| Literature DB >> 29606906 |
Ahmed B Hamid Al-Rikabi1, Sona Pekova2, Xioabo Fan1, Tereza Jančušková2, Thomas Liehr1.
Abstract
BACKGROUND: Cytogenetically visible chromosomal imbalances in humans are deleterious and adverse in the majority of the cases. However, healthy persons living with chromosomal imbalances in the range of several megabasepairs (Mbps) in size, like carriers of small Supernumerary Marker Chromosomes (sSMCs) exist. MATERIALS &Entities:
Keywords: Discontinuous sSMCs; Dosage insensitive genomic regions; Euchromatic centromere-near imbalances; Molecular cytogenetics; Pericentromeric-critical Region Fluorescence In Situ Hybridization (PeCR-FISH); Small Supernumerary Marker Chromosomes (sSMCs)
Year: 2018 PMID: 29606906 PMCID: PMC5850507 DOI: 10.2174/1389202918666170717163830
Source DB: PubMed Journal: Curr Genomics ISSN: 1389-2029 Impact factor: 2.236
Fig. (1)A) Schematic depiction of metacentric / submetacentric and acrocentric chromosomes shows the principle of CR-FISH probe set for each of these chromosomes. The locus-specific probes (BAC clones) covered the pericentric region in specific for uncritical / critical regions of the chromosome in distance between each other ~1Mbps and labeled with five different fluorochromes (SG/TR/DEAC/SO/Biotin-Cy.5), in addition to centromeric probe labeled with dual-color (DEAC and Biotin-Cy.5).43 probe set was established to be specific for p- and q- chromosome arms. B) PeCR-FISH set 7p used to characterize the sSMC of case 3, revealing that the breakpoint is distal from probe 7p5 (for probe specification, see Table S1). C) Application of PeCR-FISH set 8q showed that the breakpoint in the sSMC(8) of case 5 is distal from 8p1 and proximal of probe 8p2 (for probe specification see Table S1). D) The same probe set as used in Fig. 1C applied in case 6 revealed a discontinuous structure of one of the two sSMC(8) present here (for probe specification see Table S1).
Dosage-insensitive pericentric regions in human acc. to [11]. UCSC / hg18 genome browser.
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| 1 | 115.30 | 115.80 | 121.10 - 142.40 | n.a. | n.a. |
| 2 | 80.70 | 85.62 | 91.00 - 95.70 | 101.58 | 103.47 |
| 3 | n.a. | 74.67 | 89.40 - 93.20 | 104.78 | n.a. |
| 4 | 39.80 | 44.03 | 48.70 - 52.40 | 62.63 | n.a. |
| 5 | 30.64 | 37.21 | 45.80 - 50.50 | 55.27 | 61.21 |
| 6 | n.a. | 57.35 | 58.40 - 63.40 | 66.40 | 65.20 |
| 7 | 55.42 | 56.45 | 57.40 - 61.10 | 67.00 | 74.00 |
| 8 | 40.35 | 42.50 | 43.20 - 48.10 | 61.33 | n.a. |
| 9 | 37.88 | 42.96 | 46.70 - 70.00 | 70.50 | n.a. |
| 10 | 34.46 | 34.75 | 38.80 - 42.10 | 43.82 | n.a. |
| 11 | 50.47 | 50.95 | 51.40 - 56.40 | 60.23 | 65.02 |
| 12 | n.a. | 28.47 | 33.20 - 36.50 | 39.90 | 40.20 |
| 13 | - | - | 0 - 18.40 | 19.31 | 22.29 |
| 14 | - | - | 0 - 19.10 | 20.24 | 20.17 |
| 15 | - | - | 0 - 18.40 | 21.18 | 22.80 |
| 16 | n.a. | 28.86 | 34.40 - 45.50 | 46.02 | 46.16 |
| 17 | 17.75 | 18.68 | 22.10 - 23.20 | 23.32 | 24.75 |
| 18 | 12.59 | 12.80 | 15.40 - 17.30 | 18.12 | 19.34 |
| 19 | n.a. | 17.50 | 26.70 - 30.20 | 43.88 | n.a. |
| 20 | n.a. | 22.83 | 25.70 - 28.40 | 29.93 | 30.12 |
| 21 | - | - | 0 - 13.20 | 16.90 | 18.10 |
| 22 | - | - | 0 - 16.30 | 16.37 | 17.00 |
| X | 50.90 | n.a. | 56.60 - 65.10 | n.a. | n.a. |
| Y | n.a. | n.a. | 11.20 - 12.50 | n.a. | n.a. |
List of clinical manifestations of sSMC carriers; the clinical details are documented in [11].
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| 1 | 01-W-p11.1/3-1 | M | 47,XY,+r[3]/ | Cardiac anomalies and horseshoe kidney. | |||||
| 2 | 07-U-14 | F | 47,XX,+r[53]/ | Pre- and postnatal growth-retardation, macrocephalus, macro cornea and Silver- Russell Syndrome (SRS) | |||||
| 3 | 07-W-p11.2/1-2 | F | 47,XX,+mar[ | Statomotoric retardation, developmental delay and OFC at 75th centile. | |||||
| 4 | 08-W-p11.21~11.22/1-1 | F | 47,XX,+mar[ | Autism; Physically normal to somewhat late on most milestones, lost some cognitive skills, little language acquisition. Vineland Adaptive Behavior Scales, physically normal and full puberty | |||||
| 5 | 08-U-6 | F | 47,XX,+mar[ | Advanced maternal age and no further information available | |||||
| 6 | mult 3-5 | M | 48,XY,+2mar[ | Pierre-Robin-sequence, ventricular septum defect, patent foramen ovale, cryptochism, flaccid joints, gothic palate, umbilical hernia, at birth urinary tract infection | |||||
| 7 | 20-W-p11.22/1-2 | F | 47,XX,+mar[ | Hypochondroplasia, Breathing through mouth, speech is slurred, and poor in vocabulary. Macrocephaly, slightly reclined neck, short long bones, strong suborbital skin fold and flat nasal root. | |||||
| 8 | 20-W-p11.1/1-1 | F | 47,XX,+mar[ | Retardation in speech development, weak ear dysmorphism and slight clinodactyly of 5th finger. | |||||
| 9 | 21-O-q11.2/2-1 | M | 47,XY,+mar[149]/ | Advanced maternal age, normal development and no dysmorphic signs. | |||||
| 10 | 22-Wces-5-93 | F | 47,XX,+mar[48]/ | na. | Cat-eye syndrome (CES) | ||||
| 11 | 22-O-q11.21/2-1 | M | 47,XY,+mar[ | Maternal | Normal | ||||
| 12 | 22-W-q12.1/1-1 | M | 47,XY,+mar[41]/ | Morbus Hirschsprung, muscular hypotonia and statomotoric retardation, macrocephaly, head circumference, adipositas, antimongoloid palpebral fissures, long philtrum and deep sitting ears. | |||||
| 13 | f-iY-q11.21/1-1 | F | 45,X[ | n.a. | Short stature | ||||
| 14 | m-iY-q11.22/1-3 | M | 45,X[ | Lack of puberty, (develop) mental retardation and short stature | |||||
| 15 | m-rY-p11.32/5-1 | M | 45,X[ | n.a. | Developmental delay and mental retardation | ||||
Summarizing of CR-FISH probe set results of 15 sSMC, specific probe set used for p- or q-arm according to the sSMC origin, molecular cytogenetic characterization and aCGH used from previous available data; the breakpoints positions are identified according to NCBI 36 / hg18 genome browser.
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| 1 | 1p | 105.98-188.40 | - proximal of 1p1 = >115.66 | r(1)(::p11.1→q22::)/ | no | no |
| 2 | 7p | 45.07-64.85 | - distal from 7p1 = between 55.47 and 56.46 | min(7)(:p11.2→q11.1:) | no | no |
| 3 | 7p | 55.42-63.45 | - distal from 7p5 = <52.90 | min(7)(: | no | yes |
| 4 | 8p | 42.50-49.50 | - distal from 8p2 [25/27] = between 40.19 and 41.42 | r(8)(:: | no | yes |
| 5 | 8p | 42.50-48.37 | - distal from 8p2 = between 40.19 and 41.42 | min(8)(:p11.21→q11.21:)[ | no | yes |
| 6 | 4p | 47.26-52.72 | mar not present in cell line | r(4)(::p12→q12::) | n.a. | n.a. |
| 8p | 42.50-48.37 | - distal from 8p2 [6/20] = between 40.19 and 41.42 | yes | yes | ||
| 11p | 48.40-56.40 | mar not present in cellline | r(11)(::p11.12→q11.1::) | n.a. | n.a. | |
| 7 | 20p | 25.47-29.93 | - distal from 20p4 = between 19.75 and 20.71 | min(20)(: | no | no |
| 8 | 20p | 25.7-29.93 | - proximal of 20p1 = <23.60 | min(20)(:p11.1 | no | no |
| 9 | 21q | 0-14.85 | - proximal of 21q1 = <16.73 | inv dup(21)(q11.2) | no | no |
| 10 | 22q | 0-16.35 | - distal from 22q5 = >20.75 | inv dup(22)(q11.21) | no | no |
| 11 | 22q | 0-16.35 | - distal from 22q1 = between 16.35 and 17.10 | inv dup(22)(q11.21) | no | no |
| 12 | 22q | 0-24.60 | - distal from 22q5 = >20.75 | min(22)(pter→q12.1:) | no | no |
| 13 | Yp | 0-15.80 | - distal from Yp5 [ | idic(Y)( | yes | yes |
| 14 | Yp | 0-15.80 | - distal from Yp5 [ | inv dup(Y)(q11.221)[89]/ | yes | yes |
| 15 | Yp | 0-15.80 | - distal from Yp5 [10/22] = <7.23 | inv dup(Y)(q11.22 | yes | yes |
PeCR-FISH probe sets in to better characterization of breakpoints (12/15 cases) and mosaic status (5/15).
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| 13 | + | + | n.a. |
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| 15 | + | + | n.a. |