Shavrukov Yuri (ed.) Plant Genotyping: Methods and Protocols

Humana Press, 2023. — 464 p. — (Methods in Molecular Biology 2638). — ISBN 978-1-0716-3023-5.This thorough volume presents a wide range of existing methods, from the very popular to the more exotic, in the area of plant genotyping. Many methods of plant genotyping were initially developed for medical research, but all genotyping methods, if they are to be successful, should be suitable for application across the full range of studies within plant biology, as seen in this collection. Plant genotyping methods herein are based on a variety of assessments, including DNA microarray, with its hundreds of thousands of simultaneous reactions, or separate individual studies of DNA sequencing and fragment analysis, PCR and qPCR, allele-specific molecular probes and primers, digestion with restriction endonucleases, microscopy and many others. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Plant Genotyping: Methods and Protocols offers researchers the opportunity to update their knowledge and choose the most suitable method of plant genotyping for their chosen application.Genotyping by Sequencing (GBS) for Genome-Wide SNP Identification in Plants
Genotyping by Multiplexed Sequencing (GMS) Using SNP Markers
Computational Protocol for DNA Methylation Profiling in Plants Using Restriction Enzyme-Based Genome Reduction
Double Digest Restriction-Site Associated DNA Sequencing (ddRADseq) Technology
Whole Genome Wide SSR Markers Identification Based on ddRADseq Data
High-Throughput Association Mapping in Brassica napus L.: Methods and Applications
Polyploid SNP Genotyping Using the MassARRAY System
qPCR Genotyping of Polyploid Species
Genome-Wide Association Studies (GWAS)
Transcriptomic Approach for Global Distribution of SNP/​Indel and Plant Genotyping
Specific-Locus Amplified Fragment Sequencing (SLAF-Seq)
Modifications of Kompetitive Allele-Specific PCR (KASP) Genotyping for Detection of Rare Alleles
Amplifluor-Based SNP Genotyping
SNP Genotyping with Amplifluor-Like Method
Semi-Thermal Asymmetric Reverse PCR (STARP) Genotyping
Modified Allele-Specific qPCR (ASQ) Genotyping
Allele-Specific Mutation Genotyping with Mismatches in Primer Design
PCR Allele Competitive Extension (PACE)
Molecular Beacon Probe (MBP)-Based Real-Time PCR
Molecular Beacons – Loop-Mediated Amplification (MB-LAMP)
TaqMan Probes for Plant Species Identification and Quantification in Food and Feed Traceability
Tetra-Primer Amplification Refractory Mutation System (T-ARMS)
Penta-Primer Amplification Refractory Mutation System (PARMS) with Direct PCR-Based SNP Marker-Assisted Selection (D-MAS)
High-Resolution Melting (HRM) Genotyping
Modified High-Resolution Melting (HRM) Marker Systems Increasing Discriminability​ Between Homozygous Alleles
A New SNP Genotyping Technology by Target SNP-Seq
Derived Polymorphic Amplified Cleaved Sequence (dPACS) Assay
Tubulin-Based Polymorphism (TBP) in Plant Genotyping
Multiplexed ISSR Genotyping by Sequencing (MIG-Seq)
Application of SolCAP Genotyping in Potato (Solanum tuberosum L.) Association Mapping
Fluorescence In Situ Hybridization (FISH) for the Genotyping of Triticeae Tribe Species and Hybrids
Innovative Advances in Plant Genotyping