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2.
Nat Commun ; 10(1): 4857, 2019 10 24.
Article in English | MEDLINE | ID: mdl-31649266

ABSTRACT

Uterine leiomyomata (UL) are the most common neoplasms of the female reproductive tract and primary cause for hysterectomy, leading to considerable morbidity and high economic burden. Here we conduct a GWAS meta-analysis in 35,474 cases and 267,505 female controls of European ancestry, identifying eight novel genome-wide significant (P < 5 × 10-8) loci, in addition to confirming 21 previously reported loci, including multiple independent signals at 10 loci. Phenotypic stratification of UL by heavy menstrual bleeding in 3409 cases and 199,171 female controls reveals genome-wide significant associations at three of the 29 UL loci: 5p15.33 (TERT), 5q35.2 (FGFR4) and 11q22.3 (ATM). Four loci identified in the meta-analysis are also associated with endometriosis risk; an epidemiological meta-analysis across 402,868 women suggests at least a doubling of risk for UL diagnosis among those with a history of endometriosis. These findings increase our understanding of genetic contribution and biology underlying UL development, and suggest overlapping genetic origins with endometriosis.


Subject(s)
Endometriosis/genetics , Leiomyoma/genetics , Uterine Neoplasms/genetics , Adult , Ataxia Telangiectasia Mutated Proteins/genetics , Endometriosis/epidemiology , Female , Forkhead Box Protein O1/genetics , Forkhead Box Protein O1/metabolism , Genome-Wide Association Study , Humans , Leiomyoma/complications , Leiomyoma/epidemiology , Mendelian Randomization Analysis , Menorrhagia/etiology , Middle Aged , Polymorphism, Single Nucleotide , Proportional Hazards Models , Receptor, Fibroblast Growth Factor, Type 4/genetics , Signal Transduction , Telomerase/genetics , Uterine Neoplasms/complications , Uterine Neoplasms/epidemiology , White People/genetics
3.
Int J Obes (Lond) ; 42(4): 765-774, 2018 04.
Article in English | MEDLINE | ID: mdl-29211707

ABSTRACT

OBJECTIVE: In humans, the ontogeny of obesity throughout the life course and the genetics underlying it has been historically difficult to study. We compared, in a non-human primate model, the lifelong growth trajectories of obese and non-obese adults to assess the heritability of and map potential genomic regions implicated in growth and obesity. STUDY POPULATION: A total of 905 African green monkeys, or vervets (Chlorocebus aethiops sabaeus) (472 females, 433 males) from a pedigreed captive colony. METHODS: We measured fasted body weight (BW), crown-to-rump length (CRL), body-mass index (BMI) and waist circumference (WC) from 2000 to 2015. We used a longitudinal clustering algorithm to detect obesogenic growth, and logistic growth curves implemented in nonlinear mixed effects models to estimate three growth parameters. We used maximum likelihood variance decomposition methods to estimate the genetic contributions to obesity-related traits and growth parameters, including a test for the effects of a calorie-restricted dietary intervention. We used multipoint linkage analysis to map implicated genomic regions. RESULTS: All measurements were significantly influenced by sex, and with the exception of WC, also influenced by maternal and post-natal diet. Chronic obesity outcomes were significantly associated with a pattern of extended growth duration with slow growth rates for BW. After accounting for environmental influences, all measurements were found to have a significant genetic component to variability. Linkage analysis revealed several regions suggested to be linked to obesity-related traits that are also implicated in human obesity and metabolic disorders. CONCLUSIONS: As in humans, growth patterns in vervets have a significant impact on adult obesity and are largely under genetic control with some evidence for maternal and dietary programming. These results largely mirror findings from human research, but reflect shorter developmental periods, suggesting that the vervet offers a strong genetic model for elucidating the ontogeny of human obesity.


Subject(s)
Body Weight/physiology , Chlorocebus aethiops/growth & development , Chlorocebus aethiops/physiology , Diet , Obesity/physiopathology , Animals , Disease Models, Animal , Female , Male , Waist Circumference/physiology
4.
Mol Psychiatry ; 23(4): 993-1000, 2018 04.
Article in English | MEDLINE | ID: mdl-28533516

ABSTRACT

Autism spectrum disorder (ASD) is a behaviorally defined condition that manifests in infancy or early childhood as deficits in communication skills and social interactions. Often, restricted and repetitive behaviors (RRBs) accompany this disorder. ASD is polygenic and genetically complex, so we hypothesized that focusing analyses on intermediate core component phenotypes, such as RRBs, can reduce genetic heterogeneity and improve statistical power. Applying this approach, we mined Caucasian genome-wide association studies (GWAS) data from two of the largest ASD family cohorts, the Autism Genetics Resource Exchange and Autism Genome Project (AGP). Of the 12 RRBs measured by the Autism Diagnostic Interview-Revised, seven were found to be significantly familial and substantially variable, and hence, were tested for genome-wide association in 3104 ASD-affected children from 2045 families. Using a stringent significance threshold (P<7.1 × 10-9), GWAS in the AGP revealed an association between 'the degree of the repetitive use of objects or interest in parts of objects' and rs2898883 (P<6.8 × 10-9), which resides within the sixth intron of PHB. To identify the candidate target genes of the associated single-nucleotide polymorphisms at that locus, we applied chromosome conformation studies in developing human brains and implicated three additional genes: SLC35B1, CALCOCO2 and DLX3. Gene expression, brain imaging and fetal brain expression quantitative trait locus studies prioritize SLC35B1 and PHB. These analyses indicate that GWAS of single heritable features of genetically complex disorders followed by chromosome conformation studies in relevant tissues can be successful in revealing novel risk genes for single core features of ASD.


Subject(s)
Autism Spectrum Disorder/genetics , Chromosomes, Human, Pair 17 , Compulsive Behavior/genetics , Adolescent , Adult , Autism Spectrum Disorder/metabolism , Autism Spectrum Disorder/psychology , Brain/metabolism , Child , Child, Preschool , Female , Genetic Predisposition to Disease , Genome-Wide Association Study/methods , Gestational Age , Homeodomain Proteins/genetics , Humans , Male , Middle Aged , Monosaccharide Transport Proteins/genetics , Multifactorial Inheritance , Nuclear Proteins/genetics , Polymorphism, Single Nucleotide , Prohibitins , Quantitative Trait Loci , Repressor Proteins/genetics , Transcription Factors/genetics , Transcriptome
5.
Mol Psychiatry ; 20(12): 1557-64, 2015 Dec.
Article in English | MEDLINE | ID: mdl-25666758

ABSTRACT

The N-methyl-D-aspartate receptor (NMDAR) coagonists glycine, D-serine and L-proline play crucial roles in NMDAR-dependent neurotransmission and are associated with a range of neuropsychiatric disorders. We conducted the first genome-wide association study of concentrations of these coagonists and their enantiomers in plasma and cerebrospinal fluid (CSF) of human subjects from the general population (N=414). Genetic variants at chromosome 22q11.2, located in and near PRODH (proline dehydrogenase), were associated with L-proline in plasma (ß=0.29; P=6.38 × 10(-10)). The missense variant rs17279437 in the proline transporter SLC6A20 was associated with L-proline in CSF (ß=0.28; P=9.68 × 10(-9)). Suggestive evidence of association was found for the D-serine plasma-CSF ratio at the D-amino-acid oxidase (DAO) gene (ß=-0.28; P=9.08 × 10(-8)), whereas a variant in SRR (that encodes serine racemase and is associated with schizophrenia) constituted the most strongly associated locus for the L-serine to D-serine ratio in CSF. All these genes are highly expressed in rodent meninges and choroid plexus, anatomical regions relevant to CSF physiology. The enzymes and transporters they encode may be targeted to further construe the nature of NMDAR coagonist involvement in NMDAR gating. Furthermore, the highlighted genetic variants may be followed up in clinical populations, for example, schizophrenia and 22q11 deletion syndrome. Overall, this targeted metabolomics approach furthers the understanding of NMDAR coagonist concentration variability and sets the stage for non-targeted CSF metabolomics projects.


Subject(s)
Alanine/metabolism , Glycine/metabolism , Proline/metabolism , Receptors, N-Methyl-D-Aspartate/agonists , Serine/metabolism , Adolescent , Adult , Alanine/blood , Alanine/cerebrospinal fluid , Chromatography, Liquid , Female , Genetic Variation , Genome-Wide Association Study , Glycine/blood , Glycine/cerebrospinal fluid , Humans , Male , Membrane Transport Proteins/genetics , Middle Aged , Proline/blood , Proline/cerebrospinal fluid , Proline Oxidase/genetics , Quantitative Trait Loci , Serine/blood , Serine/cerebrospinal fluid , Tandem Mass Spectrometry , Young Adult
6.
Mol Psychiatry ; 19(2): 228-34, 2014 Feb.
Article in English | MEDLINE | ID: mdl-23319000

ABSTRACT

Studying genetic determinants of intermediate phenotypes is a powerful tool to increase our understanding of genotype-phenotype correlations. Metabolic traits pertinent to the central nervous system (CNS) constitute a potentially informative target for genetic studies of intermediate phenotypes as their genetic underpinnings may elucidate etiological mechanisms. We therefore conducted a genome-wide association study (GWAS) of monoamine metabolite (MM) levels in cerebrospinal fluid (CSF) of 414 human subjects from the general population. In a linear model correcting for covariates, we identified one locus associated with MMs at a genome-wide significant level (standardized ß=0.32, P=4.92 × 10(-8)), located 20 kb from SSTR1, a gene involved with brain signal transduction and glutamate receptor signaling. By subsequent whole-genome expression quantitative trait locus (eQTL) analysis, we provide evidence that this variant controls expression of PDE9A (ß=0.21; P unadjusted=5.6 × 10(-7); P corrected=0.014), a gene previously implicated in monoaminergic transmission, major depressive disorder and antidepressant response. A post hoc analysis of loci significantly associated with psychiatric disorders suggested that genetic variation at CSMD1, a schizophrenia susceptibility locus, plays a role in the ratio between dopamine and serotonin metabolites in CSF. The presented DNA and mRNA analyses yielded genome-wide and suggestive associations in biologically plausible genes, two of which encode proteins involved with glutamate receptor functionality. These findings will hopefully contribute to an exploration of the functional impact of the highlighted genes on monoaminergic transmission and neuropsychiatric phenotypes.


Subject(s)
Biogenic Monoamines/cerebrospinal fluid , Gene Expression , Genome-Wide Association Study , Homovanillic Acid/cerebrospinal fluid , Hydroxyindoleacetic Acid/cerebrospinal fluid , Methoxyhydroxyphenylglycol/cerebrospinal fluid , 3',5'-Cyclic-AMP Phosphodiesterases/genetics , Adult , Chromosomes, Human, Pair 11 , Female , Genetic Loci , Genetic Variation , Genotyping Techniques , Humans , Linear Models , Male , Membrane Proteins/genetics , Mental Disorders/genetics , Polymorphism, Single Nucleotide , Tumor Suppressor Proteins
7.
Transl Psychiatry ; 3: e311, 2013 Oct 08.
Article in English | MEDLINE | ID: mdl-24105442

ABSTRACT

Studying monoaminergic seasonality is likely to improve our understanding of neurobiological mechanisms underlying season-associated physiological and pathophysiological behavior. Studies of monoaminergic seasonality and the influence of the serotonin-transporter-linked polymorphic region (5-HTTLPR) on serotonin seasonality have yielded conflicting results, possibly due to lack of power and absence of multi-year analyses. We aimed to assess the extent of seasonal monoamine turnover and examined the possible involvement of the 5-HTTLPR. To determine the influence of seasonality on monoamine turnover, 5-hydroxyindoleacetic acid (5-HIAA) and homovanillic acid (HVA) were measured in the cerebrospinal fluid of 479 human subjects collected during a 3-year period. Cosine and non-parametric seasonal modeling were applied to both metabolites. We computed serotonin (5-HT) seasonality values and performed an association analysis with the s/l alleles of the 5-HTTLPR. Depressive symptomatology was assessed using the Beck Depression Inventory-II. Circannual variation in 5-HIAA fitted a spring-peak cosine model that was significantly associated with sampling month (P=0.0074). Season of sampling explained 5.4% (P=1.57 × 10(-7)) of the variance in 5-HIAA concentrations. The 5-HTTLPR s-allele was associated with increased 5-HIAA seasonality (standardized regression coefficient=0.12, P=0.020, N=393). 5-HIAA seasonality correlated with depressive symptoms (Spearman's rho=0.13, P=0.018, N=345). In conclusion, we highlight a dose-dependent association of the 5-HTTLPR with 5-HIAA seasonality and a positive correlation between 5-HIAA seasonality and depressive symptomatology. The presented data set the stage for follow-up in clinical populations with a role for seasonality, such as affective disorders.


Subject(s)
Depression/cerebrospinal fluid , Homovanillic Acid/cerebrospinal fluid , Hydroxyindoleacetic Acid/cerebrospinal fluid , Seasons , Serotonin/cerebrospinal fluid , Adult , Alleles , Depression/metabolism , Female , Humans , Longitudinal Studies , Male , Middle Aged , Polymorphism, Genetic , Regression Analysis , Serotonin/metabolism , Serotonin Plasma Membrane Transport Proteins/genetics
8.
Mol Psychiatry ; 18(2): 226-35, 2013 Feb.
Article in English | MEDLINE | ID: mdl-22105621

ABSTRACT

Autism Spectrum Disorder (ASD) has a heterogeneous etiology that is genetically complex. It is defined by deficits in communication and social skills and the presence of restricted and repetitive behaviors. Genetic analyses of heritable quantitative traits that correlate with ASD may reduce heterogeneity. With this in mind, deficits in nonverbal communication (NVC) were quantified based on items from the Autism Diagnostic Interview Revised. Our previous analysis of 228 families from the Autism Genetics Research Exchange (AGRE) repository reported 5 potential quantitative trait loci (QTL). Here we report an NVC QTL replication study in an independent sample of 213 AGRE families. One QTL was replicated (P<0.0004). It was investigated using a targeted-association analysis of 476 haplotype blocks with 708 AGRE families using the Family Based Association Test (FBAT). Blocks in two QTL genes were associated with NVC with a P-value of 0.001. Three associated haplotype blocks were intronic to the Nerve Growth Factor (NGF) gene (P=0.001, 0.001, 0.002), and one was intronic to KCND3 (P=0.001). Individual haplotypes within the associated blocks drove the associations (0.003, 0.0004 and 0.0002) for NGF and 0.0001 for KCND3. Using the same methods, these genes were tested for association with NVC in an independent sample of 1517 families from an Autism Genome Project (AGP). NVC was associated with a haplotype in an adjacent NGF block (P=0.0005) and one 46 kb away from the associated block in KCND3 (0.008). These analyses illustrate the value of QTL and targeted association studies for genetically complex disorders such as ASD. NGF is a promising risk gene for NVC deficits.


Subject(s)
Communication Disorders/genetics , Genetic Predisposition to Disease , Nerve Growth Factor/genetics , Nonverbal Communication/physiology , Quantitative Trait, Heritable , Child , Child Development Disorders, Pervasive/complications , Child Development Disorders, Pervasive/genetics , Communication Disorders/etiology , Family Health , Female , Follow-Up Studies , Genetic Association Studies , Genetic Linkage , Genotype , Humans , Male , Shal Potassium Channels/genetics
9.
Mol Psychiatry ; 17(2): 215-22, 2012 Feb.
Article in English | MEDLINE | ID: mdl-21151189

ABSTRACT

Current genomewide association studies account for only a small fraction of the estimated heritabilities of genetically complex neuropsychiatric disorders, indicating they are likely to result from the small effects of numerous predisposing variants, many of which have gone undetected. The statistical power to detect associations of common variants with small effects is increased by conducting joint association tests of a single nucleotide polymorphism (SNP), an additional risk factor (F), and their interaction. F can represent an environmental exposure, another genotype or any source of genetic heterogeneity. In case and control studies, logistic regression makes joint tests straightforward. This analytic method cannot be employed directly when SNP transmission tests are used to detect associations in parent/affected child trios and multiplex families. However, the method can be implemented using the case/pseudocontrol approach. We applied this approach to analyze data from a genomewide association study of multiplex families ascertained for Autism Spectrum Disorder, where sex was used to define the F. Joint analyses revealed two associations exceeding genomewide significance. One novel gene, Ryandine Receptor 2, implicated in calcium channel defects, was identified with a joint P-value of 3.9E-11. Calcium channel defects have been connected to Autism spectrum disorder (ASD) by Timothy Syndrome, which is Mendelian, and a previous targeted sex-specific association analysis of idiopathic Autism. A second gene, uridine phosphorylase 2, with a joint P-value of 2.3E-9, has been previously linked and associated with Autism in independent samples. These findings highlight two Autism candidate genes for follow-up studies.


Subject(s)
Child Development Disorders, Pervasive/genetics , Genetic Predisposition to Disease , Polymorphism, Single Nucleotide/genetics , Ryanodine Receptor Calcium Release Channel/genetics , Sex Characteristics , Uridine Phosphorylase/genetics , Child , Family Health , Female , Genome-Wide Association Study , Genotype , Humans , Linkage Disequilibrium , Male , Probability , Risk Factors
10.
Mol Psychiatry ; 17(9): 906-17, 2012 Sep.
Article in English | MEDLINE | ID: mdl-21747397

ABSTRACT

Recent molecular studies have implicated common alleles of small to moderate effect and rare alleles with larger effect sizes in the genetic architecture of schizophrenia (SCZ). It is expected that the reliable detection of risk variants with very small effect sizes can only be achieved through the recruitment of very large samples of patients and controls (that is tens of thousands), or large, potentially more homogeneous samples that have been recruited from confined geographical areas using identical diagnostic criteria. Applying the latter strategy, we performed a genome-wide association study (GWAS) of 1169 clinically well characterized and ethnically homogeneous SCZ patients from a confined area of Western Europe (464 from Germany, 705 from The Netherlands) and 3714 ethnically matched controls (1272 and 2442, respectively). In a subsequent follow-up study of our top GWAS results, we included an additional 2569 SCZ patients and 4088 controls (from Germany, The Netherlands and Denmark). Genetic variation in a region on chromosome 11 that contains the candidate genes AMBRA1, DGKZ, CHRM4 and MDK was significantly associated with SCZ in the combined sample (n=11 540; P=3.89 × 10(-9), odds ratio (OR)=1.25). This finding was replicated in 23 206 independent samples of European ancestry (P=0.0029, OR=1.11). In a subsequent imaging genetics study, healthy carriers of the risk allele exhibited altered activation in the cingulate cortex during a cognitive control task. The area of interest is a critical interface between emotion regulation and cognition that is structurally and functionally abnormal in SCZ and bipolar disorder.


Subject(s)
Chromosomes, Human, Pair 11/genetics , Functional Neuroimaging/psychology , Genetic Predisposition to Disease/genetics , Psychomotor Performance/physiology , Schizophrenia/genetics , Schizophrenic Psychology , White People/genetics , Case-Control Studies , Europe , Female , Functional Neuroimaging/methods , Genome-Wide Association Study/methods , Genome-Wide Association Study/statistics & numerical data , Gyrus Cinguli/physiology , Humans , Male , Polymorphism, Single Nucleotide , Schizophrenia/physiopathology
11.
Mol Psychiatry ; 16(11): 1117-29, 2011 Nov.
Article in English | MEDLINE | ID: mdl-20838396

ABSTRACT

We conducted data-mining analyses using the Clinical Antipsychotic Trials of Intervention Effectiveness (CATIE) and molecular genetics of schizophrenia genome-wide association study supported by the genetic association information network (MGS-GAIN) schizophrenia data sets and performed bioinformatic prioritization for all the markers with P-values ≤0.05 in both data sets. In this process, we found that in the CMYA5 gene, there were two non-synonymous markers, rs3828611 and rs10043986, showing nominal significance in both the CATIE and MGS-GAIN samples. In a combined analysis of both the CATIE and MGS-GAIN samples, rs4704591 was identified as the most significant marker in the gene. Linkage disequilibrium analyses indicated that these markers were in low LD (3 828 611-rs10043986, r(2)=0.008; rs10043986-rs4704591, r(2)=0.204). In addition, CMYA5 was reported to be physically interacting with the DTNBP1 gene, a promising candidate for schizophrenia, suggesting that CMYA5 may be involved in the same biological pathway and process. On the basis of this information, we performed replication studies for these three single-nucleotide polymorphisms. The rs3828611 was found to have conflicting results in our Irish samples and was dropped out without further investigation. The other two markers were verified in 23 other independent data sets. In a meta-analysis of all 23 replication samples (family samples, 912 families with 4160 subjects; case-control samples, 11 380 cases and 15 021 controls), we found that both markers are significantly associated with schizophrenia (rs10043986, odds ratio (OR)=1.11, 95% confidence interval (CI)=1.04-1.18, P=8.2 × 10(-4) and rs4704591, OR=1.07, 95% CI=1.03-1.11, P=3.0 × 10(-4)). The results were also significant for the 22 Caucasian replication samples (rs10043986, OR=1.11, 95% CI=1.03-1.17, P=0.0026 and rs4704591, OR=1.07, 95% CI=1.02-1.11, P=0.0015). Furthermore, haplotype conditioned analyses indicated that the association signals observed at these two markers are independent. On the basis of these results, we concluded that CMYA5 is associated with schizophrenia and further investigation of the gene is warranted.


Subject(s)
Genome-Wide Association Study , Muscle Proteins/genetics , Polymorphism, Single Nucleotide , Schizophrenia/genetics , Black or African American/genetics , Carrier Proteins/genetics , Case-Control Studies , Data Mining , Dysbindin , Dystrophin-Associated Proteins , Germany/epidemiology , Germany/ethnology , Humans , Ireland/epidemiology , Jews/genetics , Linkage Disequilibrium , Pennsylvania/epidemiology , Risk , Schizophrenia/epidemiology , Schizophrenia/ethnology , White People/genetics
12.
Mol Psychiatry ; 15(10): 996-1005, 2010 Oct.
Article in English | MEDLINE | ID: mdl-19455149

ABSTRACT

Chromosome 17q11-q21 is a region of the genome likely to harbor susceptibility to autism (MIM(209850)) based on earlier evidence of linkage to the disorder. This linkage is specific to multiplex pedigrees containing only male probands (MO) within the Autism Genetic Resource Exchange (AGRE). Earlier, Stone et al.(1) completed a high-density single nucleotide polymorphism association study of 13.7 Mb within this interval, but common variant association was not sufficient to account for the linkage signal. Here, we extend this single nucleotide polymorphism-based association study to complete the coverage of the two-LOD support interval around the chromosome 17q linkage peak by testing the majority of common alleles in 284 MO trios. Markers within an interval containing the gene, CACNA1G, were found to be associated with Autism Spectrum Disorder at a locally significant level (P=1.9 × 10(-5)). While establishing CACNA1G as a novel candidate gene for autism, these alleles do not contribute a sufficient genetic effect to explain the observed linkage, indicating that there is substantial genetic heterogeneity despite the clear linkage signal. The region thus likely harbors a combination of multiple common and rare alleles contributing to the genetic risk. These data, along with earlier studies of chromosomes 5 and 7q3, suggest few if any major common risk alleles account for Autism Spectrum Disorder risk under major linkage peaks in the AGRE sample. This provides important evidence for strategies to identify Autism Spectrum Disorder genes, suggesting that they should focus on identifying rare variants and common variants of small effect.


Subject(s)
Autistic Disorder/genetics , Calcium Channels, T-Type/genetics , Chromosomes, Human, Pair 17 , Polymorphism, Single Nucleotide , Autistic Disorder/epidemiology , Child , Female , Follow-Up Studies , Gene Dosage , Genetic Markers , Genetic Predisposition to Disease/epidemiology , Haplotypes , Humans , Linkage Disequilibrium , Lod Score , Male , Risk Factors
14.
Genes Immun ; 7(7): 609-14, 2006 Oct.
Article in English | MEDLINE | ID: mdl-16971955

ABSTRACT

A genetic contribution to the development of systemic lupus erythematosus (SLE) is well established. Several genome-wide linkage scans have identified a number of putative susceptibility loci for SLE, some of which have been replicated in independent samples. This study aimed to identify the regions showing the most consistent evidence for linkage by applying the genome scan meta-analysis (GSMA) method. The study identified two genome-wide suggestive regions on 6p21.1-q15 and 20p11-q13.13 (P-value=0.0056 and P-value=0.0044, respectively) and a region with P-value<0.01 on 16p13-q12.2. The region on chromosome 6 contains the human leukocyte antigen cluster, and the chromosome 16 and 20 regions have been replicated in several cohorts. The potential importance of the identified genomic regions are also highlighted. These results, in conjunction with data emerging from dense single nucleotide polymorphism typing of specific regions or future genome-wide association studies will help guide efforts to identify the actual predisposing genetic variation contributing to this complex genetic disease.


Subject(s)
Genetic Linkage , Lupus Erythematosus, Systemic/genetics , Chromosomes, Human, Pair 16/genetics , Chromosomes, Human, Pair 20/genetics , Chromosomes, Human, Pair 6/genetics , Female , Genetic Predisposition to Disease , Genome, Human , HLA Antigens/genetics , Humans , Lupus Erythematosus, Systemic/immunology , Male
15.
Mol Psychiatry ; 11(2): 214-20, 2006 Feb.
Article in English | MEDLINE | ID: mdl-16189504

ABSTRACT

Autism spectrum disorder (ASD) is a neurodevelopmental syndrome marked by impairments in social interactive functioning and communication skills, and the presence of repetitive and restrictive behaviors. Twin and linkage studies provide evidence that ASD is heritable and genetically complex. Genetic analyses of familial quantitative traits in those with ASD may help to reveal underlying risk genes. We report a quantitative trait locus (QTL) analysis of nonverbal communication (NVC) in 228 families from the autism genetics resource exchange (AGRE) ascertained for at least two siblings with ASD. QTL at 1p13-q12, 4q21-25, 7q35, 8q23-24, and 16p12-13 indicate that genes at these loci may contribute to the variation in NVC among those with ASD. Using the criteria of Lander and Kruglyak, the QTL at 1p13-q12 is 'suggestive', while the other four are 'possible'. To assess whether these QTL are likely to harbor genes contributing specifically to the deficits in NVC, linkage analysis of ASD sibships with the most severe NVC scores was conducted. The sibships were identified by ordered-subset analyses (OSA), and families with the most severe NVC scores displayed lod scores of 3.4 at 8q23-24 and 3.8 at 16p12-13, indicating that these two regions are likely to harbor gene(s) contributing to ASD by predisposing to deficits in NVC.


Subject(s)
Autistic Disorder/genetics , Chromosomes, Human/genetics , Genetic Predisposition to Disease/genetics , Nonverbal Communication/physiology , Quantitative Trait Loci/genetics , Adolescent , Child , Child, Preschool , Chromosome Mapping , Humans , Pedigree , Severity of Illness Index , Siblings
17.
Genes Immun ; 6(5): 438-44, 2005 Aug.
Article in English | MEDLINE | ID: mdl-15889128

ABSTRACT

Several compelling lines of evidence suggest an important influence of genetic variation in susceptibility to Kawasaki disease (KD), an acute vasculitis that causes coronary artery aneurysms in children. We performed a family-based genotyping study to test for association between KD and 58 genes involved in cardiovascular disease and inflammation. By analysis of a cohort of 209 KD trios using the transmission disequilibrium test, we documented the asymmetric transmission of five alleles including the interleukin-4 (IL-4) C(-589)T allele (P=0.03). Asymmetric transmission of the IL-4 C(-589)T was replicated in a second, independent cohort of 60 trios (P=0.05, combined P=0.002). Haplotypes of alleles in IL-4, colony-stimulating factor 2 (CSF2), IL-13, and transcription factor 7 (TCF7), all located in the interleukin gene cluster on 5q31, were also asymmetrically transmitted. The reported associations of KD with atopic dermatitis and allergy, elevated serum IgE levels, eosinophilia, and increased circulating numbers of monocyte/macrophages expressing the low-affinity IgE receptor (FCepsilonR2) may be related to effects of IL-4. Thus, the largest family-based genotyping study of KD patients to date suggests that genetic variation in the IL-4 gene, or regions linked to IL-4, plays an important role in KD pathogenesis and disease susceptibility.


Subject(s)
Chromosomes, Human, Pair 5/genetics , Genetic Predisposition to Disease , Interleukin-4/genetics , Mucocutaneous Lymph Node Syndrome/genetics , Child , Child, Preschool , Cohort Studies , Coronary Aneurysm/blood , Coronary Aneurysm/genetics , Coronary Aneurysm/pathology , Dermatitis, Atopic/blood , Dermatitis, Atopic/genetics , Eosinophilia/blood , Eosinophilia/genetics , Eosinophilia/pathology , Family , Female , Humans , Immunoglobulin E/blood , Macrophages/metabolism , Macrophages/pathology , Male , Mucocutaneous Lymph Node Syndrome/blood , Mucocutaneous Lymph Node Syndrome/pathology , Receptors, IgE/biosynthesis , Vasculitis/blood , Vasculitis/genetics , Vasculitis/pathology
18.
Mol Psychiatry ; 10(8): 747-57, 2005 Aug.
Article in English | MEDLINE | ID: mdl-15824743

ABSTRACT

Autism is a neurodevelopmental syndrome with early childhood onset and deficits in three behavioral and cognitive dimensions: language, social skills and repetitive or restrictive behaviors. We hypothesized that using these endophenotypes would provide more power to detect linkage than the diagnosis of autism. Previously, we reported results for a nonparametric quantitative trait locus (QTL) genome scan in 152 families with autism, which revealed a linkage peak related to spoken language on 7q35. Here, we present the results of a nonparametric QTL scan of autism endophenotypes in 291 multiplex families, including the original 152. The strongest evidence for an 'age at first word' QTL was on chromosomes 3q at 147 cM (Z=3.10, P<0.001), and 17q at 93 cM (Z=2.84, P=0.002), both represent novel susceptibility loci for autism endophenotypes. There was also support for a previously identified autism peak on chromosome 17 at 43 cM (Z=2.22, P=0.013) with 'age at first phrase'. The 7q35 language peak was attenuated (Z=2.05, P=0.02) compared with the original finding. To explore the possibility of increased heterogeneity resulting from the addition of 135 families to the sample, we conducted an Ordered-Subsets Analysis on chromosome 7; these results suggest that the 132 autism families with the earliest average age at first word are responsible for the QTL on 7q35. This locus on 7q35 may harbor a gene contributing variability in spoken language that is not uniquely related to language delay in autism.


Subject(s)
Autistic Disorder/genetics , Genome, Human , Quantitative Trait Loci , Chromosome Mapping , Chromosomes, Human, Pair 7 , Female , Humans , Male , Nuclear Family , Phenotype
19.
Eur J Clin Invest ; 31(10): 852-9, 2001 Oct.
Article in English | MEDLINE | ID: mdl-11737222

ABSTRACT

BACKGROUND: We previously reported linkage and association of the apoAI-CIII-AIV gene region on chromosome 11 with familial combined hyperlipidaemia (FCHL). However, the observed epistasis resulting in an increased susceptibility to FCHL still remains unexplained. We hypothesize that the region between the apo AI and apo CIII genes may harbour functional mutations that might be in linkage disequilibrium with the already identified SstI and MspI polymorphisms, and provide an alternative explanation for the observed relationship. METHODS: Using sequence analysis, we identified four new single nucleotide polymorphisms (SNPs) in the apo AI-CIII intergenic region. These four variants, T(3213)C, A(3235)C, T(3287)C and A(5132)C, were studied in 30 FCHL probands, 159 hyperlipidaemic relatives, 327 normolipidaemic relatives, and 218 spouses from the same families in which the original results were obtained. RESULTS: The allele frequencies were significantly different between probands and spouses (P < 0.05). Transmission/disequilibrium test (TDT) analyses revealed more frequent transmission of the minor alleles to the affected offspring. The minor genotype was associated with elevated plasma cholesterol and triglyceride levels. The T(3213)C and MspI, and the A(3235)C and SstI SNPs were in complete linkage disequilibrium, resulting in two different major haplotypes 2-2-1-2-2-1 and 1-1-2-2-2-2 (MspI-T(3213)C-A(3235)C-T(3287)C-A(5132)C-SstI). Both haplotypes appear to predispose to FCHL independently, and account, together with the wild-type, for almost 90% of those occurring in these FCHL families, extending the high-risk combination of haplotypes that were reported previously. CONCLUSION: These newly identified additional intergenic SNPs therefore provide an alternative explanation for the observed association of the SstI and MspI polymorphisms to the increased susceptibility for FCHL.


Subject(s)
Apolipoprotein A-I/genetics , Apolipoproteins C/genetics , Hyperlipidemia, Familial Combined/genetics , Polymorphism, Single Nucleotide , Adult , Alleles , Apolipoprotein C-III , Base Sequence , DNA, Intergenic/genetics , Female , Gene Frequency , Haplotypes , Humans , Linkage Disequilibrium , Male , Middle Aged , Quantitative Trait, Heritable
20.
Hypertension ; 38(4): 773-8, 2001 Oct.
Article in English | MEDLINE | ID: mdl-11641285

ABSTRACT

Genes contributing to common forms of hypertension are largely unknown. A number of studies in humans and in animal models have revealed associations between insulin resistance, dyslipidemia, and elevated hypertension. To identify genes contributing to blood pressure (BP) variation associated with insulin-resistant dyslipidemia, we conducted a genome-wide scan for BP in a set of 18 Dutch families exhibiting the common lipid disorder familial combined hyperlipidemia. Our results reveal a locus on chromosome 4 that exhibits a significant lod score of 3.9 with systolic BP. In addition, this locus also appears to influence plasma free fatty acid levels (lod=2.4). After adjustment for age and gender, the lod score for systolic BP increased to 4.6, whereas the lod score for free fatty acid levels did not change. The chromosome 4 locus contains an attractive candidate gene, alpha-adducin, which has been associated with altered BP in animal studies and in some human populations. However, we found no evidence for an association between 2 intragenic alpha-adducin polymorphisms and systolic BP in this sample. We also observed suggestive evidence for linkage (lod=1.8) of diastolic BP to the lipoprotein lipase gene locus on chromosome 8p, supporting a finding previously observed in a separate insulin-resistant population. In addition, we also obtained suggestive evidence for linkage of systolic BP (lod=2.4) and plasma apolipoprotein B levels (lod=2.0) to a locus on proximal chromosome 19p. In conclusion, our genome scan results support the existence of multiple genetic factors that can influence both BP and plasma lipid parameters.


Subject(s)
Blood Pressure/genetics , Chromosomes, Human, Pair 4/genetics , Genetic Predisposition to Disease/genetics , Genome, Human , Hyperlipidemias/genetics , Adult , Blood Pressure/physiology , Calmodulin-Binding Proteins/genetics , Chromosome Mapping , Chromosomes, Human, Pair 19/genetics , Chromosomes, Human, Pair 6/genetics , Chromosomes, Human, Pair 8/genetics , Diastole , Family Health , Female , Genetic Linkage , Humans , Hyperlipidemias/physiopathology , Lod Score , Male , Microsatellite Repeats , Middle Aged , Netherlands , Systole
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