Plant Transcription Factors: Methods and Protocols

Part I: Review and Overview Chapters

1. Master Regulatory Transcription Factors in Plant Development: A Blooming Perspective

Kerstin Kaufmann and Chiara A. Airoldi

2. Application of CRISPR/Cas to Understand Cis- and Trans-Regulatory Elements in Plants

Felix Wolter and Holger Puchta

3. The Long-Term 'In Natura' Study Sites of Arabidopsis halleri for Plant Transcription and Epigenetic Modification Analyses in Natural Environments

Hiroshi Kudoh, Mie N. Honjo, Haruki Nishio, and Jiro Sugisaka

Part II: Preparation of Plant Materials

4. Generation of Inducible Transgenic Lines of Arabidopsis Transcription Factors Regulated by MicroRNAs

Pooja Aggarwal, Krishna Reddy Challa, Monalisha Rath, Preethi Sunkara, and Utpal Nath

5. A Specific Knockdown of Transcription Factor Activities in Arabidopsis

Beibei Zheng, Bennett Thomson, and Frank Wellmer

6. Using CRISPR/Cas9 System to Introduce Targeted Mutation in Arabidopsis

Ze Hong Lee, Nobutoshi Yamaguchi, and Toshiro Ito

7. CRISPR/Cas9-Based Genome Editing of Transcription Factor Genes in Marchantia polymorpha

Shigeo S. Sugano and Ryuichi Nishihama

8. Cell-Type-Specific Promoter Identification Using Enhancer Trap Lines

Tatyana Radoeva, Shunsuke Saiga, and Dolf Weijers

Kyohei Uemoto, Takashi Araki, and Motomu Endo

10. Ectopic Vascular Induction in Arabidopsis Cotyledons for Sequential Analysis of Phloem Differentiation

Alif Meem Nurani, Yuki Kondo, and Hiroo Fukuda

Part III: Detection of Expression Levels

11. High Impact Gene Discovery: Simple Strand Specific mRNA Library Construction and Differential Regulatory Analysis Based on Gene Co-Expression Network

Yasunori Ichihashi, Atsushi Fukushima, Arisa Shibata, and Ken Shirasu

12. Laser Capture Micro-Dissection Coupled to RNA Sequencing: A Powerful Approach Applied to the Model Legume Medicago truncatula in Interaction with Sinorhizobium meliloti

Brice Roux, Nathalie Rodde, Sandra Moreau, Marie-Fran?oise Jardinaud, and Pascal Gamas

13. nanoCAGE-XL: An Approach to High-Confidence Transcription Start Site Sequencing

Maria G. Ivanchenko and Molly Megraw

14. Genome-Wide TSS Identification in Maize

Mar?a Katherine Mejia-Guerra, Wei Li, Andrea I. Doseff, and Erich Grotewold

15. Three-Dimensional Multiphoton Imaging of Transcription Factor by ClearSee

&nb