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Identification and Characterization of SRS Genes in Phaseolus vulgaris Genome and Their Responses Under Salt Stress
Biochemical Genetics ( IF 2.1 ) Pub Date : 2021-07-20 , DOI: 10.1007/s10528-021-10108-0
İlker Büyük 1 , Aybüke Okay 1 , Sümer Aras 1
Affiliation  

SHI-Related Sequence (SRS) transcription factors comprise a protein family with important roles in growth and development. However, the genome-wide study of the SRS protein family has not yet been carried out in the common bean. For this reason, the SRS family has been characterized in depth at both gene and protein levels and several bioinformatics methods have been used. As a result, 10 SRS genes have been identified and their proteins have been phylogenetically categorized into three major groups within the common bean. By investigating duplications that play a major role in the development of gene families, 19 duplication events have been identified in the SRS family (18 segmental and 1 tandem). In addition, using available RNAseq data, comparative expression analysis of Pvul-SRS genes was performed and expression changes in Pvul-SRS-1, 2, 4, 6, 7, and 10 genes were observed under both salt and drought stress. Five Pvul-SRS genes were selected based on RNAseq data (Pvul-SRS-1, 2, 4, 6, and 10) and screened with RT-qPCR in two common bean cultivars (Yakutiye ‘salt-resistant’ and Zulbiye ‘salt-susceptible’ cv.). These genes also showed different levels of expression between two common bean cultivars under salt stress conditions and this may explain the responses of Pvul-SRS genes against abiotic stress. In summary, this work is the first study in which in silico identification and characterization of Pvul-SRS genes have been examined at gene expression level. The results could therefore provide the basis for future studies of functional characterization of Pvul-SRS genes.



中文翻译:

菜豆基因组中SRS基因的鉴定和表征及其在盐胁迫下的反应

SHI 相关序列 (SRS) 转录因子包含在生长和发育中具有重要作用的蛋白质家族。然而,SRS蛋白家族的全基因组研究尚未在普通豆中进行。出于这个原因,SRS 家族在基因和蛋白质水平上都得到了深入的表征,并且已经使用了几种生物信息学方法。结果,已鉴定出 10 个SRS基因,它们的蛋白质已在系统发育上分为普通豆类中的三大类。通过研究在基因家族发展中起主要作用的重复,已在 SRS 家族中确定了 19 个重复事件(18 个片段和 1 个串联)。此外,利用现有的 RNAseq 数据,对 Pvul -SRS进行比较表达分析在盐胁迫和干旱胁迫下均观察到Pvul - SRS-1、2、4、6、710基因表达变化。根据 RNAseq 数据(Pvul-SRS-1、2、4、6 和 10)选择了五个 Pvul-SRS 基因通过RT - qPCR两个常见豆品种(Yakutiye 'salt-resistant' 和 Zulbiye 'salt-易感的简历)。这些基因在盐胁迫条件下两种常见豆品种之间也表现出不同水平的表达,这可以解释Pvul-SRS的反应抗非生物胁迫的基因。总之,这项工作是第一项在基因表达水平上对Pvul-SRS基因进行计算机识别和表征的研究。因此,该结果可为未来研究Pvul-SRS基因的功能表征提供基础。

更新日期:2021-07-20
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