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A newborn (or fetus) with a structural cardiac anomaly: septal defect (ASD, VSD, AVSD), conotruncal lesion (tetralogy of Fallot, truncus arteriosus, interrupted aortic arch, transposition), left-sided obstructive lesion (HLHS, aortic stenosis, coarctation), right-sided obstructive lesion (pulmonary stenosis, atresia, Ebstein), or a laterality defect. CHD occurs in ~1% of live births. The clinical job is to decide whether this is isolated (multifactorial, ~70%) or syndromic (~30%), because syndromic CHD comes with extracardiac surveillance and reproductive counseling implications.
Three questions structure the work-up:
- What lesion? Each anatomic class has a characteristic short list of associated syndromes. The lesion is the highest-yield clue.
- Extracardiac features? Dysmorphic face, palatal anomaly, growth failure, hypocalcemia, hypotonia, polydactyly, radial ray anomaly, single umbilical artery, GU anomaly, cleft. Any one flips the work-up syndromic.
- Family history. Prior child with CHD, parent with repaired or unrepaired CHD, consanguinity, recurrent miscarriage. Recurrence risk in isolated CHD is ~2-3% (higher in left-sided lesions).
Conotruncal lesions (TOF, truncus, IAA-B, TGA)
- 22q11.2 deletion syndrome (the diagnosis you cannot miss): present in 15-20% of TOF, 30-50% of interrupted aortic arch type B, and most truncus arteriosus. Adds thymic hypoplasia + hypoparathyroidism (hypocalcemia in the newborn) + palatal anomalies (overt or submucous cleft, velopharyngeal insufficiency) + characteristic face + developmental delay + psychiatric risk later. Send FISH or microarray on every conotruncal lesion.
- CHARGE syndrome (CHD7): conotruncal and aortic arch anomalies in addition to the CHARGE features.
- Alagille: see below; can include TOF.
Left ventricular outflow obstruction (HLHS, AS, CoA, BAV)
- Turner syndrome (45,X): bicuspid aortic valve (30-50%) + coarctation + HLHS + aortopathy. Karyotype every female with a left-sided lesion, even without other Turner features.
- Familial LVOTO: strong familial clustering for BAV/CoA/HLHS in some families; first-degree relatives warrant screening echo.
Septal defects (ASD, VSD, AVSD)
- Down syndrome (trisomy 21): AVSD is the classic lesion; 40-50% of trisomy 21 has CHD, of which ~40% is AVSD. Any infant with AVSD gets a karyotype.
- Holt-Oram syndrome (TBX5, AD): ASD (secundum) or VSD + radial ray anomaly (absent or hypoplastic thumb, absent radius). The upper-limb finding is the diagnostic step before any genetic test.
- Williams syndrome (7q11.23 microdeletion, sporadic): supravalvular aortic stenosis (the lesion-defining association) + elfin facies + cocktail-party personality + infantile hypercalcemia + intellectual disability. FISH for 7q11.23 elastin region.
- Noonan syndrome and RASopathies (PTPN11, SOS1, RAF1, BRAF, others; AD): pulmonary valve stenosis with a dysplastic valve + hypertrophic cardiomyopathy + ASD. Short stature, downslanting palpebral fissures, low-set posteriorly rotated ears, webbed neck.
- Alagille syndrome (JAG1, NOTCH2; AD): peripheral pulmonic stenosis (most common cardiac feature) + cholestasis from bile duct paucity + butterfly vertebrae + posterior embryotoxon + characteristic facies.
Heterotaxy and laterality defects
- See the companion clinical-presentation leaf on heterotaxy. Asplenia (right isomerism) with complex CHD or polysplenia (left isomerism) with interrupted IVC; genes include ZIC3, NODAL, LEFTY2, CFC1, GDF1; primary ciliary dyskinesia often presents with situs inversus.
Mendelian lesion-specific genes (isolated CHD)
- NKX2-5 (ASD with AV block), GATA4 (ASD, VSD, TOF, AVSD), TBX5 (Holt-Oram), CITED2, NOTCH1 (left-sided lesions, BAV).
Aneuploidy
- Trisomy 21: AVSD.
- Trisomy 18 and 13: complex CHD (VSD, polyvalvar dysplasia, DORV).
- Truncus, IAA-B, or TOF → 22q11.2 deletion until proven otherwise. Microarray on every conotruncal lesion.
- AVSD → trisomy 21 until proven otherwise; karyotype.
- Supravalvular AS → Williams; FISH for 7q11.23.
- ASD + absent or hypoplastic thumb → Holt-Oram; exam alone is diagnostic.
- Coarctation in a female infant → Turner; karyotype.
- Peripheral pulmonic stenosis + cholestasis → Alagille; JAG1.
- Pulmonary valve stenosis with a dysplastic valve + short stature + facial features → Noonan or RASopathy.
- Echocardiogram to characterize the lesion, and detailed extracardiac exam: facies, palate, hands, growth parameters, abdominal exam for organomegaly or asymmetry, hearing screen.
- 22q11.2 FISH or chromosomal microarray on every conotruncal lesion (and any CHD with extracardiac features).
- Karyotype on every infant with AVSD (Down) and every female with a left-sided lesion (Turner).
- Chromosomal microarray as first-tier genetic test for CHD plus any other anomaly.
- Serum calcium in any conotruncal lesion (22q11.2 hypoparathyroidism).
- Abdominal ultrasound when laterality or heterotaxy is suspected.
- Phenotype-targeted gene panel or exome when CMA is normal but a syndrome is suspected (Noonan/RASopathy panel, Alagille, Holt-Oram).
- Cardiology follow-up + extracardiac surveillance plan based on syndromic diagnosis (renal US for Williams, ophthalmology for Alagille, developmental surveillance for 22q11.2, etc.).
- The lesion is the clue. AVSD → Down. Supravalvular AS → Williams. Truncus or IAA-B → 22q11.2. The phenotype is the syndrome shortcut.
- Microarray is first-tier in syndromic-looking CHD. Karyotype is the right call for AVSD (Down) and isolated suspected Turner; both detect aneuploidy.
- Watch the calcium in 22q11.2. Newborn hypocalcemia from hypoparathyroidism is easy to miss and easy to fix.
- Recurrence in isolated CHD is ~2-3% but skews higher for left-sided lesions. The pedigree informs counseling more than people assume.
- A normal karyotype does not exclude 22q11.2. Microdeletions are below karyotype resolution; FISH or CMA is the right test.