ABO allele-level frequency estimation based on population-scale genotyping by next generation sequencing. (December 2016)

• Record Type: Journal Article
• Authors: Lang, Kathrin; Wagner, Ines; Schöne, Bianca; Schöfl, Gerhard; Birkner, Kerstin; Hofmann, Jan; Sauter, Jürgen; Pingel, Julia; Böhme, Irina; Schmidt, Alexander; Lange, Vinzenz
• Is Part Of: BMC genomics. Volume 17:Number 1(2016)
• Page Start: 1
• Page End: 11
• Publication Date: 2016-12
• Subjects: Blood group -- ABO -- NGS -- Genotyping -- Illumina -- Amplicon; Genomes -- Periodicals; Gene mapping -- Periodicals; Genomics -- Periodicals; Base Sequence -- Periodicals; Chromosome Mapping -- Periodicals; Genetic Techniques -- Periodicals; Sequence Analysis, DNA -- Periodicals; 572.8605
• DOI: 10.1186/s12864-016-2687-1
• Languages: English
• ISSNs: 1471-2164

Abstract

Abstract Background The characterization of the ABO blood group status is vital for blood transfusion and solid organ transplantation. Several methods for the molecular characterization of theABO gene, which encodes the alleles that give rise to the different ABO blood groups, have been described. However, the application of those methods has so far been restricted to selected samples and not been applied to population-scale analysis. Results We describe a cost-effective method for high-throughput genotyping of the ABO system by next generation sequencing. Sample specific barcodes and sequencing adaptors are introduced during PCR, rendering the products suitable for direct sequencing on Illumina MiSeq or HiSeq instruments. Complete sequence coverage of exons 6 and 7 enables molecular discrimination of the ABO subgroups and many alleles. The workflow was applied to ABO genotype more than a million samples. We report the allele group frequencies calculated on a subset of more than 110, 000 sampled individuals of German origin. Further we discuss the potential of the workflow for high resolution genotyping taking the observed allele group frequencies into account. Finally, sequence analysis revealed 287 distinct so far not described alleles of which the most abundant one was identified in 174 samples. Conclusions The described workflow delivers high resolution ABO genotyping at low cost enabling population-scale molecular ABO characterization.