Comparative transcriptomic analysis of the flower induction and development of the Lei bamboo (Phyllostachys violascens)
Comparative transcriptomic analysis of the flower induction and development of the Lei bamboo (Phyllostachys violascens)
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DOI：
10.1186/s12859-019-3261-z
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发表时间：
2019-12-24
影响因子：
3
通讯作者：
Lin, Xinchun
中科院分区：
文献类型：
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作者：
Jiao, Yulian;Hu, Qiutao;Lin, Xinchun
研究背景：竹子是一种重要的森林资源。但竹类植物营养生长期长、开花期不确定等特点给竹类植物的取样带来了困难。结果：以雷竹（Phyllostachys violascens）为材料，采用Illumina RNA-Seq方法，对雷竹3个连续开花期的花芽和相应的营养芽（非开花期）进行转录组分析。我们从上述样品中产生了约4.42亿个干净的读段，并且获得了132，678个具有1080 bp的N50的unigenes。共检测到7266个差异表达基因。表达谱分析和基因功能分析表明，一些环境胁迫响应基因和与植物开花相关的DEG在花序分生组织形成期（TF_1）高表达，而一些花器官发育相关基因在花器官决定期（TF_2）和花器官成熟期（TF_3）表达显著上调，这些DEG在雷竹成花诱导和成熟过程中起着重要作用。此外，共鉴定了25个MADS盒单基因。结果表明，与A进化枝基因相比，B、C/D和E进化枝基因与雷竹花器官发育的相关性更高。结论：本研究获得的转录组数据为雷竹花器官诱导和发育相关基因和途径的研究提供了基础信息。此外，本文还提出了一种临界抽样方法，为竹子开花机理的研究提供了参考。
Background: Bamboo is a very important forest resource. However, the prolonged vegetative stages and uncertainty of flowering brings difficulties in bamboo flowers sampling. Until now, the flowering mechanism of bamboo is still unclear.Results: In this study, three successive stages of flowering buds and the corresponding vegetative buds (non-flowering stage) from Lei bamboo (Phyllostachys violascens) were collected for transcriptome analysis using Illumina RNA-Seq method. We generated about 442 million clean reads from the above samples, and 132,678 unigenes were acquired with N50 of 1080 bp. A total of 7266 differentially expressed genes (DEGs) were determined. According to expression profile and gene function analysis, some environmental stress responsive and plant hormone-related DEGs were highly expressed in the inflorescence meristem formation stage (TF_1) while some floral organ development related genes were up-regulated significantly in floral organs determination stage (TF_2) and floral organs maturation (TF_3) stage, implying the essential roles of these DEGs in flower induction and maturation of Lei bamboo. Additionally, a total of 25 MADS-box unigenes were identified. Based on the expression profile, B, C/D and E clade genes were more related to floral organs development compared with A clade genes in Lei bamboo.Conclusions: This transcriptome data presents fundamental information about the genes and pathways involved in flower induction and development of Lei bamboo. Moreover, a critical sampling method is provided which could be benefit for bamboo flowering mechanism study.