Open AccessA simple and versatile authenticity assay of coffee products by single-nucleotide polymorphism genotyping
Author(s) -
Toshifumi Nakagawa,
Masanori Doi,
Kosuke Nishi,
Takuya Sugahara,
Hiroaki Nishimukai,
Migiwa Asano
Publication year - 2019
Publication title -
bioscience biotechnology and biochemistry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.509
H-Index - 116
eISSN - 1347-6947
pISSN - 0916-8451
DOI - 10.1080/09168451.2019.1618697
Subject(s) - genotyping , snp genotyping , indel , single nucleotide polymorphism , molecular inversion probe , biology , genetics , coffea canephora , snp , genomic dna , dna extraction , genotype , dna , coffea arabica , computational biology , polymerase chain reaction , gene , botany
Interspecific single-nucleotide polymorphisms (SNPs) in the rbcL DNA barcode have been strictly validated and adopted as a designed SNP genotyping maker to discriminate between two major coffee species, Coffea arabica and C. canephora, and to estimate the mixing ratio of DNA from C. arabica/C. canephora in this study. The SNP genotyping is applicable to not only green (unroasted) coffee beans, but also processed coffee products (roasted coffee beans and instant coffee powder), in which genomic DNA is degraded, because the genotyping developed in this study requires only 10 copies of 63-bp-long DNA fragments of rbcL gene. The authenticity assay established in this study has several advantages: a high versatility to DNA sample conditions; simple and rapid procedures (only two steps; DNA extraction and SNP genotyping); the feasibility in coffee business for practical use to prevent false advertising and provide quality control. Abbreviations: SNP: single-nucleotide polymorphism; SBS: single base substitution; ISR: intergenic spacer region; INDEL: insertion-deletion.
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