中华大蟾蜍TRAF基因家族成员鉴定及其表达模式分析

Identification of the TRAF gene family members in Bufo bufo gargarizans Cantor and their expression analysis

  • 摘要: 【目的】 开展中华大蟾蜍肿瘤坏死因子受体相关因子(Tumor necrosis factor receptor-associated factor,TRAF)基因家族成员鉴定及其表达模式分析研究,为深入解析中华大蟾蜍免疫调控机制提供理论依据。【方法】 基于中华大蟾蜍基因组数据,鉴定TRAF基因家族成员并预测编码蛋白理化性质,使用生物信息学方法分析TRAF基因家族成员编码蛋白结构、保守基序、保守结构域、基因结构、染色体定位情况,进行共线性分析并构建系统发育树。采用实时荧光定量PCR检测取酥前后TRAF基因家族成员相对表达量,通过相关分析探究TRAF基因家族成员间的相关性。【结果】 中华大蟾蜍TRAF基因家族拥有BgaTRAF1BgaTRAF2BgaTRAF3BgaTRAF4BgaTRAF5BgaTRAF6BgaTRAF7等7个成员,均为亲水性蛋白,且均含有α-螺旋、β-转角、延伸链和无规则卷曲结构。除BgaTRAF7蛋白外,其余6个蛋白的保守基序数量和位置大体一致,且多数蛋白含有RING、MATH和zf-TRAF结构域。TRAF基因家族7个成员归属于7个亚家族,含有外显子7~16个,内含子6~15个,BgaTRAF4基因还含有1个超长内含子。仅存在1对片段复制基因BgaTRAF2BgaTRAF3,与小鼠间存在5对TRAF共线性基因,与斑马鱼间存在2对TRAF共线性基因。TRAF1与TRAF2亚家族亲缘关系较近,TRAF7亚家族独立成支,与其他亚家族亲缘关系较远。未取酥耳后腺中BgaTRAF2BgaTRAF7基因相对表达量较高,取酥后,BgaTRAF1BgaTRAF2BgaTRAF3基因相对表达量在取酥后24 h内显著升高(P<0.05),其中BgaTRAF2基因相对表达量在取酥后1 h即出现急剧升高,而BgaTRAF4BgaTRAF5BgaTRAF6基因相对表达量在取酥后降低。【结论】 中华大蟾蜍拥有一个完整的7成员TRAF基因家族,其成员在蛋白结构和系统进化上均表现出典型的亚家族特征。中华大蟾蜍TRAF基因家族成员在耳后腺取酥后表现出明显的时间依赖性规律,其中BgaTRAF1BgaTRAF2BgaTRAF3BgaTRAF4BgaTRAF5BgaTRAF6基因分别作为协同单元被快速诱导或抑制,共同构成了中华大蟾蜍应对免疫创伤的核心转录调控网络。

     

    Abstract: 【Objective】 This study aimed to identify members of the tumor necrosis factor receptor-associated factor (TRAF) gene family and analyze their expression patterns in Bufo bufo gargarizans Cantor, so as to provide a theoretical basis for a deeper understanding of the immune regulation mechanism of Bufo bufo gargarizans Cantor.【Method】 Based on the genome data of Bufo bufo gargarizans Cantor, members of the TRAF gene family and the physicochemical properties of their encoded proteins were identified. Bioinformatic methods were used to analyze the structure, conserved motifs, conserved domains, gene structure, and chromosomal location of encoded proteins of the TRAF gene family members, and a phylogenetic tree was constructed using collinearity analysis. Real-time fluorescence quantitative PCR was used to detect the relative expression of TRAF gene family members before and after venenum extraction, and correlation analysis was conducted to explore correlations among TRAF gene family members.【Result】 The TRAF gene family of Bufo bufo gargarizans Cantor comprised seven members: BgaTRAF1BgaTRAF2BgaTRAF3BgaTRAF4BgaTRAF5BgaTRAF6, and BgaTRAF7. All were hydrophilic proteins containing α-helices, β-turns, extended strands, and random coil structures. Except for the BgaTRAF7 protein, the other six proteins shared similar numbers and positions of conserved motifs, and most BgaTRAF proteins contained RING, MATH, and zf-TRAF domains. The seven TRAF gene family members belonged to seven subfamilies, containing 7-16 exons and 6-15 introns. The BgaTRAF4 gene contained an extra-long intron. Only one pair of fragmented replicating genes, BgaTRAF2 and BgaTRAF3, existed; five pairs of TRAF genes were collinear with mice, and two pairs were collinear with zebrafish. TRAF1 was closely related to the TRAF2 subfamily, while the TRAF7 subfamily formed its own branch and was more distantly related to other subfamilies. In the retroauricular gland before venenum extraction, the relative expressions of BgaTRAF2 and BgaTRAF7 genes were higher. In the retroauricular gland after venenum extraction, the relative expressions of BgaTRAF1BgaTRAF2, and BgaTRAF3 genes significantly increased within 24 h (P<0.05), with BgaTRAF2 showing an acute increase as early as 1 h after extraction. Conversely, the relative expressions of BgaTRAF4BgaTRAF5, and BgaTRAF6 genes decreased after venenum extraction.【Conclusion】 The Bufo bufo gargarizans Cantor possesses a complete 7-member TRAF gene family, whose members exhibit typical subfamily characteristics in terms of protein structure and phylogenetic evolution. The TRAF gene family members of Bufo bufo gargarizans Cantor show a clear time-dependent pattern after venenum extraction of retroauricular gland. Among them, BgaTRAF1BgaTRAF2, and BgaTRAF3, along with BgaTRAF4BgaTRAF5, and BgaTRAF6 genes, are rapidly induced or repressed as cooperating units, collectively forming the core transcriptional regulatory network of Bufo bufo gargarizans Cantor in response to immune trauma.

     

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