Identification of transcription factor BnHDG4-A08 as a novel candidate associated with the accumulation of oleic, linoleic, linolenic, and erucic acid in Brassica napus.

IF 4.4 1区 农林科学 Q1 AGRONOMY Theoretical and Applied Genetics Pub Date : 2024-10-01 DOI:10.1007/s00122-024-04733-7
Ying Fu, Min Yao, Ping Qiu, Maolin Song, Xiyuan Ni, Erli Niu, Jianghua Shi, Tanliu Wang, Yaofeng Zhang, Huasheng Yu, Lunwen Qian
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Abstract

Key message: We screened 47 significantly associated haplotype blocks for oleic, linoleic, linolenic, and erucic acid, with 17 blocks influencing multiple traits. A novel candidate of transcription factor BnHDG4 A08 influencing oleic, linoleic, linolenic, and erucic acid was identified, by a joint strategy of haplotype-based genome-wide association study, genomic resequencing, gene cloning, and co-expression network Fatty acid (FA) composition determines the quality and economic value of rapeseed oil (Brassica napus). However, the molecular network of FAs is unclear. In the current study, multi-strategies of haplotype-based genome-wide association study (GWAS), genomic resequencing, gene cloning, and co-expression network were joint to reveal novel genetic factors influencing FA accumulation in rapeseed. We identified 47 significantly associated haplotype blocks for oleic, linoleic, linolenic, and erucic acid, with 17 blocks influencing multiple traits, using a haplotype-based GWAS with phenotype data from 203 Chinese semi-winter accessions. A total of 61 rapeseed orthologs involved in acyl-lipid metabolism, carbohydrate metabolism, or photosynthesis were identified in these 17 blocks. Among these genes, BnHDG4-A08, encoding a class IV homeodomain leucine-zipper transcription factor, exhibited two single-nucleotide polymorphisms (SNPs) in the exon and intron, with significant associations with oleic, linoleic, linolenic, and erucic acid. Gene cloning further validated two SNPs in the exon of BnHDG4-A08 in a population with 75 accessions, leading to two amino acid changes (T372A and P366L) and significant variation of oleic, linoleic, linolenic, and erucic acid. A competitive allele-specific PCR (KASP) marker based on the SNPs was successfully developed and validated. Moreover, 98 genes exhibiting direct interconnections and high weight values with BnHDG4-A08 were identified through co-expression network analysis using transcriptome data from 13 accessions. Our study identified a novel FA candidate of transcription factor BnHDG4-A08 influencing oleic, linoleic, linolenic, and erucic acid. This gene provides a potential promising gene resource for the novel mechanistic understanding of transcription factors regulating FA accumulation.

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鉴定转录因子 BnHDG4-A08 为与甘蓝型油菜中油酸、亚油酸、亚麻酸和芥酸积累相关的新型候选因子。
关键信息:我们筛选了47个与油酸、亚油酸、亚麻酸和芥酸明显相关的单倍型区块,其中17个区块影响多个性状。通过基于单倍型的全基因组关联研究、基因组重测序、基因克隆和共表达网络的联合策略,发现了影响油酸、亚油酸、亚麻酸和芥酸的转录因子 BnHDG4 A08 的新候选基因 脂肪酸(FA)组成决定了菜籽油的品质和经济价值。然而,脂肪酸的分子网络尚不清楚。本研究采用基于单倍型的全基因组关联研究(GWAS)、基因组重测序、基因克隆和共表达网络等多种策略,揭示了影响油菜籽脂肪酸积累的新的遗传因素。利用基于单倍型的 GWAS 和 203 个中国半冬性品种的表型数据,我们发现了油酸、亚油酸、亚麻酸和芥酸的 47 个明显相关的单倍型区块,其中 17 个区块影响多个性状。在这 17 个区块中,共鉴定出 61 个涉及酰脂代谢、碳水化合物代谢或光合作用的油菜籽直向同源基因。在这些基因中,BnHDG4-A08(编码一种第四类同源结构域亮氨酸-拉链转录因子)的外显子和内含子中出现了两个单核苷酸多态性(SNPs),与油酸、亚油酸、亚麻酸和芥酸有显著关联。基因克隆进一步验证了在一个有 75 个品种的群体中 BnHDG4-A08 外显子上的两个 SNPs,这两个 SNPs 导致了两个氨基酸的变化(T372A 和 P366L)以及油酸、亚油酸、亚麻酸和芥酸的显著变化。成功开发并验证了基于 SNPs 的竞争性等位基因特异性 PCR(KASP)标记。此外,通过使用 13 个品种的转录组数据进行共表达网络分析,发现了 98 个与 BnHDG4-A08 有直接关联且权重值较高的基因。我们的研究发现了一个影响油酸、亚油酸、亚麻酸和芥酸的转录因子BnHDG4-A08的新型FA候选基因。该基因为从新的机制角度理解转录因子调控脂肪酸积累提供了潜在的基因资源。
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来源期刊
CiteScore
9.60
自引率
7.40%
发文量
241
审稿时长
2.3 months
期刊介绍: Theoretical and Applied Genetics publishes original research and review articles in all key areas of modern plant genetics, plant genomics and plant biotechnology. All work needs to have a clear genetic component and significant impact on plant breeding. Theoretical considerations are only accepted in combination with new experimental data and/or if they indicate a relevant application in plant genetics or breeding. Emphasizing the practical, the journal focuses on research into leading crop plants and articles presenting innovative approaches.
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