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Transcriptomic analysis of salt tolerance-associated genes and diversity analysis using indel markers in yardlong bean (Vigna unguiculata ssp. sesquipedialis)
BMC Genetics Pub Date : 2021-09-16 , DOI: 10.1186/s12863-021-00989-w
Hongmei Zhang 1, 2 , Wenjing Xu 2, 3 , Huatao Chen 2 , Jingbin Chen 2 , Xiaoqing Liu 2 , Xin Chen 2 , Shouping Yang 1
Affiliation  

High salinity is a devastating abiotic stresses for crops. To understand the molecular basis of salinity stress in yardlong bean (Vigna unguiculata ssp. sesquipedalis), and to develop robust markers for improving this trait in germplasm, whole transcriptome RNA sequencing (RNA-seq) was conducted to compare the salt-tolerant variety Suzi 41 and salt-sensitive variety Sujiang 1419 under normal and salt stress conditions. Compared with controls, 417 differentially expressed genes (DEGs) were identified under exposure to high salinity, including 42 up- and 11 down-regulated DEGs in salt-tolerant Suzi 41 and 186 up- and 197 down-regulated genes in salt-sensitive Sujiang 1419, validated by qRT-PCR. DEGs were enriched in “Glycolysis/Gluconeogenesis” (ko00010), “Cutin, suberine and wax biosynthesis” (ko00073), and “phenylpropanoid biosynthesis” (ko00940) in Sujiang 1419, although “cysteine/methionine metabolism” (ko00270) was the only pathway significantly enriched in salt-tolerant Suzi 41. Notably, AP2/ERF, LR48, WRKY, and bHLH family transcription factors (TFs) were up-regulated under high salt conditions. Genetic diversity analysis of 84 yardlong bean accessions using 26 InDel markers developed here could distinguish salt-tolerant and salt-sensitive varieties. These findings show a limited set of DEGs, primarily TFs, respond to salinity stress in V. unguiculata, and that these InDels associated with salt-inducible loci are reliable for diversity analysis.

中文翻译:

耐盐相关基因的转录组学分析和使用 indel 标记在 yardlong bean (Vigna unguiculata ssp. sesquipedialis) 中的多样性分析

高盐度对作物来说是一种毁灭性的非生物胁迫。为了解长豆 (Vigna unguiculata ssp. sesquipedalis) 盐分胁迫的分子基础,并开发强有力的标记来改善种质中的这一性状,进行了全转录组 RNA 测序 (RNA-seq) 以比较耐盐品种 Suzi 41和盐敏感品种苏江1419在正常和盐胁迫条件下。与对照相比,在高盐暴露条件下鉴定出417个差异表达基因(DEGs),其中耐盐苏子41中有42个上调和11个下调的差异表达基因,盐敏感苏江有186个上调和197个下调基因。 1419,通过 qRT-PCR 验证。DEGs 富含“糖酵解/糖异生”(ko00010),“角质,木脂碱和蜡的生物合成”(ko00073),和苏江1419中的“苯丙素生物合成”(ko00940),尽管“半胱氨酸/蛋氨酸代谢”(ko00270)是唯一在耐盐苏子41中显着富集的途径。值得注意的是,AP2/ERF、LR48、WRKY和bHLH家族转录因子(TFs) 在高盐条件下上调。使用此处开发的 26 个 InDel 标记对 84 码长的豆种质进行遗传多样性分析可以区分耐盐和盐敏感品种。这些发现表明,一组有限的 DEG,主要是 TF,对 V. unguiculata 的盐度胁迫有反应,并且这些与盐诱导基因座相关的 InDels 对于多样性分析是可靠的。和 bHLH 家族转录因子 (TFs) 在高盐条件下上调。使用此处开发的 26 个 InDel 标记对 84 码长的豆种质进行遗传多样性分析可以区分耐盐和盐敏感品种。这些发现表明,一组有限的 DEG,主要是 TF,对 V. unguiculata 的盐度胁迫有反应,并且这些与盐诱导基因座相关的 InDels 对于多样性分析是可靠的。和 bHLH 家族转录因子 (TFs) 在高盐条件下上调。使用此处开发的 26 个 InDel 标记对 84 码长的豆种质进行遗传多样性分析可以区分耐盐和盐敏感品种。这些发现表明,一组有限的 DEG,主要是 TF,对 V. unguiculata 的盐度胁迫有反应,并且这些与盐诱导基因座相关的 InDels 对于多样性分析是可靠的。
更新日期:2021-09-16
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