Scholarlink

Background <p>Identifying genes regulating flowering time enhances understanding mechanisms that improve crop adaptation and productivity. This study aims to identify gene(s) underlying barley flowering time quantitative trait locus (QTL) “<i>HvHeading</i>”.</p> Results <p>To investigate the reported delayed-flowering effect of QTL, we selected spring barley MAGIC DH lines with different alleles in <i>HvHeading</i> locus which carry the same alleles in epistatic loci. Phenotyping apex development revealed contrasting effects of two alleles of <i>HvHeading</i> locus. Combining recombination and differential gene expression analyses using RNA-sequencing for apex and leaf tissue pinpointed a 3.94 Mbs interval which carried 22 differently expressed genes. Initial analysis using Morex IBSC v2 reference genome suggested a transcription elongation factor <i>HvSpt6</i>, encoded by <i>HORVU1Hr1G067820</i>, as a possible candidate gene potentially involved in flowering time regulation. Full-length <i>HvSpt6</i> sequencing found two promoter mutations in the allele from delayed-flowering genotype, creating a binding site for <i>TEM1</i>, a transcription factor known for involvement in suppressing flowering time in Arabidopsis.</p> Conclusions <p>The findings provided the first insights for flowering time regulation by <i>HvHeading</i> underlying gene. Though further functional studies are needed to conclusively identify the causal gene. This study showed that leveraging knowledge of epistatic loci to address phenotypic background effects, followed by RNA sequencing can be an effective approach for identifying genes in large regions of suppressed recombination in crops with complex genomes.</p>

错误：搜索内容不能为空，请输入英文关键词
错误：关键词超出字数限制，请精简
高级检索

Comparative transcriptome analysis reveals candidate gene for flowering time QTL HvHeading in barley

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年6月20日

查看全文
  • Nazanin P. Afsharyan,
  • Jens Léon,
  • Ali Ahmad Naz,
  • Agim Ballvora

摘要

Background

Identifying genes regulating flowering time enhances understanding mechanisms that improve crop adaptation and productivity. This study aims to identify gene(s) underlying barley flowering time quantitative trait locus (QTL) “HvHeading”.

Results

To investigate the reported delayed-flowering effect of QTL, we selected spring barley MAGIC DH lines with different alleles in HvHeading locus which carry the same alleles in epistatic loci. Phenotyping apex development revealed contrasting effects of two alleles of HvHeading locus. Combining recombination and differential gene expression analyses using RNA-sequencing for apex and leaf tissue pinpointed a 3.94 Mbs interval which carried 22 differently expressed genes. Initial analysis using Morex IBSC v2 reference genome suggested a transcription elongation factor HvSpt6, encoded by HORVU1Hr1G067820, as a possible candidate gene potentially involved in flowering time regulation. Full-length HvSpt6 sequencing found two promoter mutations in the allele from delayed-flowering genotype, creating a binding site for TEM1, a transcription factor known for involvement in suppressing flowering time in Arabidopsis.

Conclusions

The findings provided the first insights for flowering time regulation by HvHeading underlying gene. Though further functional studies are needed to conclusively identify the causal gene. This study showed that leveraging knowledge of epistatic loci to address phenotypic background effects, followed by RNA sequencing can be an effective approach for identifying genes in large regions of suppressed recombination in crops with complex genomes.