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Published on: September 2, 2019
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Microsatellite DNA markers for rice chromosomes
H Akagi1, Y Yokozeki, A Inagaki
1Plant Biotechnology Laboratory, Life Science Institute, Mitsui Toatsu Chemicals Inc., Togo, 1144, 297, Mobara, Japan.
Summary
Researchers identified 369 microsatellites in rice DNA, developing 35 new DNA markers. These markers aid in breeding new rice varieties by enabling selection of desired traits and covering 35% of the rice genome.
Area of Science:
- Genomics
- Plant Science
- Molecular Biology
Background:
- Microsatellites are valuable genetic markers for plant breeding.
- Developing new microsatellite markers can be time-consuming and labor-intensive.
- Published genomic sequences offer a potential resource for marker development.
Purpose of the Study:
- To identify and characterize microsatellites in rice genomic sequences.
- To develop novel microsatellite DNA markers for rice genetic studies.
- To assess the utility of these markers for genome mapping and breeding.
Main Methods:
- Bioinformatic analysis of 11,798 rice sequences to identify microsatellites.
- Conversion of identified microsatellites into DNA markers using flanking sequences.
- PCR-based assay and genome mapping of developed polymorphic markers between japonica and indica rice varieties.
Main Results:
- Identified 369 complete microsatellites, with (CGG/GCC)n being the most frequent.
- Successfully developed 35 new microsatellite DNA markers from 45 identified microsatellites.
- Mapped 28 polymorphic markers on the rice genome, covering approximately 35% of the chromosomes with existing markers.
- Demonstrated hypervariability and ease of assay for PCR-based analysis.
Conclusions:
- Published rice sequences are a valuable resource for developing cost-effective microsatellite DNA markers.
- The developed microsatellite markers are well-distributed across the rice genome and useful for genetic mapping.
- These markers can significantly aid in the development of new rice breeds by facilitating marker-assisted selection, saving time, labor, and resources.
