From a single whole exome read to notions of clinical screening: primary ciliary dyskinesia and RSPH9 p.Lys268del in the Arabian Peninsula.

Abstract:

:Primary ciliary dyskinesia (PCD) is a genetic disorder, usually autosomal recessive, causing early respiratory disease and later subfertility. Whole exome sequencing may enable efficient analysis for locus heterogeneous disorders such as PCD. We whole-exome-sequenced one consanguineous Saudi Arabian with clinically diagnosed PCD and normal laterality, to attempt ab initio molecular diagnosis. We reviewed 13 known PCD genes and potentially autozygous regions (extended homozygosity) for homozygous exon deletions, non-dbSNP codon, splice-site base variants or small indels. Homozygous non-dbSNP changes were also reviewed exome-wide. One single molecular read representing RSPH9 p.Lys268del was observed, with no wild-type reads, and a notable deficiency of mapped reads at this location. Among all observations, RSPH9 was the strongest candidate for causality. Searching unmapped reads revealed seven more mutant reads. Direct assay for p.Lys268del (MboII digest) confirmed homozygosity in the affected individual, then confirmed homozygosity in three siblings with bronchiectasis. Our finding in southwest Saudi Arabia indicates that p.Lys268del, previously observed in two Bedouin families (Israel, UAE), is geographically widespread in the Arabian Peninsula. Analogous with cystic fibrosis CFTR p.Phe508del, screening for RSPH9 p.Lys268del (which lacks sentinel dextrocardia) in those at risk would help in early diagnosis, tailored clinical management, genetic counselling and primary prevention.

journal_name

Ann Hum Genet

journal_title

Annals of human genetics

authors

Alsaadi MM,Gaunt TR,Boustred CR,Guthrie PA,Liu X,Lenzi L,Rainbow L,Hall N,Alharbi KK,Day IN

doi

10.1111/j.1469-1809.2012.00704.x

subject

Has Abstract

pub_date

2012-05-01 00:00:00

pages

211-20

issue

3

eissn

0003-4800

issn

1469-1809

journal_volume

76

pub_type

杂志文章
  • Mitochondrial portrait of the Cabo Verde archipelago: the Senegambian outpost of Atlantic slave trade.

    abstract::In order to study the matrilineal genetic composition in Cabo Verde (Republic of Cape Verde), an archipelago that used to serve as a Portuguese entrepôt of the Atlantic slave trade, we have analysed a total of 292 mtDNAs sampled from the seven inhabited islands for the hypervariable segment I (HVS-I) and some characte...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1017/S0003480001001002

    authors: Brehm A,Pereira L,Bandelt HJ,Prata MJ,Amorim A

    更新日期:2002-01-01 00:00:00

  • Update of spectrum c.35delG and c.-23+1G>A mutations on the GJB2 gene in individuals with autosomal recessive nonsyndromic hearing loss.

    abstract::Hearing loss (HL) is the most common birth defect and the most prevalent sensorineural condition worldwide. It is associated with more than 1,000 mutations in at least 90 genes. Mutations of the gap junction beta-2 protein (GJB2) gene located in the nonsyndromic hearing loss and deafness (DFNB1) locus (chromosome 13q1...

    journal_title:Annals of human genetics

    pub_type: 杂志文章,评审

    doi:10.1111/ahg.12284

    authors: Azadegan-Dehkordi F,Ahmadi R,Koohiyan M,Hashemzadeh-Chaleshtori M

    更新日期:2019-01-01 00:00:00

  • Portability of tag SNPs across isolated population groups: an example from India.

    abstract::Isolated population groups are useful in conducting association studies of complex diseases to avoid various pitfalls, including those arising from population stratification. Since DNA resequencing is expensive, it is recommended that genotyping be carried out at tagSNP (tSNP) loci. For this, tSNPs identified in one i...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2006.00383.x

    authors: Sarkar Roy N,Farheen S,Roy N,Sengupta S,Majumder PP

    更新日期:2008-01-01 00:00:00

  • A genome-based study of consanguinity in three co-resident endogamous Pakistan communities.

    abstract::In a study based on 173 individuals drawn from three endogamous, co-resident communities in the province of Punjab, the Awan, Khattar and Rajpoot, an analysis of 10 autosomal single tandem repeats on chromosomes 13 and 15 revealed distinctive genetic profiles in each community. A total of 99 different alleles were det...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1017/S0003480000007946

    authors: Wang W,Sullivan SG,Ahmed S,Chandler D,Zhivotovsky LA,Bittles AH

    更新日期:2000-01-01 00:00:00

  • On the performance of multiple imputation based on chained equations in tackling missing data of the African α3.7 -globin deletion in a malaria association study.

    abstract::Multiple imputation based on chained equations (MICE) is an alternative missing genotype method that can use genetic and nongenetic auxiliary data to inform the imputation process. Previously, MICE was successfully tested on strongly linked genetic data. We have now tested it on data of the HBA2 gene which, by the exp...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/ahg.12065

    authors: Sepúlveda N,Manjurano A,Drakeley C,Clark TG

    更新日期:2014-07-01 00:00:00

  • Mutation and selection in the marker (X) syndrome. A hypothesis.

    abstract::Sherman et al. (1984) concluded from a cytogenetic and genetic analysis of families with the marker (X) syndrome that the rate of the mutation leading to this syndrome is extraordinarily high (7.2 X 10(-4) in male germ cells), and that these mutations occur exclusively in male germ cells. It is shown by some model cal...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1984.tb00846.x

    authors: Vogel F

    更新日期:1984-10-01 00:00:00

  • Genetic polymorphisms and haplotypes of the human cardiac sodium channel alpha subunit gene (SCN5A) in Japanese and their association with arrhythmia.

    abstract::Genetic variations in cardiac ion channels have been implicated not only as the causes of inherited arrhythmic syndromes, but also as genetic risk factors for some acquired arrhythmias. To elucidate the potential roles of genetic polymorphisms of the alpha subunit of the voltage-gated sodium channel type V (SCN5A) in ...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1529-8817.2005.00167.x

    authors: Maekawa K,Saito Y,Ozawa S,Adachi-Akahane S,Kawamoto M,Komamura K,Shimizu W,Ueno K,Kamakura S,Kamatani N,Kitakaze M,Sawada J

    更新日期:2005-07-01 00:00:00

  • A note on assortative mating, linkage and genotypic frequencies.

    abstract::It is shown that in the equilibrium position with respect to the assortative mating process given by Fisher's (1918) model, the population is in linkage disequilibrium, contrary to a result given by Vetta (1975). ...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1978.tb00937.x

    authors: Wilson SR

    更新日期:1978-07-01 00:00:00

  • Variable selection method for quantitative trait analysis based on parallel genetic algorithm.

    abstract::Selection of important genetic and environmental factors is of strong interest in quantitative trait analyses. In this study, we use parallel genetic algorithm (PGA) to identify genetic and environmental factors in genetic association studies of complex human diseases. Our method can take account of both multiple mark...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2009.00548.x

    authors: Mukhopadhyay S,George V,Xu H

    更新日期:2010-01-01 00:00:00

  • ABCC5 transporter is a novel type 2 diabetes susceptibility gene in European and African American populations.

    abstract::Numerous functional studies have implicated PARL in relation to type 2 diabetes (T2D). We hypothesised that conflicting human association studies may be due to neighbouring causal variants being in linkage disequilibrium (LD) with PARL. We conducted a comprehensive candidate gene study of the extended LD genomic regio...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/ahg.12072

    authors: Direk K,Lau W,Small KS,Maniatis N,Andrew T

    更新日期:2014-09-01 00:00:00

  • Assignment of the human acid alpha-glucosidase gene (alphaGLU) to chromosome 17 using somatic cell hybrids.

    abstract::Hybrid clones (MOGs) were made between the mouse line RAG and a primary fibroblast line from an individual of the rare alphaGLU 2 phenotype. Fifteen independent primary clones and 32 subclones were tested for the presence of human alphaGLU after separation of the human and rodent enzymes by starch gel electrophoresis....

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1979.tb00661.x

    authors: Solomon E,Swallow D,Burgess S,Evans L

    更新日期:1979-01-01 00:00:00

  • Analysis of genetic variation in two human thyroxine-binding plasma proteins by immunodetection after isoelectric focusing.

    abstract::An immunological method for the detection of two thyroxine-binding plasma proteins, thyroxine-binding globulin (TBG) and thyroxine-binding prealbumin (TBPA), following polyacrylamide gel isoelectric focusing is described. Both proteins show complex electrophoretic patterns, attributable to post-translational glycosyla...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1985.tb01701.x

    authors: Whitehouse DB,Hopkinson DA,Hill AV,Bowden DK

    更新日期:1985-10-01 00:00:00

  • Common glucose-6-phosphate dehydrogenase (G6PD) variants from the Italian population: biochemical and molecular characterization.

    abstract::By biochemical characterization of glucose-6-phosphate dehydrogenase (G6PD) from the red cells of seventeen subjects of the population of Matera (Southern Italy) we have identified six genetically determined common variants. Among these, G6PD Metaponto and G6PD A(-) Matera had been already fully characterized. We have...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1990.tb00355.x

    authors: Viglietto G,Montanaro V,Calabrò V,Vallone D,D'Urso M,Persico MG,Battistuzzi G

    更新日期:1990-01-01 00:00:00

  • Genetic linkage analysis using lognormal variance components.

    abstract::Typically genetic studies of continuous traits such as cholesterol levels or blood pressure assume that interindividual variability follows a normal distribution. Here we develop methods to analyze positively skewed data by assuming a lognormal distribution. We develop a variance components approach for identifying su...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1469-1809.1998.6260521.x

    authors: Wan Y,De Andrade M,Yu L,Cohen J,Amos CI

    更新日期:1998-11-01 00:00:00

  • Differential growth of human foetal gonads with respect to sex and body side.

    abstract::Measurements have been carried out on the gonads of 54 human foetuses, 29 males and 25 females. Crown-rump lengths ranged between 140 and 212 mm. The criteria used were fresh weight, total protein contents and total DNA contents. It was found that for any given crown-rump length class, the mean values of testes exceed...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1976.tb00171.x

    authors: Mittwoch U

    更新日期:1976-07-01 00:00:00

  • Expression of GALT in 9p chromosome alterations: assignment of GALT locus to 9cen leads to 9p22.

    abstract::Determination of activity and electrophoretic mobility of GALT in patients with various chromosome 9 deletions and duplications confirms the assignment of its locus to 9p and suggests its locus is in the segment 9cen leads to p22. Two inversions of 9qh (inv(9)(p11q12)) did not alter GALT expression. ...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1980.tb01568.x

    authors: Sparkes RS,Sparkes MC,Funderburk SJ,Moedjono S

    更新日期:1980-05-01 00:00:00

  • Assignment of the human cardiac/slow skeletal muscle troponin C gene (TNNC1) between D3S3118 and GCT4B10 on the short arm of chromosome 3 by somatic cell hybrid analysis.

    abstract::We have determined the chromosomal location of the human cardiac/slow skeletal muscle troponin C gene (TNNC1) to the short arm of chromosome 3 using somatic cell hybrids. PCR-based analysis of a 'monochromosomal' hybrid panel identified the presence of the TNNC1 gene on human chromosome 3 and subsequent analysis of th...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1469-1809.1997.6140375.x

    authors: Townsend PJ,Yacoub MH,Barton PJ

    更新日期:1997-07-01 00:00:00

  • Search for multifactorial disease susceptibility genes in founder populations.

    abstract::The current challenge in biomedical research is to detect genetic risk factors involved in common complex diseases. The power to detect their role is generally poor in populations that have been large for a long time. It has been suggested that the power may be increased by taking advantage of the specificity of found...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1469-1809.2000.6430255.x

    authors: Bourgain C,Genin E,Quesneville H,Clerget-Darpoux F

    更新日期:2000-05-01 00:00:00

  • Correlated odour threshold bimodality of two out of three synthetic musks.

    abstract::The odour threshold bimodality for exaltolide described by Whissell-Buechy & Amoore (1973) among American whites is confirmed for a population sample in London. A highly correlated bimodality presumed to be caused by the absence of inactivity of certain receptor sites is shown to exist for another structurally differe...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1975.tb00639.x

    authors: Kalmus H,Seedburgh D

    更新日期:1975-05-01 00:00:00

  • The genetic structure of human populations studied through short insertion-deletion polymorphisms.

    abstract::In a landmark study Rosenberg et al. (2002) analyzed human genome diversity with 377 microsatellites in the HGDP-CEPH Genome Diversity Panel and reported that the populations were structured into five geographical regions: America, Sub-Saharan Africa, East Asia, Oceania and a cluster composed of Europe, the Middle Eas...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2006.00287.x

    authors: Bastos-Rodrigues L,Pimenta JR,Pena SD

    更新日期:2006-09-01 00:00:00

  • Genome-wide association of serum uric acid concentration: replication of sequence variants in an island population of the Adriatic coast of Croatia.

    abstract::A genome-wide association study of serum uric acid (SUA) laevels was performed in a relatively isolated population of European descent from an island of the Adriatic coast of Croatia. The study sample included 532 unrelated and 768 related individuals from 235 pedigrees. Inflation due to relatedness was controlled by ...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2011.00698.x

    authors: Karns R,Zhang G,Sun G,Rao Indugula S,Cheng H,Havas-Augustin D,Novokmet N,Rudan D,Durakovic Z,Missoni S,Chakraborty R,Rudan P,Deka R

    更新日期:2012-03-01 00:00:00

  • Population differences in DNA sequence variation and linkage disequilibrium at the PON1 gene.

    abstract::Polymorphisms of the promoter region (-108C/T) and the coding region (192Q/R) of the paraoxonase 1 gene (PON1) showed differences in association with cardiovascular disease risk in various populations. To characterize the genetic variation underlying these important polymorphisms, we examined DNA sequence variation bo...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1529-8817.2003.00077.x

    authors: Koda Y,Tachida H,Soejima M,Takenaka O,Kimura H

    更新日期:2004-03-01 00:00:00

  • Genetic heterogeneity of Icelanders.

    abstract::Recently statements have been made about a special 'genetic homogeneity' of the Icelanders that are at variance with earlier work on blood groups and allozymes. To validate these claims an extensive reanalysis was undertaken of mtDNA variation by examining primary data from original sources on 26 European populations....

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1469-1809.2003.00003.x

    authors: Arnason E

    更新日期:2003-01-01 00:00:00

  • A new genetic polymorphism in human platelet polypeptides detected by two-dimensional electrophoresis.

    abstract::We described a new genetic polymorphism of human platelet polypeptide, detected by two-dimensional polyacrylamide gel electrophoresis followed by silver-staining. The polymorphism was tentatively designated thrombocyte B (ThB) with a molecular weight of 34 kDa and isoelectric point of 4.7-4.8. In this polypeptide, thr...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.1991.tb00402.x

    authors: Kajii E,Iwamoto S,Omi T,Ikemoto S

    更新日期:1991-05-01 00:00:00

  • A study of the population of Paraguay through isonymy.

    abstract::In order to describe the isonymic structure of Paraguay, the distribution of 4,843,868 surnames of 2,882,163 persons was studied in the 18 departments and 237 districts of the nation. The correlations between isonymic and geographic distances for departments were r = 0.713 ± 0.052 for Euclidean distance, 0.597 ± 0.074...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2011.00676.x

    authors: Dipierri J,Rodriguez-Larralde A,Alfaro E,Scapoli C,Mamolini E,Salvatorelli G,Caramori G,De Lorenzi S,Sandri M,Carrieri A,Barrai I

    更新日期:2011-11-01 00:00:00

  • Validation study of genetic associations with coronary artery disease on chromosome 3q13-21 and potential effect modification by smoking.

    abstract::The CATHGEN study reported associations of chromosome 3q13-21 genes (KALRN, MYLK, CDGAP, and GATA2) with early-onset coronary artery disease (CAD). This study attempted to independently validate those associations. Eleven single nucleotide polymorphisms (SNPs) were examined (rs10934490, rs16834817, rs6810298, rs928923...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/j.1469-1809.2009.00540.x

    authors: Horne BD,Hauser ER,Wang L,Muhlestein JB,Anderson JL,Carlquist JF,Shah SH,Kraus WE

    更新日期:2009-11-01 00:00:00

  • Testing the genetic relation between two individuals using a panel of frequency-unknown single nucleotide polymorphisms.

    abstract::The author proposes a method to test the genetic relation between two individuals using a panel of SNPs. The method does not require information about the allele frequencies, and as such it can be used to test any pair of individuals from any population(s). ...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1529-8817.2003.00063.x

    authors: Lee WC

    更新日期:2003-11-01 00:00:00

  • Heterogeneous effects of natural selection on the Italian newborns.

    abstract::We have studied the impact of natural selection through stillbirth on the Italian population, taking into account the socio-economic heterogeneity of the country. The results suggest that older age at delivery and lower cultural level of the mothers, indicators of critical biological and socio-economic conditions, eve...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1046/j.1469-1809.1997.6120137.x

    authors: Zonta LA,Astolfi P,Ulizzi L

    更新日期:1997-03-01 00:00:00

  • The expected power of genome-wide linkage disequilibrium testing using single nucleotide polymorphism markers for detecting a low-frequency disease variant.

    abstract::The expected power of genome-wide linkage disequilibrium (LD) testing for a low-frequency disease variant was examined using a simple genetic model in which the degree of LD between the disease variant and the adjacent single nucleotide polymorphism (SNP) marker decreases in proportion to the number of generations sin...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1017/S0003480002001197

    authors: Ohashi J,Tokunaga K

    更新日期:2002-07-01 00:00:00

  • A Complete Association of an intronic SNP rs6798742 with Origin of Spinocerebellar Ataxia Type 7-CAG Expansion Loci in the Indian and Mexican Population.

    abstract::Spinocerebellar ataxia type 7 (SCA7) is a rare neurogenetic disorder caused by highly unstable CAG repeat expansion mutation in coding region of SCA7. We aimed to understand the effect of diverse ATXN7 cis-element in correlation with CAG expansion mutation of SCA7. We initially performed an analysis to identify the ha...

    journal_title:Annals of human genetics

    pub_type: 杂志文章

    doi:10.1111/ahg.12200

    authors: Faruq M,Magaña JJ,Suroliya V,Narang A,Murillo-Melo NM,Hernández-Hernández O,Srivastava AK,Mukerji M

    更新日期:2017-09-01 00:00:00