Noninvasive Prenatal Testing - When Is It Advantageous to Apply

Abstract

Nowadays it is common sense in obstetrics that an increased risk for pregnancy loss due to invasive testing does not exist. Nonetheless, noninvasive prenatal testing (NIPT) is a hot topic, even though this approach does not provide a reduction of unintentionally induced abortions. NIPT has a number of shortcuts which are highlighted in this review, including: (1) in NIPT placental rather than fetal DNA is studied, (2) NIPT fails in 2–6% of cases, and (3) trisomy 21 accounts for only ∼50% of existing chromosomal aberrations. Thus, we agree with the literature that NIPT is a fascinating possibility to gain information on unborn life from minimal amounts of DNA. However, it remains a pure risk estimation test directed towards the detection of specific chromosomal abnormalities from peripheral blood of the pregnant woman. It is important to highlight that families buying this test, and getting a normal result, may be provided with a false sense of security. Thus, careful and comprehensive genetic counselling should be performed before the test is offered, and should include a clear explanation of the advantages and disadvantages, as well as limitations, compared to other methods.

What Is It about?

Noninvasive prenatal testing (NIPT) is the most recent development in prenatal diagnostics and based on methods like next-generation sequencing or other high-throughput analysis tools of free placental DNA of the fetus in the serum of maternal blood. As this test is advertised and commercialized in a unique way, we found it interesting to discuss what the basic risks for invasive compared to noninvasive prenatal tests are, what can be expected from NIPT compared to other noninvasive tests, and what the individual pregnant woman can really learn from NIPT. Overall, the medical indications for NIPT are surprisingly limited.

Introduction

While it was pure science fiction to know anything about the unborn life until the end of the 1950s [1], prenatal diagnostics is a routine approach in today's world. Even though the first unborn child was visualized by sonography in 1958 [2], the majority of invasive routine diagnostic tests starting in the late 1960s [3] was initially done without any sonographic control [4]. Interestingly, Barr-body staining was already performed in 1958 in amnion cells and led to the first antenatal sex determination in history [5].

Amniocentesis (AC), which has been applied since the end of the 19th century in single cases (summarized by Milunsky [6]), became the first routine genetic invasive prenatal test at the end of the 1960s. The herewith acquired amnion cells can be used for fetal chromosomal analyses, and AC is still considered the gold standard for invasive prenatal testing. In addition, the acquisition of chorionic villi samples was introduced as a routine approach in the 1980s; here the goal is to acquire genetic information of the developing child a few weeks earlier than is possible with AC [7]. Even though chorionic villi sampling (CVS) performed with the goal to do genetic studies has been reported before [8, 9, 10, 11], it never became routine until the work of Ward et al. [7]. While chromosomes studied from CVS represent placenta-derived cells, umbilical cord blood sampling enables chromosomal studies in fetal cells [12]. Interestingly, umbilical cord blood acquisition was already used, for example, for antenatal detection of hemoglobinopathies [13], and applying umbilical cord blood for chromosomal analyses also promoted the use of sonography for sampling of fetal tissues [14, 15]. All invasive tests have advantages and disadvantages, which can be found elsewhere [16] and are in parts discussed below. Apart from standard GTG-banding, many other tests can be performed in fetal-derived cells, like molecular cytogenetic [17, 18, 19, 20], molecular genetic [18, 19, 20, 21, 22], biochemical [16], or immunological tests [16], as well as tests for infections (Table 1).

Table 1.

List of indications for prenatal diagnostics

Advanced maternal age

Hint for enhanced risk in a noninvasive test

Previous affected child

Sonographic abnormalities

Psychological reasons

Distress and anxiety

Society pressure to have a healthy child

Wish for the “perfect” child

Diagnostics for infections (viral, bacterial, and parasitological)

At the beginning of the 1970s, α-fetoprotein was promoted as a promising marker for detection of physical malformations of developing children, especially anencephaly and spina bifida [23]. Even though it is an excellent marker for detection of such malformations and potentially underlying chromosomal aberrations in population genetic approaches, this test fails to be specific enough for reliable individual diagnostics [1]. Other and more reliable biochemical markers were identified later. The best suited biochemical parameters to be determined from maternal peripheral blood were those which were applied for the so-called first-trimester screening test, i.e. pregnancy-associated plasma protein A and free β-human chorionic gonadotropin [16].

The most recent development in prenatal diagnostics is noninvasive prenatal testing (NIPT) based on high-throughput methods for analyzing free placental DNA of the fetus situated in the serum of maternal blood [16, 24]. As this test is advertised in scientific journals (∼500 hits can be found when doing a search for NIPT/NIPD in PubMed [25]), as well as in the daily news, and it is commercialized in a unique way, this article discusses what the basic risks for invasive compared to noninvasive prenatal tests are, what can be expected from NIPT compared to other noninvasive tests, and what the individual pregnant woman can learn from NIPT. At the end, we discuss what the benefits of NIPT are in terms of answering the question, “Is my baby healthy?”, and in terms of getting answers in a reasonable time.

Why Do Prenatal Testing?

As nicely stated by Hixson et al. [16], the reason to be interested in chromosomal aberrations in the unborn is the following: “Chromosomal abnormalities in the fetus constitute one of the leading causes of stillbirth and births of infants with malformations. One type of chromosomal abnormality is aneuploidy, which is defined as the fetus having an extra or missing chromosome. Aneuploidies are caused by errors during the (mitotic or) meiotic cellular division process. During normal meiosis, haploid sperm and egg cells containing one copy of each chromosome are formed from the diploid parent cells. Upon fertilization, a diploid zygote cell is formed, containing two copies of each chromosome, one from each parent. However, errors during meiosis can result in the fetus having an extra or missing chromosome. A number of risk factors can increase the probability of chromosomal aberrations in pregnancy, maternal age being the most important. Down syndrome (DS), which is associated with mental retardation, is the most commonly occurring aneuploidy, with an estimate of 250,700 people living with DS, corresponding to a prevalence of 8.27 per 10,000 individuals. DS is due to the presence of an extra chromosome 21 (trisomy 21). Chromosomal analysis of the fetus is the only way to definitively diagnose DS. Trisomy 18, known as Edwards syndrome, is the next most common aneuploidy, occurring in 1 in 6,000 to 8,000 live births. The probability of survival after birth with this aneuploidy is extremely low, with only about 10% of infants living more than a year. Trisomy 13 or Pätau syndrome also greatly reduces life expectancy and occurs 1 in 10,000 births. Forty-four percent of children with this condition die within a month of birth.”

In Table 1 possible indications for prenatal diagnostics are summarized. However, all of this can be easily broken down to the simple question of a family and/or pregnant woman: “Will my baby be OK?”.

Why Avoid Invasive Prenatal Testing?

All of the relevant textbooks explain that invasive prenatal testing is associated with high risks of involuntarily inducing an abortion. Risk figures provided from the 1980s and 1990s were the bases for defining the cutoff when a pregnant woman has to see an MD due to “advanced maternal age.” As nicely stated by Wulff et al. [26], “The risk of miscarriage following CVS and AC was investigated in randomized clinical trials in the 1980s and 1990s. One study found that the risk of miscarriage after AC was increased by 1.0% compared to the risk with no invasive procedure. Studies have compared CVS with AC and found comparable risk of miscarriage following the two procedures. […] A recent meta-analysis estimated procedure-related risks of CVS and AC to be as low as 0.2% and 0.1%, respectively [27].” Wulff et al. [26] also found that “neither CVS nor AC was associated with increased risk of miscarriage or stillbirth.” In Table 2 we provide data that shows the same results; other studies have also confirmed these findings [28, 29, 30]. This reduction in pregnancy loss after invasive procedures is mainly due to the application of needles better suited for aspiration and the routine control of the procedure by sonography [28].

Table 2.

Rate of spontaneous abortions after CVS or AC in Jena between 2010 and 2015

Invasive diagnostics procedure	Abortions/number of cases	Percentage	Other events/number of cases
CVS (10–14 w.o.g.)	0/44	0	0/44
AC (15–22 w.o.g.)	1a/311	0.32	2b/311
Overall	1a/355	0.28	2b/355

AC, amniocentesis; CVS, chorionic villi samples; w.o.g., week of gestation.

^a1 case with premature rupture of fetal membranes.

^b1 case with intrauterine death of fetus due to toxoplasmosis and 1 case of amnion fluid leakage with spontaneous closure; pregnancy continued.

Thus, an important interim conclusion at this point is that even though an increased risk for pregnancy loss can no longer be substantiated, noninvasive testing is still advertised and/or assumed to be necessary to avoid intervention-associated abortions [31]. Overall, the risk of pregnancy loss due to invasive testing has dropped significantly over the past 2 decades, making the avoidance of invasive testing for this reason less evidence-based. Figure 1 shows the development of indications for invasive prenatal testing. Finally, it can be stated that invasive testing is the best option for pregnancies with sonographically detected abnormalities since, regardless of whether NIPT is normal or abnormal, invasive testing will be recommended to patients who want to determine the etiology of the abnormality in their fetus.

Fig. 1.

Development of indications over 17 years in the institute of the corresponding author; 5,280 cases were studied and indications are broken down into 7 main groups. Interestingly, advanced maternal age was and remained the major reason for invasive testing in ∼1/3 of the cases. FTS, first-trimester screening.

What Are the Classic Options for Noninvasive Testing?

The most preferred option of classical NIPT is the application of (high-resolution) sonography. Here the pregnant woman's question as to whether her baby is OK is answered with an accuracy of up to 82% [32]. Besides, peripheral blood from the pregnant woman can be acquired and biochemical tests can be carried out for PAAP-A and β-human chorionic gonadotropin. Data from sonography and biochemistry together with age and ethnicity of the pregnant woman can be combined and the results are presented as a risk estimate called the “first-trimester test” [33]. Based on that, any kind of genetic alteration in the developing child can be picked up with a reliability of 91–96% [16].

What Are the Obstacles of NIPT?

Having gathered all of the previous data, we should now be prepared to answer questions concerning NIPT:

1. What can be expected from NIPT compared to other noninvasive tests?

2. What can the individual pregnant woman learn from NIPT?

3. What are the benefits of the NIPT in terms answering the question: “Is my baby healthy and how can I find this out with the least possible risk to my baby?”

4. What are the benefits of the NIPT in terms of getting answers in a reasonable time frame?

So let's go through these step by step.

What Can Be Expected from NIPT Compared to Other Noninvasive Tests?

NIPT can be used not only to detect or exclude a risk for genetic diseases in general, but also specifically. It is possible to directly address the following unbalanced chromosomal alterations: trisomy 13, 18, 21, and X as well as other gonosomal aberrations. What cannot be addressed are, for example, triploidy, balanced chromosomal aberrations, and unbalanced rearrangements involving other genetic regions than the ones of the tested chromosomes. For example, concerning tetrasomy 18p (OMIM No. 614290), the authors know of at least 1 case where the NIPT-analyzing company must have seen a gain of copy numbers in 18p, but it went unreported since a whole chromosome was not affected. In the meantime this may have been recognized since such cases have also been reported to have been picked up by NIPT [34]. There are future plans to include frequent microdeletion syndromes in routine NIPT, even though detection rates are, independent from the platform used, not yet convincing [35].

After acquisition of the maternal blood sample, results of NIPT normally take 10-14 days. However, what pregnant women and their families expect from the test is a quick, and clear “yes” or “no” answer to the question of whether the fetus has one of the most frequent chromosomal aberrations of the second trimester. It is possible to apply NIPT at an earlier week of gestation than combined prenatal screening; however, the earlier the gestation week, the lower the amount of free placental DNA in maternal blood. This may lead to specific problems as mentioned below (see point 6). Overall, it is important to remember that the NIPT result is only a risk estimation [36] for the following reasons:

1. Even though literature designates the nonmaternal-derived cell-free DNA in veins of a pregnant woman as “free fetal DNA,” everyone knows it is indeed free placental DNA. It is more than a truism that placental and fetal genotypes do not coincide in 1–2% of the pregnancies. Consequently, there have been multiple reports of trisomies detected by NIPT being restricted to the placenta [37, 38, 39, 40, 41, 42, 43, 44] or vice versa [43].

2. Thus, also low-level imbalance-mosaicism of the tested chromosomes can never be excluded as one may miss a placental/fetal aberration [45, 46].

3. In case of an abnormal NIPT result, invasive testing is recommended by the testing companies, i.e. they consider the possibility of placental mosaicism [47] as well.

4. False-positive results can be detected due to maternal (acquired) mosaicism [48, 49, 50], copy number variants present in one parent [34, 38, 44, 45, 51], or vanishing twins [51, 52].

5. Cases with unexplained false-positive results have been described several times [38, 41, 53].

6. In 2–6% of the cases, the free DNA in the mothers' blood does not contain enough “fetal DNA” for a successful test [54]. Still, to find out about that, one needs 10-14 days.

7. If a pregnant woman suffers from obesity, the percentage of cell-free placental DNA is in general lower than in normal weight women and unsuccessful tests become more frequent (∼6%) [55].

8. As highlighted by Norton et al. [56], trisomy 21 which reaches the highest sensitivity in NIPT accounts only for ∼50% of existing chromosomal aberrations compared to invasive diagnostic procedures applying cytogenetics and/or chromosomal microarray, and provide an option for further molecular testing on fetal DNA.

9. The sensitivity to detect trisomy 21 is as high as 99%, but for trisomy 13 and 18 it is “only” 90 and 95%, respectively [57]; while this is a significant improvement over combined or first-trimester screening, it is not at the level to be considered a diagnostic test.

10. Finally according to guidelines [58] and the literature, NIPT [59, 60] is not recommended for women with multiple gestations. The failure rate of NIPT in twins (5.6%) and placental DNA fraction is in general lower in twins than in singleton pregnancies [59].

What Can the Individual Pregnant Woman Learn from NIPT?

A pregnant woman doing NIPT can expect 3 kinds of outcomes: no, normal, or abnormal results. A “no test result” can be due to a low fraction of placental DNA. Here the test is repeated to exclude technical problems with another 10- to 14-day delay in decision making. If the test is still not feasible, the pregnancy is actually at higher risk for an adverse outcome [61] and subsequent pregnancy control is recommended.

If the fetus has sonographic abnormalities and NIPT is abnormal, the pregnant woman may know that her baby is affected and she also knows the reason. In case of no sonographic abnormalities and an abnormal NIPT result, an additional invasive test is necessary to confirm the finding is not only a placenta-restricted abnormality.

If sonographic abnormalities are detected and NIPT is normal, additional invasive tests are necessary to find out what is wrong with the fetus. In fact, in this situation, time and expenses for NIPT can be saved by clarifying the situation directly with an invasive diagnostic test.

Even if no sonographic abnormalities are found and NIPT is normal, one can/must do additional invasive tests. This is necessary as a chromosomal abnormality may be only restricted to the fetus or another chromosomal abnormality not detected by the test is possible. However, the pregnant woman can also be happy with the result and do no further tests.

As shown in Figure 2, NIPT may be performed instead of sonography (1), after sonography (2), or after the first-trimester test (3). Advantages and disadvantages of the NIPT are also summarized in Tables 3 and 4.

Fig. 2.

The 3 major time points for use of NIPT are highlighted in this flowchart in red. NIPT may be done instead of sonography (sono) or first-trimester screening (fTs) (1), after sonography and before/instead of first-trimester screening (2), or after sonography and first-trimester screening (3). In case of abnormal sonography and/or first-trimester screening, invasive prenatal diagnostics is indicated.

Table 3.

General advantages and disadvantages of NIPT with normal or abnormal outcome

Result of NIPT	Advantages	Disadvantages
Normal	Exclusion of most frequent aberrations in placenta of fetus	Fetus is not tested genetically Long time for results Not all possible genetic changes are detectable Invasive test may be necessary
Abnormal	Detection of an aberration in placenta of fetus	Fetus is not tested genetically Long time for results Invasive test is now necessary anyway

Table 4.

Advantages and disadvantages of doing NIPT at the 3 time points given in Figure 2 are listed

Time point	Advantages	Disadvantages
1	DNA is tested, not only phenotype	• Fetus is not tested genetically longer time for results
2	DNA is tested, not only biochemistry and phenotype	• Not all possible genetic changes are detectable • False-positive and -negative results possible
3	Exclusion of most frequent aberrations in placenta of fetus	• No results due to low amount of placental DNA in 3–5% of cases

What Are the Benefits of NIPT in Terms That Answer the Question: “Is My Baby Healthy and How Can I Find This Out with the Least Possible Risk to My Baby?”

As outlined above, invasive prenatal diagnostics provides very minimally enhanced risks for the unborn. Thus, the major reason for the alleged high need for noninvasive testing has evaporated into nothing over the last years; nonetheless, this argument is still used to advertise NIPT [16, 62].

By applying first-trimester screening one can get a 91–96% reliable risk estimation of whether the fetus may have a trisomy 13/18/21 or any ‘genetic problem’ [4, 16, 33]; with NIPT, studying the placenta and not the fetus, one may detect a maximum of 50% (trisomy 21 with a high accuracy) of all possible cases with a chromosomal aberration [56].

What Are the Benefits of NIPT in Terms of Getting Answers in a Reasonable Time Frame?

From the authors' point of view, government-supported NIPT makes sense in countries with a poor “sonographic infrastructure.” In all of the industrial countries of Western Europe, Australia, USA, and Canada, NIPT has no recognizable advantage apart from the fact that it is possible to be applied some weeks earlier than combined prenatal screening (with a higher detection rate and lower false-positive rate). Still as NIPT results need ∼2 weeks and thus longer than results of combined (first and second trimester) or first-trimester screening, the results of NIPT may anyways first come when a first-trimester screening could be done.

Invasive diagnostics is indicated in case of abnormal NIPT findings and may be necessary in case of normal NIPT findings (Fig. 3); thus, such pregnancies go on for 2 more weeks due to NIPT before a decision to continue or terminate the pregnancy is reached. As is well known from invasive prenatal chromosome analyses, waiting for genetic results causes severe psychological distress for pregnant women [18], and similar effects can be expected with NIPT.

Fig. 3.

When NIPT is performed, the analyses needs an additional time frame of 10-14 days. If NIPT is abnormal, invasive testing is necessary to confirm the result. If NIPT is normal but sonography or first-trimester screening was abnormal, invasive testing is also indicated.

Conclusions

NIPT should be considered a screening test of specific chromosomal abnormalities from peripheral blood of a pregnant woman rather than a diagnostic test since its detection rates and false-negative rates for the most commonly targeted aneuploidies are not sufficient to warrant “diagnostic test” status. NIPT offers a fascinating possibility to gain information from minimal amounts of DNA, but the clinical benefit of it is overall quite low [63]. It has to be considered that families buying this test and getting a normal result may be given a false sense of security. Thus, careful and clear genetic counselling has to be done before the test is offered, clearly explaining its advantages and disadvantages as well as limitations compared to other methods.

Disclosure Statement

The authors declare no conflicts of interest.

Author Contributions

A.W. and T.L. drafted the paper. A.L., U.S., and E.S. provided the data for Table 2 and edited the paper draft. A.W. provided the data for Figure 1. All authors read and approved the final version of the paper.