pISSN 2671-8790 eISSN 2671-8804

View

Article View

Korean J Transplant 2021; 35(1): 1-7

Published online March 31, 2021

https://doi.org/10.4285/kjt.20.0035

© The Korean Society for Transplantation

Comparison of single nucleotide polymorphisms and short tandem repeats as markers for differentiating between donors and recipients in solid organ transplantation

Hyun-Ji Lee1 , Kyoung-Hwa Shin2 , Su Jeong Jeong1 , In Suk Kim1

1Department of Laboratory Medicine, and Research Institute for Convergence of Biomedical Science and Technology, Pusan National University Yangsan Hospital, Yangsan, Korea
2Department of Laboratory Medicine, Pusan National University Hospital, Busan, Korea

Correspondence to: Hyun-Ji Lee
Department of Laboratory Medicine, and Research Institute for Convergence of Biomedical Science and Technology, Pusan National University Yangsan Hospital, 20 Geumo-ro, Mulgeum-eup, Yangsan 50612, Korea
Tel: +82-55-360-1875
Fax: +82-55-360-1880
E-mail: hilhj1120@gmail.com

Received: August 14, 2020; Revised: November 12, 2020; Accepted: December 10, 2020

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract

Background: To analyze transplant rejection and to distinguish between donor and recipient, it is necessary to select a marker from single nucleotide polymorphism (SNP), short tandem repeat (STR), and human leukocyte antigen (HLA) testing. SNPs are bi-allelic and the polymerase chain reaction method used for SNP testing has the advantage of lower cost than sequencing methods. In this study, we aimed to distinguish donors from recipients using a combination of existing commercialized STRs and the SNPs identified.
Methods: All selected SNPs complied with the following criterion: known and validated minor allele frequency (MAF) ≥43% in Korean and reported ethnicities from global populations (HapMap, 1000 Genomes, and the Korean Reference Genome project). The STR assays were performed for 16 tetranucleotide repeat loci.
Results: DNA from the 52 donor/recipient pairs were tested for informative markers. The median age of the recipients was 47 years. MAF in the 52 pairs was 1.0%?76.0%. The probability of informative genotypes (I) was 0.001?0.124. The summation of I was 0.680. In the 52 donor recipient pairs, the selected SNPs showed a 0.031 average probability of being informative. The probability of identity in our study was 0.122?0.348. SNP panel configuration distinguished 100% of 52 donors/recipient pairs.
Conclusions: Donors and recipients were distinguished by STR and 22 SNPs with MAF identified from SNP databases. Seventeen SNPs were able to distinguish between donors and recipients (I value=0.039).

Keywords: Organ transplantation, Single nucleotide polymorphism, Short tandem repeats, Chimerism

HIGHLIGHTS
  • DNA from 52 organ transplantation donor-recipient pairs was used for single nucleotide polymorphism (SNP) and short tandem repeat (STR) analysis.

  • Informative STR and SNP markers were identified.

  • Seventeen SNPs to differentiate between Korean donors and recipients were identified.