| Literature DB >> 35784294 |
Clara Franco-Jarava1,2,3, Irene Valenzuela4,5, Jacques G Riviere3,6,7, Marina Garcia-Prat3,6,7, Mónica Martínez-Gallo1,2,3, Romina Dieli-Crimi1,2,3, Neus Castells4,5, Laura Batlle-Masó3,6, Pere Soler-Palacin3,6,7, Roger Colobran1,2,3,4.
Abstract
Syndromic immunodeficiencies are a heterogeneous group of inborn errors of immunity that can affect the development of non-immune organs and systems. The genetic basis of these immunodeficiencies is highly diverse, ranging from monogenic defects to large chromosomal aberrations. Antibody deficiency is the most prevalent immunological abnormality in patients with syndromic immunodeficiencies caused by chromosomal rearrangements, and usually manifests as a common variable immunodeficiency (CVID)-like phenotype. Here we describe a patient with a complex phenotype, including neurodevelopmental delay, dysmorphic features, malformations, and CVID (hypogammaglobulinemia, reduced pre-switch and switch memory B cells, and impaired vaccine response). Microarray-based comparative genomic hybridization (aCGH) revealed a 13-Mb deletion on chromosome 4q22.2-q24 involving 53 genes, some of which were related to the developmental manifestations in our patient. Although initially none of the affected genes could be linked to his CVID phenotype, subsequent reanalysis identified NFKB1 haploinsufficiency as the cause. This study underscores the value of periodic reanalysis of unsolved genetic studies performed with high-throughput technologies (eg, next-generation sequencing and aCGH). This is important because of the ongoing incorporation of new data establishing the relationship between genes and diseases. In the present case, NFKB1 had not been associated with human disease at the time aCGH was performed. Eight years later, reanalysis of the genes included in the chromosome 4 deletion enabled us to identify NFKB1 haploinsufficiency as the genetic cause of our patient's CVID. In the future, other genes included in the deletion may be linked to human disease, allowing us to better define the molecular basis of our patient's complex clinical phenotype.Entities:
Keywords: chromosomal rearrangements; common variable immunodeficiency; nfkb1; primary immunodeficiencies; syndromic immunodeficiencies
Mesh:
Substances:
Year: 2022 PMID: 35784294 PMCID: PMC9247144 DOI: 10.3389/fimmu.2022.897975
Source DB: PubMed Journal: Front Immunol ISSN: 1664-3224 Impact factor: 8.786
Figure 1Timeline of the patient’s clinical history. Items are classified into signs and symptoms (blue), diagnoses (red), laboratory tests and imaging (purple), and treatments (green). The patient’s images are included with the explicit consent of the patient and his parents.
Immunological findings in a patient with a 13-Mb deletion (including the NFKB1 gene) in chromosome 4q22.2-q24.
| Immunological parameters | At CVID diagnosis (16 years old)* | Reference Values |
|---|---|---|
| ↓ | 700 - 1600 | |
| ↓ | 70 - 400 | |
| ↓ | 40 - 230 | |
| 0 - 117 | ||
| ↓ | 13 - 152 | |
| ↓ | 261 - 1081 | |
| ↓ | 112 - 408 | |
| 96 | 22 - 288 | |
| 5 | 4 - 86 | |
| ↓ | 1.1 - 2.6 (62–81) | |
| ↓ | 0.6 - 1.5 (31–53) | |
| ↓ | 0.3 - 1.0 (19-30) | |
| ↓ | 0.14 - 0.6 (6-21) | |
| 0.17 (22) | 0.15 - 0.7 (6-23) | |
| ↑ | 23 - 40 | |
| 14 | 14 - 27 | |
| 4.5 | 4 - 12 | |
| ↓ | 30 - 50 | |
| 31 | 22 - 41 | |
| ↑ | 0.7 - 5 | |
| ↓ | 14 - 38 | |
| 50 | 27 - 50 | |
| ↑ | 17 - 29 | |
| ↓ | 48 - 66 | |
| 12 | 7 - 17 | |
| 5 | 5 - 12 | |
| 0.8 | 0.8 - 4.3 | |
| ↑ | 48 - 72 | |
| 9 | 2 - 11 | |
| ↓ | >13 | |
| ↓ | 10 - 22 | |
*See case description and for previous and concomitant medications at the time of the study.
Arrows indicate values that are above or below the reference values.
Figure 2Molecular and functional studies. (A) Array CGH-based identification of the 13-Mb deletion in the 4q22.2-q24 chromosomal region. Patient DNA was labeled with cyanine 3 (Cy3, red dots) and control DNA with cyanine 5 (Cy5, blue dots). The image is reported as the ratio of Cy5 and Cy3 fluorescence intensity. The list of genes encompassed by this deletion is shown. Genes that are likely related to the patient’s non-immune clinical phenotype are in bold. The NFKB1 gene is highlighted in red. (B) NF-kB pathway evaluation by western blot. NFKB1 p105/p50 expression and activation were evaluated in PBMC-derived protein extracts from the patient and a healthy donor. For a better comparison between the healthy donor and patient, we quantified the p105 and p50 bands using the ImageJ software. The quantification reflects the relative amounts as a ratio of each protein band relative to the lane’s loading control (β-actin): p105 patient (0’: 0.24, 30’: 0.20, 60’: 0.22); p105 healthy donor (0’: 0.79, 30’: 0.76, 60’: 1.10). p50 patient (0’: 1.07, 30’: 1.12, 60’: 0.74); p50 healthy donor (0’: 1.39, 30’: 1.27, 60’: 1.41).
Clinical and molecular features of reported patients with chromosomal deletions overlapping the 4q22.2-q24 region.
| Terada et al, 2001 ( | Jacquemont et al, 2006 ( | Hilhorst-Hofstee et al, 2009 (patient 1) ( | Hilhorst-Hofstee et al, 2009 (patient 2) ( | Current study | |
|---|---|---|---|---|---|
| 4q21.22-q23 | 4q21.23-q23 | 4q22.1-q23 | 4q23-q25 | 4q22.2q24 | |
| n.a. | 17.3 Mb | 12 Mb | 8.1-9.7 Mb | 13.03 Mb | |
| No | No | No | Yes | Yes | |
| 4 months | 11 years | 3 years | 12 years | 25 years | |
| Male | Male | Male | Male | Male | |
| Intrauterine growth retardation | - | - | - | Intrauterine growth retardation | |
| Yes | - | - | - | Yes | |
| Frontal bossing, microretrognathia, preaxial polydactyly of the right foot | Two hair whorls, bilateral ptosis, microstomia | Hypotelorism, broad based nose, epicanthus, abnormally shaped head with prominent forehead, short adducted thumbs | Sparse hair, broad nasal tip, unilateral ear tag, narrow forehead | Facial dysmorphism, bilateral single palmar crease, syndactyly | |
| Yes | Yes | Yes | Yes | Yes | |
| Yes | Yes | Yes | Yes | Yes | |
| - | Yes | Yes | Yes | Yes | |
| Yes | - | Yes | - | Yes | |
| Yes (VSD, DAP) | Yes (ASD) | Yes (ASD, VSD, DAP) | - | - | |
| - | - | Yes (NG tube) | - | - | |
| Micropenis, hypospadias | - | - | - | Micropenis, hypospadias | |
| - | - | - | - | Yes | |
| Epilepsy (3 months) | Congenital hip dislocation | Cleft palate, Pierre Robin sequence | Sleeping problems and constipation. | Unilateral dysplastic kidney |
n.a., not available; the symbol “-” means No; VSD, ventricular septal defect; DAP, ductus arteriosus persistens; ASD, atrial septal defect; NG, nasogastric.