• 中文核心期刊
  • CSCD来源期刊
  • 中国科技核心期刊
  • CA、CABI、ZR收录期刊

龙眼PIFs家族全基因组鉴定及其表达分析

Genome-wide Identification and Expressions of PIF Family in Longan

  • 摘要:
      目的  PIFs属于 basic helix-loop-helix(bHLH) 转录因子家族的第 15 亚族,研究其在龙眼( Dimocarpus longan Lour.)中的表达特征可为其参与调控植物的生长发育和抵御逆境胁迫过程中的作用机制提供参考。
      方法  基于龙眼基因组和转录组数据进行PIFs基因家族的鉴定与生物信息学分析,对其启动子序列进行顺式作用元件分析;基于龙眼体胚发生早期3个阶段胚性愈伤组织( Embryogenic callus,EC)、不完全胚性紧实结构(Incomplete embryotic compacted structure,ICpEC)、球形胚(Spherical embryo,GE)、不同组织部位(花、花蕾、叶、果皮、果肉、根、种子、茎、幼果)、不同温度(15 ℃、25 ℃、35 ℃)和不同光质(蓝光、白光和黑暗)处理下龙眼EC转录组数据,通过龙眼PIFs的FPKM值分析其表达模式,并采用实时荧光定量 PCR(Quantitative real-time polymerase chain reaction,qRT-PCR)分析DlPIFs在龙眼体胚发生早期、不同生长调节剂生长素(2,4-D)、脱落酸(ABA)、赤霉素(GA3)、水杨酸(SA)、茉莉酸甲酯(MeJA)处理下的表达情况。
      结果  生物信息学分析表明所鉴定的龙眼PIFs家族8个成员均具有bHLH结构域,编码区长度介于975~2298 bp,包含5~8个外显子和6个motif,亚细胞定位预测均定位于细胞核。DlPIFs启动子中不仅含有响应光、激素和非生物胁迫的作用元件,还具有与种子生长和胚胎发育过程相关的作用元件。系统进化树分析显示DlPIFs分布在4大分支上,与拟南芥(Arabidopsis thaliana)、甜橙Citrus sinensis (L.) Osbeck亲缘关系较近。不同组织器官的转录组数据分析结果表明,DlPIF1-1的表达量在种子中最高,DlPIF1-2的表达量在果肉中最高,DlPIF4的表达量在茎中最高,DlPIF5的表达量在花蕾中最高,DlPIF7和DlPIF8的表达量在叶中最高。不同光质转录组数据分析结果表明,DlPIF1-1、DlPIF5和DlPIF8在蓝光处理下的表达量明显高于对照,DlPIF4在白光和蓝光处理下的表达量均明显高于对照,DlPIF1-2在3种光质处理下的表达量差别不明显。不同温度的转录组数据分析结果表明,相对高温(35 ℃)促进DlPIF4和DlPIF6的表达,抑制DlPIF1-1、DlPIF1-2、DlPIF3和DlPIF8的表达;相对低温(15 ℃)促进DlPIF1-1、DlPIF3和DlPIF5的表达,抑制DlPIF1-2、DlPIF4、DlPIF6和DlPIF8的表达。qRT-PCR结果显示,DlPIF1-1、DlPIF5、DlPIF6和DlPIF8的表达量随着龙眼体胚早期的发育不断下降,DlPIF1-2和DlPIF3的表达量在EC到ICpEC阶段下降,在ICpEC到GE阶段上升,DlPIF4和DlPIF7的表达模式与之相反。与其他成员相比,DlPIF5和DlPIF7的表达量在5种生长调节剂处理下都具有明显变化。
      结论  DlPIFs家族在龙眼的生长发育进程中可能具有不同的功能,并可能参与生物胁迫和非生物胁迫的响应过程。

     

    Abstract:
      Objective   Belonging to the 15th subgroup of basic helix-loop-helix (bHLH) transcription factor family that associated with the growth, development, and stress resistance of plants, PIF family of Dimocarpus longan Lour were identified and their expressions studied.
      Method   PIFs were identified, and bioinformatics extracted from the longan genome and transcriptome database. Cis-acting elements were analyzed for the promoter sequence. Expressions of DlPIFs during early SE (i.e., embryogenic callus or EC, incomplete embryotic compacted structure or ICpEC, and spherical embryo or GE), in different tissues (including flower, flower bud, leaf, pericarp, pulp, root, seed, stem, and young fruit), under different light (e.g., blue, bright, and dark), and at varied temperatures (i.e., 15℃, 25℃, and 35℃) were obtained from the FPKM values. In addition, expressions of the genes in early SE exposed to exogenous hormones such as 2,4-D, ABA, GA3, SA, MeJA were determined by qRT-PCR.
      Result   All DlPIFs had the bHLH domain. The lengths of their coding region ranged from 975 bp to 2298 bp each consisted of 5–8 exons, 4–7 introns, and 6 motifs. The DlPIFs were in the nucleus with promoters containing not only the acting elements in response to light, hormone, and abiotic stress but also those to seed growth and embryonic development. The phylogenetic tree of DlPIFs distributed in 4 branches closely related to Arabidopsis thaliana and Citrus sinensis (L.) Osbeck. The transcriptomes of different tissues and organs showed the highest expression of DlPIF1-1 in the seeds, that of DlPIF1-2 in the pulp, that of DlPIF4 in the stems, that of DlPIF5 in the flower buds, and those of DlPIF7 and DlPIF8 in the leaves. The photometric transcriptomes indicated that the expressions of DlPIF1-1, DlPIF5, and DlPIF8 under blue light were significantly higher than that of control, that of DlPIF4 under white or blue light significantly higher than that of control, and that of DlPIF1-2 did not differ significantly under different light exposures. At 35oC, the relatively high temperature heightened the expressions of DlPIF4 and DlPIF6 but depressed those of DlPIF1-1, DlPIF1-2, DlPIF3, and DlPIF8. At 15 ℃, on the other hand, the expressions of DlPIF1-1, DlPIF3, and DlPIF5 were enhanced, while those of DlPIF1-2, DlPIF4, DlPIF6, and DlPIF8 inhibited. qRT-PCR results showed that the expressions of DlPIF1-1, DlPIF5, DlPIF6, and DlPIF8 decreased with the longan embryonic development at the early stage. Those of DlPIF1-2, and DlPIF3 decreased from EC to ICpEC, those of DlPIF4 and DlPIF7 decreased from ICpEC to GE, and those of DlPIF4 and DlPIF7 were the opposite. In response to the exposure to 5 exogenous hormones, DlPIF5 and DlPIF7 expressed significantly different from the others.
      Conclusion   DlPIFs might have varied functions associated with the growth and development, as well as biological and/or abiotic stress responses, of longan.

     

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