| Literature DB >> 18154640 |
Ester Ballana1, Josep Maria Mercader, Nathan Fischel-Ghodsian, Xavier Estivill.
Abstract
BACKGROUND: Mitochondrial DNA (mtDNA) mutations account for at least 5% of cases of postlingual, nonsyndromic hearing impairment. Among them, mutation A1555G is frequently found associated with aminoglycoside-induced and/or nonsyndromic hearing loss in families presenting with extremely variable clinical phenotypes. Biochemical and genetic data have suggested that nuclear background is the main factor involved in modulating the phenotypic expression of mutation A1555G. However, although a major nuclear modifying locus was located on chromosome 8p23.1 and regardless intensive screening of the region, the gene involved has not been identified.Entities:
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Year: 2007 PMID: 18154640 PMCID: PMC2233610 DOI: 10.1186/1471-2350-8-81
Source DB: PubMed Journal: BMC Med Genet ISSN: 1471-2350 Impact factor: 2.103
Figure 1Schematic representation of the α-defensin gene cluster on human chromosome 8p23.1. The marker with higher lodscore in the linkage analysis is localized as well as all the genes in the region and the segmental duplication (positions are based on hg17, May 2004 genome assembly).
DEFA3 gene absence in A1555G patients and control subjects.
| A1555G carriers (n = 213) | Deaf (n = 135) | 115 (85%) | 20 (15%) | 0.678 |
| Hearing (n = 78) | 69 (88%) | 9 (12%) | ||
| A1555G carriers (n = 213) | Deaf & Hearing | 184 (86%) | 29 (14%) | 0.283 |
| A1555G index cases (n = 55) | Deaf | 45 (82%) | 10 (18%) | 0.697 |
| A1555G linked samples (n = 55) | Deaf & Hearing | 52 (95%) | 3 (5%) | 0.171 |
| Controls (n = 336) | 294 (87.5%) | 42 (12.5%) | ||
* Between groups chi-square p-value resulting from the comparison of deaf vs hearing carriers or carriers vs. control population subjects.
Family based association study of DEFA3 gene absence in A1555G families.
| DEFA3 | present | 0.689 | 9 | 8.00 | 6.83 | 2.69 | 0.71 | 0.477 |
| absent | 0.311 | 9 | 11.00 | 6.67 | 3.36 | 2.36 | 0.018** |
# Number of informative families; S, observed transmission of genotype to affected offspring;
E(S), expected transmission under Mendelian inheritance; Var(S), variance; P, two-tailed P value;
**Significant P value after Bonferroni correction (P < 0.025).
Figure 2Genetic variants identified in . The rs entry for the previously described SNPs or the nucleotide positions for the new identified SNPs are given. Arrows represent the position of the primers used for the PCR amplification of the corresponding genomic fragments.
Family based association study of CLDN23 and MRPS18CP2 in A1555G families.
| rs9644774 | GG | 0.38 | 5 | 4.00 | 4.98 | 1.32 | -0.82 | 0.41 | |
| GA | 0.38 | 10 | 7.00 | 7.40 | 2.93 | -0.24 | 0.81 | ||
| AA | 0.24 | 8 | 7.00 | 5.65 | 2.21 | 0.91 | 0.36 | ||
| rs11995449 | GG | 0.56 | 6 | 7.00 | 6.17 | 2.06 | 0.58 | 0.56 | |
| GA | 0.36 | 7 | 5.00 | 6.83 | 2.44 | -1.17 | 0.24 | ||
| AA | 0.08 | 2 | NA | ||||||
| rs4841072 | AA | 0.38 | 8 | 13.00 | 8.78 | 3.48 | 2.26 | 0.02* | |
| AC | 0.31 | 9 | 6.00 | 9.28 | 4.03 | -1.63 | 0.10 | ||
| CC | 0.31 | 3 | NA | ||||||
| rs17154962 | CC | 0.85 | 5 | 4.00 | 6.28 | 2.00 | -1.60 | 0.10 | |
| CT | 0.15 | 5 | 7.00 | 4.55 | 2.17 | 1.67 | 0.09 | ||
| TT | 0.00 | 2 | NA | ||||||
SNPs with less than 5 informative families were excluded from the analysis. NA; not applicable.
# Number of informative families; S, observed transmission of genotype to affected offspring;
E(S), expected transmission under Mendelian inheritance; Var(S), variance; P, two-tailed P value;
*Significant p value < 0.05.
Figure 3. (A) Alignment of MRPS18CP2 pseudogene with MRPS18C mRNA (GenBank accession number NM_016067). Asterisks indicate sequence changes between the gene mRNA and the chromosome 8p23.1 pseudogene. (B) RT-PCR experiments showing expression of a transcript containing MRPS18CP2 pseudogene in different tissues.