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High-Throughput Genotyping Technologies in Plant Taxonomy.

Monica F Danilevicz1, Cassandria G Tay Fernandez1, Jacob I Marsh1

  • 1School of Biological Sciences, University of Western Australia, Perth, Australia.

Methods in Molecular Biology (Clifton, N.J.)
|December 10, 2020
PubMed
Summary

Molecular markers are essential for analyzing plant genome variation and genotyping. This chapter explores their discovery, application, and future using pangenome assemblies and automated methods.

Keywords:
MashPAVPangenomePhylogeneticPresence and absence variationSNPSingle nucleotide polymorphism

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Area of Science:

  • Genomics
  • Plant Science
  • Bioinformatics

Background:

  • Molecular markers are heritable and widely distributed in plant genomes.
  • They are crucial for genetic linkage analysis, trait mapping, diversity analysis, and association studies.
  • Molecular marker technology has rapidly advanced over the last decade.

Purpose of the Study:

  • To focus on molecular marker discovery and application in plant genotyping.
  • To explore future perspectives for plant genotyping through pangenome assemblies.
  • To describe automated methods for various genomic analyses.

Main Methods:

  • Automated genome and sequence distance estimation.
  • Genome contaminant analysis in sequence reads.
  • Genome structural variation and SNP discovery methods.

Main Results:

  • Detailed descriptions of automated methods for genomic analysis.
  • Insights into molecular marker discovery and application.
  • Exploration of pangenome assemblies for advanced genotyping.

Conclusions:

  • Molecular markers are vital tools for plant genome variation analysis and genotyping.
  • Pangenome assemblies offer future perspectives for plant genotyping.
  • Automated methods enhance the efficiency of genomic analyses.