Plant Gametogenesis: Methods and Protocols

ISBN-13: 9781071622520 / Angielski / Twarda / 2022

Lambing, Christophe

Opis

This volume provides protocols and methods on techniques to study plant gametogenesis. Chapters are divided into four sections covering omics, cytological, molecular approaches, plant transformation, genome editing, bioinformatics, and data analysis. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Plant Gametogenesis: Methods and Protocols aims to be a foundation for future studies and to be a source of inspiration for new investigations in the field.

Spis treści

Part I: Omics Approaches to Study Male and Female Germlines in Plants 

 

1. Measurement of flower metabolite concentrations using Gas-Chromatography Mass Spectrometry and High-Performance Liquid Chromatography Mass Spectrometry

Monica Borghi, Leonardo Perez de Souza, and Alisdair R. Fernie

 

2. Proteomic-, phosphoproteomic- and Acetylomic-based mass spectrometry to identify tissue-specific protein complexes and phosphorylation in plant gametogenesis

Lu Sun, Aowei Mo, and Pingli Lu

 

3. Identifying small RNAs and analyzing their association with gene expression using isolated Arabidopsis male meiocytes

Jiyue Huang, Chenjiang You, Cong Wang, Yingxiang Wang, and Gregory P. Copenhaver

 

4. CTAB DNA extraction and genotyping-by-sequencing to map meiotic crossovers in plants

Pallas C. Kuo, Ian R. Henderson, and Christophe Lambing

 

5. Interrogating global chromatin interaction network by high-throughput chromosome conformation capture (Hi-C) in plants.

Wenjing Wang, Longjian Niu, Chunhui Hou

 

 

Part II: Microscopy Approaches To Study Gametogenesis In Plants

   

6. Cytogenetic techniques for analysing meiosis in hexaploidy bread wheat

Kim Osman, F. Chris H. Franklin, and Eugenio Sanchez-Moran

 

7. Super-resolution chromatin visualisation by combined fluorescence in situ hybridisation and Structured Illumination Microscopy in Solanum lycopersicum

Pallas C. Kuo, Alice Darbyshire, and Christophe Lambing

 

8. Application of Chemical Inhibitors in Live Cell Imaging of Plant Meiosis Using Light Sheet Fluorescence Microscopy

Sona Valuchova, Pavlina Mikulkova, Jana Pecinkova, and Karel Riha

 

9. Bimolecular Fluorescence Complementation to Test for Protein-Protein Interactions and To Uncover Regulatory Mechanisms During Gametogenesis

Ramakrishna Yadala, Maryia Ratnikava, and Inna Lermontova

 

10. Quantifying meiotic crossover recombination in Arabidopsis lines expressing fluorescent reporters in seeds using SeedScoring pipeline for CellProfiler

Nadia Kbiri, Julia Dluzewska, Ian R. Henderson, and Piotr A. Ziolkowski

 

 

Part III:  Plant Manipulation and Genome Editing   

 

11. Generation of mutants by combined treatment of physical and chemical mutagens in rice

Yuanyuan Tan andShan Li

12. Generation of mutant plants by Gamma Ray exposure and development of low-cost TILLING population in chickpea (Cicer arietinum L.)

WahibaAmri-Tiliouine, Joanna Jankowicz-Cieslak, Bradley J. Till, and Meriem Laouar

 

13. Efficient generation of CRISPR/Cas9-based mutants supported by fluorescent seed selection in different Arabidopsis accessions

Tomasz Bieluszewski, Maja Szymanska-Lejman, Wojciech Dziegielewski, Longfei Zhu, and Piotr A. Ziolkowski

 

14. Generation of deletion lines in Allohexaploid Bread Wheat

Heïdi Serra, Radim Svačina, Jan Bartoš, and Pierre Sourdille

 

15. Post-transcriptional Gene Silencing Using Virus-Induced Gene Silencing to Study Plant Gametogenesis in Tomato

Zhengming Wang, Xiao Yu Wang, Claudia Martinho, and David C. Baulcombe

 

16. Protocols for in vivo doubled haploid (DH) technology in maize breeding: From haploid inducer Development to Haploid Genome Doubling

Siddique I. Aboobucker, Talukder Z. Jubery, Ursula K. Frei, Yu-Ru Chen, Tyler Foster, Baskar Ganapathysubramanian, and Thomas Lübberstedt

 

17. Estimation of heterografting associated DNA methylation changes in tree crops by MSAP analysis

Thomas Kadampanattu Uthup, Rekha Karumamkandathil, and Meenakumari Thuppale

 

18. In vitro fertilization system using wheat gametes by electric fusion

Tety Maryenti, Norio Kato, Masako Ichikawa, and Takashi Okamoto

 

 

Part IV. Bioinformatics and Data Analysis

 

19. High-throughput fluorescent pollen tetrad analysis using DeepTetrad

Dohwan Byun and Kyuha Choi    

 

20. Barley (Hordeum vulgare) anther and meiocyte RNA Sequencing: Mapping Sequencing reads and downstream data analyses

Miriam Schreiber, Jamie Orr, Abdellah Barakate, and Robbie Waugh 

 

21. Profiling m6A RNA modifications in low amounts of plant cells using Maize Meiocytes

Drin Shabani, Thomas Dresselhaus, and Stefanie Dukowic-Schulze  

 

22. Assembling Plant Genomes with Long-Read Sequencing

Quentin Gouil    

 

23. Mapping-by-sequencing of point and insertional mutations with Easymap

Samuel Daniel Lup, David Wilson-Sánchez, and José Luis Micol

 

24. Characterization of the different levels of variation in 45S rRNA genes

Fernando A. Rabanal