Tian Wei-Wei, Yan Zhi-Xiang, Wang Cheng, Yuan Quan, Hua Hua, Liu Li, Yu Dong-Mei, Wang Jian-Bo, Zhao Jun-Ning
Key Laboratory of Translational Medicine of Traditional Chinese Medicine in Sichuan, Sichuan Institute for Translational Chinese Medicine Chengdu 610041, China Sichuan Engineering Technology Research Center for Formation Principle and Quality Evaluation of Genuine Medicinal Materials, Sichuan Engineering Technology Research Center for System Development of Genuine Medicinal Materials, Sichuan Academy of Chinese Medical Sciences Chengdu 610041, China.
Sichuan Engineering Technology Research Center for Formation Principle and Quality Evaluation of Genuine Medicinal Materials, Sichuan Engineering Technology Research Center for System Development of Genuine Medicinal Materials, Sichuan Academy of Chinese Medical Sciences Chengdu 610041, China.
Zhongguo Zhong Yao Za Zhi. 2023 Feb;48(4):939-950. doi: 10.19540/j.cnki.cjcmm.20221101.102.
WRKY transcription factor family plays an important role in plant growth and development, secondary metabolite synthesis, and biotic and abiotic stress responses. The present study performed full-length transcriptome sequencing of Polygonatum cyrtonema by virtue of the PacBio SMRT high-throughput platform, identified the WRKY family by bioinformatics methods, and analyzed the physicochemical properties, subcellular localization, phylogeny, and conserved motifs. The results showed that 30.69 Gb nucleotide bases and 89 564 transcripts were obtained after redundancy removal. These transcripts had a mean length of 2 060 bp and an N50 value of 3 156 bp. Based on the full-length transcriptome sequencing data, 64 candidate proteins were selected from the WRKY transcription factor family, with the protein size of 92-1 027 aa, the relative molecular mass of 10 377.85-115 779.48 kDa, and the isoelectric point of 4.49-9.84. These WRKY family members were mostly located in the nucleus and belonged to the hydrophobic proteins. According to the phylogenetic analysis of WRKY family in P. cyrtonema and Arabidopsis thaliana, all WRKY family members were clustered into seven subfamilies and WRKY proteins from P. cyrtonema were distributed in different numbers in these seven subgroups. Expression pattern analysis confirmed that 40 WRKY family members had distinct expression patterns in the rhizomes of 1-and 3-year-old P. cyrtonema. Except for PcWRKY39, the expression of 39 WRKY family members was down-regulated in 3-year-old samples. In conclusion, this study provides abundant reference data for genetic research on P. cyrtonema and lays a foundation for the in-depth investigation of the biological functions of the WRKY family.
WRKY转录因子家族在植物生长发育、次生代谢物合成以及生物和非生物胁迫响应中发挥着重要作用。本研究借助PacBio SMRT高通量平台对黄精进行了全长转录组测序，通过生物信息学方法鉴定了WRKY家族，并分析了其理化性质、亚细胞定位、系统发育和保守基序。结果显示，去除冗余后获得了30.69 Gb的核苷酸碱基和89564条转录本。这些转录本的平均长度为2060 bp，N50值为3156 bp。基于全长转录组测序数据，从WRKY转录因子家族中筛选出64个候选蛋白，蛋白大小为92 - 1027个氨基酸，相对分子质量为10377.85 - 115779.48 kDa，等电点为4.49 - 9.84。这些WRKY家族成员大多位于细胞核内，属于疏水蛋白。通过对黄精和拟南芥WRKY家族的系统发育分析，所有WRKY家族成员被聚类为七个亚家族，黄精的WRKY蛋白在这七个亚组中的分布数量不同。表达模式分析证实，40个WRKY家族成员在1年生和3年生黄精的根茎中具有不同的表达模式。除PcWRKY39外，39个WRKY家族成员的表达在3年生样本中下调。综上所述，本研究为黄精的遗传研究提供了丰富的参考数据，为深入研究WRKY家族的生物学功能奠定了基础。
