Transcriptional patterns and differential expression of transcription factor related genes in the development of Dendrobium officinale roots

doi:10.14088/j.cnki.issn0439-8114.2025.02.033

Abstract

Abstract: The Illumina HiSeq^TM4000 sequencing platform was used to sequence samples from two different parts of Dendrobium officinale roots （root tip and mature zone）, and GO clustering and KEGG analysis were performed on differentially expressed genes. The results showed that the high-quality reading length of Dendrobium officinale roots was assembled into 136 541 single genes with an average length of 982 bp. Identification and classification statistics were conducted on genes with the ability to encode transcription factors, and 2105 single genes were mapped to 55 categories of transcription factors. A total of 148 MADS boxes, 737 NACs, 449 WRKYs, 369 MYBs, and 105 ARFs were identified. The regulatory pathways of differentially expressed genes involved many pathways, including secondary metabolic pathways such as phenylpropanoid biosynthesis, environmental response pathways such as plant-pathogen interactions, and signal transduction pathways such as plant MAPK signaling pathway.

Key words: Dendrobium officinale Kimura et Migo, root, development, gene, transcriptional pattern, transcription factors, differential expression

CLC Number:

S567.23

CHEN Hong-yu, YU Ying, REN De-qiang, RUAN Zhi-zhen, LI Er-mei, RAN Lin-lin. Transcriptional patterns and differential expression of transcription factor related genes in the development of Dendrobium officinale roots[J]. HUBEI AGRICULTURAL SCIENCES, 2025, 64(2): 207-213.

References

[1] 邵华, 张玲琪, 李俊梅, 等. 铁皮石斛研究进展[J]. 中草药, 2004, 35(1): 109-112.
[2] 陈丽璇, 陈淳, 陈菲, 等. 外源无机硒肥对铁皮石斛生长及多糖含量的影响[J]. 热带生物学报, 2018, 9(4): 423-426.
[3] 宋广青, 刘新民, 王琼, 等. 石斛药理作用研究进展[J]. 中草药, 2014, 45(17): 2576-2581.
[4] 王尧龙, 黄璐琦, 袁媛, 等. 药用植物转录组研究进展[J]. 中国中药杂志, 2015, 40(11): 2055-2061.
[5] GUO X, LI Y, LI C, et al.Analysis of the Dendrobium officinale transcriptome reveals putative alkaloid biosynthetic genes and genetic markers[J]. Gene, 2013, 527(1): 131-138.
[6] WU Z, JIANG W, CHEN S, et al.Insights from the cold transcriptome and metabolome of Dendrobium officinale: Global reprogramming of metabolic and gene regulation networks during cold acclimation[J]. Frontiers in plant science, 2016, 7(11): e1653.
[7] 吴超, 彭娟, 向林, 等. 基于高通量测序的铁皮石斛叶片转录组分析[J]. 分子植物育种, 2016,14(12): 3334-3346.
[8] 林江波, 王伟英, 邹晖, 等. 基于转录组测序的铁皮石斛黄酮代谢途径及相关基因解析[J]. 福建农业学报, 2019, 34(9): 1019-1025.
[9] 张君毅, 秦建立, 刘嘉. 小菇促进铁皮石斛光合作用的转录组分析[J]. 植物生理学报, 2020, 56(7): 1408-1418.
[10] HE C M, LIU X C, SILVA J A T, et al. Transcriptome sequencing and metabolite profiling analyses provide comprehensive insight into molecular mechanisms of flower development in Dendrobium officinale (Orchidaceae)[J]. Plant Mol Biol,2020,104(4-5):529-548.
[11] YUAN Y D, ZHANG J C, LIU X, et al.Tissue-specific transcriptome for Dendrobium officinale reveals genes involved in flavonoid biosynthesis[J]. Genomics, 2020, 112(2): 1781-1794.
[12] CHEN Y L, HU B C, ZHANG F T, et al.Cytological observation and transcriptome comparative analysis of self-pollination and cross-pollination in Dendrobium officinale[J]. Genes (Basel), 2021, 12(3): 432.
[13] ZHANG M Z, YU Z M, ZENG D Q, et al.Transcriptome and metabolome reveal salt-stress responses of leaf tissues from Dendrobium officinale[J]. Biomolecules, 2021, 11(5): 736.
[14] YUAN Y D, ZUO J J, ZHANG H Y, et al.Transcriptome and metabolome profiling unveil the accumulation of flavonoids in Dendrobium officinale[J]. Genomics, 2022, 114(3): 110324.
[15] 王伟英,林江波, 邹晖, 等. 转录组和代谢组分析瘤菌根菌对铁皮石斛的促生机制[J]. 热带亚热带植物学报,2023,31(4):557-565.
[16] WU H T, LI J, PU Q, et al.Physiological and transcriptome analysis of Dendrobium officinale under low nitrogen stress[J]. Funct Plant Biol, 2023, 50(4): 314-334.
[17] WANG Y X, LIU Z W AND WU Z J. Transcriptome-wide identification and expression analysis of the nac gene family in tea plant [Camellia sinensis (L.) O. Kuntze][J]. PLoS one, 2016, 11: e0166727.
[18] GOYAL P,GOYAL M M,VISHWAKARMA R A, et al.A comprehensive transcriptome wide identifcation and screening of WRKY gene family engaged in abiotic stress in Glycyrrhiza glabra[J]. Scientific reports, 2020, 10(1): 373.