| Literature DB >> 19960070 |
Maleeha Azam1, Muhammad Imran Khan, Andreas Gal, Alamdar Hussain, Syed Tahir Abbas Shah, Muhammad Shakil Khan, Ahmed Sadeque, Habib Bokhari, Rob W J Collin, Ulrike Orth, Maria M van Genderen, A I den Hollander, Frans P M Cremers, Raheel Qamar.
Abstract
PURPOSE: To identify the gene mutations responsible for autosomal recessive retinitis pigmentosa (arRP) in Pakistani families.Entities:
Mesh:
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Year: 2009 PMID: 19960070 PMCID: PMC2787306
Source DB: PubMed Journal: Mol Vis ISSN: 1090-0535 Impact factor: 2.367
Figure 1Pedigrees and 3q21 marker haplotypes spanning the RHO gene in autosomal recessive retinitis pigmentosa families RP21 (A) and RP53 (B). A: Family RP21 consists of four generations. White circles represent unaffected females, filled circles affected females, white squares unaffected males, and filled squares affected males. Deceased individuals are shown with a slanting line across the symbol. Also shown are the marker loci and their positions in an 18.5-Mb interval, which were used for fine mapping of the disease locus. Marker allele sizes were not accurately determined and therefore we only give two-allele designations. Arrowheads designate crossovers that define the 6.8-Mb minimal critical region between D3S1589 and D3S2322. B: Family RP53 consists of five generations. Patient V-3 in one branch of the family is homozygous for marker alleles flanking RHO. The disease in affected individual III-12 could be RHO unrelated, suggesting locus heterogeneity in the different branches of the family. Haplotypes were established for all individuals for which marker alleles are depicted, except for RP21-III-6, the haplotypes of whom were deduced (indicated with brackets around the haplotypes).
Microsatellite marker alleles flanking known genes or loci for arRP in selected individuals of families RP21 and RP53.
| D1S406 | 125.5 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | |
| | D1S1587 | 126.2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D1S2816 | 211.1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | |
| | D1S1660 | 212.4 | 1,2 | 1,1 | 2,1 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 |
| D1S474 | 233.9 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | |
| | D1S2827 | 234.5 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D1S2806 | 100.4 | 1,2 | 1,3 | 2,1 | 2,1 | 1,1 | 1,1 | 1,1 | 1,1 | |
| | D1S219 | 101.5 | 1,2 | 1,2 | 2,1 | 2,1 | 2,1 | 1,3 | 1,1 | 2,1 |
| D1S2808 | 131.9 | 1,2 | 1,1 | 2,1 | 1,1 | 1,2 | 3,1 | 1,1 | 1,2 | |
| | D1S2896 | 134.2 | 1,1 | 2,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 |
| | D1S485 | 136.9 | 1,2 | 1,2 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D2S2348 | 242.2 | 2,1 | 1,2 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,2 | |
| | D2S2205 | 243 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D2S2261 | 185.1 | 2,2 | 1,1 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,1 | |
| | D2S1391 | 186.2 | 1,2 | 1,1 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,2 |
| D2S1888 | 121.6 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | |
| | D2S1892 | 122.1 | 1,2 | 1,3 | 1,3 | 1,3 | 1,2 | 1,1 | 1,2 | 1,2 |
| D2S2225 | 82.8 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | |
| | D2S1337 | 85 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D3S3607 | 143.9 | 1,1 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | 1,1 | |
| | D3S2322 | 146.6 | 1,2 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | 1,2 |
| | D3S1587 | 146.6 | 1,3 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | 1,2 |
| D4S1586 | 147 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | |
| | D4S2962 | 152.9 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 |
| D4S1627 | 60.1 | 1,2 | 1,1 | 1,1 | 1,1 | 1,2 | 1,3 | 1,3 | 1,2 | |
| | D4S3255 | 61.4 | 2,2 | 2,2 | 2,2 | 2,2 | 1,2 | 1,2 | 1,1 | 1,1 |
| D4S3360 | 0 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | |
| | D4S2936 | 1.4 | 1,3 | 1,3 | 1,3 | 1,3 | 1,2 | 1,2 | 1,2 | 1,2 |
| D4S621 | 175.6 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | |
| | D4S415 | 181.3 | 1,1 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,1 | 1,2 |
| D4S403 | 25.9 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | 1,2 | |
| | D4S3048 | 29.1 | 1,2 | 1,3 | 1,3 | 1,3 | 1,3 | 1,1 | 1,3 | 1,2 |
| D5S812 | 150.3 | 1,1 | 1,1 | 1,1 | 1,1 | 1,3 | 1,2 | 1,2 | 1,2 | |
| | D5S2013 | 152.6 | 1,2 | 1,1 | 1,1 | 1,1 | 1,2 | 1,2 | 1,2 | 1,2 |
| D6S265 | 44.4 | 1,2 | 1,2 | 1,2 | 2,1 | 1,2 | 1,3 | 1,2 | 1,3 | |
| | D6S1645 | 48.3 | 1,2 | 1,1 | 1,1 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 |
| D6S257 | 79.9 | 1,2 | 1,2 | 2,1 | 2,1 | 1,2 | 1,2 | 2,1 | 1,2 | |
| | D6S1644 | 96.1 | 1,2 | 1,1 | 2,1 | 2,1 | 1,1 | 1,2 | 1,1 | 1,2 |
| D8S509 | 69.4 | 1,2 | 1,1 | 1,1 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 | |
| | D8S1828 | 71 | 1,1 | 1,3 | 1,3 | 1,1 | 1,1 | 1,3 | 1,3 | 1,2 |
| D10S219 | 100.9 | 1,2 | 1,1 | 1,1 | 1,2 | 1,2 | 1,1 | 2,1 | 1,2 | |
| | D10S523 | 103.4 | 1,1 | 1,2 | 1,2 | 2,1 | 1,1 | 1,3 | 1,3 | 1,2 |
| D14S50 | 12.5 | 1,2 | 1,3 | 1,2 | 1,1 | 1,2 | 1,2 | 2,1 | 1,1 | |
| | D14S283 | 14 | 1,1 | 1,2 | 1,1 | 1,1 | 1,1 | 1,2 | 1,1 | 1,1 |
| D15S116 | 85.6 | 1,2 | 1,2 | 1,1 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 | |
| | D15S996 | 86.8 | 1,2 | 1,3 | 2,1 | 2,1 | 1,2 | 1,1 | 1,1 | 1,2 |
| D15S650 | 70.7 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,1 | 1,1 | 1,1 | |
| | D15S204 | 71.8 | 1,2 | 1,3 | 1,3 | 1,3 | 1,2 | 1,2 | 1,1 | 1,2 |
| D16S3057 | 77.1 | 1,2 | 1,2 | 1,2 | 1,2 | 1,2 | 1,3 | 1,2 | 1,2 | |
| | D16S670 | 78.7 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,2 | 1,2 | 1,2 |
| D16S403 | 43.8 | 1,3 | 1,2 | 3,1 | 1,2 | 1,1 | 1,2 | 1,2 | 1,2 | |
| | D16S287 | 48.6 | 1,1 | 1,1 | 1,1 | 1,1 | 1,2 | 1,2 | 1,2 | 1,3 |
| D17S1848 | 95.9 | 1,1 | 1,2 | 1,2 | 1,1 | 1,2 | 1,2 | 1,1 | 1,2 | |
| D17S1839 | 102.5 | 1,2 | 1,2 | 1,1 | 2,1 | 1,2 | 1,2 | 1,2 | 1,2 | |
Amplification and sequencing primers for RHO
| Promoter 1 | CTAGCGTTCAAGACCCATTAC | ACTCAGGATCCAGGAAAAGG |
| Promoter 1 | GGACTGGATGACTCCAGAGG | CCAAGAATGCTGCGAAGG |
| Exon 1 | CTGCAGCGGGGATTAATATG | GGACAGGAGAAGGGAGAAGG |
| Exon 2 | GTTGCCTTCCTAGCTACCCTCT | GCCAGGAGACATACAAGGTCAG |
| Exon 3 | CAGCCATGCAGACGTTTATG | GTCCAGACCATGGCTCCTC |
| Exon 4 | ACGGCTCTGAGGGTCCAG | AGGAATCTGCATTTCTCACACA |
| Exon 5a | GAATCGTGAGGGGCAGAAG | AAAGATGAGTTGGGAGGAGGA |
| Exon 5b | GGGACATCCACCAAGACCTA | AAAATGTTCACTATCAGGAGGTGAT |
| Exon 5c | GGGCCTCACTTTCTTCTCCT | ATAGGCCACATTGGGAAGG |
| Exon 5d | AACCTTGGGGCAGGTTTTTA | CTTGTCTGGCAAGGGAAACT |
| Exon 5e | TCTCGAAGAGCTTAGAAACAAAGA | CCCAGCCAAGGTCAGTTTTA |
Figure 2Haplotype analysis for single nucleotide polymorphisms (SNPs) in close proximity to the RHO mutation. Frequencies [26] of the combined homozygous variants based on individual allele frequencies in the studied population are: rs789231 (CC), 0.25; RHO (AA), 0.000025; rs2855557 (AA), 0.178084; rs2625961 (GG), 0.207025.
Figure 3Fundus photograph of an individual affected with retinitis pigmentosa. The fundus appearance of individual RP21-IV-1 is characteristic of advanced RP, with optic disc pallor, attenuation of the retinal vessels, peripheral pigment epithelial atrophy, and bone spicule pigmentation. The posterior pole shows macular edema, and small white dots are present in the mid-periphery at the level of the retinal pigment epithelium
Figure 4Sequence analysis of RHO in family RP21. A: Sequence trace of part of exon 2 of an affected individual (RP21-IV-1) showing the homozygous mutant sequence c.448G>A. B: Sequencing results of RP21-IV-7 showing the heterozygous c.448G>A sequence. C: Sequence trace of an unaffected individual with the homozygous wild-type c.448G. d
Chi square analysis.
| GG/GA | 20 | 1 | <0.05 (22.04) |
| AA | 0 | 6 | |
| GG/GA | 119 | 1 | <0.05 (107.10) |
| AA | 0 | 6 |
A: χ2 analysis of families RP21 and RP53 showing association of alleles AA with the disease. B: χ2 analysis of the families and the controls.