Plant Genome Editing with Crispr Systems: Methods and Protocols

Preface...Table of Contents...Contributing Authors...
Part I Review on Plant DNA Repair and Genome Editing1. Plant DNA Repair Pathways and their Applications in Genome EditingQiudeng Que, Zhongying Chen, Tim Kelliher, David Skibbe, Shujie Dong, and Mary-Dell Chilton
Part II CRISPR Design and Mutation Analysis
2. Rapid Screening of CRISPR/Cas9-Induced Mutants using the ACT-PCR MethodChun Wang and Kejian Wang
3. Decoding Sanger-Sequencing Chromatograms from CRISPR-Induced MutationsXianrong Xie, Xingliang Ma, and Yao-Guang Liu
Part III Multiplexed CRISPR-Cas9 Systems
4. Creating Large Chromosomal Deletions in Rice using CRISPR/Cas9Riqing Li, Si Nian Char, and Bing Yang
5. A Multiplexed CRISPR-Cas9 Editing System Based on the Endogenous tRNA ProcessingKabin Xie and Yinong Yang
6. A Single Transcript CRISPR-Cas9 System for Multiplex Genome Editing in PlantsXu Tang, Zhaohui Zhong, Qiurong Ren, Binglin Liu, and Yong Zhang
7. CRISPR-Act2.0: An Improved Multiplexed System for Plant Transcriptional ActivationAimee Malzahn, Yong Zhang, and Yiping Qi
Part IV CRISPR-Cas9 Editing in Monocots
8. Generating Photoperiod-Sensitive Genic Male Sterile Rice Lines with CRISPR-Cas9Weihang Gu, Dabing Zhang, Yiping Qi, and Zheng Yuan
9. Knocking Out MicroRNA Genes in Rice with CRISPR/Cas9Jianping Zhou, Zhaohui Zhong, Hongqiao Chen, Mengqiao Yang, Qian Li, Xuelian Zheng, Yiping Qi, and Yong Zhang
10. An Agrobacterium-Mediated CRISPR-Cas9 Platform for Genome Editing in MaizeKeunsub Lee, Huilan Zhu, Bing Yang, and Kan Wang
Part V CRISPR-Cas9 Editing in Dicots
11. Fluorescence Marker-Assisted Isolation of Cas9-Free and CRISPR-Edited Arabidopsis PlantsHanchuanzhi Yu and Yunde Zhao
12. Creating Targeted Gene Knock-Outs in Brassica oleracea using CRISPR/Cas9Tom Lawrenson, Penny Hundleby, and Wendy Harwood
13. Application of CRISPR/Cas9-Mediated Gene Editing in TomatoNathan T. Reem and Joyce Van Eck
14. Genome Editing in Potato with CRISPR/Cas9Satya Swathi Nadakuduti, Colby G. Starker, Daniel F. Voytas, C. Robin Buell, and David S. Douches
15. Visual Assay for Gene Editing using a CRISPR/Cas9 System in Carrot CellsMagdalena Klimek-Chodacka, Tomasz Oleszkiewicz, and Rafal Baranski
16. Genome Editing in Soybean with CRISPR/Cas9Junqi Liu, Samatha Gunapati, Nicole T. Mihelich, Adrian O. Stec, Jean-Michel Michno, and Robert M. Stupar
17. Genome Editing in Citrus Tree with CRISPR/Cas9Hongge Jia, Xiuping Zou, Vladimir Orbovic, and Nian Wang
Part VI CRISPR-Cas12a Editing Systems
18. Plant Gene Knockout and Knockdown by CRISPR-Cpf1 (Cas12a) SystemsYingxiao Zhang, Yong Zhang, and Yiping Qi
19. Editing a Stomatal Developmental Gene in Rice with CRISPR/Cpf1Abhishek Anand, Xiaojia Yin, Paul Quick, and Anindya Bandyopadhyay
20. Targeted Mutagenesis using FnCpf1 in TobaccoAkira Endo and Seiichi Toki
Part VII Precise Gene Editing
21. Gene Replacement by Intron Targeting with CRISPR-Cas9Jun Li, Xiangbing Meng, Jiayang Li, and Caixia Gao
22. Targeted Base Editing with CRISPR-Deaminase in TomatoZenpei Shimatani, Tohru Ariizumi, Ushio Fuj