| Literature DB >> 35463902 |
Liqing Wang1,2, Jianwei Li3, Qiuhong Xiong1,2, Yong-An Zhou3, Ping Li1,2, Changxin Wu1,2.
Abstract
Background: Dyskeratosis congenita (DC) is a rare inheritable disorder characterized by bone marrow failure and mucocutaneous triad (reticular skin pigmentation, nail dystrophy, and oral leukoplakia). Dyskeratosis congenita 1 (DKC1) is responsible for 4.6% of the DC with an X-linked inheritance pattern. Almost 70 DKC1 variations causing DC have been reported in the Human Gene Mutation Database.Entities:
Keywords: DKC1; c.1156G > A; dyskeratosis congenita syndrome; missense mutation; p.Ala386Thr
Year: 2022 PMID: 35463902 PMCID: PMC9019361 DOI: 10.3389/fped.2022.834268
Source DB: PubMed Journal: Front Pediatr ISSN: 2296-2360 Impact factor: 3.418
FIGURE 1Clinical features of the proband and pedigree, sequencing analysis, and DKC1 mutation investigations. Pigmentation on the neck (A), mucosal leukoplakia on the tongue (B), finger nail ridging, toenail ridging, and longitudinal splitting (C–F) in the proband. (G) The pedigree of the family. The arrow indicates the proband. (H) Sequencing chromatograms show the proband with a hemizygous mutation DKC1 c.1156G > A, the proband’s mother with the same heterozygous mutation; the black arrow indicates the position of the nucleotide mutation. (I) A linear representation of the DKC1 protein shows the location of the N-terminal nuclear localization signals (NLS), DKCLD, TruB_N, and PUA domains. The black arrow shows the positions of the amino acid substitutions. (J) The mutant site (c.1156G > A) of DKC1 is highly conserved phylogenetically among the indicated species. (K) The mutant proteins were structured by the Swiss-Model online software and compared with the wild type. Ribbon representation of the human DKC1 and map of the studied variant localization obtained by homology modeling analysis. The wild-type and mutant monomers are shown in black; DKCLD, TruB_N, and PUA domains are shown in blue, orange, and green, respectively. Amino acid Ala386 is shown as red.
Bioinformatics prediction of a pathogenic variant.
| Mutation prediction | Prediction score values | |||
| Tool | Mutation Taster | SIFT | PolyPhen-2 | PROVEAN |
| c.1156G > A | D (0.99) | D (0.02) | B (0.122) | D (−3.121) |
Mutation Taster: D, disease causing; P, polymorphism.
SIFT: D, damaging; T, tolerated.
PolyPhen-2: D, probably damaging; P, possibly damaging; B, benign.
PROVEAN: D, deleterious; N, neutral.
Main clinical features of dyskeratosis congenita (DC) patients in the Human Gene Mutation Database (HGMD)/literature.
| Mutation on cDNA/protein | Ethnic origin | Gender | Age (years) | Mucocutaneous triad | Bone marrow failure | Anemia | Thrombocytopenia | Telomere shortening | Pulmonary fibrosis | References |
| 5C > T/A2V | Egyptian | Male | 40 | + | NT | NT | NT | NT | + | ( |
| 29C > T/P10L | - | - | - | + | + | NT | NT | NT | NT | ( |
| 91C > A/Q31K | Japan | Male | 11 | + | NT | NT | + | NT | NT | ( |
| 91C > G/Q31E | United States | Male | 33 | + | + | NT | NT | + | NT | ( |
| 106T > G/F36Y | Belgian | Male | 30 | + | NT | NT | + | NT | + | ( |
| 113T > C/I38T | Italy | Male | 0.75 | + | + | + | NT | NT | NT | ( |
| 114C > G/I38M | United Kingdom | - | - | + | + | NT | NT | NT | NT | ( |
| 115A > G/K39E | United Kingdom | Male | - | - | - | - | - | - | - | ( |
| 119C > G/P40R | United Kingdom | Male | 14 | + | NT | NT | NT | - | - | ( |
| 121G > A/E41K | Turkey | Male | - | - | - | - | - | - | - | ( |
| 127A > G/K43E | Germany | - | - | - | - | - | - | - | - | ( |
| 146C > T/T49M | United Kingdom | Male | 3 | NT | NT | NT | NT | NT | NT | ( |
| 2.6 | NT | NT | NT | NT | NT | NT | ( | |||
| 5 | + | NT | NT | NT | NT | NT | ( | |||
| 145A > T/T49S | United States | Male | 49 | NT | + | + | + | + | + | ( |
| Female | 25 | NT | NT | NT | NT | NT | NT | ( | ||
| 160C > G/L54V | United States | Female | 65 | + | NT | + | NT | NT | NT | ( |
| Female | 65 | + | NT | NT | NT | NT | NT | ( | ||
| Male | 45 | + | + | NT | NT | + | NT | ( | ||
| 166_167invCT/L56S | Russian | Male | 14 | + | NT | + | + | NT | NT | ( |
| 189T > G/N63K | Canada | Male | 24 | + | + | + | + | + | + | ( |
| 194G > A/R65K | Japan | Male | 46 | + | + | NT | NT | + | + | ( |
| 194G > C/R65T | Germany | - | - | - | - | - | - | - | - | ( |
| 198A > G/T66A | United States | - | - | - | - | - | - | - | - | ( |
| 200C > T/T67I | - | - | - | + | + | NT | NT | NT | NT | ( |
| 204C > A/H68Q | - | - | - | + | + | NT | NT | NT | NT | ( |
| 203A > G/H68R | Spain | Male | 36 | + | NT | + | + | NT | NT | ( |
| 202C > T/H68Y | United States | Male | - | NT | + | NT | NT | NT | NT | ( |
| 209C > T/T70I | United States | - | - | - | - | - | - | - | - | ( |
| 214C > T/L72F | China | Male | 7 | + | + | + | + | NT | NT | ( |
| 227C > T/S76L | United States | - | - | NT | + | NT | NT | NT | NT | ( |
| 361A > G/S121G | United Kingdom | Male | 1.5 | NT | NT | NT | NT | NT | NT | ( |
| 247C > T/R158W | United States | - | - | - | - | - | - | - | - | ( |
| 838A > C/S280R | United States | - | - | - | - | - | - | - | - | ( |
| 911G > A/S304N | United States | Male | - | - | - | - | - | - | - | ( |
| 941A > G/K314R | - | - | - | + | + | NT | NT | NT | NT | ( |
| 942G > A/K314K | United States | Male | 65 | NT | + | NT | + | + | + | ( |
| 949C > G/L317V | United States | Male | - | - | - | - | - | - | - | ( |
| 949C > T/L317F | Germany | - | - | - | - | - | - | - | - | ( |
| 961C > A/L321I | China | Male | 4.3 | + | NT | + | NT | NT | NT | ( |
| 961C > G/L321V | Italy | Male | - | - | - | - | - | - | - | ( |
| 965G > A/R322Q | Germany | - | - | - | - | - | - | - | - | ( |
| 1049T > C/M350T | United Kingdom | - | - | - | - | - | - | - | - | ( |
| 1050G > A/M350I | Austria | - | - | - | - | - | - | - | - | ( |
| 1050G > C/M350I | Germany | Male | 40 | + | NT | + | + | NT | NT | ( |
| 1051A > G/T351A | - | Male | 7 | + | NT | + | NT | NT | NT | ( |
| 1054A > G/T352A | - | Male | 31 | + | NT | NT | NT | NT | NT | ( |
| 1058C > T/A353V | Brazil | Male | 3 | + | + | + | NT | NT | + | ( |
| India | Male | 12 | + | NT | NT | NT | NT | NT | ( | |
| 1066T > C/S356P | Portugal | Male | 15 | + | NT | NT | + | NT | NT | ( |
| 10 | + | + | NT | + | NT | NT | ( | |||
| 1069A > G/T357A | Japan | Male | 10 | + | + | + | + | NT | NT | ( |
| 1072T > G/C358G | Germany | Male | 0.6 | + | NT | NT | + | NT | NT | ( |
| 1075G > A/D359N | - | - | - | + | NT | NT | NT | NT | NT | ( |
| 1133G > A/R378Q | United States | - | - | NT | + | NT | NT | + | NT | ( |
| 1151C > T/P384L | United States | - | - | - | - | - | - | - | - | ( |
| 1156G > A/A386T | - | - | - | + | NT | NT | NT | NT | NT | ( |
| 1186G > A/K390Q | United States | - | - | - | - | - | - | - | - | ( |
| 1177A > T/I393F | India | Male | 21 | + | NT | + | NT | + | NT | ( |
| 1193T > C/L398P | Japan | Male | - | - | - | - | - | - | - | ( |
| 1204G > A/G402R | India | - | - | - | - | - | - | - | - | ( |
| 1205G > A/G402E | United States | Male | - | - | - | - | - | - | - | ( |
| 1213A > G/T405A | United States | Male | 65 | + | NT | NT | NT | NT | + | ( |
| 69 | NT | NT | NT | NT | NT | + | ( | |||
| 1223C > T/T408I | - | - | - | + | NT | NT | NT | NT | NT | ( |
| 1226C > G/P409R | United States | Male | 46 | + | NT | NT | NT | NT | NT | ( |
| Male | 40 | + | NT | NT | NT | NT | NT | ( | ||
| Female | 16 | + | NT | + | NT | NT | NT | ( | ||
| Female | 16 | + | NT | NT | NT | NT | NT | ( | ||
| Female | 8 | + | NT | NT | NT | NT | NT | ( | ||
| China | Male | 24 | + | NT | NT | NT | NT | NT | ( | |
| 20 | + | NT | NT | + | NT | NT | ( | |||
| 1226C > TP409L | China | Male | 20 | + | NT | NT | NT | NT | NT | ( |
| IVS1 ds592C_G | Belgium | Male | 30 | + | NT | NT | + | NT | + | ( |
| 10 | NT | NT | NT | + | NT | NT | ( | |||
| 56 | + | NT | NT | NT | NT | + | ( | |||
| IVS2 as-15 T-C | China | Male | 8 | + | + | NT | NT | NT | NT | ( |
| IVS2 as-5 C-G | Spain | - | - | - | - | - | - | - | - | ( |
| IVS12 ds + 1 G-A/A386fsX1 | Italy | Male | 0.3 | NT | NT | NT | NT | NT | NT | ( |
| IVS14 as-2 A-G | - | - | - | + | + | NT | NT | NT | NT | ( |
| -141C > G | Spanish | Male | 13 | NT | NT | NT | NT | + | NT | ( |
| -141C > G | United States | - | 2 | NT | NT | NT | NT | NT | + | ( |
| 103_105delGAA/E35del | United States | Female | 10 | + | NT | NT | NT | NT | NT | ( |
| 106_108delCTT/L36del | Caucasian | - | - | - | - | - | - | - | - | ( |
| 1168_1170delAAG/K390del | Spanish | Male | 32 | + | NT | NT | NT | NT | NT | ( |
| 1495_1497delAAG/K499del | United Kingdom | - | - | - | - | - | - | - | - | ( |
| 112_116delATCAAinsTCAAC/ | Canada | Male | - | - | - | - | - | - | - | ( |
| 14_215CT > TA/L72Y | United Kingdom | Male | - | - | - | - | - | - | - | ( |
| 1258,1259AG > TA/S420Y | - | - | - | + | + | NT | NT | NT | NT | ( |
| Duplication of ∼14 kb (described at genomic DNA level) | United States | Male | - | NT | NT | NT | NT | NT | NT | ( |
| 1493A > G/S485G | Germany | - | - | NT | NT | NT | NT | NT | NT | ( |
+, presents positive expression; NT, presents negative expression; -, presents not in detail.
The Asian and outside Asian variations and the main clinical phenotypes.
| Mutation percent | Age (year) | Male | Mucocutaneous triad | Bone marrow failure | Anemia | Thrombocytopenia | Telomere shortening | Pulmonary fibrosis |
| Asian (19.07%) | 4.3–46 | 100% | 78.57% | 35.7% | 35.7% | 28.57% | 14.28% | 7.17% |
| Outside Asian (81.11%) | 0.3–69 | 84.09% | 70.59% | 37.5% | 19.6% | 27.45% | 13.72% | 23.53% |