Genome-wide identification and expression analysis of SBP-box gene family in Sorghum bicolor L.
Genome-wide identification and expression analysis of SBP-box gene family in Sorghum bicolor L.
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DOI：
10.16288/j.yczz.16-008
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发表时间：
2016-06-01
期刊：
影响因子：
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通讯作者：
Liu, Qingshan
中科院分区：
文献类型：
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作者：
Chang, Jianzhong;Yan, Fengxia;Liu, Qingshan
SQUAMOSA PROMOTER BINDING PROTEIN-box（SBP-box）家族基因编码植物特异性转录因子，参与作物产量、株型、抗逆性等遗传改良。SBP-box基因家族具有重要的实际应用价值。本研究从高粱（Sorghum bicolor L.）使用生物信息学。这些基因分布在9条染色体上，其中8条位于节段重复区。系统发育重建得到6个SBP-box基因亚家族，其中SbSBP12、SbSBP3和SbSBP15分别与玉米中的ZmLG1、ZmTGA 1和ZmUB 2/3具有直向同源性。RNA-seq数据分析表明，SbSBP-box基因在原始花序中表现出最高的表达水平。此外，SbSBP9和SbSBP17在原始花序中表现出组织特异性表达。SbSBP5、SbSBP8和SbSBP18的表达水平在外源ABA和PEG胁迫下均升高，表明SbSBP-box基因参与了高粱对非生物胁迫的防御反应。本研究为SbSBP-box基因家族重要基因的克隆提供了参考。本研究所鉴定的基因可作为高粱遗传改良的候选基因。
SQUAMOSA PROMOTER BINDING PROTEIN-box (SBP-box) family genes encoding plant-specific transcription factors are involved in many aspects of crop genetic improvement such as yield, plant-type and stress-resistance. The SBP-box gene family have important practical applications. In this study, 18 SBP-box genes were identified from the reference genome of sorghum (Sorghum bicolor L.) using bioinformatics. These genes distributed on nine chromosomes while eight of them located in the segmental duplication region. Phylogenetic reconstruction resulted in six subfamilies of SBP-box genes, among which SbSBP12, SbSBP3 and SbSBP15 are orthologous to ZmLG1, ZmTGA1 and ZmUB2/3 in corn, respectively. RNA-seq data analysis indicated that SbSBP-box genes show the highest expression level in primordial inflorescences. Moreover, SbSBP9 and SbSBP17 exhibited a tissue specific expression in primordial inflorescences. The expression levels of SbSBP5, SbSBP8 and SbSBP18 were increased in response to exogenous ABA and PEG, indicating that SbSBP-box genes are involved in the defense response against abiotic stresses in sorghum. This research provides references for cloning important genes in SbSBP-box gene family. Genes identified in this study could be considered as candidate genes for genetic improvement of sorghum.