A novel approach of kinship determination based on the physical length of genetically shared regions of chromosomes

• Published in: Genes & genomics Vol. 46; no. 5; pp. 577 - 587
• Main Authors: Cho, Sohee, Shin, Eunsoon, Park, Yoon Gi, Choi, Seung Ho, Choe, Eun Kyung, Bae, Jung Ho, Lee, Jong-Eun, Lee, Soong Deok
• Format: Journal Article
• Language: English
• Published: Singapore Springer Nature Singapore 01.05.2024; Springer Nature B.V; 한국유전학회
• Subjects: Animal Genetics and Genomics; Biomedical and Life Sciences; Chromosomes; DNA microarrays; East Asian People - genetics; Family; Genetic screening; Genetic Testing; Genotyping; Human Genetics; Humans; Life Sciences; Microbial Genetics and Genomics; Pedigree; Plant Genetics and Genomics; Research Article; Short tandem repeats; Single-nucleotide polymorphism; 생물학; Korean biobank array; Kinship determination; Koreans; High-density SNP
• ISSN: 1976-9571; 2092-9293; 2092-9293
• DOI: 10.1007/s13258-023-01485-4

Background Determination of genetic relatedness between individuals plays a crucial role in resolving numerous civil cases involving familial relationships and in forensic investigation concerning missing persons. Short tandem repeats (STRs), known for their high degree of DNA polymorphism, have traditionally been the primary choice of DNA markers in genetic testing, but their application for kinships testing is limited to cases involving close kinship. SNPs have emerged as promising supplementary markers for kinship determination. Nevertheless, the challenging remains in discriminating between third-degree or more distant relatives, such as first cousins, using SNPs. Objective To investigate a kinship analysis method for distant degree of familial relationships using high-density SNP data. Methods A high-density SNP data from 337 individuals of Korean families using Affymetrix Axiom KORV1.0-96 Array was obtained for this study. SNPs were aligned by chromosomal positions, and identity-by-state (IBS) was determined, and then shared regions as consecutive SNPs with IBS of 1 or 2 were investigated. The physical lengths of these IBS segments were measured and summed them to create an Index, as a measure of kinship. Results The kinship was determined by the physical length of shared chromosomal regions that are distinguished by each kinship. Using this method, the relationship was able be distinguished up to the fourth degree of kinship, and non-relatives were clearly distinguished from true relatives. We also found a potential for this approach to be used universally, regardless of microarray platforms for SNP genotyping and populations. Conclusion This method has a potential to determine the different degree of kinship between individuals and to distinguish non-relatives from true relatives, which can be of great help for practical applications in kinship determination.