OMIM Online Mendelian Inheritance in Man55
aValues round to ≥ 0.02 (two decimal places).
Table 2. Autosomal recessive genes for screening with carrier frequency < 1/50 to ≥ 1/100.
Prenatal screening encompasses any testing done to determine the health status of the pregnant individual and/or fetus. Genetic prenatal screening encompasses screening to determine risk of fetal abnormalities, including genetic and developmental abnormalities. Any individual undergoing screening tests, especially genetic carrier screenings, must realize the limitations of screening tests and the difference between screening and diagnostic testing. Screening refers to testing of asymptomatic or healthy individuals to search for a condition that may affect the pregnancy or individual, whereas diagnostic testing is used to either confirm or refute true abnormalities in an individual (Grant & Mohide, 1982; Lockwood & Magriples, 2023).
This policy addresses broad prenatal genetic screening, as well as screening for conditions not addressed in condition-specific policies. For situations in which prenatal and preconception screening may be discussed in further detail, please see the “Related Policies” section of this policy document.
Prenatal Screening (Nongenetic) AHS-G2035
Prenatal Screening for Fetal Aneuploidy AHS-G2055
Genetic Testing for FMR1 Mutations AHS-M2028
Chromosomal Microarray and Low-pass Whole Genome Sequencing AHS-M2033
Pre-Implantation Genetic Testing AHS-M2039
Genetic Testing for Hereditary Hearing Loss AHS-G2148
Genetic Testing for Cystic Fibrosis AHS-M2017
Genetic Testing for Polyposis Syndromes AHS-M2024
Genetic Testing for Fanconi Anemia AHS-M2077
Genetic Testing for Neurodegenerative Disorders AHS-M2167
Red Blood Cell Molecular Testing AHS-M2170
***Note: This Medical Policy is complex and technical. For questions concerning the technical language and/or specific clinical indications for its use, please consult your physician.
BCBSNC will provide coverage for prenatal screening (genetic) when it is determined to be medically necessary because the medical criteria and guidelines shown below are met.
This medical policy relates only to the services or supplies described herein. Please refer to the Member's Benefit Booklet for availability of benefits. Member's benefits may vary according to benefit design; therefore member benefit language should be reviewed before applying the terms of this medical policy.
Note 1: Please see the “Guidelines and Recommendations” section of this policy for ACMG’s tiered system based on carrier frequency (Tables 1-6).
Note 2: For 2 or more gene tests being run on the same platform, please refer to AHS-R2162 Reimbursement Policy.
Carrier screening for the same gene more than once per lifetime is considered not medically necessary.
Reimbursement is not allowed for the use of non-invasive prenatal screening (NIPS) to screen for single-gene mutations (i.e., autosomal recessive, autosomal dominant, X-linked) in the fetus.
For all other inherited medical disorders not meeting the above criteria, pre-conceptional or prenatal genetic testing considered investigational.
Prenatal screening is a part of overall prenatal care to promote optimal care of both mother and baby. Prenatal screening allows for assessment and monitoring of the fetus for the presence of congenital defects or disease. Various professional medical organizations provide guidelines for prenatal screening. “Screening is an offer on the initiative of the health system or society, rather than a medical intervention in answer to a patient’s complaint or health problem. Screening aims at obtaining population health gains through early detection that enables prevention or treatment” (de Jong et al., 2015).
Genetic screening tests, including carrier screening for genetic mutations and fetal testing for chromosomal aneuploidy, can be a part of prenatal screening. Aneuploidy screening may be performed on cell-free DNA in maternal circulation or by examining maternal serum levels of specific biochemical markers for trisomy (Lockwood & Magriples, 2023). These non-invasive prenatal testing (NIPT) can possibly decrease the number of more invasive procedures and the risks of unwanted side effects. A chromosomal microarray (CMA) can screen all chromosomes in a single test and “can detect many very small variants that cannot be detected by traditional karyotyping” (de Jong et al., 2015). The American College of Obstetricians and Gynecologists (ACOG) recommends CMA for instances where the ultrasound of a fetus shows a major structural abnormality (ACOG, 2016a). CMA in this situation should be performed on DNA from amniotic fluid, chorionic villus cells, or cord blood, rather than on maternal serum cell-free DNA since the process does not include an amplification step and the maternal DNA signal would be many times higher than the fetal DNA (Miller, 2023).
Several companies, such as LabCorp, have developed panels to test for potential genetic mutations in pregnant individuals, or in individuals planning to become pregnant. This includes the Inheritest® Carrier Screening which encompasses six different panels to identify potential genetic mutations. These six panels include the Inheritest® 500 PLUS Panel (which screens 525 genes for several clinically relevant genetic disorders), the Inheritest® Comprehensive Panel (which screens for more than 110 disorders), the Inheritest® Ashkenazi Jewish Panel (which screens for more than 40 Ashkenazi Jewish related disorders), the Inheritest® Society-Guided Panel (which screens for more than 13 disorders highlighted in the American College of Medical Genetics and Genomics and the American Congress of Obstetricians and Gynecologists guidelines), the Inheritest® Core Panel (which screens for cystic fibrosis, fragile X syndrome, and spinal muscular atrophy), and the Inheritest® CF/SMA (spinal muscular atrophy) Panel (which screens only for cystic fibrosis and spinal muscular atrophy) (LabCorp, 2023).
Additionally, the company BillionToOne has created a noninvasive prenatal screening test. UNITY Complete® uses cell-free DNA from a maternal blood draw and assesses for seven aneuploidies (trisomy 21, trisomy 18, trisomy 13, monosomy X, XXX, XXY, and XYY), and five recessive conditions (cystic fibrosis, spinal muscular atrophy, sickle cell disease, alpha thalassemia, and beta thalassemia). This screen functions in a sequential manner. First, the screen uses NGS of genomic DNA to assesses maternal carrier status for genes associated with the most common single-gene recessive disorders. If the pregnant individual is identified as a carrier for a pathogenic variant in one or more of these genes, the sample is then reflexed to single-gene noninvasive prenatal screening (sgNIPS). In sgNIPS, NGS is performed on cfDNA extracted from the original blood sample, from which fetal risk is calculated. Fetal risk assessment is summarized as low risk (fetal risk 1/500), high risk (fetal risk >1/4), increased risk or decreased risk (fetal risk between 1/500 and 1/4), or no result (BillionToOne, 2023; Hoskovec et al., 2023).
Red blood cell antigen discrepancy between a mother and fetus may also occur during pregnancy. This is known as hemolytic disease of the fetus and newborn (HDFN), and causes maternal antibodies to destroy the red blood cells of the neonate or fetus (Calhoun, 2023). Alloimmunization is the immune response which occurs in the mother due to foreign antigens after exposure to genetically foreign cells, occurring almost exclusively in mothers with type O blood. However, while ABO blood type incompatibility is identified in almost 15% of pregnancies, HDFN is only identified in approximately 4% of pregnancies (Calhoun, 2023). Another important inherited antigen sometimes found on the surface of red blood cells is known as the Rhesus (Rh)D antigen. During pregnancy and delivery, individuals who are RhD negative may be exposed to RhD positive fetal cells, which can lead to the development of anti-RhD antibodies. This exposure typically happens during delivery and affects subsequent pregnancies; infants with RhD incompatibility tend to experience a more severe form of HDFN than those with ABO incompatibility. The clinical presentation of HDFN may be mild (such as hyperbilirubinemia with mild to moderate anemia) to severe and life-threatening anemia (such as hydrops fetalis). Less severely affected infants may develop hyperbilirubinemia within the first day of life; infants with RhD HDFN may also present with symptomatic anemia requiring a blood transfusion. In more severe cases, infants with severe life-threatening anemia, such as hydrops fetalis, may exhibit shock at delivery requiring an emergent blood transfusion (Calhoun, 2023).
The administration of anti-D immune globulin has been able to dramatically reduce, but not eliminate, the number of RhD alloimmunization cases. “Anti-D immune globulin is manufactured from pooled plasma selected for high titers of IgG antibodies to D-positive erythrocytes” (Moise, 2024). Before the development of this anti-D immune globulin, it has been reported that 16% of pregnant RhD-negative individuals with two deliveries of RhD-positive ABO-compatible infants became alloimmunized. However, this rate falls to 1-2% with routine postpartum administration of a single dose of anti-D immune globulin. An additional administration in the third trimester of pregnancy further reduces the incidents of alloimmunization to 0.1- 0.3% (Moise, 2024).
Fetal RhD genotyping using cell-free fetal DNA from maternal plasma can be performed to identify fetal blood type most accurately after 11 weeks of gestation. While the United States has not implemented fetal RhD genotyping for routine prophylaxis and fetal monitoring protocols, several European countries, such as Denmark, the Netherlands, England, Sweden, France and Finland, do utilize fetal RhD determination so that the administration of anti-D immune globulin can be avoided when an RhD-negative fetus is identified (Moise, 2024). Daniels et al. (2007) report that approximately 40% of RhD-negative pregnant individuals are carrying a RhD-negative fetus; genotypic screening would, therefore, be very valuable in preventing these individuals from receiving unnecessary anti-D immune globulin. Kent et al. (2014) suggest that the administration of anti-D immune globulin to the one third of pregnant individuals who do not require this administration is unethical, and that the availability of RhD genotyping to all RhD-negative pregnant individuals would assist in more informed choices being made regarding anti-D immune globulin administration. Finning et al. (2008) agree with the previous statements, declaring that “high throughput RHD genotyping of fetuses in all RhD negative [individuals] is feasible and would substantially reduce unnecessary administration of anti-RhD immunoglobulin to RhD negative pregnant [individuals] with an RhD negative fetus.”
A prospective cohort study by de Haas et al. (2016) completed a nationwide program in the Netherlands to determine the sensitivity of fetal RhD screening for the safe guidance of targeted anti-immune globulin prophylaxis. A total of 25,789 RhD-negative pregnant individuals participated in this study. Fetal testing for the RHD gene was assessed in the 27th week of pregnancy. Fetal RHD test results were compared to serological cord blood results after birth. “Sensitivity for detection of fetal RHD was 99.94% (95% confidence interval 99.89% to 99.97%) and specificity was 97.74% (97.43% to 98.02%). Nine false-negative results for fetal RHD testing were registered (0.03%, 95% confidence interval 0.01% to 0.06%)” (de Haas et al., 2016). They conclude that fetal RhD testing is a highly reliable testing method.
Manfroi et al. (2018) completed fetal RhD genotyping with real-time polymerase chain reaction (qPCR) using cell-free fetal DNA extracted from maternal plasma. A commercial multiple-exon assay was used to determine fetal RHD genotypic accuracy. A total of 367 plasma samples obtained between the 24th and 28th weeks of pregnancy were used for this study. Neonatal results were available for 284 of the pregnancies. The sensitivity was reported at 100% and specificity at 97.5%. The diagnostic accuracy was 96.1% with the inclusion of 9/284 inconclusive results (Manfroi et al., 2018). The authors conclude that this is therefore an accurate and reliable tool for targeted prenatal immunoprophylaxis.
Education and counseling are a key factor in prenatal screening and diagnostic tests. Yesilcinar and Guvenc (2021) found that a proactive intervention approach decreased anxiety and decisional conflict in the pregnant individual and increased attitudes towards the tests, having a positive effect on the pregnant individual’s knowledge level and decision satisfaction. This allowed the individual to make more informed decisions, such as opting to have screening and diagnostic testing performed. Decreasing anxiety during pregnancy is beneficial to the fetus and individuals receiving educational intervention showed decreased anxiety when receiving genetic screening results as compared to individuals not receiving the same intervention (Yesilcinar & Guvenc, 2021). Migliorini et al. (2020) have also reported that the use of cell free DNA (cfDNA) screening, combined with a detailed ultrasound examination, as a first-trimester risk assessment is associated with improved maternal reassurance and satisfaction and decreased anxiety, as compared to individuals who received standard first-trimester combined screening with nuchal translucency (NT) and biochemistry (Migliorini et al., 2020).
Biro et al. (2020) report on a noninvasive prenatal testing method for congenital heart disease, utilizing the measurement of cell-free nucleic acid and protein biomarkers in maternal blood. Congenital heart disease is considered the most common fetal malformation. While prenatal ultrasonography is currently used to diagnose congenital heart disease, it is not the most accurate method. After a large review completed with PubMed and Web of Sciences databases, the authors conclude that most fetal congenital heart disease related disorders can be diagnosed by noninvasive prenatal testing (NIPT) techniques. Further, cell-free RNAs and circulating proteins are potential biomarkers for fetal congenital heart disease and may be able to improve the detection rate in early pregnancies (Biro et al., 2020).
A study by Persico et al. (2016) investigated the clinical implication of cfDNA testing in high-risk pregnancies. In their cohort of 259 singleton pregnancies, cfDNA testing provided results in 249 (96.1%). Further, cfDNA testing identified 97.2% (35/36) of trisomy 21, 100% (13/13) of trisomy 18, 100% of trisomy 13 (5/5), and 75% of sex chromosome aneuploidies (3/4). The authors conclude that “a policy of performing an invasive test in [individuals] with a combined risk of ≥1 in 10 or NT ≥4 mm and offering cfDNA testing to the remaining cases would detect all cases of trisomy 21, 18 or 13, 80% of sex aneuploidies and 62.5% of other defects and would avoid an invasive procedure in 82.4% of euploid fetuses” (Persico et al., 2016). These data support the earlier meta-analysis that reported NIPT sensitivity of trisomy 21, trisomy 18, and trisomy 13 of 99%, 96.8%, and 92.1%, respectively and specificities of 99.92%, 99.85%, and 99.80%, respectively, for trisomies 21, 18, and 13 (Dondorp et al., 2015; Gil et al., 2014).
A multi-year study of more than 5000 patients in public hospitals in Spain examined the effect of NIPT on the number of invasive procedures performed, showing that the introduction of NIPT drastically reduced the incidences of invasive procedures. The data shows that despite a 60.5% reduction occurred in invasive procedures, the chromosomopathy detection rate was unaffected; moreover, the ratio of positive invasive procedures was improved to 50%, indicating that unwarranted invasive procedures had been avoided (Martinez-Payo et al., 2018). The authors of the study concluded, “NIPT introduction has caused a significant reduction of 60.5% of IP [invasive procedures] in high chromosomopathy risk patients after combined screening without modifying detection rate” (Martinez-Payo et al., 2018).
A meta-analysis was completed by Mackie et al. (2017), researching the accuracy of cell-free fetal DNA NIPT testing in singleton pregnancies. A total of 117 studies were included, analyzing 18 different conditions. For RHD testing, a sensitivity of 0.993 and specificity of 0.984 was identified and for fetal sex identification, a sensitivity of 0.989 and a specificity of 0.996 was calculated (Mackie et al., 2017). With such high sensitivity and specificity calculations, NIPT testing for fetal sex and RHD status may be considered accurate diagnostic tools.
Clausen et al. (2014) completed a two-year evaluation of nationwide prenatal RhD screening in Denmark. A total of 12,668 pregnancies were analyzed, with blood samples drawn in week 25 of pregnancy. DNA was extracted from these blood samples and was analyzed for the RHD gene. Results were later compared to the serological typing of the newborns after birth. “The sensitivity for the detection of fetal RHD was 99.9% (95% CI: 99.7-99.9%). Unnecessary recommendation of prenatal RhD prophylaxis was avoided in 97.3% of the [individuals] carrying an RhD-negative fetus. Fetuses that were seropositive for RhD were not detected in 11 pregnancies (0.087%)” (Clausen et al., 2014). This study shows high sensitivity of fetal RHD genotyping, results which were recently supported by another large-scale meta-analysis completed by Yang et al. (2019), focusing on NIPT testing for fetal RhD status. A total of 3921 results confirmed that “High-throughput NIPT is sufficiently accurate to detect fetal RhD status in RhD-negative [individuals] and would considerably reduce unnecessary treatment with routine anti-D immunoglobulin” (Yang et al., 2019).
Darlington et al. (2018) completed an analysis of 11 French Obstetric Departments with a total of 949 patients to determine the effectiveness of RhD genotyping. The patients were separated into two groups (genotyping group: n=515, and control group: n=335). The authors concluded that “Early knowledge of the RHD status of the fetus using non-invasive fetal RHD genotyping significantly improved the management of RHD negative pregnancies with a small increase in cost” (Darlington et al., 2018).
Runkel et al. (2020) completed a systematic review to determine the benefit of NIPT for fetal RhD status in RhD-negative pregnant individuals because “All non-sensitized Rhesus D (RhD)-negative pregnant [individuals] in Germany receive antenatal anti-D prophylaxis without knowledge of fetal RhD status.” The meta-analysis included data from 60,000 participants, with the focus of the research on the impact of fetal and maternal morbidity. The researchers concluded that “NIPT for fetal RhD status is equivalent to conventional serologic testing using the newborn’s blood. Studies investigating patient-relevant outcomes are still lacking” (Runkel et al., 2020).
Hoskovec et al. (2023) evaluated the “clinical performance of carrier screening for cystic fibrosis, hemoglobinopathies, and spinal muscular atrophy with reflex single-gene noninvasive prenatal screening (sgNIPS).” In the study, 9151 pregnant individuals were screened for carrier status. As a result, 1669 (18.2%) of the sampled individuals were found to carry one or more harmful genetic variations and were subsequently tested using sgNIPS. The results of sgNIPS were then compared to the outcomes of 201 pregnancies, which were obtained from surveys completed by parents or reports from healthcare providers. In conclusion, carrier screening using sgNIPS during pregnancy presents an alternative approach that circumvents the need for a paternal sample. It offers accurate assessment of fetal risk promptly, facilitating prenatal counseling and pregnancy management.
Westin et al. (2022) conducted a retrospective study which aimed to “validate the sgNIPT in clinical samples and identify high-risk SCD fetuses in a cohort of at-risk pregnancies.” This retrospective clinical investigation gathered 77 maternal blood samples from pregnant patients at either Baylor College of Medicine or the University of Alabama at Birmingham. These patients were identified as having at least one harmful HBB allele. The results of this study highlighted that sgNIPT screening promotes “efficient and accurate fetal risk assessment for SCD in pregnant patients” (Westin et al., 2022).
It is notable that the field continues to evolve, with potential shifts from one testing method to another in pursuit of optimality and comprehensiveness. A multicenter retrospective study of singleton high-risk pregnancies for chromosomal abnormalities was conducted by Zhu et al. (2020) to evaluate the utility of expanded noninvasive prenatal screening as compared with chromosomal microarray analysis (CMA). The analysis enrolled subjects who underwent expanded NIPS and CMA sequentially during pregnancy from 2015 through 2019. The study demonstrated that of the 943 high‐risk pregnancies, 550 (58.3%) cases had positive NIPS results, while positive CMA results were detected in 308 (32.7%) cases, and the agreement rates between NIPS and CMA were 82.3%, 59.6% and 25.0% for trisomy 21, 18 and 13, respectively. Regarding rare aneuploidies and segmental imbalances, NIPS and CMA results were concordant in 7.5% and 33.3% of cases. However, copy number variants were better detected with CMA than with NIPS and additional genetic aberrations were detected by CMA in one of 17 high-risk pregnancies that were otherwise passed over when processed with NIPS. The researchers contend that CMA should be offered for high‐risk pregnancies to provide comprehensive detection of chromosomal abnormalities in these pregnancies (Zhu et al., 2020).
This policy focuses on genetic testing performed during pre-conception and/or prenatal periods as part of a comprehensive prenatal care program.
In 2021, ACMG released an updated guideline for screening for autosomal recessive and X-linked conditions during pregnancy and preconception. Their practice resource reviews aim to recommend “a consistent and equitable approach for offering carrier screening to all individuals during pregnancy and preconception” and replaces any earlier ACMG position statements on prenatal/preconception expanded carrier screening and provide the following recommendations:
Table 1. Autosomal recessive genes for screening with carrier frequency ≥ 1/50.
OMIM gene | OMIM gene name | Maximum carrier frequencya | OMIM phenotype | Conditions |
---|---|---|---|---|
141900 | HBB | 0.119837 | 603903 613985 | Sickle cell anemia β-thalassemia |
613208 | XPC | 0.050885 | 278720 | Xeroderma pigmentosum |
606933 | TYR | 0.049337 | 203100 606952 | Oculocutaneous albinism type 1A and 1B |
613815 | CYP21A2 | 0.0048459 | 201910 | Congenital adrenal hyperplasia due to 21-hydroxylase deficiency |
612349 | PAH | 0.046068 | 261600 | Phenylketonuria |
602421 | CFTR | 0.040972 | 219700 | Cystic fibrosis |
600985 | TNXB | 0.035134 | 606408 | Ehlers-Danlos-like syndrome dye to tenascin-X deficiency |
606869 | HEXA | 0.033146 | 272800 | Tay-Sachs disease |
121011 | GJB2 | 0.026200 | 220290 | Nonsyndromic hearing loss recessive 1A |
601544 | Nonsyndromic hearing loss dominant 3A | |||
602858 | DHCR7 | 0.023709 | 270400 | Smith-Lemli-Opitz syndrome |
277900 | ATP7B | 0.021983 | 606882 | Wilson disease |
608034 | ASPA | 0.019856 | 271900 | Canavan disease |
607008 | ACADM | 0.016583 | 201450 | Medium-chain acyl-coenzyme A dehydrogenase deficiency |
602716 | NHPS1 | 0.015994 | 256300 | Finnish congenital nephrotic syndrome |
601785 | PMM2 | 0.015877 | 212065 | Carbohydrate-deficient glycoprotein syndrome type 1A |
607440 | FKTN | 0.015660 | 611615 | Cardiomyopathy, dilated, 1X |
253800 | Walker-Warburg congenital muscular dystrophy | |||
605646 | SCL26A4 | 0.015422 | 600791 | Deafness autosomal recessive 4 |
274600 | Pendred Syndrome | |||
126340 | ERCC2 | 0.015255 | 610756 | Cerebrooculofacioskeletal syndrome 2 |
601675 | Trichothiodystrophy 1, photosensitive | |||
603297 | DYNC2H1 | 0.014817 | 613091 | Short-rib thoracic dysplasia 3 with or without polydactyly |
OMIM Online Mendelian Inheritance in Man55
aValues round to ≥ 0.02 (two decimal places).
Table 2. Autosomal recessive genes for screening with carrier frequency < 1/50 to ≥ 1/100.
OMIM gene | OMIM gene name | Maximum carrier frequencya | OMIM phenotype | Conditions |
---|---|---|---|---|
610142 | CEP290 | 0.014422 | 610188 | Joubert syndrome 5 |
611755 | Leber congenital amaurosis 10 | |||
607839 | GBE1 | 0.013799 | 232500 | Glycogen storage disease, type IV |
263570 | GBE1-related disorders | |||
606800 | GAA | 0.013565 | 232300 | Glycogen storage disease, type II (Pompe disease) |
100725 | CHRNE | 0.013526 | 100725 | Myasthenic syndrome, congenital, 4A, slow-channel Myasthenic syndrome, congenital, 4B, fast-channel |
613742 | G6PC | 0.013401 | 232200 | Glycogen storage disease type 1A |
611409 | OCA2 | 0.013113 | 203200 | Oculocutaneous albinism brown and type II |
120120 | COL7A1 | 0.012995 | 226600 | Recessive dystrophic epidermolysis bullosa |
600509 | ABCC8 | 0.012242 | 618857 | Diabetes mellitus, permanent neonatal 3 |
612724 | ALDOB | 0.012119 | 229600 | Hereditary fructosuria |
613899 | FANCC | 0.011992 | 227645 | Fanconi anemia, complementation group C |
604597 | GRIP1 | 0.01989 | 617667 | Fraser syndrome |
248611 | BCKDHB | 0.011760 | 245600 | Maple syrup urine disease |
613726 | ANO10 | 0.010781 | 613728 | Spinocerebellar ataxia 10 |
104170 | NAGA | 0.010637 | 609241 | Schindler disease, type 1 Schindler disease, type 3 |
607608 | SMPD1 | 0.0102259 | 257200 | Niemann-Pick disease, type A |
607616 | Niemann-Pick disease, type B | |||
608400 | USH2A | 0.010203 | 276901 | Usher syndrome, type 2A |
609058 | MMUT | 0.009999 | 251000 | Methylmalonic aciduria-methylmalonyl-CoA mutase deficiency |
600650 | CPT2 | 0.009742 | 600649 | Carnitine palmitoyltransferase II deficiency, infantile |
608836 | Carnitine palmitotltransferase II deficiency, lethal neonatal | |||
608894 | AHI1 | 0.009740 | 608629 | Joubert syndrome 3 |
OMIM Online Mendelian Inheritance in Man55
aAfter rounding values are < 0.02 and ≥ 0.01 (two decimal places).
Table 3. Autosomal recessive genes for screening with carrier frequency < 1/100 to ≥ 1/150.
OMIM gene | OMIM gene name | Maximum carrier Frequencya | OMIM phenotype | Conditions |
---|---|---|---|---|
608172 | DHDDS | 0.009340 | 613861 | Congenital disorder of glycosylatin type 1 Retinitis pigmentosa 59 |
606152 | SLC19A3 | 0.009163 | 607483 | Basal ganglia disease, biotin-responsive |
606999 | GALT | 0.009132 | 230400 | Galactosemia |
118485 | CYP11A1 | 0.008771 | 613743 | Adrenal insufficiency, congenital, with 46, XY sex reversal, partial or complete |
190000 | TF | 0.008615 | 209300 | Atransferrinemia |
609831 | MMACHC | 0.008610 | 277400 | Methylmalonic aciduria with homocystinuria cblC type |
601615 | ABCA3 | 0.008587 | 610921 | Surfactant metabolism dysfunction, pulmonary 3 |
606463 | GBA | 0.008572 | 230800 | Gaucher disease, type I |
230900 | Gaucher disease, type II | |||
605248 | MCOLN1 | 0.0085531 | 252650 | Mucolipidosis type IV |
607840 | GNPTAB | 0.008454 | 252500 | Mucolipidosis type II alpha/beta |
252600 | Mucolipidosis type III alpha/beta | |||
613228 | AGA | 0.008364 | 208400 | Aspartylglucosaminuria |
605514 | PCDH15 | 0.008330 | 609533 602083 | Deafness, autosomal recessive 23 |
Usher syndrome, type 1F | ||||
613871 | FAH | 0.007716 | 27600 | Tyrosinemia type I |
607358 | AIRE | 0.007664 | 240300 | Autoimmune polyendocrinopathy syndrome type I |
606151 | BBS2 | 0.007501 | 615981 | Bardet-Biedl syndrome 2 |
616562 | Retinitis pigmentosa 74 | |||
606530 | CYP27A1 | 0.007399 | 213700 | Cerebrotendinous hydrocephalus 1 |
611204 | CCDC88C | 0.007282 | 236600 | Congenital hydrocephalus 1 |
136132 | FMO3 | 0.007190 | 602079 | Trimethylaminuria |
613277 | TIMEM216 | 0.007107 | 608091 | Joubert syndrome 2 |
603194 | Meckel syndrome 2 | |||
605080 | CNGB3 | 0.006849 | 262300 | Achromatopsia 3 |
607117 | MCPH1 | 0.006822 | 651200 | Primary microcephaly 1, recessive |
602671 | SLC37A4 | 0.006748 | 232220 | Glycogen storage disease Ib |
232240 | Glycogen storage disease Ic | |||
170280 | PRF1 | 0.006734 | 603553 | Hemophagocytic lymphohistiocytosis, familial, 2 |
604272 | SCO2 | 0.006671 | 604377 | Mitochondrial complex IV deficiency, nuclear type 2 |
604285 | AGXT | 0.006648 | 259900 | Hyperoxaluria, primary type I |
OMIM Online Mendelian Inheritance in Man55
aAfter rounding values < 0.01 and ≥ 0.007 (two decimal places).
Table 4. Autosomal recessive genes for screening with carrier frequency < 1/150 to ≥ 1/200.
OMIM gene | OMIM gene name | Maximum carrier frequencya | OMIM phenotype | Conditions |
---|---|---|---|---|
609575 | ACADVL | 0.006419 | 201475 | Very long chain acyl-CoA dehydrogenase deficiency |
608310 | ASL | 0.006190 | 207900 | Argininosuccinate aciduria |
607261 | EVC2 | 0.006083 | 225500 | Chondroectodermal dysplasia |
607574 | ARSA | 0.005986 | 250100 | Metachromatic leukodystrophy |
251170 | MVK | 0.005966 | 260920 | Hyper-IgD syndrome |
610377 | Mevalonic aciduria | |||
606702 | PKHD1 | 0.005960 | 263200 | Autosomal recessive polycystic kidney disease |
609019 | BTD | 0.005953 | 253260 | Biotinidase deficiency |
171760 | ALPL | 0.005719 | 146300 | Hypophosphatasia, adult |
241510 | Hypophosphatasia, childhood and infantile | |||
209901 | BBS1 | 0.005713 | 209900 | Bardet-Biedl syndrome 1 |
118425 | CLCN1 | 0.005688 | 255700 | Congenital myotonia, autosomal recessive form |
609506 | CYP27B1 | 0.005512 | 264700 | Vitamin D-dependent rickets, type 1 |
174763 | POLG | 0.005330 | 203700 | Mitochondrial DNA depletion syndrome 4A |
613662 | Mitochondrial DNA depletion syndrome 4B | |||
609014 | MCCC2 | 0.005184 | 210210 | 3-methylcrotonyl CoA carboxylase 2 deficiency |
605908 | MLC1 | 0.005058 | 604004 | Megalencephalic leukoencephalopathy with subcortial cysts |
607809 | ACAT1 | 0.005000 | 203750 | α-Methylacetoacetic aciduria |
612013 | CC2D2A | 0.004969 | 612285 | Joubert syndrome 9 |
612284 | Meckel syndrome 6 | |||
606718 | SLC26A2 | 0.004715 | 226900 | Epiphyseal dysplasia, multiple, 4 |
600972 | Achondrogenesis Ib | |||
236200 | CBS | 0.004676 | 236200 | Homocystinuria, B6 responsive and nonresponsive |
600073 | LRP2 | 0.004676 | 222448 | Donnai-Barrow syndrome |
252800 | IDUA | 0.004675 | 607014 | Mucopolysaccharidosis, Ih (Hurler S) |
607015 | Mucopolysaccharidosis, Ih/s (Hurler-Scheie S) | |||
606596 | FKRP | 0.004668 | 613153 | Muscular dystrophy-dystroglycanopathy, type A, 5 |
606612 | Muscular dystrophy-dystroglycanopathy, type B, 5 | |||
610326 | RNASEH2B | 0.004609 | 610181 | Aicardi Goutieres syndrome 2 |
611524 | RARS2 | 0.004592 | 611523 | Pontocerebellar hypoplasia type 6 |
OMIM Online Mendelian Inheritance in Man.55
aAfter rounding values are < 0.007 and ≥ 0.005 (two decimal places).
Table 5. Genes that were ascertained for screening outside of the gnomAD criteriaa
OMIM gene | OMIM gene name | Published carrier frequencyb | Rationale for inclusion | Ethnic group | OMIM phenotype | Conditions |
---|---|---|---|---|---|---|
141800 | HBA1 | Uc | Carrier frequency | SEA and others | 604131 | α-Thalassemia |
141850 | HBA2 | Uc | Carrier frequency | SEA and others | 604131 | α-Thalassemia |
600354 | SMN1 | 1/6018 | ACOG/ACMG and carrier frequency | US panethnic | 253300 | |
253550 | Spinal muscular | |||||
253400 | atrophy types: I, II, III, IV | |||||
271150 | ||||||
604982 | HPS1 | 1/5956-58 | Carrier frequency | PR | 203300 | Hermansky Pudlak S. 1 |
606118 | HPS3 | 1/5956 | Carrier frequency | PR | 614072 | Hermansky Pudlak S. 3 |
603722 | ELP1 | 1/3259 | ACOG/ACMG and carrier frequency | AJ | 223900 | Familial dysautonomia |
606829 | FXN | 1/60-1/10060 | Carrier frequency | Caucasiansd | 229300 | Friedreich ataxia |
238331 | DLD | ~1/10059,61 | Carrier frequency | AJ | 246900 | Dihydrolipoamide dehydrogenase deficiency |
161650 | NEB | 1/16859 | Carrier frequency | AJ | 256030 | Nemaline myopathy 2 |
606397 | CLRN1 | 1/12059 | Carrier frequency | AJ | 276902 | Usher syndrome 3a |
604610 | BLM | 1/10059 | ACMG and carrier frequency | AJ | 210900 | Bloom syndrome |
ACMG American College of Medical Genetics and Genomics, ACOG American College of Obstetricians and Gynecologists, AJ Ashkenazi Jewish (≥2% of the US population), OMIM Online Mendelian Inheritance in Man,55 PR Puerto Rican, SEA South East Asian.
aCarrier frequency of a sequence variant is < 1/200, if reported in gnomAD.50
bDiagnostic laboratory data was not used for carrier frequency data.
cSpecific data for general US population not available; however, recognized as common among many US immigrant populations.62
dThis term is no longer used by the journal but is used in the original article to which these studies refer. We have therefore not changed the term but recognize it does not accurately describe the ancestry of the populations originally studied.46
Table 6. X-linked genes recommended for carrier screening.
OMIM gene | OMIM gene name | OMIM phenotype | Phenotype |
---|---|---|---|
300371 | ABCD1 | 300100 | Adrenoleukodystrophy (ALD) |
300806 | AFF2 | 309548 | Mental retardation, X-linked, associated with fragile site FRAXE |
300382 | ARX | 308350 | Developmental and epileptic encephalopathy 1 (DEE1) |
300377 | DMD | 300376 | Muscular dystrophy, becker type (BMD) |
310200 | Muscular dystrophy, Duchenne type (DMD) | ||
306700 | F8 | 300841 | Hemophilia A (HEMA) |
300746 | F9 | 306900 | Hemophilia B (HEMB) |
309550 | FMR1 | 300624 | Fragile X syndrome (FXS) |
300644 | GLA | 301500 | Fabry disease |
308840 | L1CAM | 307000 | Hydrocephalus due to congenital stenosis of aqueduct of Sylvius (HSAS) |
300552 | MID1 | 300000 | Opitz GBBB syndrome, type I (GBBB1) |
300473 | NR0B1 | 300200 | Adrenal hypoplasia, congenital (AHC) |
300461 | OTC | 311250 | Ornithine transcarbamylase deficiency |
300401 | PLP1 | 312920 | Spastic paraplegia 2, X-linked (SPG2) |
312610 | RPGR | 300029 | Retinitis pigmentosa 3 (RP3; RP) |
300455 | Retinitis pigmentosa, X-linked, and sinorespiratory | ||
300834 | Infections, with or without deafness | ||
Macular degeneration, X-linked atrophic | |||
300839 | RS1 | 312700 | Retinoschisis 1, X-linked, juvenile (RS1) |
300036 | SLC6A8 | 300352 | Cerebral creatine deficiency syndrome 1 (CCDS1) |
OMIM Online Mendelian Inheritance in Man.55
Tables 1-6 from (Gregg et al., 2021)
In 2020, the ACMG provided a technical standard for CFTR variant testing. These standards state the following as it pertains to pregnancy:
“During pregnancy, simultaneous testing may be desired depending on gestational age, family and personal history, ethnicity, or patient preferences. Carrier testing may be offered to individuals with a positive family history of CF, in partners of individuals with a positive family history, in partners of CAVD males, to reproductive age women, and to gamete donors. CFTR variant testing can also be performed for prenatal diagnosis using cells obtained for diagnostic cytogenetic testing (i.e., amniocentesis or chorionic villus sampling [CVS])” (Deignan et al., 2020).
“As a way to ensure that CFTR variant testing for carrier screening and diagnostic testing purposes remains inclusive, the ACMG recommends either a classification-based reporting approach or a classification-based (targeted) testing approach (which has historically been used for CFTR carrier screening). For those laboratories who wish to continue using a targeted testing approach, the ACMG-23 variant panel remains as the minimum list of CFTR variants that should be included. Laboratories may want to consider adding additional variants to their panel depending on the ethnic composition of their expected test population. However, the minimum list of CFTR variants recommended for pan-ethnic carrier screening has not been increased at this time” (Deignan et al., 2020).
In 2023, the ACMG provided updated recommendations for CFTR carrier screening which includes a new minimum CFTR variant set (increased from 23 to 100 variants). The updated ACMG position statement states the following:
“This new set now supersedes the previous set of 23 CFTR variants recommended by the ACMG. These revised recommendations apply only to carrier screening. They do not apply to CFTR variant testing for diagnosis or newborn screening. All other aspects of the updated 2020 ACMG CFTR technical standards still apply” (Deignan et al., 2020; Deignan et al., 2023).
ACOG has several practice guidelines related to prenatal care as well as both pre-conception and prenatal testing. ACOG recommendations and guidelines include the following:
Genetic Testing and Genetic Counseling: Concerning genetic testing and genetic counseling, ACOG recommends:
Prenatal Diagnostic Testing for Genetic Disorders: Concerning prenatal diagnostic testing for genetic disorders, ACOG has published the following recommendations:
Prevention of Rh D Alloimmunization: Concerning the prevention of Rh D alloimmunization, ACOG has published the guidelines supporting the administration of anti-D immune globulin to individuals in various scenarios. However, these guidelines do not mention the use of cell-free fetal DNA for fetal RHD testing to determine if anti-D immune globulin is needed (ACOG, 2017c).
Genetic Carrier Screening: Concerning genetic carrier screening, including testing for specific conditions, ACOG recommends [(ACOG, 2017a, 2017b) reaffirmed 2023]:
Carrier Screening in the Age of Genomic Medicine: Concerning carrier screening in the age of genomic medicine, the ACOG has published the following guidelines (ACOG, 2017a):
The ISPD, SMFM and PQF published the following guidelines on the use of genome-wide sequencing for fetal diagnosis:
In addition to the joint position statement released in 2018, the IPSD released a guideline in 2020 on the use of cfDNA screening for trisomies in multiple pregnancies:
The following recommendations were given by the CAP TMRC Work Group:
The FDA has approved many tests for conditions that can be included in a prenatal screening, such as HSV, chlamydia, gonorrhea, syphilis, and diabetes. Additionally, many labs have developed specific tests that they must validate and perform in house. These laboratory-developed tests (LDTs) are regulated by the Centers for Medicare and Medicaid (CMS) as high-complexity tests under the Clinical Laboratory Improvement Amendments of 1988 (CLIA ’88). LDTs are not approved or cleared by the U. S. Food and Drug Administration; however, FDA clearance or approval is not currently required for clinical use.
This policy may apply to the following codes. Inclusion of a code in this section does not guarantee that it will be reimbursed. For further information on reimbursement guidelines, please see Administrative Policies on the Blue Cross Blue Shield of North Carolina web site at www.bcbsnc.com. They are listed in the Category Search on the Medical Policy search page.
Applicable service codes: 81171, 81172, 81200, 81209, 81241, 81242, 81243, 81244, 81251, 81255, 81257,81260, 81290, 81329, 81330, 81400, 81401, 81403, 81404, 81405, 81406, 81412, 81443, 81479, 81599, S3845, S3846, S3849, 0400U, 0449U, 0488U, 0489U, 0494U, and 0536U
BCBSNC may request medical records for determination of medical necessity. When medical records are requested, letters of support and/or explanation are often useful, but are not sufficient documentation unless all specific information needed to make a medical necessity determination is included.
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ACOG. (2016b). Prenatal Diagnostic Testing for Genetic Disorders. https://s3.amazonaws.com/cdn.smfm.org/publications/223/download-f5260f3bc6686c15e4780f8100c74448.pdf
ACOG. (2017a). Committee Opinion No. 690: Carrier Screening in the Age of Genomic Medicine. Obstet Gynecol, 129(3), e35-e40. https://doi.org/10.1097/aog.0000000000001951
ACOG. (2017b). Committee Opinion No. 691: Carrier Screening for Genetic Conditions. Obstet Gynecol, 129(3), e41-e55. https://doi.org/10.1097/aog.0000000000001952
ACOG. (2017c). Practice Bulletin No. 181: Prevention of Rh D Alloimmunization. https://journals.lww.com/greenjournal/fulltext/2017/08000/Practice_Bulletin_No__181__Prevention_of_Rh_D.54.aspx
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ACOG. (2021). Consumer Testing for Disease Risk: ACOG Committee Opinion, Number 816. Obstet Gynecol, 137(1), e1-e6. https://doi.org/10.1097/AOG.0000000000004200
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Dondorp, W., de Wert, G., Bombard, Y., Bianchi, D. W., Bergmann, C., Borry, P., Chitty, L. S., Fellmann, F., Forzano, F., Hall, A., Henneman, L., Howard, H. C., Lucassen, A., Ormond, K., Peterlin, B., Radojkovic, D., Rogowski, W., Soller, M., Tibben, A., . . . American Society of Human, G. (2015). Non-invasive prenatal testing for aneuploidy and beyond: challenges of responsible innovation in prenatal screening. European journal of human genetics : EJHG, 23(11), 1438-1450. https://doi.org/10.1038/ejhg.2015.57
Finning, K., Martin, P., Summers, J., Massey, E., Poole, G., & Daniels, G. (2008). Effect of high throughput RHD typing of fetal DNA in maternal plasma on use of anti-RhD immunoglobulin in RhD negative pregnant women: prospective feasibility study. Bmj, 336(7648), 816-818. https://doi.org/10.1136/bmj.39518.463206.25
Gil, M. M., Akolekar, R., Quezada, M. S., Bregant, B., & Nicolaides, K. H. (2014). Analysis of cell-free DNA in maternal blood in screening for aneuploidies: meta-analysis. Fetal Diagn Ther, 35(3), 156-173. https://doi.org/10.1159/000358326
Grant, A., & Mohide, P. (1982). Screening and diagnostic tests in antenatal care. Effectiveness and satisfaction in antenatal care, 22-59. https://books.google.com/books?hl=en&lr=&id=fVH-JYbe2isC&oi=fnd&pg=PA22&dq=screening+versus+diagnostic+tests&ots=WXVxt6ALwT&sig=DUy8K33sGYU72yPEjPHIyTT3ppA#v=onepage&q=screening%20versus%20diagnostic%20tests&f=false
Gregg, A. R., Aarabi, M., Klugman, S., Leach, N. T., Bashford, M. T., Goldwaser, T., Chen, E., Sparks, T. N., Reddi, H. V., Rajkovic, A., Dungan, J. S., Practice, A. P., & Guidelines, C. (2021). Screening for autosomal recessive and X-linked conditions during pregnancy and preconception: a practice resource of the American College of Medical Genetics and Genomics (ACMG). Genet Med, 23(10), 1793-1806. https://doi.org/10.1038/s41436-021-01203-z
Hoskovec, J., Hardisty, E. E., Talati, A. N., Carozza, J. A., Wynn, J., Riku, S., Ten Bosch, J. R., & Vora, N. L. (2023). Maternal carrier screening with single-gene NIPS provides accurate fetal risk assessments for recessive conditions. Genetics in Medicine, 25(2), 100334. https://doi.org/10.1016/j.gim.2022.10.014
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Medical Director review 7/2022
Medical Director review 7/2023
Medical Director review 7/2024
9/13/22 New policy developed. BCBSNC will provide coverage for Prenatal Screening (genetic) when the medical criteria and guidelines outlined in the policy are met. Medical Director review 7/2022. Notification give 9/13/2022 for effective date 10/18/2022. (tt)
11/1/22 Policy title updated to include “AHS-M2179” to align with Avalon. (tt)
6/30/23 Added CPT code 0400U to Billing/Coding section, effective 7/1/2023. (tt)
8/15/23 Reviewed with Avalon Q2 CAB 2023. Updated description, policy guidelines, and references. Coverage of carrier screening expanded to include all of Tier 1/2/3 screening as recommended by ACMG. Medical Director review 7/2023. (tt)
9/4/24 Reviewed with Avalon Q2 CAB 2024. Updated description, related policies, policy guidelines, and references. When covered #3 updated for clarification that screening in the reproductive partner is restricted to the genes for which their partner tested positive by carrier screening, not broad screening for themselves. When covered #5 updated for clarification that fetal testing must be a form of testing, not a form of screening (e.g., cfDNA screening), from an amnio or CVS sample. Added “Note 2: For 2 or more gene tests being run on the same platform, please refer to AHS-R2162 Reimbursement Policy” under when covered section. Added the following statement to when not covered: “Reimbursement is not allowed for the use of non-invasive prenatal screening (NIPS) to screen for single-gene mutations (i.e., autosomal recessive, autosomal dominant, X-linked) in the fetus." Added 0449U, 81479, 81599 to Billing/Coding section. Medical Director review 7/2024. Notification given 9/4/2024 for effective date 11/13/2024. (tt)
12/17/24 Added PLA codes 0488U, 0489U, and 0494U to Billing/Coding section. (tt)
4/1/25 Updated Billing/Coding section to add 0536U, effective 4/1/2025. (tt)