QTL Identification and Candidate Gene Prediction for Spike-Related Traits in Barley
Barley (<i>Hordeum vulgare</i> L.) is one of the most important cereal crops in the world, and its production is important to humans. Barley spike morphology is highly correlated with yield and is also a complex multigene-controlled quantitative trait. To date, a considerable number of s...
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| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2025-05-01
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| Series: | Agronomy |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2073-4395/15/5/1185 |
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| Summary: | Barley (<i>Hordeum vulgare</i> L.) is one of the most important cereal crops in the world, and its production is important to humans. Barley spike morphology is highly correlated with yield and is also a complex multigene-controlled quantitative trait. To date, a considerable number of spike-related quantitative trait loci (QTLs) have been reported in barley, but the large physical distances between most of them and the lack of follow-up studies have made it difficult to use them in molecular-assisted breeding in barley. To explore more novel and yield-enhancing spike QTLs, in this study, a high-density genetic linkage map was developed based on a population of 172 F<sub>2:12</sub> recombinant inbred lines (RILs) developed from a cross between the barley variety Yongjiabaidamai (YJ) and Hua 30 (H30), and used to map the spike length (SL), rachis node number (SRN), and spike density (SD). A total of 50 additive QTLs (LOD > 3) were mapped in four environments, four of them being stable and major QTLs. The <i>qSL2-5</i> overlaps with the <i>zeo1</i> gene, comparing the gene sequences of both parents and combining with previous studies, <i>zeo1</i> was determined to be the SL regulatory gene in <i>qSL2-5</i>. The <i>qSRN2-1</i> overlaps with <i>vrs1</i>, but it has not been previously reported that <i>vrs1</i> affects SRN. Notably, two novel QTLs, one each on chromosomes 2H (<i>qSL2-1</i>) and 5H (<i>qSL5-1</i>), respectively, were first identified in this study. The <i>qSL2-1</i> has only 0.06 Mb and contains three high-confidence genes. In addition, this study explored the relationship between three spike traits, and found that SL was affected by both SRN and SD, while there was almost no relationship between SRN and SD. We also explored the effect of these QTLs on grain weight per spike (GWPS) to assess their effect on yield and found that <i>qSRN2-1</i> and <i>qSL5-1</i> had a greater effect on GWPS, suggesting that they are potential loci to increase yield. |
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| ISSN: | 2073-4395 |