site prediction and expression profiling across tissues and developmental stages.

Main Results:

  • 169 ncRNAs were identified, comprising 58 known and 111 novel ncRNAs (including 70 snoRNAs, 27 snRNAs).
  • 40 novel ncRNAs were specific to the Panicoideae subfamily; 24% were located near protein-coding genes.
  • 22 snoRNAs were found to target ribosomal RNA and small nuclear RNA modification sites. 43 ncRNAs showed altered expression during development, with 3 novel ncRNAs (Zm-3, Zm-18, Zm-73) significantly induced by drought and salt stress.

Conclusions:

  • This study provides a comprehensive identification and functional analysis of intermediate-size ncRNAs in maize.
  • 111 novel ncRNAs were discovered, with 40 being Panicoideae-specific, laying groundwork for further research.
  • The identification of ncRNAs responsive to developmental changes and abiotic stress (drought, salt) highlights their potential roles in maize adaptation and survival.