Our results for Chinese patients indicated that the mutation spectrum of these patients was quite different from the ones observed in other populations, such as Caucasians, African Americans, Spaniards, and Mexicans. Although more than 800 mutations of the
ABCA4 genes have been reported, more than half (85/136, 62.5%) of the mutations identified in the current study have not been described elsewhere. This suggests that most of these mutations might be specific, or unique, to Chinese patients. Of the novel mutations, more than half (43/85) were missense mutations. These missense mutations were predicted to be pathogenic or probably pathogenic by the three silico predictive programs and were not identified in the 200 normal alleles; however, definition of a “disease-causing” missense mutation remains difficult. The reliability for the prediction by the SIFT and PolyPhen programs is approximately 80%.
23 Moreover, 36 novel missense mutations were detected only once in STGD1 or CRD patients, so the screening of the 100 normal controls (200 alleles) had a restricted value. In addition, the percentage of missense mutations (57%) in Chinese patients was much lower than the rates (76–80%) observed in the patients of European, Mexican, and African American origin,
6,17,18 but was somewhat similar to the rates reported in Spanish patients (66% in STGD1 patients and 53.9% in arCRD patients).
16 As expected, the fraction (25%) of frameshift insertion/deletion and nonsense mutations was much higher than the average rate (15%) observed in cohorts of European descent.
6,17 In the current study, almost two-thirds of the mutations were detected only once, and the frequency of the most common mutation (p.Y808X) was only 4.7%, which is much lower than the frequency (20.5%) for the common p.G1961E mutation observed in cohorts of European descent,
6,17 the frequency (25%) for the common p.R1129L mutation in Spanish patients,
16 and the frequency (17%) for p.A1773V in Mexican patients.
18 The p.Y808X nonsense mutation was first identified in a Chinese family and was not reported in any other ethnic background patients
24; therefore, we speculated it might be a Chinese-specific mutation. The second most common mutant allele (p.F2188S) was first reported in a Japanese patient
25 and then in a Spanish patient
16; both were heterozygous. In the current study, this mutation was identified only in the STGD1 patients; all were heterozygous. The missense mutation (p.N965S) is a common mutation for patients in the Danish population, with an allele frequency 16.2%, and is found sporadically in the American population.
19 However, this mutation was the third most common mutation identified in the current study of Chinese patients, despite an allele frequency of only 3.1%. In a Danish population, mutation p.N965S showed strong linkage disequilibrium (LD) with polymorphism c.1356+5delG
19; however, polymorphism c.1356+5delG was not identified in 10 patients with p.N965S and 100 normal controls. This suggests that the mutation p.N965S in Chinese patients might occur independently from the one found in the Danish population. In contrast, many mutant alleles that are prevalent in other ethnic backgrounds—such as p.G863A/p.G863del (c.2588G>C), p.L541P/p.A1038V, and p.G1961E for patients of European ancestry, p.R2107H in patients of African American origin, and p.R1129L in Spanish patients—were either absent or detected only once in the current study.
3,6,16,17