Molecular Plant Taxonomy: Methods and Protocols

1. Plant Taxonomy: A Historical Perspective, Current Challenges, and Perspectives

Germinal Rouhan and Myriam Gaudeul

2. Guidelines for the Choice of Sequences for Molecular Plant Taxonomy

Pascale Besse

3. Isolation and Purification of DNA from Complicated Biological Samples

Ruslan Kalendar, Svetlana Boronnikova, and Mervi Seppnen

4. Herbarium Specimens: A Treasure for DNA Extraction, an Update

Lenka Zvesk Drbkov

5. Sequencing of Complete Chloroplast Genomes

Berthold Heinze

6. Utility of the Mitochondrial Genome in Plant Taxonomic Studies

Jrme Duminil and Guillaume Besnard

7. Nuclear Ribosomal RNA Genes: ITS Region

Pascale Besse

8. Plant DNA Barcoding Principles and Limits: A Case Study in the Genus Vanilla

Pascale Besse, Denis Da Silva, and Michel Grisoni

9. High-Throughput Genotyping Technologies in Plant Taxonomy

10. Genotyping-by-Sequencing Technology in Plant Taxonomy and Phylogeny

Flicien Favre, Cyril Jourda, Pascale Besse, and Carine Charron

11. Development of Microsatellite Markers Using Next-Generation Sequencing

Hlne Vignes and Ronan Rivallan

12. Amplified Fragment Length Polymorphism: Applications and Recent Developments

Thotten Elampilay Sheeja, Illathidath Payatatti Vijesh Kumar, Ananduchandra Giridhari, Divakaran Minoo, Muliyar Krishna Rajesh, and Kantipudi Nirmal Babu

13. Randomly Amplified Polymorphic DNA (RAPD) and Derived Techniques

Kantipudi Nirmal Babu, Thotten Elampilay Sheeja, Divakaran Minoo, Muliyar Krishna Rajesh, Kukkamgai Samsudeen, Erinjery Jose Suraby, and Illathidath Payatatti Vijesh Kumar

14. Inter Simple Sequence Repeats (ISSR), Microsatellite-Primed Genomic Profiling Using Universal Primers

Chrissen E.C. Gemmill and Ella R.P. Grierson

15. Retrotransposable Elements: DNA Fingerprinting and the Assessment of Genetic Diversity

Ruslan Kalendar, Alexander Muterko, and Svetlana Boronnikova

16. Introduction to Population Genomics Methods

Thibault Leroy and Quentin Rougemont

17. The Application of Flow Cytometry for Estimating Genome Size, Ploidy Level Endopolyploidy, and Reproductive Modes in Plants

Jaume Pellicer, Robi