Targeted fetal cell‐free DNA screening for aneuploidies in 4,594 pregnancies: Single center study

• Published in: Molecular genetics & genomic medicine 2019-07, Vol.7 (7), p.e00678-n/a
• Main Authors: Koc, Altug, Ozer Kaya, Ozge, Ozyilmaz, Berk, Kutbay, Yasar B., Kirbiyik, Ozgur, Ozdemir, Taha R., Erdogan, Kadri M., Saka Guvenc, Merve, Oztekin, Deniz C., Ozeren, Mehmet, Pala, Halil G., Ekin, Atalay, Gezer, Cenk, Sahingoz Yildirim, Alkim G., Konuralp Atakul, Bahar, Kurtulmus, Secil, Turhan, Ugur, Taner, Cuneyt E.
• Format: Article
• Language: English
• Subjects: Adolescent; Adult; Aneuploidy; Birth rate; Cell-Free Nucleic Acids - analysis; Cell-Free Nucleic Acids - chemistry; cfDNA screening; Chromosomes; Deoxyribonucleic acid; DNA; DNA sequencing; Down Syndrome - genetics; Down's syndrome; Failure rates; Female; Fetus - metabolism; Fetuses; Genetic Counseling; Genetic screening; Genetic Testing - methods; Genomes; Gestational Age; High-Throughput Nucleotide Sequencing; Humans; Middle Aged; NIPS; NIPT; Original; Patau's syndrome; Pregnancy; Prenatal Diagnosis; Retrospective Studies; Sequence Analysis, DNA; Studies; Trisomy; Trisomy 13 Syndrome - genetics; Trisomy 18 Syndrome - genetics; Ultrasonic imaging; Young Adult
• ISSN: 2324-9269; 2324-9269
• DOI: 10.1002/mgg3.678

Background Next‐generation sequencing (NGS) and discovery of fetal cell‐free DNA (cfDNA) in the maternal circulation render possible prenatal screening for trisomy 21 (Down syndrome), trisomy 18, trisomy 13, and sex chromosome aneuploidies. The approach is called “fetal cfDNA screening” and in contrast to noninvasive conventional serum screening, it provides the identification of 98%–99% of fetuses with Down syndrome. Methods Retrospective analysis of targeted noninvasive prenatal testing (NIPT) (Clarigo Test) pregnancies with moderate risk, which we have reported between 2016 and 2018 years is presented. Two separate laboratory workflows and NGS platforms are used for the same targeted NIPT analysis. Results In total, 4,594 pregnant women were investigated. Initial 3,594 cases are studied by MiSeq platform, the last 1,000 cases by NextSeq. Failure rate for MiSeq platform is 10.9% and for NextSeq is 8.7%. Automatically reported cases constitute 75% of the MiSeq group and 87% of the NextSeq group. Conclusions Targeted NIPT results suggest that MiSeq platform could be used for NIPT which would be an essential option particularly for laboratories with low sample flow. And, the NextSeq platform has easier wet lab process and also increased success rate in automatic reporting which is suitable for centers with high number of NIPT cases. Noninvasive prenatal testing (NIPT) results of first NIPT center in Turkey. The article discusses the success rate of distinct platforms.