Digital pcr for genotype quantification: A case study in a pasta production chain

Caterina Morcia, Valeria Terzi*, Roberta Ghizzoni, Chiara Vaiuso, Chiara Delogu, Lorella Andreani, Andrea Venturini, Paola Carnevali, Pier Paolo Pompa, Giorgio Tumino

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

5 Citations (Scopus)

Abstract

Digital polymerase chain reaction (dPCR) is a breakthrough technology based on the partitioning of the analytical sample and detection of individual end-point amplifications into the separate compartments. Among the numerous applications of this technology, its suitability in mutation detection is relevant and characterized by unprecedented levels of precision. The actual applicability of this analytical technique to quantify the presence of a specific plant genotype, in both raw materials and transformed products, by exploiting a point polymorphism has been evaluated. As proof of concept, an Italian premium pasta production chain was considered and a dPCR assay based on a durum wheat target variety private point mutation was designed and evaluated in supply-chain samples. From the results obtained, the assay can be applied to confirm the presence of a target variety and to quantify it in raw materials and transformed products, such as commercial grain lots and pasta. The performance, costs, and applicability of the assay has been compared to analytical alternatives, namely simple sequence repeats (SSRs) and genotype-by-sequencing based on Diversity Arrays Technology sequencing (DArTseq™)

Original languageEnglish
Article number419
JournalBiology
Volume10
Issue number5
DOIs
Publication statusPublished - 9 May 2021

Keywords

  • Allelic discrimination
  • Digital PCR (dPCR)
  • Durum wheat
  • Genotype-by-sequencing (GBS)
  • Molecular traceability
  • Pasta
  • Private allele
  • Quantification of variety
  • Simple sequence repeats (SSRs)
  • Varietal confirmation

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