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ARS Home » Plains Area » Fargo, North Dakota » Edward T. Schafer Agricultural Research Center » Cereal Crops Improvement Research » Research » Publications at this Location » Publication #425046
Research Project: Improvement of Disease and Pest Resistance in Barley, Durum, Oat, and Wheat Using Genetics and Genomics

Location: Cereal Crops Improvement Research

Title: Genetic analysis of the single internode dwarf 1 mutant in barley

Author
item Overlander-Chen, Megan
item Fiedler, Jason
item Zhong, Shaobin
item Yang, Shengming

Submitted to: BMC Plant Biology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 5/26/2025
Publication Date: 7/2/2025
Citation: Overlander-Chen, M., Fiedler, J.D., Zhong, S., Yang, S. 2025. Genetic analysis of the single internode dwarf 1 mutant in barley. BMC Plant Biology. 25. Article 797. https://doi.org/10.1186/s12870-025-06790-6.
DOI: https://doi.org/10.1186/s12870-025-06790-6

Interpretive Summary: The plant stem is an important organ that provides structural support for leaves, flowers, and fruits while facilitating the transport of water, gases, and nutrients between the roots and leaves. However, stem elongation is a very complicated process, and its regulatory mechanism has not been fully understood. In the present study, we characterized a barley mutant named "single internode dwarf 1" or sid1, with defects in stem growth. Genetic mapping anchored the sid1 mutation onto a specific chromosome in barley genome, and one promising candidate gene was selected for functional validation. Therefore, our results lay a foundation for plant biologist to clone Sid1, which will further the understanding of molecular mechanism underlying stem elongation.

Technical Abstract: Stem development is crucial for plant lodging, nutrients and water transport, and structural support for other organs. Understanding stem development and growth is essential for ensuring the global food security. Although numerous lodging-resilient and high-yielding crop varieties have been developed in the Green Revolution by controlling plant height, the molecular mechanism underlying stem development, particularly for cereals, is not fully understood. The allelic stem mutants in barley (Hordeum vulgare subsp. vulgare), single internode dwarf 1 1 (sid1), provide a model system for genetic studies on stem development. We characterized and genetically analyzed the sid1.b mutation. To determine the precise position of Sid1, a high-resolution genetic map was constructed. Segregating F2 plants derived from a cross between wild type (WT) and the mutant were genotyped with the barley 50'k iSelect SNP Array, and the detected SNPs were converted to PCR-based markers for fine mapping. The Sid1 gene was mapped to a 429-kb region on chromosome 4H. Illumina sequencing of WT and sid1 identified a C'T transition in an epidermal pattern factor (EPF)-coding gene, which introduces a premature stop codon in the mutant allele. Therefore, our study provides a foundation for cloning of Sid1, which will enhance our understanding of the molecular mechanisms underlying stem development, particularly in monocot plants.