ArticleMethods in molecular biology (Clifton, N.J.)2023
A Bioinformatic Pipeline to Estimate Ploidy Level from Target Capture Sequence Data Obtained from Herbarium Specimens.
Article in Methods in molecular biology (Clifton, N.J.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Patterns of Interploidy Admixture in Polyploid Complexes: Insights From Thymus Sect. Mastichina (Lamiaceae).Molecular ecology · 2026Article
- No Mate, No Problem: Molecular Mechanisms Involved in Parthenogenesis in the Cosmopolitan Earthworm Aporrectodea trapezoides (Annelida, Clitellata).Molecular ecology · 2025Article
- Harnessing Genomics for BreedingInternational journal of molecular sciences · 2025Article
- Ancient polyploidization events influence the evolution of the ginseng family (Araliaceae).Frontiers in plant science · 2025Article
- Variant calling in polyploids for population and quantitative genetics.Applications in plant sciencesArticle
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7 authors.
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Abstract
Whole genome duplications (WGD) are frequent in many plant lineages; however, ploidy level variation is unknown in most species. The most widely used methods to estimate ploidy levels in plants are chromosome counts, which require living specimens, and flow cytometry estimates, which necessitate living or relatively recently collected samples. Newly described bioinformatic methods have been developed to estimate ploidy levels using high-throughput sequencing data, and these have been optimized in plants by calculating allelic ratio values from target capture data. This method relies on the maintenance of allelic ratios from the genome to the sequence data. For example, diploid organisms will generate allelic data in a 1:1 proportion, with an increasing number of possible allelic ratio combinations occurring in individuals with higher ploidy levels. In this chapter, we explain step-by-step this bioinformatic approach for the estimation of ploidy level.
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