Methods for Examining Transcription Factor-DNA Interaction in Plants

doi:10.11983/CBB20057

Abstract

Abstract: Transcription affects the growth and development of plants through regulating the spatio-temporal expression of downstream genes. The interaction between transcription factors and DNA is a key section in the process of exploring transcriptional regulatory networks. In the past few years, researchers utilize yeast one hybrid (Y1H) and electrophoresis mobility shift assay (EMSA) to examine whether a transcription factor directly interacts with target DNA. In addition, transient luciferase activity assay provides a convenient method for researchers to test the regulation of transcription factors on downstream gene expression. In this paper, we elaborate the principles, methods, and advantages and limitations of Y1H, EMSA and transient luciferase activity assay, to provide technical references for exploring the transcription factor-DNA interactions.

Key words: transcription factor, DNA, Y1H, EMSA, transient luciferase activity assay

Liwen Yang,Shuangrong Liu,Yuhong Li,Rongcheng Lin. Methods for Examining Transcription Factor-DNA Interaction in Plants[J]. Chinese Bulletin of Botany, 2020, 55(4): 468-474.

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URL: https://www.chinbullbotany.com/EN/10.11983/CBB20057

https://www.chinbullbotany.com/EN/Y2020/V55/I4/468

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References 16

[1]	杨立文, 刘双荣, 林荣呈 (2019). 光信号与激素调控种子休眠和萌发研究进展. 植物学报 54, 569-581.
[2]	Chen DQ, Xu G, Tang WJ, Jing YJ, Ji Q, Fei ZJ, Lin RC (2013). Antagonistic Basic Helix-Loop-Helix/bZIP transcription factors form transcriptional modules that integrate light and reactive oxygen species signaling in Arabidopsis. Plant Cell 25, 1657-1673. DOI URL PMID
[3]	Cheng MC, Enderle B, Kathare PK, Islam R, Hiltbrunner A, Huq E (2020). PCH1 and PCHL directly interact with PIF1, promote its degradation, and inhibit its transcriptional function during photomorphogenesis. Mol Plant 13, 499-514. DOI URL PMID
[4]	Hellens RP, Allan AC, Friel EN, Bolitho K, Grafton K, Templeton MD, Karunauretnam S, Gleave AP, Laing WA (2005). Transient expression vectors for functional genomics, quantification of promoter activity and RNA silencing in plants. Plant Methods 1, 13. URL PMID
[5]	Jiang ZM, Xu G, Jing YJ, Tang WJ, Lin RC (2016). Phytochrome B and REVEILLE1/2-mediated signaling controls seed dormancy and germination in Arabidopsis. Nat Commun 7, 12377. DOI URL PMID
[6]	Jing YJ, Guo Q, Lin RC (2019). The chromatin-remodeling factor PICKLE antagonizes polycomb repression of FT to promote flowering. Plant Physiol 181, 656-668. DOI URL PMID
[7]	Latchman DS (2005). Gene Regulation-A Eukaryotic Perspective, 5th edn. Oxford and New York: Taylor and Fran-cis. pp. 1.
[8]	Li JJ, Herskowitz I (1993). Isolation of ORC6, a component of the yeast origin recognition complex by a one-hybrid system. Science 262, 1870-1874. URL PMID
[9]	Lin RC, Ding L, Casola C, Ripoll DR, Feschotte C, Wang HY (2007). Transposase-derived transcription factors regulate light signaling in Arabidopsis. Science 318, 1302-1305. URL PMID
[10]	Nakashima K, Yamaguchi-Shinozaki K, Shinozaki K (2014). The transcriptional regulatory network in the drought response and its crosstalk in abiotic stress responses including drought, cold, and heat. Front Plant Sci 5, 170. DOI URL PMID
[11]	Ohama N, Sato H, Shinozaki K, Yamaguchi-Shinozaki K (2017). Transcriptional regulatory network of plant heat stress response. Trends Plant Sci 22, 53-65. URL PMID
[12]	Pu L, Brady S (2010). Systems biology update: cell type- specific transcriptional regulatory networks. Plant Physiol 152, 411-419. DOI URL PMID
[13]	Wu FH, Shen SC, Lee LY, Lee SH, Chan MT, Lin CS (2009). Tape-Arabidopsis Sandwich-a simpler Arabidopsis protoplast isolation method. Plant Methods 5, 16. URL PMID
[14]	Xu G, Jiang ZM, Wang HY, Lin RC (2019). The central circadian clock proteins CCA1 and LHY regulate iron homeostasis in Arabidopsis. J Integr Plant Biol 61, 168-181. URL PMID
[15]	Yang LW, Jiang ZM, Liu SR, Lin RC (2020). REVEILLE1 inhibits RGL2 degradation to regulate seed dormancy and germination in Arabidopsis. New Phytol 225, 1593-1605. URL PMID
[16]	Yoo SD, Cho YH, Sheen J (2007). Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis. Nat Protoc 2, 1565-1572. DOI URL PMID