Volume 53 (3): 307-314, 2005 Copyright ©The Histochemical Society, Inc. Application of Fetal DNA Detection in Maternal Plasma : A Prenatal Diagnosis Unit Experience
Department of Genetics (CGG,MGH,MJTT,ILS,MRdA,FI,JG,CA,CR) and Department of Gynecology and Obstetrics (JDR), Fundación Jiménez Díaz, Madrid, Spain Correspondence to: Cristina González-González, Fundacion Jimenez Diaz, Genetica, Avda Reyes Catolicos 2, Madrid, 28040, Spain. E-mail: cgonzalezg{at}megalab.es
Non-invasive prenatal diagnosis tests based on the analysis of fetal DNA in maternal plasma have potential to be a safer alternative to invasive methods. So far, different studies have shown mainly fetal sex, fetal RhD, and quantitative variations of fetal DNA during gestation with fetal chromosomal anomalies or gestations at risk for preeclampsia. The objective of our research was to evaluate the use of fetal DNA in maternal plasma for clinical application. In our study, we have established the methodology needed for the analysis of fetal DNA. Different methods were used, according to the requirements of the assay. We have used quantitative fluorescent polymerase chain reaction (QF-PCR) to perform fetal sex detection with 90% sensitivity. The same technique permitted the detection of fetal DNA from the 10th week of gestation to hours after delivery. We have successfully carried out the diagnosis of two inherited disorders, cystic fibrosis (conventional PCR and restriction analysis) and Huntington disease (QF-PCR). Ninety percent of the cases studied for fetal RhD by real-time PCR were correctly diagnosed. The detection of fetal DNA sequences is a reality and could reduce the risk of invasive techniques for certain fetal disorders in the near future. (J Histochem Cytochem 53:307314, 2005)
Key Words: fetal DNA maternal plasma non-invasive diagnosis QF-PCR real-time PCR cystic fibrosis Huntington disease fetal RhD
THE DISCOVERY of extracellular fetal DNA in maternal blood has exciting possibilities for non-invasive prenatal diagnosis (Lo et al. 1997
In the last few years, some characteristics have been described regarding the behavior of this fetal DNA. Quantitative variations have been observed in gestations at risk for preeclampsia or fetal chromosomal anomalies (Lo et al. 1999
Advances in laboratory technology have helped the development of this non-invasive fetal diagnosis with the use of real-time PCR (Lo et al. 1998b
Such reports have prompted us to evaluate the analysis of fetal DNA in maternal plasma as a possible alternative tool in routine laboratory prenatal diagnosis. In our assay, we have used maternal plasma to determine fetal sex, to study the behavior of fetal DNA throughout gestation, to detect two Mendelian inherited disorders: cystic fibrosis (CF) (Gonzalez-Gonzalez et al. 2002
Patients For fetal sex detection, 81 pregnant women from the 10th to the 20th weeks of gestation participated in the study. One pregnant woman and her husband were selected to assay the behavior of fetal DNA in maternal plasma throughout gestation. This pregnant woman donated blood from the 8th week of gestation to 24 hr after delivery (13 samples). Another pregnant woman in the 13th week of gestation, and her relatives, participated in the study of CF. We studied two pregnant women in the 13th week of gestation whose husbands were affected with HD. The husbands and relatives also participated in the study. In the last study, 20 RhD-negative pregnant women from the 11th to the 16th week of gestation participated in the fetal RhD detection. All samples were taken after obtaining informed consent and before the invasive procedure was carried out [amniocentesis or chorionic villus sample (CVS)]. Blood was collected in 10-ml EDTA tubes.
DNA Extraction All procedures were performed avoiding exogenous DNA contamination and in a sterile room with sterile pipettes and separate areas for DNA extraction and post-PCR handling.
PCR
Fetal DNA throughout Gestation
Detection of a CF Mutation
HD Diagnosis
Fetal RhD Detection
We have correctly diagnosed fetal sex in 92% of the cases. Sensitivity was 0.935 and reached 100% in the samples obtained in the second trimester (Figure 1).
The fetal DNA follow-up during gestation assay showed that DNA could be detected from the 10th week of gestation and no longer than 24 hr after delivery (Table 1). We could also observe that the fetal DNA peak area seen in QF-PCR was greater as gestation advanced, confirming that fetal DNA amount increases as gestation advances (Figures 2 and 3). In 2 out of 13 samples, one from the 13th week and another from the 27th week, we were not able to detect fetal DNA. A second analysis was performed, but only positive results were obtained from the sample of the 27th week.
In the detection of the Q890x mutation of CF, a 485 band is expected in a normal homozygote patient in an acrylamide/agarose gel. The heterozygote carrier pattern is expected to show three fragments of 485, 350, and 135 bp. Figure 4 shows the obtained results. Lane 1 (20 µl of DNA from maternal plasma) shows 485 bp and 350 bp bands (the 135 bp band is absent because of long electrophoresis), corresponding to the paternally inherited mutation Q890x. In lane 2 (30 µl of DNA from maternal plasma), we did not amplify either maternal DNA or fetal DNA, possibly because of a PCR failure. The presence of the mutation in the fetus was confirmed by molecular analysis of the chorion biopsy. The results in agarose gel showed extremely faint bands.
Concerning the HD assay, a healthy fetus and an affected fetus were correctly diagnosed. In the first family, results from the PCR of paternal DNA showed an allele of 17 CAG repeats and an expanded one of 37 repeats. PCR from the mother's DNA showed two alleles of 20 and 24 CAG repeats. PCR from maternal plasma showed three normal alleles of 17, 20, and 24. Because the allele of 17 repeats was not found in the analysis of the maternal whole blood DNA, this allele corresponded to the paternally inherited allele of the fetus. Thus, the fetus was unaffected (Figure 5). In the second family, PCR analysis of the maternal plasma allowed the detection of three alleles, two normal of 15 and 17 CAG repeats and an expanded one of 40 repeats. The expanded one was not found in the analysis of the maternal whole blood DNA; therefore, the fetus would be affected with HD (Figure 6). All results were confirmed with the analysis of DNA isolated from CVS.
Results from Fetal RhD Detection Ninety percent of the cases studied for fetal RhD detection were correctly diagnosed. All results were confirmed with the analysis of DNA isolated from CVS and amniotic fluid (Table 2).
Our first purpose was to detect fetal DNA to develop a non-invasive prenatal diagnosis technique, and fetal sex detection was considered a successful assay. This study allowed us to introduce an adequate methodology of DNA extraction and techniques of PCR amplification and analysis of the obtained fragments. It was also useful to establish some important rules for sample handling, such as very strict precautions against contamination that are necessary to avoid false-positive results. We confirmed that fetal DNA is detected from late first trimester (10th week of gestation) by QF-PCR. Follow-up throughout gestation confirmed that it is easier to detect fetal DNA as pregnancy advances. This study shows the diagnosis of female fetuses and demonstrates that it is possible to detect any sequence absent in the mother but present in the fetus. In these cases, it is essential to have a previous analysis of parental DNA. This technique for fetal sex detection has an important clinical application as a non-invasive tool in those cases of X-linked disorders. The QF-PCR technique, with a similar design, has been successfully used by other groups to detect a paternally inherited X-chromosome polymorphism (Tang et al. 1999
Presently, the main purpose of prenatal diagnosis is the detection of fetal aneuploidies. However, due to the overriding presence of maternal DNA, we were able to detect only fetal sequences of paternal origin in maternal plasma, and most of the aneuploides, such as trisomy 21 (Down Syndrome), are maternally inherited. Previous research from our group has been concerned with the analysis of fetal cells in maternal blood (Rodríguez de Alba et al. 2001
There are many Mendelian disorders in which affected families require prenatal diagnosis. We consider that fetal DNA detection in maternal plasma could be very useful in those cases. The prevalence of CF is very high, depending on the population, and many studies focus on the need for prenatal/neonatal screening of CF (Richards and Grody 2004 We used QF-PCR for the study of HD as a more sensitive method to detect fetal DNA than conventional acrylamide. HD is a dominantly inherited disease with a variable age of onset and causes motor abnormalities, gradual loss of cognition, and ultimately, death. A parental study was always performed to determine the size of the alleles for the CAG repeats. In both studies, we correctly diagnosed the fetal status at an early gestational age. An important aim of our study was to perform a fetal diagnostic study early in pregnancy, when CVS or amniocentesis might be done. More experience in this field is needed to confirm the results obtained in our study. At present, our group is working with more patients. It is likely that the analysis of fetal DNA by QF-PCR could be very useful as a pretest suitable for monitoring paternally inherited expanded alleles in HD. The low quantity of fetal DNA in the maternal circulation and interference from an excessive amount of maternal DNA make it necessary to use very sensitive methods such as QF-PCR to analyze fetal mutations. This method would also permit the diagnosis of other paternally inherited fetal disorders, but different approaches are needed for each specific situation. Additional advantages of this technique are its feasibility and the rapidity of carrying it out.
To improve the sensitivity of fetal DNA detection, we decided to introduce the technology of real-time PCR. Many authors have described a sensitivity and specificity close to 100% for fetal DNA detection using this technique (Lo et al. 1998b Our experience with the analysis of fetal DNA in maternal plasma demonstrates the reliability of these approaches. As a prenatal diagnosis unit, we focus on the clinical application of fetal DNA detection, mainly in the prenatal diagnosis of Mendelian disorders. These procedures could be used as an alternative method prior to CVS or amniocentesis, for those parents discouraged from having an invasive procedure.
Understanding the technical parameters affecting the reliability of the detection of fetal DNA in maternal plasma is very important for its use as a routine prenatal diagnosis procedure. We have observed that after phlebotomy of the mother, it is necessary to obtain the plasma as soon as possible and then aliquot and freeze it until time of DNA extraction. We collected maternal blood and processed it for no longer than 24 hr. A few samples were processed after this time (48 and 72 h), and using these samples we were able to detect maternal DNA but not fetal DNA. Previous studies indicate that fetal DNA in maternal plasma is stable even 24 hr after collection (Angert et al. 2003 Another limitation of the use of fetal DNA PCR for diagnosis is the possibility of false-positive results. These are attributed mainly to PCR product carry-over, but we believe that sample handling is also an important factor. It is essential to avoid any risk of exogenous DNA contamination; this mandates the use of sterile pipettes and filter tips, and separate sterile areas for DNA extraction and PCR handling. Real-time PCR offers, to date, the highest level of safety and represents the most secure amplification procedure because of its closed-tube systems and the multiplex PCR design that includes an internal PCR amplification control.
Johnson et al. (2004)
Comunidad de Madrid (08.6/0028/2000 3) supported this project. We thank Diego Cantalapiedra for scripting assistance and Foundation Conchita Rábago for their support to CGG.
Presented in part at the 14th Workshop on Fetal Cells and Fetal DNA: Recent Progress in Molecular Genetic and Cytogenetic Investigations for Early Prenatal and Postnatal Diagnosis, Friedrich-Schiller-University, Jena, Germany, April 1718, 2004. Received for publication May 17, 2004; accepted September 23, 2004
Angert RM, LeShane ES, Lo YM, Chan LY, Delli-Bovi LC, Bianchi DW (2003) Fetal cell-free plasma DNA concentrations in maternal blood are stable 24 hours after collection: analysis of first- and third-trimester samples. Clin Chem 49:195198 Chen CP, Chern SR, Wang W (2000) Fetal DNA in maternal plasma: the prenatal detection of a paternally inherited fetal aneuploidy. Prenat Diagn 20:2035520357 Gonzalez-Gonzalez MC, Garcia-Hoyos M, Trujillo MJ, Rodríguez de Alba M, Lorda-Sanchez I, Diaz-Recasens J, Gallardo E, et al. (2002) Prenatal detection of a cystic fibrosis mutation in fetal DNA from maternal plasma. Prenat Diagn. 22:946948[CrossRef][Medline] Gonzalez-Gonzalez MC, Trujillo MJ, Rodríguez de Alba M, Garcia-Hoyos M, Lorda-Sanchez I, Diaz-Recasens J, Ayuso C, et al. (2003a) Huntington disease-unaffected fetus diagnosed from maternal plasma using QF-PCR. Prenat Diagn 23:232234[CrossRef][Medline] Gonzalez-Gonzalez MC, Trujillo MJ, Rodríguez de Alba M, Ramos C (2003b) Early Huntington disease prenatal diagnosis by maternal semiquantitative fluorescent-PCR. Neurology 60:12141215 Johnson KL, Dukes KA, Vidaver J, LeShane ES, Ramirez I, Weber WD, Bischoff FZ, et al. (2004) Interlaboratory comparison of fetal male DNA detection from common maternal plasma samples by real-time PCR. Clin Chem 50:516521 Lo YM, Corbetta N, Chamberlain PF, Rai V, Sargent IL, Redman CW, Wainscoat JS (1997) Presence of fetal DNA in maternal plasma and serum. Lancet 16:485487 Lo YM, Hjelm NM, Fidler C, Sargent IL, Murphy MF, Chamberlain PF, Poon PM, et al. (1998a) Prenatal diagnosis of fetal RhD status by molecular analysis of maternal plasma. N Engl J Med. 339:17341738 Lo YM, Lau TK, Zhang J, Leung TN, Chang AM, Hjelm NM, Elmes RS, et al. (1999) Increased fetal DNA concentrations in the plasma of pregnant women carrying fetuses with trisomy 21. Clin Chem 45:17471751 Lo YM, Tein MS, Lau TK, Haines CJ, Leung TN, Poon PM, Wainscoat JS, et al. (1998b) Quantitative analysis of fetal DNA in maternal plasma and serum: implications for noninvasive prenatal diagnosis. Am J Hum Genet. 62:768775[CrossRef][Medline] Nasis O, Thompson S, Hong T, Sherwood M, Radcliffe S, Jackson L, Otevrel T (2004) Improvement in sensitivity of allele-specific PCR facilitates reliable noninvasive prenatal detection of cystic fibrosis. Clin Chem 50:694701 Poon LL, Leung TN, Lau TK, Chow KC, Lo YM (2002) Differential DNA methylation between fetus and mother as a strategy for detecting fetal DNA in maternal plasma. Clin Chem 48:3541 Richards CS, Grody WW (2004) Prenatal screening for cystic fibrosis: past, present and future. Expert Rev Mol Diagn 4:4962[CrossRef][Medline] Rodríguez de Alba M, Palomino P, Gonzalez-Gonzalez C, Lorda-Sanchez I, Ibanez MA, Sanz R, Fernandez-Moya JM, et al. (2001) Prenatal diagnosis on fetal cells from maternal blood: practical comparative evaluation of the first and second trimesters. Prenat Diagn 21:165170[CrossRef][Medline] Saito H, Sekizawa A, Morimoto T, Suzuki M, Yanaihara T (2000) Prenatal DNA diagnosis of a single-gene disorder from maternal plasma. Lancet 356:1170[CrossRef][Medline] Tang NL, Leung TN, Zhang J, Lau TK, Lo YM (1999). Detection of fetal-derived paternally inherited X-chromosome polymorphisms in maternal plasma. Clin Chem 45:20332035 Wagner FF, Flegel WA (2000) RHD gene deletion occurred in the Rhesus box. Blood 95:36623668 Zhong XY, Holzgreve W, Hahn S (2001) Circulatory fetal and maternal DNA in pregnancies at risk and those affected by preeclampsia. Ann NY Acad Sci. 945:138140
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