230 results on '"Vollrath, Douglas"'
Search Results
2. Alternative oxidase blunts pseudohypoxia and photoreceptor degeneration due to RPE mitochondrial dysfunction
- Author
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Chen, Ming, primary, Wang, Yekai, additional, Dalal, Roopa, additional, Du, Jianhai, additional, and Vollrath, Douglas, additional
- Published
- 2024
- Full Text
- View/download PDF
3. Association of a Primary Open-Angle Glaucoma Genetic Risk Score With Earlier Age at Diagnosis
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Fan, Bao Jian, Bailey, Jessica Cooke, Igo, Rob P, Kang, Jae H, Boumenna, Tahani, Brilliant, Murray H, Budenz, Donald L, Fingert, John H, Gaasterland, Terry, Gaasterland, Douglas, Hauser, Michael A, Kraft, Peter, Lee, Richard K, Lichter, Paul R, Liu, Yutao, Moroi, Syoko E, Myers, Jonathan S, Pericak-Vance, Margaret A, Realini, Anthony, Rhee, Douglas J, Richards, Julia E, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Weinreb, Robert N, Wollstein, Gadi, Zack, Donald J, Haines, Jonathan L, Pasquale, Louis R, and Wiggs, Janey L
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Neurosciences ,Clinical Research ,Human Genome ,Eye Disease and Disorders of Vision ,Neurodegenerative ,Genetics ,Aging ,Prevention ,2.1 Biological and endogenous factors ,Aetiology ,Opthalmology and Optometry ,Ophthalmology & Optometry - Abstract
ImportanceGenetic variants associated with primary open-angle glaucoma (POAG) are known to influence disease risk. However, the clinical effect of associated variants individually or in aggregate is not known. Genetic risk scores (GRS) examine the cumulative genetic load by combining individual genetic variants into a single measure, which is assumed to have a larger effect and increased power to detect relevant disease-related associations.ObjectiveTo investigate if a GRS that comprised 12 POAG genetic risk variants is associated with age at disease diagnosis.Design, setting, and participantsA cross-sectional study included individuals with POAG and controls from the Glaucoma Genes and Environment (GLAUGEN) study and the National Eye Institute Glaucoma Human Genetics Collaboration (NEIGHBOR) study. A GRS was formulated using 12 variants known to be associated with POAG, and the alleles associated with increasing risk of POAG were aligned in the case-control sets. In case-only analyses, the association of the GRS with age at diagnosis was analyzed as an estimate of disease onset. Results from cohort-specific analyses were combined with meta-analysis. Data collection started in August 2012 for the NEIGHBOR cohort and in July 2008 for the GLAUGEN cohort and were analyzed starting in March 2018.Main outcomes and measuresAssociation of a 12 single-nucleotide polymorphism POAG GRS with age at diagnosis in individuals with POAG using linear regression.ResultsThe GLAUGEN study included 976 individuals with POAG and 1140 controls. The NEIGHBOR study included 2132 individuals with POAG and 2290 controls. For individuals with POAG, the mean (SD) age at diagnosis was 63.6 (9.8) years in the GLAUGEN cohort and 66.0 (13.7) years in the NEIGHBOR cohort. For controls, the mean (SD) age at enrollment was 65.5 (9.2) years in the GLAUGEN cohort and 68.9 (11.4) years in the NEIGHBOR cohort. All study participants were European white. The GRS was strongly associated with POAG risk in case-control analysis (odds ratio per 1-point increase in score = 1.24; 95% CI, 1.21-1.27; P = 3.4 × 10-66). In case-only analyses, each higher GRS unit was associated with a 0.36-year earlier age at diagnosis (β = -0.36; 95% CI, -0.56 to -0.16; P = 4.0 × 10-4). Individuals in the top 5% of the GRS had a mean (SD) age at diagnosis of 5.2 (12.8) years earlier than those in the bottom 5% GRS (61.4 [12.7] vs 66.6 [12.9] years; P = 5.0 × 10-4).Conclusions and relevanceA higher dose of POAG risk alleles was associated with an earlier age at glaucoma diagnosis. On average, individuals with POAG with the highest GRS had 5.2-year earlier age at diagnosis of disease. These results suggest that a GRS that comprised genetic variants associated with POAG could help identify patients with risk of earlier disease onset impacting screening and therapeutic strategies.
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- 2019
4. Abnormal mTORC1 signaling leads to retinal pigment epithelium degeneration.
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Huang, Jiancheng, Gu, Shun, Chen, Meng, Zhang, Shu-Jie, Jiang, Zhichun, Chen, Xue, Jiang, Chao, Liu, Guohua, Radu, Roxana A, Sun, Xiantao, Vollrath, Douglas, Du, Jianhai, Yan, Biao, and Zhao, Chen
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Cells ,Cultured ,Animals ,Humans ,Mice ,Retinal Degeneration ,Disease Models ,Animal ,Microscopy ,Electron ,Transmission ,Microscopy ,Fluorescence ,Tomography ,Optical Coherence ,Electroretinography ,Blotting ,Western ,Histocytochemistry ,Gene Expression Profiling ,Signal Transduction ,Retinal Pigment Epithelium ,Metabolome ,Mechanistic Target of Rapamycin Complex 1 ,RPE degeneration ,mTORC1 ,metabolism ,Cells ,Cultured ,Disease Models ,Animal ,Microscopy ,Electron ,Transmission ,Fluorescence ,Tomography ,Optical Coherence ,Blotting ,Western ,Oncology and Carcinogenesis - Abstract
Retinal pigment epithelial (RPE) degeneration is potentially involved in the pathogenesis of several retinal degenerative diseases. mTORC1 signaling is shown as a crucial regulator of many biological processes and disease progression. In this study, we aimed at investigating the role of mTORC1 signaling in RPE degeneration. Methods: Western blots were conducted to detect mTORC1 expression pattern during RPE degeneration. Cre-loxP system was used to generate RPE-specific mTORC1 activation mice. Fundus, immunofluorescence staining, transmission electron microscopy, and targeted metabolomic analysis were conducted to determine the effects of mTORC1 activation on RPE degeneration in vivo. Electroretinography, spectral-domain optical coherence tomography, and histological experiments were conducted to determine the effects of mTORC1 activation on choroidal and retinal function in vivo. Results: RPE-specific activation of mTORC1 led to RPE degeneration as shown by the loss of RPE-specific marker, compromised cell junction integrity, and intracellular accumulation of lipid droplets. RPE degeneration further led to abnormal choroidal and retinal function. The inhibition of mTORC1 signaling with rapamycin could partially reverse RPE degeneration. Targeted metabolomics analysis further revealed that mTORC1 activation affected the metabolism of purine, carboxylic acid, and niacin in RPE. Conclusion: This study revealed that abnormal activation of mTORC1 signaling leads to RPE degeneration, which could provide a promising target for the treatment of RPE dysfunction-related diseases.
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- 2019
5. Testosterone Pathway Genetic Polymorphisms in Relation to Primary Open-Angle Glaucoma: An Analysis in Two Large Datasets
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Cooke Bailey, Jessica N, Gharahkhani, Puya, Kang, Jae H, Butkiewicz, Mariusz, Sullivan, David A, Weinreb, Robert N, Aschard, Hugues, Allingham, R Rand, Ashley-Koch, Allison, Lee, Richard K, Moroi, Sayoko E, Brilliant, Murray H, Wollstein, Gadi, Schuman, Joel S, Fingert, John H, Budenz, Donald L, Realini, Tony, Gaasterland, Terry, Scott, William K, Singh, Kuldev, Sit, Arthur J, Igo, Robert P, Song, Yeunjoo E, Hark, Lisa, Ritch, Robert, Rhee, Douglas J, Vollrath, Douglas, Zack, Donald J, Medeiros, Felipe, Vajaranant, Thasarat S, Chasman, Daniel I, Christen, William G, Pericak-Vance, Margaret A, Liu, Yutao, Kraft, Peter, Richards, Julia E, Rosner, Bernard A, Hauser, Michael A, Craig, Jamie E, Burdon, Kathryn P, Hewitt, Alex W, Mackey, David A, Haines, Jonathan L, MacGregor, Stuart, Wiggs, Janey L, and Pasquale, Louis R
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Genetics ,Neurodegenerative ,Aging ,2.1 Biological and endogenous factors ,Aetiology ,Datasets as Topic ,Female ,Gene Frequency ,Genome-Wide Association Study ,Genotype ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Low Tension Glaucoma ,Male ,Metabolic Networks and Pathways ,Middle Aged ,Polymorphism ,Single Nucleotide ,Testosterone ,primary open-angle glaucoma ,testosterone ,genetics ,pathway analysis ,Australian and New Zealand Registry of Advanced Glaucoma (ANZRAG) Consortium ,Biological Sciences ,Medical and Health Sciences ,Ophthalmology & Optometry - Abstract
Purpose:Sex hormones may be associated with primary open-angle glaucoma (POAG), although the mechanisms are unclear. We previously observed that gene variants involved with estrogen metabolism were collectively associated with POAG in women but not men; here we assessed gene variants related to testosterone metabolism collectively and POAG risk. Methods:We used two datasets: one from the United States (3853 cases and 33,480 controls) and another from Australia (1155 cases and 1992 controls). Both datasets contained densely called genotypes imputed to the 1000 Genomes reference panel. We used pathway- and gene-based approaches with Pathway Analysis by Randomization Incorporating Structure (PARIS) software to assess the overall association between a panel of single nucleotide polymorphisms (SNPs) in testosterone metabolism genes and POAG. In sex-stratified analyses, we evaluated POAG overall and POAG subtypes defined by maximum IOP (high-tension [HTG] or normal tension glaucoma [NTG]). Results:In the US dataset, the SNP panel was not associated with POAG (permuted P = 0.77), although there was an association in the Australian sample (permuted P = 0.018). In both datasets, the SNP panel was associated with POAG in men (permuted P ≤ 0.033) and not women (permuted P ≥ 0.42), but in gene-based analyses, there was no consistency on the main genes responsible for these findings. In both datasets, the testosterone pathway association with HTG was significant (permuted P ≤ 0.011), but again, gene-based analyses showed no consistent driver gene associations. Conclusions:Collectively, testosterone metabolism pathway SNPs were consistently associated with the high-tension subtype of POAG in two datasets.
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- 2018
6. Testosterone Pathway Genetic Polymorphisms in Relation to Primary Open-Angle Glaucoma: An Analysis in Two Large Datasets.
- Author
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Bailey, Jessica N Cooke, Gharahkhani, Puya, Kang, Jae H, Butkiewicz, Mariusz, Sullivan, David A, Weinreb, Robert N, Aschard, Hugues, Allingham, R Rand, Ashley-Koch, Allison, Lee, Richard K, Moroi, Sayoko E, Brilliant, Murray H, Wollstein, Gadi, Schuman, Joel S, Fingert, John H, Budenz, Donald L, Realini, Tony, Gaasterland, Terry, Scott, William K, Singh, Kuldev, Sit, Arthur J, Igo, Robert P, Song, Yeunjoo E, Hark, Lisa, Ritch, Robert, Rhee, Douglas J, Vollrath, Douglas, Zack, Donald J, Medeiros, Felipe, Vajaranant, Thasarat S, Chasman, Daniel I, Christen, William G, Pericak-Vance, Margaret A, Liu, Yutao, Kraft, Peter, Richards, Julia E, Rosner, Bernard A, Hauser, Michael A, Craig, Jamie E, Burdon, Kathryn P, Hewitt, Alex W, Mackey, David A, Haines, Jonathan L, MacGregor, Stuart, Wiggs, Janey L, Pasquale, Louis R, and Australian and New Zealand Registry of Advanced Glaucoma (ANZRAG) Consortium
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Australian and New Zealand Registry of Advanced Glaucoma (ANZRAG) Consortium ,Humans ,Glaucoma ,Open-Angle ,Testosterone ,Intraocular Pressure ,Gene Frequency ,Genotype ,Polymorphism ,Single Nucleotide ,Middle Aged ,Female ,Male ,Metabolic Networks and Pathways ,Genome-Wide Association Study ,Low Tension Glaucoma ,Datasets as Topic ,primary open-angle glaucoma ,testosterone ,genetics ,pathway analysis ,Glaucoma ,Open-Angle ,Polymorphism ,Single Nucleotide ,Biological Sciences ,Medical and Health Sciences ,Ophthalmology & Optometry - Abstract
Purpose:Sex hormones may be associated with primary open-angle glaucoma (POAG), although the mechanisms are unclear. We previously observed that gene variants involved with estrogen metabolism were collectively associated with POAG in women but not men; here we assessed gene variants related to testosterone metabolism collectively and POAG risk. Methods:We used two datasets: one from the United States (3853 cases and 33,480 controls) and another from Australia (1155 cases and 1992 controls). Both datasets contained densely called genotypes imputed to the 1000 Genomes reference panel. We used pathway- and gene-based approaches with Pathway Analysis by Randomization Incorporating Structure (PARIS) software to assess the overall association between a panel of single nucleotide polymorphisms (SNPs) in testosterone metabolism genes and POAG. In sex-stratified analyses, we evaluated POAG overall and POAG subtypes defined by maximum IOP (high-tension [HTG] or normal tension glaucoma [NTG]). Results:In the US dataset, the SNP panel was not associated with POAG (permuted P = 0.77), although there was an association in the Australian sample (permuted P = 0.018). In both datasets, the SNP panel was associated with POAG in men (permuted P ≤ 0.033) and not women (permuted P ≥ 0.42), but in gene-based analyses, there was no consistency on the main genes responsible for these findings. In both datasets, the testosterone pathway association with HTG was significant (permuted P ≤ 0.011), but again, gene-based analyses showed no consistent driver gene associations. Conclusions:Collectively, testosterone metabolism pathway SNPs were consistently associated with the high-tension subtype of POAG in two datasets.
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- 2018
7. In the Eyes of the Beholder—New Mertk Knockout Mouse and Re-Evaluation of Phagocytosis versus Anti-Inflammatory Functions of MERTK
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Ghosh, Sourav, primary, Finnemann, Silvia C., additional, Vollrath, Douglas, additional, and Rothlin, Carla V., additional
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- 2024
- Full Text
- View/download PDF
8. Genetic correlations between intraocular pressure, blood pressure and primary open-angle glaucoma: a multi-cohort analysis
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Aschard, Hugues, Kang, Jae H, Iglesias, Adriana I, Hysi, Pirro, Cooke Bailey, Jessica N, Khawaja, Anthony P, Allingham, R Rand, Ashley-Koch, Allison, Lee, Richard K, Moroi, Sayoko E, Brilliant, Murray H, Wollstein, Gadi, Schuman, Joel S, Fingert, John H, Budenz, Donald L, Realini, Tony, Gaasterland, Terry, Scott, William K, Singh, Kuldev, Sit, Arthur J, Igo Jr, Robert P, Song, Yeunjoo E, Hark, Lisa, Ritch, Robert, Rhee, Douglas J, Gulati, Vikas, Haven, Shane, Vollrath, Douglas, Zack, Donald J, Medeiros, Felipe, Weinreb, Robert N, Cheng, Ching-Yu, Chasman, Daniel I, Christen, William G, Pericak-Vance, Margaret A, Liu, Yutao, Kraft, Peter, Richards, Julia E, Rosner, Bernard A, Hauser, Michael A, Klaver, Caroline CW, vanDuijn, Cornelia M, Haines, Jonathan, Wiggs, Janey L, and Pasquale, Louis R
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Biological Sciences ,Biomedical and Clinical Sciences ,Genetics ,Ophthalmology and Optometry ,Eye Disease and Disorders of Vision ,Human Genome ,Aging ,Neurodegenerative ,Neurosciences ,Blood Pressure ,Female ,Genetic Predisposition to Disease ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Linkage Disequilibrium ,Male ,International Glaucoma Genetics Consortium ,Clinical Sciences ,Genetics & Heredity ,Clinical sciences - Abstract
Primary open-angle glaucoma (POAG) is the most common chronic optic neuropathy worldwide. Epidemiological studies show a robust positive relation between intraocular pressure (IOP) and POAG and modest positive association between IOP and blood pressure (BP), while the relation between BP and POAG is controversial. The International Glaucoma Genetics Consortium (n=27 558), the International Consortium on Blood Pressure (n=69 395), and the National Eye Institute Glaucoma Human Genetics Collaboration Heritable Overall Operational Database (n=37 333), represent genome-wide data sets for IOP, BP traits and POAG, respectively. We formed genome-wide significant variant panels for IOP and diastolic BP and found a strong relation with POAG (odds ratio and 95% confidence interval: 1.18 (1.14-1.21), P=1.8 × 10-27) for the former trait but no association for the latter (P=0.93). Next, we used linkage disequilibrium (LD) score regression, to provide genome-wide estimates of correlation between traits without the need for additional phenotyping. We also compared our genome-wide estimate of heritability between IOP and BP to an estimate based solely on direct measures of these traits in the Erasmus Rucphen Family (ERF; n=2519) study using Sequential Oligogenic Linkage Analysis Routines (SOLAR). LD score regression revealed high genetic correlation between IOP and POAG (48.5%, P=2.1 × 10-5); however, genetic correlation between IOP and diastolic BP (P=0.86) and between diastolic BP and POAG (P=0.42) were negligible. Using SOLAR in the ERF study, we confirmed the minimal heritability between IOP and diastolic BP (P=0.63). Overall, IOP shares genetic basis with POAG, whereas BP has limited shared genetic correlation with IOP or POAG.
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- 2017
9. Age at natural menopause genetic risk score in relation to age at natural menopause and primary open-angle glaucoma in a US-based sample
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Pasquale, Louis R, Aschard, Hugues, Kang, Jae H, Bailey, Jessica N Cooke, Lindström, Sara, Chasman, Daniel I, Christen, William G, Allingham, R Rand, Ashley-Koch, Allison, Lee, Richard K, Moroi, Sayoko E, Brilliant, Murray H, Wollstein, Gadi, Schuman, Joel S, Fingert, John, Budenz, Donald L, Realini, Tony, Gaasterland, Terry, Gaasterland, Douglas, Scott, William K, Singh, Kuldev, Sit, Arthur J, Igo, Robert P, Song, Yeunjoo E, Hark, Lisa, Ritch, Robert, Rhee, Douglas J, Gulati, Vikas, Havens, Shane, Vollrath, Douglas, Zack, Donald J, Medeiros, Felipe, Weinreb, Robert N, Pericak-Vance, Margaret A, Liu, Yutao, Kraft, Peter, Richards, Julia E, Rosner, Bernard A, Hauser, Michael A, Haines, Jonathan L, and Wiggs, Janey L
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Epidemiology ,Biomedical and Clinical Sciences ,Health Sciences ,Ophthalmology and Optometry ,Human Genome ,Neurosciences ,Neurodegenerative ,Genetics ,Eye Disease and Disorders of Vision ,Aging ,Good Health and Well Being ,Age Factors ,Female ,Genetic Variation ,Genotype ,Glaucoma ,Open-Angle ,Humans ,Menopause ,Middle Aged ,Risk Assessment ,Risk Factors ,United States ,Age at natural menopause ,Genetic risk score ,Primary open-angle glaucoma ,Medical and Health Sciences ,Obstetrics & Reproductive Medicine ,Biomedical and clinical sciences ,Health sciences ,Psychology - Abstract
ObjectiveSeveral attributes of female reproductive history, including age at natural menopause (ANM), have been related to primary open-angle glaucoma (POAG). We assembled 18 previously reported common genetic variants that predict ANM to determine their association with ANM or POAG.MethodsUsing data from the Nurses' Health Study (7,143 women), we validated the ANM weighted genetic risk score in relation to self-reported ANM. Subsequently, to assess the relation with POAG, we used data from 2,160 female POAG cases and 29,110 controls in the National Eye Institute Glaucoma Human Genetics Collaboration Heritable Overall Operational Database (NEIGHBORHOOD), which consists of 8 datasets with imputed genotypes to 5.6+ million markers. Associations with POAG were assessed in each dataset, and site-specific results were meta-analyzed using the inverse weighted variance method.ResultsThe genetic risk score was associated with self-reported ANM (P = 2.2 × 10) and predicted 4.8% of the variance in ANM. The ANM genetic risk score was not associated with POAG (Odds Ratio (OR) = 1.002; 95% Confidence Interval (CI): 0.998, 1.007; P = 0.28). No single genetic variant in the panel achieved nominal association with POAG (P ≥0.20). Compared to the middle 80 percent, there was also no association with the lowest 10 percentile or highest 90 percentile of genetic risk score with POAG (OR = 0.75; 95% CI: 0.47, 1.21; P = 0.23 and OR = 1.10; 95% CI: 0.72, 1.69; P = 0.65, respectively).ConclusionsA genetic risk score predicting 4.8% of ANM variation was not related to POAG; thus, genetic determinants of ANM are unlikely to explain the previously reported association between the two phenotypes.
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- 2017
10. Alternative oxidase blunts pseudohypoxia and photoreceptor degeneration due to RPE mitochondrial dysfunction.
- Author
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Ming Chen, Yekai Wang, Dalal, Roopa, Jianhai Du, and Vollrath, Douglas
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MACULAR degeneration ,PHOTORECEPTORS ,UBIQUINONES ,SUCCINATE dehydrogenase ,CIONA intestinalis - Abstract
Loss of mitochondrial electron transport complex (ETC) function in the retinal pigment epithelium (RPE) in vivo results in RPE dedifferentiation and progressive photoreceptor degeneration, and has been implicated in the pathogenesis of age-related macular degeneration. Xenogenic expression of alternative oxidases in mammalian cells and tissues mitigates phenotypes arising from some mitochondrial electron transport defects, but can exacerbate others. We expressed an alternative oxidase from Ciona intestinalis (AOX) in ETC-deficient murine RPE in vivo to assess the retinal consequences of stimulating coenzyme Q oxidation and respiration without ATP generation. RPE-restricted expression of AOX in this context is surprisingly beneficial. This focused intervention mitigates RPE mTORC1 activation, dedifferentiation, hypertrophy, stress marker expression, pseudohypoxia, and aerobic glycolysis. These RPE cell autonomous changes are accompanied by increased glucose delivery to photoreceptors with attendant improvements in photoreceptor structure and function. RPE-restricted AOX expression normalizes accumulated levels of succinate and 2-hydroxyglutarate in ETC-deficient RPE, and counteracts deficiencies in numerous neural retinal metabolites. These features can be attributed to the activation of mitochondrial inner membrane flavoproteins such as succinate dehydrogenase and proline dehydrogenase, and alleviation of inhibition of 2-oxyglutarate-dependent dioxygenases such as prolyl hydroxylases and epigenetic modifiers. Our work underscores the importance to outer retinal health of coenzyme Q oxidation in the RPE and identifies a metabolic network critical for photoreceptor survival in the context of RPE mitochondrial dysfunction. [ABSTRACT FROM AUTHOR]
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- 2024
- Full Text
- View/download PDF
11. Assessing the Association of Mitochondrial Genetic Variation With Primary Open-Angle Glaucoma Using Gene-Set AnalysesMitochondrial Genetic Variation and POAG
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Khawaja, Anthony P, Bailey, Jessica N Cooke, Kang, Jae Hee, Allingham, R Rand, Hauser, Michael A, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John, Gaasterland, Douglas, Gaasterland, Terry, Kraft, Peter, Lee, Richard K, Lichter, Paul R, Liu, Yutao, Medeiros, Felipe, Moroi, Syoko E, Richards, Julia E, Realini, Tony, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret, Weinreb, Robert N, Haines, Jonathan L, Pasquale, Louis R, and Wiggs, Janey L
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Eye Disease and Disorders of Vision ,Neurosciences ,Neurodegenerative ,Genetics ,Aging ,2.1 Biological and endogenous factors ,Aetiology ,glaucoma ,genetics ,mitochondria ,Biological Sciences ,Medical and Health Sciences ,Ophthalmology & Optometry ,Ophthalmology and optometry - Abstract
PurposeRecent studies indicate that mitochondrial proteins may contribute to the pathogenesis of primary open-angle glaucoma (POAG). In this study, we examined the association between POAG and common variations in gene-encoding mitochondrial proteins.MethodsWe examined genetic data from 3430 POAG cases and 3108 controls derived from the combination of the GLAUGEN and NEIGHBOR studies. We constructed biological-system coherent mitochondrial nuclear-encoded protein gene-sets by intersecting the MitoCarta database with the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. We examined the mitochondrial gene-sets for association with POAG and with normal-tension glaucoma (NTG) and high-tension glaucoma (HTG) subsets using Pathway Analysis by Randomization Incorporating Structure.ResultsWe identified 22 KEGG pathways with significant mitochondrial protein-encoding gene enrichment, belonging to six general biological classes. Among the pathway classes, mitochondrial lipid metabolism was associated with POAG overall (P = 0.013) and with NTG (P = 0.0006), and mitochondrial carbohydrate metabolism was associated with NTG (P = 0.030). Examining the individual KEGG pathway mitochondrial gene-sets, fatty acid elongation and synthesis and degradation of ketone bodies, both lipid metabolism pathways, were significantly associated with POAG (P = 0.005 and P = 0.002, respectively) and NTG (P = 0.0004 and P < 0.0001, respectively). Butanoate metabolism, a carbohydrate metabolism pathway, was significantly associated with POAG (P = 0.004), NTG (P = 0.001), and HTG (P = 0.010).ConclusionsWe present an effective approach for assessing the contributions of mitochondrial genetic variation to open-angle glaucoma. Our findings support a role for mitochondria in POAG pathogenesis and specifically point to lipid and carbohydrate metabolism pathways as being important.
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- 2016
12. A Common Variant in MIR182 Is Associated With Primary Open-Angle Glaucoma in the NEIGHBORHOOD ConsortiumAssociation of miR-182 and POAG in NEIGHBORHOOD
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Liu, Yutao, Bailey, Jessica Cooke, Helwa, Inas, Dismuke, W Michael, Cai, Jingwen, Drewry, Michelle, Brilliant, Murray H, Budenz, Donald L, Christen, William G, Chasman, Daniel I, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Gordon, Mae O, Igo, Robert P, Kang, Jae H, Kass, Michael A, Kraft, Peter, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Song, Yeunjoo E, Vollrath, Douglas, Weinreb, Robert, Medeiros, Felipe, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Gonzalez, Pedro, Stamer, W Daniel, Kuchtey, John, Kuchtey, Rachel W, Allingham, R Rand, Hauser, Michael A, Pasquale, Louis R, Haines, Jonathan L, and Wiggs, Janey L
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Neurosciences ,Aging ,Genetics ,Neurodegenerative ,Eye Disease and Disorders of Vision ,Biotechnology ,Human Genome ,2.1 Biological and endogenous factors ,geographic atrophy ,age-related macular degeneration ,animal models ,Aqueous Humor ,Humans ,Glaucoma ,Open-Angle ,Genetic Predisposition to Disease ,MicroRNAs ,RNA ,Polymerase Chain Reaction ,Gene Expression Regulation ,Intraocular Pressure ,Gene Frequency ,Genotype ,Alleles ,Aged ,Aged ,80 and over ,Middle Aged ,Female ,Male ,Exosomes ,Biological Sciences ,Medical and Health Sciences ,Ophthalmology & Optometry - Abstract
PurposeNoncoding microRNAs (miRNAs) have been implicated in the pathogenesis of glaucoma. We aimed to identify common variants in miRNA coding genes (MIR) associated with primary open-angle glaucoma (POAG).MethodsUsing the NEIGHBORHOOD data set (3853 cases/33,480 controls with European ancestry), we first assessed the relation between 85 variants in 76 MIR genes and overall POAG. Subtype-specific analyses were performed in high-tension glaucoma (HTG) and normal-tension glaucoma subsets. Second, we examined the expression of miR-182, which was associated with POAG, in postmortem human ocular tissues (ciliary body, cornea, retina, and trabecular meshwork [TM]), using miRNA sequencing (miRNA-Seq) and droplet digital PCR (ddPCR). Third, miR-182 expression was also examined in human aqueous humor (AH) by using miRNA-Seq. Fourth, exosomes secreted from primary human TM cells were examined for miR-182 expression by using miRNA-Seq. Fifth, using ddPCR we compared miR-182 expression in AH between five HTG cases and five controls.ResultsOnly rs76481776 in MIR182 gene was associated with POAG after adjustment for multiple comparisons (odds ratio [OR] = 1.23, 95% confidence interval [CI]: 1.11-1.42, P = 0.0002). Subtype analysis indicated that the association was primarily in the HTG subset (OR = 1.26, 95% CI: 1.08-1.47, P = 0.004). The risk allele T has been associated with elevated miR-182 expression in vitro. Data from ddPCR and miRNA-Seq confirmed miR-182 expression in all examined ocular tissues and TM-derived exosomes. Interestingly, miR-182 expression in AH was 2-fold higher in HTG patients than nonglaucoma controls (P = 0.03) without controlling for medication treatment.ConclusionsOur integrative study is the first to associate rs76481776 with POAG via elevated miR-182 expression.
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- 2016
13. Erratum.
- Author
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Liu, Yutao, Bailey, Jessica Cooke, Helwa, Inas, Dismuke, W Michael, Cai, Jingwen, Drewry, Michelle, Brilliant, Murray H, Budenz, Donald L, Christen, William G, Chasman, Daniel I, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Gordon, Mae O, Igo, Robert P, Kang, Jae H, Kass, Michael A, Kraft, Peter, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Song, Yeunjoo E, Vollrath, Douglas, Weinreb, Robert, Medeiros, Felipe, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Gonzalez, Pedro, Stamer, W Daniel, Kuchtey, John, Kuchtey, Rachel W, Allingham, R Rand, Hauser, Michael A, Pasquale, Louis R, Haines, Jonathan L, and Wiggs, Janey L
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Ophthalmology & Optometry ,Biological Sciences ,Medical and Health Sciences - Published
- 2016
14. Genome-wide association analysis identifies TXNRD2, ATXN2 and FOXC1 as susceptibility loci for primary open-angle glaucoma
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Bailey, Jessica N Cooke, Loomis, Stephanie J, Kang, Jae H, Allingham, R Rand, Gharahkhani, Puya, Khor, Chiea Chuen, Burdon, Kathryn P, Aschard, Hugues, Chasman, Daniel I, Igo, Robert P, Hysi, Pirro G, Glastonbury, Craig A, Ashley-Koch, Allison, Brilliant, Murray, Brown, Andrew A, Budenz, Donald L, Buil, Alfonso, Cheng, Ching-Yu, Choi, Hyon, Christen, William G, Curhan, Gary, De Vivo, Immaculata, Fingert, John H, Foster, Paul J, Fuchs, Charles, Gaasterland, Douglas, Gaasterland, Terry, Hewitt, Alex W, Hu, Frank, Hunter, David J, Khawaja, Anthony P, Lee, Richard K, Li, Zheng, Lichter, Paul R, Mackey, David A, McGuffin, Peter, Mitchell, Paul, Moroi, Sayoko E, Perera, Shamira A, Pepper, Keating W, Qi, Qibin, Realini, Tony, Richards, Julia E, Ridker, Paul M, Rimm, Eric, Ritch, Robert, Ritchie, Marylyn, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Song, Yeunjoo E, Tamimi, Rulla M, Topouzis, Fotis, Viswanathan, Ananth C, Verma, Shefali Setia, Vollrath, Douglas, Wang, Jie Jin, Weisschuh, Nicole, Wissinger, Bernd, Wollstein, Gadi, Wong, Tien Y, Yaspan, Brian L, Zack, Donald J, Zhang, Kang, Study, EPIC-Norfolk Eye, Weinreb, Robert N, Pericak-Vance, Margaret A, Small, Kerrin, Hammond, Christopher J, Aung, Tin, Liu, Yutao, Vithana, Eranga N, MacGregor, Stuart, Craig, Jamie E, Kraft, Peter, Howell, Gareth, Hauser, Michael A, Pasquale, Louis R, Haines, Jonathan L, and Wiggs, Janey L
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Biological Sciences ,Genetics ,Eye Disease and Disorders of Vision ,Neurodegenerative ,Neurosciences ,Human Genome ,Aging ,Eye ,Ataxin-2 ,Forkhead Transcription Factors ,Genetic Predisposition to Disease ,Genome-Wide Association Study ,Glaucoma ,Open-Angle ,Humans ,Polymorphism ,Single Nucleotide ,Thioredoxin Reductase 2 ,ANZRAG Consortium ,Medical and Health Sciences ,Developmental Biology ,Agricultural biotechnology ,Bioinformatics and computational biology - Abstract
Primary open-angle glaucoma (POAG) is a leading cause of blindness worldwide. To identify new susceptibility loci, we performed meta-analysis on genome-wide association study (GWAS) results from eight independent studies from the United States (3,853 cases and 33,480 controls) and investigated the most significantly associated SNPs in two Australian studies (1,252 cases and 2,592 controls), three European studies (875 cases and 4,107 controls) and a Singaporean Chinese study (1,037 cases and 2,543 controls). A meta-analysis of the top SNPs identified three new associated loci: rs35934224[T] in TXNRD2 (odds ratio (OR) = 0.78, P = 4.05 × 10(-11)) encoding a mitochondrial protein required for redox homeostasis; rs7137828[T] in ATXN2 (OR = 1.17, P = 8.73 × 10(-10)); and rs2745572[A] upstream of FOXC1 (OR = 1.17, P = 1.76 × 10(-10)). Using RT-PCR and immunohistochemistry, we show TXNRD2 and ATXN2 expression in retinal ganglion cells and the optic nerve head. These results identify new pathways underlying POAG susceptibility and suggest new targets for preventative therapies.
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- 2016
15. Gene Therapy for MERTK-Associated Retinal Degenerations
- Author
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LaVail, Matthew M, Yasumura, Douglas, Matthes, Michael T, Yang, Haidong, Hauswirth, William W, Deng, Wen-Tao, and Vollrath, Douglas
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Neurosciences ,Genetics ,Gene Therapy ,Neurodegenerative ,Eye Disease and Disorders of Vision ,Eye ,Animals ,Bestrophins ,Chloride Channels ,Dependovirus ,Disease Models ,Animal ,Electroretinography ,Eye Proteins ,Genetic Therapy ,Genetic Vectors ,Humans ,Mice ,Knockout ,Phagocytosis ,Phagosomes ,Promoter Regions ,Genetic ,Proto-Oncogene Proteins ,Rats ,Mutant Strains ,Rats ,Sprague-Dawley ,Receptor Protein-Tyrosine Kinases ,Retinal Degeneration ,Retinal Pigment Epithelium ,Treatment Outcome ,c-Mer Tyrosine Kinase ,Gene therapy ,Retinal degeneration ,MERTK ,Treatment ,Medical and Health Sciences ,General & Internal Medicine ,Biological sciences ,Biomedical and clinical sciences - Abstract
MERTK-associated retinal degenerations are thought to have defects in phagocytosis of shed outer segment membranes by the retinal pigment epithelium (RPE), as do the rodent models of these diseases. We have subretinally injected an RPE-specific AAV2 vector, AAV2-VMD2-hMERTK, to determine whether this would provide long-term photoreceptor rescue in the RCS rat, which it did for up to 6.5 months, the longest time point examined. Moreover, we found phagosomes in the RPE in the rescued regions of RCS retinas soon after the onset of light. The same vector also had a major protective effect in Mertk-null mice, with a concomitant increase in ERG response amplitudes in the vector-injected eyes. These findings suggest that planned clinical trials with this vector will have a favorable outcome.
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- 2016
16. Tyro3 Modulates Mertk-Associated Retinal Degeneration.
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Vollrath, Douglas, Yasumura, Douglas, Benchorin, Gillie, Matthes, Michael T, Feng, Wei, Nguyen, Natalie M, Sedano, Cecilia D, Calton, Melissa A, and LaVail, Matthew M
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Retina ,Animals ,Mice ,Knockout ,Humans ,Mice ,Retinal Degeneration ,Disease Models ,Animal ,Receptor Protein-Tyrosine Kinases ,Proto-Oncogene Proteins ,Phagocytosis ,Photoreceptor Cells ,Retinal Pigment Epithelium ,c-Mer Tyrosine Kinase ,Disease Models ,Animal ,Knockout ,Genetics ,Developmental Biology - Abstract
Inherited photoreceptor degenerations (IPDs) are the most genetically heterogeneous of Mendelian diseases. Many IPDs exhibit substantial phenotypic variability, but the basis is usually unknown. Mutations in MERTK cause recessive IPD phenotypes associated with the RP38 locus. We have identified a murine genetic modifier of Mertk-associated photoreceptor degeneration, the C57BL/6 (B6) allele of which acts as a suppressor. Photoreceptors degenerate rapidly in Mertk-deficient animals homozygous for the 129P2/Ola (129) modifier allele, whereas animals heterozygous for B6 and 129 modifier alleles exhibit an unusual intermixing of degenerating and preserved retinal regions, with females more severely affected than males. Mertk-deficient mice homozygous for the B6 modifier allele display degeneration only in the far periphery, even at 8 months of age, and have improved retinal function compared to animals homozygous for the 129 allele. We genetically mapped the modifier to an approximately 2-megabase critical interval that includes Tyro3, a paralog of Mertk. Tyro3 expression in the outer retina varies with modifier genotype in a manner characteristic of a cis-acting expression quantitative trait locus (eQTL), with the B6 allele conferring an approximately three-fold higher expression level. Loss of Tyro3 function accelerates the pace of photoreceptor degeneration in Mertk knockout mice, and TYRO3 protein is more abundant in the retinal pigment epithelium (RPE) adjacent to preserved central retinal regions of Mertk knockout mice homozygous for the B6 modifier allele. Endogenous human TYRO3 protein co-localizes with nascent photoreceptor outer segment (POS) phagosomes in a primary RPE cell culture assay, and expression of murine Tyro3 in cultured cells stimulates phagocytic ingestion of POS. Our findings demonstrate that Tyro3 gene dosage modulates Mertk-associated retinal degeneration, provide strong evidence for a direct role for TYRO3 in RPE phagocytosis, and suggest that an eQTL can modify a recessive IPD.
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- 2015
17. DNA Copy Number Variants of Known Glaucoma Genes in Relation to Primary Open-Angle GlaucomaDNA Copy Number Variants in POAG
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Liu, Yutao, Garrett, Melanie E, Yaspan, Brian L, Bailey, Jessica Cooke, Loomis, Stephanie J, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Kang, Jae H, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Weinreb, Robert, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Haines, Jonathan L, Pasquale, Louis R, Wiggs, Janey L, Allingham, R Rand, Ashley-Koch, Allison E, and Hauser, Michael A
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Clinical Research ,Neurodegenerative ,Genetics ,Aged ,Aged ,80 and over ,Case-Control Studies ,DNA Copy Number Variations ,Eye Proteins ,Female ,Genetic Predisposition to Disease ,Genotype ,Glaucoma ,Open-Angle ,Humans ,Male ,Middle Aged ,DNA copy number variants ,POAG ,genetics ,SIX6 ,GAS7 ,Biological Sciences ,Medical and Health Sciences ,Ophthalmology & Optometry ,Ophthalmology and optometry - Abstract
PurposeWe examined the role of DNA copy number variants (CNVs) of known glaucoma genes in relation to primary open angle glaucoma (POAG).MethodsOur study included DNA samples from two studies (NEIGHBOR and GLAUGEN). All the samples were genotyped with the Illumina Human660W_Quad_v1 BeadChip. After removing non-blood-derived and amplified DNA samples, we applied quality control steps based on the mean Log R Ratio and the mean B allele frequency. Subsequently, data from 3057 DNA samples (1599 cases and 1458 controls) were analyzed with PennCNV software. We defined CNVs as those ≥5 kilobases (kb) in size and interrogated by ≥5 consecutive probes. We further limited our investigation to CNVs in known POAG-related genes, including CDKN2B-AS1, TMCO1, SIX1/SIX6, CAV1/CAV2, the LRP12-ZFPM2 region, GAS7, ATOH7, FNDC3B, CYP1B1, MYOC, OPTN, WDR36, SRBD1, TBK1, and GALC.ResultsGenomic duplications of CDKN2B-AS1 and TMCO1 were each found in a single case. Two cases carried duplications in the GAS7 region. Genomic deletions of SIX6 and ATOH7 were each identified in one case. One case carried a TBK1 deletion and another case carried a TBK1 duplication. No controls had duplications or deletions in these six genes. A single control had a duplication in the MYOC region. Deletions of GALC were observed in five cases and two controls.ConclusionsThe CNV analysis of a large set of cases and controls revealed the presence of rare CNVs in known POAG susceptibility genes. Our data suggest that these rare CNVs may contribute to POAG pathogenesis and merit functional evaluation.
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- 2014
18. Hypothesis-independent pathway analysis implicates GABA and Acetyl-CoA metabolism in primary open-angle glaucoma and normal-pressure glaucoma
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Bailey, Jessica N Cooke, Yaspan, Brian L, Pasquale, Louis R, Hauser, Michael A, Kang, Jae H, Loomis, Stephanie J, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John, Gaasterland, Douglas, Gaasterland, Terry, Kraft, Peter, Lee, Richard K, Lichter, Paul R, Liu, Yutao, McCarty, Catherine A, Moroi, Sayoko E, Richards, Julia E, Realini, Tony, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Allingham, R Rand, Weinreb, Robert N, Haines, Jonathan L, and Wiggs, Janey L
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Aging ,Clinical Research ,Neurosciences ,Eye Disease and Disorders of Vision ,Human Genome ,Neurodegenerative ,Genetics ,2.1 Biological and endogenous factors ,Aetiology ,Eye ,Acetyl Coenzyme A ,Case-Control Studies ,Cluster Analysis ,Female ,Genetic Predisposition to Disease ,Glaucoma ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Male ,Metabolic Networks and Pathways ,Models ,Genetic ,Polymorphism ,Single Nucleotide ,gamma-Aminobutyric Acid ,Complementary and Alternative Medicine ,Paediatrics and Reproductive Medicine ,Genetics & Heredity - Abstract
Primary open-angle glaucoma (POAG) is a leading cause of blindness worldwide. Using genome-wide association single-nucleotide polymorphism data from the Glaucoma Genes and Environment study and National Eye Institute Glaucoma Human Genetics Collaboration comprising 3,108 cases and 3,430 controls, we assessed biologic pathways as annotated in the KEGG database for association with risk of POAG. After correction for genic overlap among pathways, we found 4 pathways, butanoate metabolism (hsa00650), hematopoietic cell lineage (hsa04640), lysine degradation (hsa00310) and basal transcription factors (hsa03022) related to POAG with permuted p
- Published
- 2014
19. Association of CAV1/CAV2 Genomic Variants with Primary Open-Angle Glaucoma Overall and by Gender and Pattern of Visual Field Loss
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Loomis, Stephanie J, Kang, Jae H, Weinreb, Robert N, Yaspan, Brian L, Bailey, Jessica N Cooke, Gaasterland, Douglas, Gaasterland, Terry, Lee, Richard K, Lichter, Paul R, Budenz, Donald L, Liu, Yutao, Realini, Tony, Friedman, David S, McCarty, Catherine A, Moroi, Sayoko E, Olson, Lana, Schuman, Joel S, Singh, Kuldev, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Brilliant, Murray, Sit, Arthur J, Christen, William G, Fingert, John, Kraft, Peter, Zhang, Kang, Allingham, R Rand, Pericak-Vance, Margaret A, Richards, Julia E, Hauser, Michael A, Haines, Jonathan L, Pasquale, Louis R, and Wiggs, Janey L
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Eye Disease and Disorders of Vision ,Genetics ,Aging ,Neurodegenerative ,Neurosciences ,Clinical Research ,Aged ,Case-Control Studies ,Caveolin 1 ,Caveolin 2 ,Female ,Genomic Structural Variation ,Genotype ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Male ,Middle Aged ,Polymorphism ,Single Nucleotide ,Sex Factors ,Vision Disorders ,Visual Fields ,Clinical Sciences ,Opthalmology and Optometry ,Public Health and Health Services ,Ophthalmology & Optometry ,Ophthalmology and optometry - Abstract
PurposeThe CAV1/CAV2 (caveolin 1 and caveolin 2) genomic region previously was associated with primary open-angle glaucoma (POAG), although replication among independent studies has been variable. The aim of this study was to assess the association between CAV1/CAV2 single nucleotide polymorphisms (SNPs) and POAG in a large case-control dataset and to explore associations by gender and pattern of visual field (VF) loss further.DesignCase-control study.ParticipantsWe analyzed 2 large POAG data sets: the Glaucoma Genes and Environment (GLAUGEN) study (976 cases, 1140 controls) and the National Eye Institute Glaucoma Human Genetics Collaboration (NEIGHBOR) consortium (2132 cases, 2290 controls).MethodsWe studied the association between 70 SNPs located within the CAV1/CAV2 genomic region in the GLAUGEN and NEIGHBOR studies, both genotyped on the Illumina Human 660WQuadv1C BeadChip array and imputed with the Markov Chain Haplotyping algorithm using the HapMap 3 reference panel. We used logistic regression models of POAG in the overall population and separated by gender, as well as by POAG subtypes defined by type of VF defect (peripheral or paracentral). Results from GLAUGEN and NEIGHBOR were meta-analyzed, and a Bonferroni-corrected significance level of 7.7 × 10(-4) was used to account for multiple comparisons.Main outcome measuresOverall POAG, overall POAG by gender, and POAG subtypes defined by pattern of early VF loss.ResultsWe found significant associations between 10 CAV1/CAV2 SNPs and POAG (top SNP, rs4236601; pooled P = 2.61 × 10(-7)). Of these, 9 were significant only in women (top SNP, rs4236601; pooled P = 1.59 × 10(-5)). Five of the 10 CAV1/CAV2 SNPs were associated with POAG with early paracentral VF (top SNP, rs17588172; pooled P = 1.07 × 10(-4)), and none of the 10 were associated with POAG with peripheral VF loss only or POAG among men.ConclusionsCAV1/CAV2 SNPs were associated significantly with POAG overall, particularly among women. Furthermore, we found an association between CAV1/CAV2 SNPs and POAG with paracentral VF defects. These data support a role for caveolin 1, caveolin 2, or both in POAG and suggest that the caveolins particularly may affect POAG pathogenesis in women and in patients with early paracentral VF defects.
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- 2014
20. The NEIGHBOR Consortium Primary Open-Angle Glaucoma Genome-wide Association Study
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Wiggs, Janey L, Hauser, Michael A, Abdrabou, Wael, Allingham, Robert Rand, Budenz, Donald L, DelBono, Elizabeth, Friedman, David S, Kang, Jae H, Gaasterland, Douglas, Gaasterland, Terry, Lee, Richard K, Lichter, Paul R, Loomis, Stephanie, Liu, Yutao, McCarty, Cathy, Medeiros, Felipe A, Moroi, Sayoko E, Olson, Lana M, Realini, Anthony, Richards, Julia E, Rozsa, Frank W, Schuman, Joel S, Singh, Kuldev, Stein, Joshua D, Vollrath, Douglas, Weinreb, Robert N, Wollstein, Gadi, Yaspan, Brian L, Yoneyama, Sachiko, Zack, Don, Zhang, Kang, Pericak-Vance, Margaret, Pasquale, Louis R, and Haines, Jonathan L
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Human Genome ,Eye Disease and Disorders of Vision ,Aging ,Genetics ,Neurosciences ,Neurodegenerative ,Adult ,Aged ,Aged ,80 and over ,Antihypertensive Agents ,Case-Control Studies ,Cooperative Behavior ,Female ,Gene Expression Profiling ,Genetic Predisposition to Disease ,Genome-Wide Association Study ,Genotype ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Male ,Middle Aged ,Research Design ,Trabeculectomy ,primary open-angle glaucoma ,genome-wide association study ,genetics ,Clinical Sciences ,Ophthalmology & Optometry ,Ophthalmology and optometry - Abstract
Primary open-angle glaucoma (POAG) is a common disease with complex inheritance. The identification of genes predisposing to POAG is an important step toward the development of novel gene-based methods of diagnosis and treatment. Genome-wide association studies (GWAS) have successfully identified genes contributing to complex traits such as POAG however, such studies frequently require very large sample sizes, and thus, collaborations and consortia have been of critical importance for the GWAS approach. In this report we describe the formation of the NEIGHBOR consortium, the harmonized case control definitions used for a POAG GWAS, the clinical features of the cases and controls, and the rationale for the GWAS study design.
- Published
- 2013
21. Estrogen pathway polymorphisms in relation to primary open angle glaucoma: an analysis accounting for gender from the United States.
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Pasquale, Louis R, Loomis, Stephanie J, Weinreb, Robert N, Kang, Jae H, Yaspan, Brian L, Bailey, Jessica Cooke, Gaasterland, Douglas, Gaasterland, Terry, Lee, Richard K, Scott, William K, Lichter, Paul R, Budenz, Donald L, Liu, Yutao, Realini, Tony, Friedman, David S, McCarty, Catherine A, Moroi, Sayoko E, Olson, Lana, Schuman, Joel S, Singh, Kuldev, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Brilliant, Murray, Sit, Arthur J, Christen, William G, Fingert, John, Kraft, Peter, Zhang, Kang, Allingham, R Rand, Pericak-Vance, Margaret A, Richards, Julia E, Hauser, Michael A, Haines, Jonathan L, and Wiggs, Janey L
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Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Aging ,Neurosciences ,Genetics ,Estrogen ,Eye Disease and Disorders of Vision ,Neurodegenerative ,Case-Control Studies ,Estrogens ,Female ,Genetic Predisposition to Disease ,Glaucoma ,Open-Angle ,Humans ,Intraocular Pressure ,Male ,Metabolic Networks and Pathways ,Polymorphism ,Single Nucleotide ,Sex Characteristics ,Signal Transduction ,United States ,Opthalmology and Optometry ,Ophthalmology & Optometry ,Ophthalmology and optometry - Abstract
PurposeCirculating estrogen levels are relevant in glaucoma phenotypic traits. We assessed the association between an estrogen metabolism single nucleotide polymorphism (SNP) panel in relation to primary open angle glaucoma (POAG), accounting for gender.MethodsWe included 3,108 POAG cases and 3,430 controls of both genders from the Glaucoma Genes and Environment (GLAUGEN) study and the National Eye Institute Glaucoma Human Genetics Collaboration (NEIGHBOR) consortium genotyped on the Illumina 660W-Quad platform. We assessed the relation between the SNP panels representative of estrogen metabolism and POAG using pathway- and gene-based approaches with the Pathway Analysis by Randomization Incorporating Structure (PARIS) software. PARIS executes a permutation algorithm to assess statistical significance relative to the pathways and genes of comparable genetic architecture. These analyses were performed using the meta-analyzed results from the GLAUGEN and NEIGHBOR data sets. We evaluated POAG overall as well as two subtypes of POAG defined as intraocular pressure (IOP) ≥22 mmHg (high-pressure glaucoma [HPG]) or IOP 0.99). Among women, gene-based analyses revealed that the catechol-O-methyltransferase gene showed strong associations with HTG (permuted gene p≤0.001) and NPG (permuted gene p=0.01).ConclusionsThe estrogen SNP pathway was associated with POAG among women.
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- 2013
22. Common Variants at 9p21 and 8q22 Are Associated with Increased Susceptibility to Optic Nerve Degeneration in Glaucoma
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Wiggs, Janey L, Yaspan, Brian L, Hauser, Michael A, Kang, Jae H, Allingham, R Rand, Olson, Lana M, Abdrabou, Wael, Fan, Bao J, Wang, Dan Y, Brodeur, Wendy, Budenz, Donald L, Caprioli, Joseph, Crenshaw, Andrew, Crooks, Kristy, DelBono, Elizabeth, Doheny, Kimberly F, Friedman, David S, Gaasterland, Douglas, Gaasterland, Terry, Laurie, Cathy, Lee, Richard K, Lichter, Paul R, Loomis, Stephanie, Liu, Yutao, Medeiros, Felipe A, McCarty, Cathy, Mirel, Daniel, Moroi, Sayoko E, Musch, David C, Realini, Anthony, Rozsa, Frank W, Schuman, Joel S, Scott, Kathleen, Singh, Kuldev, Stein, Joshua D, Trager, Edward H, VanVeldhuisen, Paul, Vollrath, Douglas, Wollstein, Gadi, Yoneyama, Sachiko, Zhang, Kang, Weinreb, Robert N, Ernst, Jason, Kellis, Manolis, Masuda, Tomohiro, Zack, Don, Richards, Julia E, Pericak-Vance, Margaret, Pasquale, Louis R, and Haines, Jonathan L
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Biological Sciences ,Genetics ,Clinical Research ,Neurosciences ,Eye Disease and Disorders of Vision ,Neurodegenerative ,Aging ,Human Genome ,Aetiology ,2.1 Biological and endogenous factors ,Eye ,Alleles ,Chromosomes ,Human ,Pair 8 ,Chromosomes ,Human ,Pair 9 ,Exfoliation Syndrome ,Genome-Wide Association Study ,Glaucoma ,Open-Angle ,Homeodomain Proteins ,Humans ,Nerve Degeneration ,Optic Nerve ,Polymorphism ,Single Nucleotide ,RNA ,Long Noncoding ,RNA ,Untranslated ,Transforming Growth Factor beta ,Developmental Biology - Abstract
Optic nerve degeneration caused by glaucoma is a leading cause of blindness worldwide. Patients affected by the normal-pressure form of glaucoma are more likely to harbor risk alleles for glaucoma-related optic nerve disease. We have performed a meta-analysis of two independent genome-wide association studies for primary open angle glaucoma (POAG) followed by a normal-pressure glaucoma (NPG, defined by intraocular pressure (IOP) less than 22 mmHg) subgroup analysis. The single-nucleotide polymorphisms that showed the most significant associations were tested for association with a second form of glaucoma, exfoliation-syndrome glaucoma. The overall meta-analysis of the GLAUGEN and NEIGHBOR dataset results (3,146 cases and 3,487 controls) identified significant associations between two loci and POAG: the CDKN2BAS region on 9p21 (rs2157719 [G], OR = 0.69 [95%CI 0.63-0.75], p = 1.86×10⁻¹⁸), and the SIX1/SIX6 region on chromosome 14q23 (rs10483727 [A], OR = 1.32 [95%CI 1.21-1.43], p = 3.87×10⁻¹¹). In sub-group analysis two loci were significantly associated with NPG: 9p21 containing the CDKN2BAS gene (rs2157719 [G], OR = 0.58 [95% CI 0.50-0.67], p = 1.17×10⁻¹²) and a probable regulatory region on 8q22 (rs284489 [G], OR = 0.62 [95% CI 0.53-0.72], p = 8.88×10⁻¹⁰). Both NPG loci were also nominally associated with a second type of glaucoma, exfoliation syndrome glaucoma (rs2157719 [G], OR = 0.59 [95% CI 0.41-0.87], p = 0.004 and rs284489 [G], OR = 0.76 [95% CI 0.54-1.06], p = 0.021), suggesting that these loci might contribute more generally to optic nerve degeneration in glaucoma. Because both loci influence transforming growth factor beta (TGF-beta) signaling, we performed a genomic pathway analysis that showed an association between the TGF-beta pathway and NPG (permuted p = 0.009). These results suggest that neuro-protective therapies targeting TGF-beta signaling could be effective for multiple forms of glaucoma.
- Published
- 2012
23. Correction of the Retinal Dystrophy Phenotype of the RCS Rat by Viral Gene Transfer of Mertk
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Vollrath, Douglas, Feng, Wei, Duncan, Jacque L., Yasumura, Douglas, D'Cruz, Patricia M., Chappelow, Aimee, Matthes, Michael T., Kay, Mark A., and LaVail, Matthew M.
- Published
- 2001
24. Population Genetic Implications from Sequence Variation in Four Y Chromosome Genes
- Author
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Shen, Peidong, Wang, Frank, Underhill, Peter A., Franco, Claudia, Yang, Wei-Hsien, Roxas, Adriane, Sung, Raphael, Lin, Alice A., Hyman, Richard W., Vollrath, Douglas, Davis, Ronald W., Cavalli-Sforza, L. Luca, and Oefner, Peter J.
- Published
- 2000
25. Depletion of Mitochondrial DNA in Differentiated Retinal Pigment Epithelial Cells
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Hu, Xinqian, Calton, Melissa A., Tang, Shibo, and Vollrath, Douglas
- Published
- 2019
- Full Text
- View/download PDF
26. Genetic analyses of human fetal retinal pigment epithelium gene expression suggest ocular disease mechanisms
- Author
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Liu, Boxiang, Calton, Melissa A., Abell, Nathan S., Benchorin, Gillie, Gloudemans, Michael J., Chen, Ming, Hu, Jane, Li, Xin, Balliu, Brunilda, Bok, Dean, Montgomery, Stephen B., and Vollrath, Douglas
- Published
- 2019
- Full Text
- View/download PDF
27. Therapeutic blood-brain barrier modulation and stroke treatment by a bioengineered FZD4-selective WNT surrogate in mice.
- Author
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Ding, Jie, Lee, Sung-Jin, Vlahos, Lukas, Yuki, Kanako, Rada, Cara C., van Unen, Vincent, Vuppalapaty, Meghah, Chen, Hui, Sura, Asmiti, McCormick, Aaron K., Tomaske, Madeline, Alwahabi, Samira, Nguyen, Huy, Nowatzke, William, Kim, Lily, Kelly, Lisa, Vollrath, Douglas, Califano, Andrea, Yeh, Wen-Chen, and Li, Yang
- Subjects
BLOOD-brain barrier ,STROKE ,ALZHEIMER'S disease ,ISCHEMIC stroke ,DIABETIC retinopathy ,MICE - Abstract
Derangements of the blood-brain barrier (BBB) or blood-retinal barrier (BRB) occur in disorders ranging from stroke, cancer, diabetic retinopathy, and Alzheimer's disease. The Norrin/FZD
4 /TSPAN12 pathway activates WNT/β-catenin signaling, which is essential for BBB and BRB function. However, systemic pharmacologic FZD4 stimulation is hindered by obligate palmitoylation and insolubility of native WNTs and suboptimal properties of the FZD4 -selective ligand Norrin. Here, we develop L6-F4-2, a non-lipidated, FZD4 -specific surrogate which significantly improves subpicomolar affinity versus native Norrin. In Norrin knockout (NdpKO ) mice, L6-F4-2 not only potently reverses neonatal retinal angiogenesis deficits, but also restores BRB and BBB function. In adult C57Bl/6J mice, post-stroke systemic delivery of L6-F4-2 strongly reduces BBB permeability, infarction, and edema, while improving neurologic score and capillary pericyte coverage. Our findings reveal systemic efficacy of a bioengineered FZD4 -selective WNT surrogate during ischemic BBB dysfunction, with potential applicability to adult CNS disorders characterized by an aberrant blood-brain barrier. The WNT/b-catenin pathway is essential for bloodbrain barrier (BBB) and blood-retina barrier (BRB) function. A bioengineered FZD4-selective WNT surrogate demonstrated systemic efficacy during BRB and ischemic stroke BBB dysfunction in mice. [ABSTRACT FROM AUTHOR]- Published
- 2023
- Full Text
- View/download PDF
28. Treatment of retinitis pigmentosa due to MERTK mutations by ocular subretinal injection of adeno-associated virus gene vector: results of a phase I trial
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Ghazi, Nicola G., Abboud, Emad B., Nowilaty, Sawsan R., Alkuraya, Hisham, Alhommadi, Abdulrahman, Cai, Huimin, Hou, Rui, Deng, Wen-Tao, Boye, Sanford L., Almaghamsi, Abdulrahman, Al Saikhan, Fahad, Al-Dhibi, Hassan, Birch, David, Chung, Christopher, Colak, Dilek, LaVail, Matthew M., Vollrath, Douglas, Erger, Kirsten, Wang, Wenqiu, Conlon, Thomas, Zhang, Kang, Hauswirth, William, and Alkuraya, Fowzan S.
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- 2016
- Full Text
- View/download PDF
29. The Human Y Chromosome: A 43-Interval Map Based on Naturally Occurring Deletions
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Vollrath, Douglas, Foote, Simon, Hilton, Adrienne, Brown, Laura G., Beer-Romero, Peggy, Bogan, Jonathan S., and Page, David C.
- Published
- 1992
30. The Human Y Chromosome: Overlapping DNA Clones Spanning the Euchromatic Region
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Foote, Simon, Vollrath, Douglas, Hilton, Adrienne, and Page, David C.
- Published
- 1992
31. Tandem Array of Human Visual Pigment Genes at Xq28
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Vollrath, Douglas, Nathans, Jeremy, and Davis, Ronald W.
- Published
- 1988
32. Separation of Large DNA Molecules by Contour-Clamped Homogeneous Electric Fields
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Chu, Gilbert, Vollrath, Douglas, and Davis, Ronald W.
- Published
- 1986
33. Physical Mapping of Large DNA by Chromosome Fragmentation
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Vollrath, Douglas, Davis, Ronald W., Connelly, Carla, and Hieter, Phillip
- Published
- 1988
34. Physical Mapping of the Myxococcus xanthus Genome by Random Cloning in Yeast Artificial Chromosomes
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Kuspa, Adam, Vollrath, Douglas, Cheng, Yvonne, and Kaiser, Dale
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- 1989
35. mTOR-mediated dedifferentiation of the retinal pigment epithelium initiates photoreceptor degeneration in mice
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Zhao, Chen, Yasumura, Douglas, Li, Xiyan, Matthes, Michael, Lloyd, Marcia, Nielsen, Gregory, Ahern, Kelly, Snyder, Michael, Bok, Dean, Dunaief, Joshua L., LaVail, Matthew M., and Vollrath, Douglas
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Epithelium -- Physiological aspects -- Research ,Binding proteins -- Physiological aspects -- Research ,Retinal degeneration -- Risk factors -- Research ,Health care industry - Abstract
Retinal pigment epithelial (RPE) cell dysfunction plays a central role in various retinal degenerative diseases, but knowledge is limited regarding the pathways responsible for adult RPE stress responses in vivo. RPE mitochondrial dysfunction has been implicated in the pathogenesis of several forms of retinal degeneration. Here we have shown that postnatal ablation of RPE mitochondrial oxidative phosphorylation in mice triggers gradual epithelium dedifferentiation, typified by reduction of RPE-characteristic proteins and cellular hypertrophy. The electrical response of the retina to light decreased and photoreceptors eventually degenerated. Abnormal RPE cell behavior was associated with increased glycolysis and activation of, and dependence upon, the hepatocyte growth factor/met proto-oncogene pathway. RPE dedifferentiation and hypertrophy arose through stimulation of the AKT/mammalian target of rapamycin (AKT/mTOR) pathway. Administration of an oxidant to wild-type mice also caused RPE dedifferentiation and mTOR activation. Importantly, treatment with the mTOR inhibitor rapamycin blunted key aspects of dedifferentiation and preserved photoreceptor function for both insults. These results reveal an in vivo response of the mature RPE to diverse stressors that prolongs RPE cell survival at the expense of epithelial attributes and photoreceptor function. Our findings provide a rationale for mTOR pathway inhibition as a therapeutic strategy for retinal degenerative diseases involving RPE stress., Introduction The retinal pigment epithelium (RPE) is a polarized, cuboidal epithelial cell layer situated in the outer retina between the photoreceptors and choroidal vasculature. The RPE supplies an estimated 60% [...]
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- 2011
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36. PRPF4 mutations cause autosomal dominant retinitis pigmentosa
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Chen, Xue, Liu, Yuan, Sheng, Xunlun, Tam, Pancy O. S., Zhao, Kanxing, Chen, Xuejuan, Rong, Weining, Liu, Yani, Liu, Xiaoxing, Pan, Xinyuan, Chen, Li Jia, Zhao, Qingshun, Vollrath, Douglas, Pang, Chi Pui, and Zhao, Chen
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- 2014
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37. Mutations in TCF8 cause posterior polymorphous corneal dystrophy and ectopic expression of COL4A3 by corneal endothelial cells
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Krafchak, Charles M., Pawar, Hemant, Moroi, Sayoko E., Sugar, Alan, Lichter, Paul R., Mackey, David A., Mian, Shahzad, Nairus, Theresa, Elner, Victor, Schteingart, Miriam T., Downs, Catherine A., Kijek, Theresa Guckian, Johnson, Jenae M., Trager, Edward H., Rozsa, Frank W., Mandal, Nawajes Ali, Epstein, Michael P., Vollrath, Douglas, Ayyagari, Radha, Boehnke, Michael, and Richards, Julia E.
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Corneal diseases -- Causes of ,Corneal diseases -- Genetic aspects ,Gene mutations -- Research ,Gene expression -- Research ,Biological sciences - Published
- 2005
38. Retinal dystrophy due to paternal isodisomy for chromosome 1 or chromosome 2, with homoallelism for mutations in RPE65 or MERTK, respectively. (Report)
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Thompson, Debra A., McHenry, Christina L., Li, Yun, Richards, Julia E., Othman, Mohammad I., Schwinger, Eberhard, Vollrath, Douglas, Jacobson, Samuel G., and Gal, Andreas
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Retinal degeneration -- Genetic aspects ,Human chromosome abnormalities -- Research ,Biological sciences - Published
- 2002
39. AMP-independent activator of AMPK for treatment of mitochondrial disorders
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Moore, Tereza, primary, Yanes, Rolando E., additional, Calton, Melissa A., additional, Vollrath, Douglas, additional, Enns, Gregory M., additional, and Cowan, Tina M., additional
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- 2020
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40. Multi-trait genome-wide association study identifies new loci associated with optic disc parameters
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Bonnemaijer, Pieter WM, van Leeuwen, Elisabeth M, Iglesias, Adriana I, Gharahkhani, Puya, Vitart, Veronique, Khawaja, Anthony P, Simcoe, Mark, Hoehn, Rene, Cree, Angela J, Igo, Rob P, Burdon, Kathryn P, Craig, Jamie E, Hewitt, Alex W, Jonas, Jost, Khor, Chiea-Cheun, Pasutto, Francesca, Mackey, David A, Mitchell, Paul, Mishra, Aniket, Pang, Calvin, Pasquale, Louis R, Springelkamp, Henriette, Thorleifsson, Gudmar, Thorsteinsdottir, Unnur, Viswanathan, Ananth C, Wojciechowski, Robert, Wong, Tien, Young, Terrri L, Zeller, Tanja, Atan, Denize, Aslam, Tariq, Barman, Sarah A, Barrett, Jenny H, Bishop, Paul, Blows, Peter, Bunce, Catey, Carare, Roxana O, Chakravarthy, Usha, Chan, Michelle, Chua, Sharon YL, Crabb, David P, Cumberland, Philippa M, Day, Alexander, Desai, Parul, Dhillon, Bal, Dick, Andrew D, Egan, Cathy, Ennis, Sarah, Foster, Paul, Fruttiger, Marcus, Gallacher, John EJ, Garway, David F, Gibson, Jane, Gore, Dan, Guggenheim, Jeremy A, Hardcastle, Alison, Harding, Simon P, Hogg, Ruth E, Keane, Pearse A, Khaw, Peng T, Lascaratos, Gerassimos, Macgillivray, Tom, Mackie, Sarah, Martin, Keith, McGaughey, Michelle, McGuinness, Bernadette, Mckay, Gareth J, McKibbin, Martin, Mitry, Danny, Moore, Tony, Morgan, James E, Muthy, Zaynah A, O'Sullivan, Eoin, Owen, Chris G, Patel, Praveen, Paterson, Euan, Peto, Tunde, Petzold, Axel, Rahi, Jugnoo S, Rudnikca, Alicja R, Self, Jay, Sivaprasad, Sobha, Steel, David, Stratton, Irene, Strouthidis, Nicholas, Sudlow, Cathie, Thomas, Dhanes, Trucco, Emanuele, Tufail, Adnan, Vernon, Stephen A, Williams, Cathy, Williams, Katie, Woodside, Jayne V, Yates, Max M, Yip, Jennifer, Zheng, Yalin, Allingham, Rand, Budenz, Don, Bailey, Jessica Cooke, Fingert, John, Gaasterland, Douglas, Gaasterland, Teresa, Haines, Jonathan L, Hark, Lisa, Hauser, Michael, Kang, Jae Hee, Kraft, Peter, Lee, Richard, Lichter, Paul, Liu, Yutao, Moroi, Syoko, Pericak, Margaret, Realini, Anthony, Rhee, Doug, Richards, Julia R, Ritch, Robert, Scott, William K, Singh, Kuldev, Sit, Arthur, Vollrath, Douglas, Weinreb, Robert, Wollstein, Gadi, Wilmer, Don Zack, Gerhold-Ay, Aslihan, Nickels, Stefan, Wilson, James F, Hayward, Caroline, Boutin, Thibaud S, Polasek, Ozren, Aung, Tin, Khor, Chiea Chuen, Amin, Najaf, Lotery, Andrew J, Wiggs, Janey L, Cheng, Ching-Yu, Hysi, Pirro G, Hammond, Christopher J, Thiadens, Alberta AHJ, MacGregor, Stuart, Klaver, Caroline CW, van Duijn, Cornelia M, Consortium, Int Glaucoma Genetics, Consortium, Uk Biobank Eye Vision, Consortium, NEIGHBORHOOD, Epidemiology, Ophthalmology, Clinical Genetics, Bonnemaijer, Pieter WM [0000-0001-5154-6765], Iglesias, Adriana I [0000-0001-5532-764X], Gharahkhani, Puya [0000-0002-4203-5952], Vitart, Veronique [0000-0002-4991-3797], Khawaja, Anthony P [0000-0001-6802-8585], Simcoe, Mark [0000-0003-2432-0810], Nickels, Stefan [0000-0003-0415-2354], Wilson, James F [0000-0001-5751-9178], Hayward, Caroline [0000-0002-9405-9550], Boutin, Thibaud S [0000-0003-4754-1675], Khor, Chiea Chuen [0000-0002-1128-4729], Lotery, Andrew J [0000-0001-5541-4305], Wiggs, Janey L [0000-0003-1890-3278], Cheng, Ching-Yu [0000-0003-0655-885X], Hysi, Pirro G [0000-0001-5752-2510], Hammond, Christopher J [0000-0002-3227-2620], MacGregor, Stuart [0000-0001-6731-8142], Klaver, Caroline CW [0000-0002-2355-5258], and Apollo - University of Cambridge Repository
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genetic structures ,Optic disk ,Medicine (miscellaneous) ,Genome-wide association study ,Neurodegenerative ,Genome-wide association studies ,Sensory disorders Donders Center for Medical Neuroscience [Radboudumc 12] ,0302 clinical medicine ,Optic Nerve Diseases ,2.1 Biological and endogenous factors ,Aetiology ,610 Medicine & health ,lcsh:QH301-705.5 ,0303 health sciences ,Agricultural and Biological Sciences(all) ,Single Nucleotide ,medicine.anatomical_structure ,NEIGHBORHOOD consortium ,General Agricultural and Biological Sciences ,Optic disc ,Signal Transduction ,Optic Disk ,Quantitative Trait Loci ,International Glaucoma Genetics Consortium ,Quantitative trait locus ,Biology ,Genetic correlation ,Polymorphism, Single Nucleotide ,General Biochemistry, Genetics and Molecular Biology ,Article ,UK Biobank Eye and Vision Consortium ,03 medical and health sciences ,Quantitative Trait ,Quantitative Trait, Heritable ,medicine ,Genetics ,Humans ,Genetic Predisposition to Disease ,1000 Genomes Project ,Polymorphism ,Heritable ,Eye Disease and Disorders of Vision ,Genetic Association Studies ,030304 developmental biology ,Genetic association ,CENTRAL CORNEAL THICKNESS ,METAANALYSIS ,GLAUCOMA ,EXPRESSION ,HERITABILITY ,PREVALENCE ,STATISTICS ,PANEL ,Biochemistry, Genetics and Molecular Biology(all) ,Gene Expression Profiling ,Haplotype ,Human Genome ,Computational Biology ,Glaucoma ,Molecular Sequence Annotation ,eye diseases ,lcsh:Biology (General) ,Evolutionary biology ,Case-Control Studies ,RE ,sense organs ,030217 neurology & neurosurgery ,Genome-Wide Association Study - Abstract
A new avenue of mining published genome-wide association studies includes the joint analysis of related traits. The power of this approach depends on the genetic correlation of traits, which reflects the number of pleiotropic loci, i.e. genetic loci influencing multiple traits. Here, we applied new meta-analyses of optic nerve head (ONH) related traits implicated in primary open-angle glaucoma (POAG); intraocular pressure and central corneal thickness using Haplotype reference consortium imputations. We performed a multi-trait analysis of ONH parameters cup area, disc area and vertical cup-disc ratio. We uncover new variants; rs11158547 in PPP1R36-PLEKHG3 and rs1028727 near SERPINE3 at genome-wide significance that replicate in independent Asian cohorts imputed to 1000 Genomes. At this point, validation of these variants in POAG cohorts is hampered by the high degree of heterogeneity. Our results show that multi-trait analysis is a valid approach to identify novel pleiotropic variants for ONH., The International Glaucoma Genetics Consortium reports a genome-wide association study meta-analysis of optic disc parameters relevant to primary open-angle glaucoma. They identify two novel variants in PPP1R36-PLEKHG3 and SERPINE3 by multi-trait analysis in European-ancestry cohorts that were replicated in independent Asian cohorts.
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- 2019
41. Genomic locus modulating corneal thickness in the mouse identifies POU6F2 as a potential risk of developing glaucoma
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King, Rebecca, Struebing, Felix L., Li, Ying, Wang, Jiaxing, Koch, Allison Ashley, Cooke Bailey, Jessica N., Gharahkhani, Puya, MacGregor, Stuart, Allingham, Rand, Hauser, Michael, Wiggs, Janey L., Geisert, Eldon E., Brilliant, Murray, Budenz, Don, Bailey, Jessica N.Cooke, Fingert, John, Gaasterland, Douglas, Gaasterland, Teresa, Haines, Jonathan L., Hark, Lisa, Igo, Rob, Kang, Jae Hee, Kraft, Peter, Lee, Richard, Lichter, Paul, Liu, Yutao, Moroi, Syoko, Pasquale, Louis R., Pericak-Vance, Margaret, Realini, Anthony, Rhee, Doug, Richards, Julia R., Ritch, Robert, Schuman, Joel, Scott, William K., Singh, Kuldev, Sit, Arthur, Vollrath, Douglas, Weinreb, Robert N., Wollstein, Gadi, Zack, Don, Aung, Tin, Burdon, Kathryn P., Cheng, Ching Yu, Craig, Jamie E., Cree, Angela J., Hammond, Christopher J., Psychiatry, Epidemiology, Ophthalmology, Obstetrics & Gynecology, and Anderson, Michael G
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0301 basic medicine ,Retinal Ganglion Cells ,Male ,Cancer Research ,Candidate gene ,Aging ,Eye Diseases ,Corneal Pachymetry ,genetic structures ,Genome-wide association study ,Apoptosis ,QH426-470 ,Inbred C57BL ,Eye ,Transgenic ,Cornea ,Mice ,0302 clinical medicine ,Animal Cells ,Risk Factors ,Pregnancy ,Medicine and Health Sciences ,2.1 Biological and endogenous factors ,Aetiology ,Genetics (clinical) ,Cells, Cultured ,2. Zero hunger ,Genetics ,Neurons ,0303 health sciences ,Mammalian Genomics ,Cultured ,NEIGHBORHOOD Consortium ,Chromosome Mapping ,Genomics ,Single Nucleotide ,Phenotype ,Mice, Inbred DBA ,Embryo ,Female ,Anatomy ,Cellular Types ,Research Article ,Biotechnology ,Ganglion Cells ,Ocular Anatomy ,Cells ,Locus (genetics) ,Mice, Transgenic ,International Glaucoma Genetics Consortium ,Biology ,Quantitative trait locus ,Retinal ganglion ,Polymorphism, Single Nucleotide ,Retina ,03 medical and health sciences ,SDG 3 - Good Health and Well-being ,Ocular System ,SNP ,Animals ,Inbred DBA ,Humans ,Genetic Predisposition to Disease ,Polymorphism ,Molecular Biology ,Gene ,Eye Disease and Disorders of Vision ,Ecology, Evolution, Behavior and Systematics ,030304 developmental biology ,Animal ,Mammalian ,Prevention ,Human Genome ,Neurosciences ,Biology and Life Sciences ,Afferent Neurons ,Glaucoma ,Cell Biology ,Embryo, Mammalian ,eye diseases ,Mice, Inbred C57BL ,Ophthalmology ,Disease Models, Animal ,030104 developmental biology ,Animal Genomics ,Genetic Loci ,Cellular Neuroscience ,Disease Models ,POU Domain Factors ,030221 ophthalmology & optometry ,Eyes ,sense organs ,Head ,Neuroscience ,Genome-Wide Association Study ,Developmental Biology - Abstract
Central corneal thickness (CCT) is one of the most heritable ocular traits and it is also a phenotypic risk factor for primary open angle glaucoma (POAG). The present study uses the BXD Recombinant Inbred (RI) strains to identify novel quantitative trait loci (QTLs) modulating CCT in the mouse with the potential of identifying a molecular link between CCT and risk of developing POAG. The BXD RI strain set was used to define mammalian genomic loci modulating CCT, with a total of 818 corneas measured from 61 BXD RI strains (between 60–100 days of age). The mice were anesthetized and the eyes were positioned in front of the lens of the Phoenix Micron IV Image-Guided OCT system or the Bioptigen OCT system. CCT data for each strain was averaged and used to QTLs modulating this phenotype using the bioinformatics tools on GeneNetwork (www.genenetwork.org). The candidate genes and genomic loci identified in the mouse were then directly compared with the summary data from a human POAG genome wide association study (NEIGHBORHOOD) to determine if any genomic elements modulating mouse CCT are also risk factors for POAG.This analysis revealed one significant QTL on Chr 13 and a suggestive QTL on Chr 7. The significant locus on Chr 13 (13 to 19 Mb) was examined further to define candidate genes modulating this eye phenotype. For the Chr 13 QTL in the mouse, only one gene in the region (Pou6f2) contained nonsynonymous SNPs. Of these five nonsynonymous SNPs in Pou6f2, two resulted in changes in the amino acid proline which could result in altered secondary structure affecting protein function. The 7 Mb region under the mouse Chr 13 peak distributes over 2 chromosomes in the human: Chr 1 and Chr 7. These genomic loci were examined in the NEIGHBORHOOD database to determine if they are potential risk factors for human glaucoma identified using meta-data from human GWAS. The top 50 hits all resided within one gene (POU6F2), with the highest significance level of p = 10−6 for SNP rs76319873. POU6F2 is found in retinal ganglion cells and in corneal limbal stem cells. To test the effect of POU6F2 on CCT we examined the corneas of a Pou6f2-null mice and the corneas were thinner than those of wild-type littermates. In addition, these POU6F2 RGCs die early in the DBA/2J model of glaucoma than most RGCs. Using a mouse genetic reference panel, we identified a transcription factor, Pou6f2, that modulates CCT in the mouse. POU6F2 is also found in a subset of retinal ganglion cells and these RGCs are sensitive to injury., Author summary Glaucoma is a complex group of diseases with several known causal mutations and many known risk factors. One well-known risk factor for developing primary open angle glaucoma is the thickness of the central cornea. The present study leverages a unique blend of systems biology methods using BXD recombinant inbred mice and genome-wide association studies from humans to define a putative molecular link between a phenotypic risk factor (central corneal thickness) and glaucoma. We identified a transcription factor, POU6F2, that is found in the developing retinal ganglion cells and cornea. POU6F2 is also present in a subpopulation of retinal ganglion cells and in stem cells of the cornea. Functional studies reveal that POU6F2 is associated with the central corneal thickness and susceptibility of retinal ganglion cells to injury.
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- 2018
42. Highly Differentiated Human Fetal RPE Cultures Are Resistant to the Accumulation and Toxicity of Lipofuscin-Like Material
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Zhang, Qitao, primary, Presswalla, Feriel, additional, Calton, Melissa, additional, Charniga, Carol, additional, Stern, Jeffrey, additional, Temple, Sally, additional, Vollrath, Douglas, additional, Zacks, David N., additional, Ali, Robin R., additional, Thompson, Debra A., additional, and Miller, Jason M. L., additional
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- 2019
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43. Age at natural menopause genetic risk score in relation to age at natural menopause and primary open-angle glaucoma in a US-based sample
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Pasquale, Louis, Aschard, Hugues, Kang, Jae, Bailey, Jessica, Lindström, Sara, Chasman, Daniel, Christen, William, Allingham, R Rand, Ashley-Koch, Allison, Lee, Richard, Moroi, Sayoko, Brilliant, Murray, Wollstein, Gadi, Schuman, Joel, Fingert, John, Budenz, Donald, Realini, Tony, Gaasterland, Terry, Gaasterland, Douglas, Scott, William, Singh, Kuldev, Sit, Arthur, Igo, Robert, Song, Yeunjoo, Hark, Lisa, Ritch, Robert, Rhee, Douglas, Gulati, Vikas, Havens, Shane, Vollrath, Douglas, Zack, Donald, Medeiros, Felipe, Weinreb, Robert, Pericak-Vance, Margaret, Liu, Yutao, Kraft, Peter, Richards, Julia, Rosner, Bernard, Hauser, Michael, Haines, Jonathan, Wiggs, Janey, Allingham, R. Rand, Harvard Medical School [Boston] (HMS), Brigham & Women’s Hospital [Boston] (BWH), Harvard T.H. Chan School of Public Health, Case Western Reserve University [Cleveland], Program in Genetic Epidemiology and Statistical Genetics (PGESG - BOSTON), Harvard School of Public Health, Brigham and Women's Hospital [Boston], Lawrence Livermore National Laboratory (LLNL), The NIH/NEI R01EY022305 (J.L.W.) supports data collection and analysis for the National Eye Institute Glaucoma Human Genetics Collaboration Heritable Overall Operational Database (NEIGHBORHOOD) consortium. Support for collection of cases, controls, and analysis for individual datasets is as follows. Genotyping services for the predecessor National Eye Institute Glaucoma Human Genetics Collaboration (NEIGHBOR) study were provided by the Center for Inherited Disease Research (CIDR) and were supported by the National Eye Institute (NEI) through grant HG005259-01 (J.L.W.). In addition, CIDR is funded through a federal contract from the National Institutes of Health to The Johns Hopkins University—contract number HHSN268200782096C. Genotyping for the Mass Eye and Ear dataset and some Nurses Health Study (NHS) and Health Professionals Follow-up Study (HPFS) participants that formed the Glaucoma Genes and Environment (GLAUGEN) study was completed at the Broad Institute and supported by GENEVA project grant HG004728 (L.R.P.) and U01-HG004424 (Broad Institute). NIH/NHGRI U01 HG004446 (C Laurie) supported genotype data cleaning and analysis for the GLAUGEN study. The NEI through ARRA grants 3R01EY015872-05S1 (J.L.W.) and 3R01EY019126-02S1 (M.A.H.) supported the collection and processing samples for the NEIGHBOR dataset. The funding for the collection of NEIGHBOR cases and controls was provided by NIH grants: EY015543 (R.R.A.), U02HG004608 (M.H.B.), HG006389 (M.H.B.), UL1TR000427 (M.H.B.), EY006827 (D.G.), HL73042, HL073389, EY13315 (M.A.H.), CA87969, CA49449, CA55075, EY009149 (PR Lichter), HG004608 (C McCarty), EY008208 (F.M.), EY015473 (L.R.P.), EY012118 (M.A.P.-V.), EY015682 (T.R.), EY011671 (J.E.R.), EY09580 (J.E.R.), EY013178 (J.S.S.), EY010886 (J.L.W.), EY009847 (J.L.W.), EY011008, EY144428 (K Zhang), EY144448 (K Zhang), EY18660 (K Zhang), and Research to Prevent Blindness (multiple institutions). The collection of Marshfield clinic cases and controls was supported by 1U02HG004608-01, 5U01HG006389-02, and NCATS/NIH grant UL1TR000427. In addition, some NHS/HPFS cases and controls and analysis of genome-wide data were supported by R01 CA131332 (RM Tamimi, I De Vivo), UM1 CA186107, UM1 CA167552, R01 CA49449, P01 CA87969. The Women's Genome Health Study (WGHS) is supported by HL043851 and HL080467 from the National Heart, Lung, and Blood Institute and CA047988 from the National Cancer Institute, the Donald W. Reynolds Foundation and the Foundation Leducq, with collaborative scientific support and funding for genotyping provided by Amgen. POAG case identification in Women's Genome Health Study was supported by 3RO1 EY015473-05S1 (LR Pasquale). Blood collection at New York Eye & Ear Infirmary was supported by the New York Glaucoma Research Institute., H.A., J.N.C.B., S.L., D.L.C., W.G.C., A.A.-K., S.E.M., D.G., M.H.B., G.W., R.P.I., Y.E.S., L.H., S.H., D.V., M.A.P.-V., and J.E.R. have no conflicts to declare. J.L.W., J.H.K., R.R.A., M.A.H., R.K.L., T.G., V.G., D.J.Z., Y.L., P.K., and B.A.R. sole disclosure is that they receive grant support from NIH. L.R.P. received grant support from NIH and has been a speaker for Allergan. He also served as a paid consultant to Novartis and to Bausch + Lomb. He has received support to travel to meetings by The Glaucoma Foundation (NYC), Glaukos and Aerie Pharmaceuticals. J.S.S. received grant support from NIH and is an inventor on a patent. J.F. received grant support from NIH and Regeneron. D.L.B. received consulting fees from Alcon Labs and travel support from New World Medical, Inc. He is also compensated for Data Safety Monitoring Board activity from Ivantis. He received grant support from New World Medical. T.R. received grant support from NIH and is a consultant for Alcon, Alimera, Bausch and Lomb, Reichert, Sensimed, and Inotek. W.K.S. holds a patent regarding the use of genetic data for risk assessment in age-related macula degeneration (Duke University). He received grant support from NIH, Florida Biomedical Research Program and the American Health Assistance Foundation. K.S. is a consultant to Alcon, Allergan, Santen, and Shire. A.H.S. serves as a consultant to Allergan, Alcon and Sensimed. He has received research support from NIH, Aerie Pharmaceuticals, and Glaukos. R.R. is on the advisory board of Isonic Inc, Intelon Optics and Xoma (US) LLC. He serves as consultant for Aeon Astron Europe B.V., Diopsyc, Inc, GLIA LLC, Gerson Lehrman Group, Guardian Health Sciences and Mobius Therapeutics. He is on the Board of Directors for International Eye Wellness Institute and receives royalties from Ocular Instruments. D.J.R. received research support from Merck, Allergan, Ivantis, and Glaukos. He is on the Scientific Advisory Board of Aerie and Transcend and is on the Data Safety Monitoring Board of Sanofi. F.M. received research support from Carl-Zeiss Meditec, Heidelberg Engineering, Allergan, Topcon, Reichert and Genentech. R.N.W. had a financial agreement or affiliation during the past year with the following commercial interests in the form of Consultant/Advisory Board: Alcon, Allergan, Bausch & Lomb Incorporated, ForSight VISION5, and Valeant, Contracted Research: Genentech, Inc, and and Quark. J.L.H. receives travel support and speaker honoraria from Novartis. He has received royalties from John Wiley and Sons and Athena Diagnostics. The NIH supports his research
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0301 basic medicine ,Percentile ,Aging ,genetic structures ,MESH: Menopause ,Neurodegenerative ,MESH: Risk Assessment ,Medical and Health Sciences ,MESH: Genotype ,0302 clinical medicine ,Risk Factors ,MESH: Risk Factors ,Reproductive history ,MESH: Genetic Variation ,Genetic risk ,[STAT.AP]Statistics [stat]/Applications [stat.AP] ,Natural menopause ,MESH: Middle Aged ,Age Factors ,Obstetrics and Gynecology ,Middle Aged ,Genetic risk score ,3. Good health ,Open-Angle ,ComputingMethodologies_DOCUMENTANDTEXTPROCESSING ,Female ,Menopause ,Primary open-angle glaucoma ,[STAT.ME]Statistics [stat]/Methodology [stat.ME] ,Glaucoma, Open-Angle ,medicine.medical_specialty ,Genotype ,Age at natural menopause ,Risk Assessment ,03 medical and health sciences ,medicine ,Genetics ,MESH: United States ,Humans ,Obstetrics & Reproductive Medicine ,Eye Disease and Disorders of Vision ,Gynecology ,MESH: Age Factors ,MESH: Humans ,business.industry ,Human Genome ,Genetic variants ,Neurosciences ,Genetic Variation ,Glaucoma ,Odds ratio ,Original Articles ,Confidence interval ,United States ,eye diseases ,030104 developmental biology ,Good Health and Well Being ,[SDV.GEN.GH]Life Sciences [q-bio]/Genetics/Human genetics ,030221 ophthalmology & optometry ,MESH: Glaucoma, Open-Angle ,[SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie ,[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM] ,business ,MESH: Female ,Demography - Abstract
Supplemental Digital Content is available in the text, Objective: Several attributes of female reproductive history, including age at natural menopause (ANM), have been related to primary open-angle glaucoma (POAG). We assembled 18 previously reported common genetic variants that predict ANM to determine their association with ANM or POAG. Methods: Using data from the Nurses’ Health Study (7,143 women), we validated the ANM weighted genetic risk score in relation to self-reported ANM. Subsequently, to assess the relation with POAG, we used data from 2,160 female POAG cases and 29,110 controls in the National Eye Institute Glaucoma Human Genetics Collaboration Heritable Overall Operational Database (NEIGHBORHOOD), which consists of 8 datasets with imputed genotypes to 5.6+ million markers. Associations with POAG were assessed in each dataset, and site-specific results were meta-analyzed using the inverse weighted variance method. Results: The genetic risk score was associated with self-reported ANM (P = 2.2 × 10–77) and predicted 4.8% of the variance in ANM. The ANM genetic risk score was not associated with POAG (Odds Ratio (OR) = 1.002; 95% Confidence Interval (CI): 0.998, 1.007; P = 0.28). No single genetic variant in the panel achieved nominal association with POAG (P ≥0.20). Compared to the middle 80 percent, there was also no association with the lowest 10th percentile or highest 90th percentile of genetic risk score with POAG (OR = 0.75; 95% CI: 0.47, 1.21; P = 0.23 and OR = 1.10; 95% CI: 0.72, 1.69; P = 0.65, respectively). Conclusions: A genetic risk score predicting 4.8% of ANM variation was not related to POAG; thus, genetic determinants of ANM are unlikely to explain the previously reported association between the two phenotypes.
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- 2017
44. Systems genetics identifies a role for Cacna2d1 regulation in elevated intraocular pressure and glaucoma susceptibility
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Chintalapudi, Sumana R., Maria, Doaa, Di Wang, Xiang, Bailey, Jessica N.Cooke, Allingham, Rand, Brilliant, Murray, Budenz, Don, Fingert, John, Gaasterland, Douglas, Gaasterland, Teresa, Haines, Jonathan L., Hark, Lisa, Hauser, Michael, Igo, Rob, Hee Kang, Jae, Kraft, Peter, Lee, Richard, Lichter, Paul, Liu, Yutao, Moroi, Syoko, Pasquale, Louis R., Pericak-Vance, Margaret, Realini, Anthony, Rhee, Doug, Richards, Julia R., Ritch, Robert, Schuman, Joel, Scott, William K., Singh, Kuldev, Sit, Arthur, Vollrath, Douglas, Wollstein, Gadi, Zack, Don, Aung, Tin, Bonnemaijer, Peter, Cheng, Cheng Yu, Craig, Jamie, Van Duijn, Cornelia, Gharahkhani, Puya, Iglesias Gonzalez, Adriana, Hammond, Christopher J., Hewitt, Alex, Hoehn, Rene, Jonansson, Fridbert, Khawaja, Anthony, Chuen Khor, Chiea, Klaver, Caroline C.W., Lotery, Andrew, MacKey, David, MacGregor, Stuart, Chintalapudi, Sumana R., Maria, Doaa, Di Wang, Xiang, Bailey, Jessica N.Cooke, Allingham, Rand, Brilliant, Murray, Budenz, Don, Fingert, John, Gaasterland, Douglas, Gaasterland, Teresa, Haines, Jonathan L., Hark, Lisa, Hauser, Michael, Igo, Rob, Hee Kang, Jae, Kraft, Peter, Lee, Richard, Lichter, Paul, Liu, Yutao, Moroi, Syoko, Pasquale, Louis R., Pericak-Vance, Margaret, Realini, Anthony, Rhee, Doug, Richards, Julia R., Ritch, Robert, Schuman, Joel, Scott, William K., Singh, Kuldev, Sit, Arthur, Vollrath, Douglas, Wollstein, Gadi, Zack, Don, Aung, Tin, Bonnemaijer, Peter, Cheng, Cheng Yu, Craig, Jamie, Van Duijn, Cornelia, Gharahkhani, Puya, Iglesias Gonzalez, Adriana, Hammond, Christopher J., Hewitt, Alex, Hoehn, Rene, Jonansson, Fridbert, Khawaja, Anthony, Chuen Khor, Chiea, Klaver, Caroline C.W., Lotery, Andrew, MacKey, David, and MacGregor, Stuart
- Abstract
Glaucoma is a multi-factorial blinding disease in which genetic factors play an important role. Elevated intraocular pressure is a highly heritable risk factor for primary open angle glaucoma and currently the only target for glaucoma therapy. Our study helps to better understand underlying genetic and molecular mechanisms that regulate intraocular pressure, and identifies a new candidate gene, Cacna2d1, that modulates intraocular pressure and a promising therapeutic, pregabalin, which binds to CACNA2D1 protein and lowers intraocular pressure significantly. Because our study utilizes a genetically diverse population of mice with known sequence variants, we are able to determine that the intraocular pressure-lowering effect of pregabalin is dependent on the Cacna2d1 haplotype. Using human genome-wide association study (GWAS) data, evidence for association of a CACNA2D1 single-nucleotide polymorphism and primary open angle glaucoma is found. Importantly, these results demonstrate that our systems genetics approach represents an efficient method to identify genetic variation that can guide the selection of therapeutic targets.
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- 2017
45. Assessment of Murine Retinal Function by Electroretinography
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Benchorin, Gillie, primary, Calton, Melissa, additional, Beaulieu, Marielle, additional, and Vollrath, Douglas, additional
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- 2017
- Full Text
- View/download PDF
46. A Common Variant in MIR182 Is Associated With Primary Open-Angle Glaucoma in the NEIGHBORHOOD Consortium.
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Liu, Yutao, Liu, Yutao, Bailey, Jessica Cooke, Helwa, Inas, Dismuke, W Michael, Cai, Jingwen, Drewry, Michelle, Brilliant, Murray H, Budenz, Donald L, Christen, William G, Chasman, Daniel I, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Gordon, Mae O, Igo, Robert P, Kang, Jae H, Kass, Michael A, Kraft, Peter, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Song, Yeunjoo E, Vollrath, Douglas, Weinreb, Robert, Medeiros, Felipe, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Gonzalez, Pedro, Stamer, W Daniel, Kuchtey, John, Kuchtey, Rachel W, Allingham, R Rand, Hauser, Michael A, Pasquale, Louis R, Haines, Jonathan L, Wiggs, Janey L, Liu, Yutao, Liu, Yutao, Bailey, Jessica Cooke, Helwa, Inas, Dismuke, W Michael, Cai, Jingwen, Drewry, Michelle, Brilliant, Murray H, Budenz, Donald L, Christen, William G, Chasman, Daniel I, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Gordon, Mae O, Igo, Robert P, Kang, Jae H, Kass, Michael A, Kraft, Peter, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Song, Yeunjoo E, Vollrath, Douglas, Weinreb, Robert, Medeiros, Felipe, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Gonzalez, Pedro, Stamer, W Daniel, Kuchtey, John, Kuchtey, Rachel W, Allingham, R Rand, Hauser, Michael A, Pasquale, Louis R, Haines, Jonathan L, and Wiggs, Janey L
- Abstract
PurposeNoncoding microRNAs (miRNAs) have been implicated in the pathogenesis of glaucoma. We aimed to identify common variants in miRNA coding genes (MIR) associated with primary open-angle glaucoma (POAG).MethodsUsing the NEIGHBORHOOD data set (3853 cases/33,480 controls with European ancestry), we first assessed the relation between 85 variants in 76 MIR genes and overall POAG. Subtype-specific analyses were performed in high-tension glaucoma (HTG) and normal-tension glaucoma subsets. Second, we examined the expression of miR-182, which was associated with POAG, in postmortem human ocular tissues (ciliary body, cornea, retina, and trabecular meshwork [TM]), using miRNA sequencing (miRNA-Seq) and droplet digital PCR (ddPCR). Third, miR-182 expression was also examined in human aqueous humor (AH) by using miRNA-Seq. Fourth, exosomes secreted from primary human TM cells were examined for miR-182 expression by using miRNA-Seq. Fifth, using ddPCR we compared miR-182 expression in AH between five HTG cases and five controls.ResultsOnly rs76481776 in MIR182 gene was associated with POAG after adjustment for multiple comparisons (odds ratio [OR] = 1.23, 95% confidence interval [CI]: 1.11-1.42, P = 0.0002). Subtype analysis indicated that the association was primarily in the HTG subset (OR = 1.26, 95% CI: 1.08-1.47, P = 0.004). The risk allele T has been associated with elevated miR-182 expression in vitro. Data from ddPCR and miRNA-Seq confirmed miR-182 expression in all examined ocular tissues and TM-derived exosomes. Interestingly, miR-182 expression in AH was 2-fold higher in HTG patients than nonglaucoma controls (P = 0.03) without controlling for medication treatment.ConclusionsOur integrative study is the first to associate rs76481776 with POAG via elevated miR-182 expression.
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- 2016
47. Assessing the Association of Mitochondrial Genetic Variation With Primary Open-Angle Glaucoma Using Gene-Set Analyses.
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Khawaja, Anthony P, Khawaja, Anthony P, Cooke Bailey, Jessica N, Kang, Jae Hee, Allingham, R Rand, Hauser, Michael A, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John, Gaasterland, Douglas, Gaasterland, Terry, Kraft, Peter, Lee, Richard K, Lichter, Paul R, Liu, Yutao, Medeiros, Felipe, Moroi, Syoko E, Richards, Julia E, Realini, Tony, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret, Weinreb, Robert N, Haines, Jonathan L, Pasquale, Louis R, Wiggs, Janey L, Khawaja, Anthony P, Khawaja, Anthony P, Cooke Bailey, Jessica N, Kang, Jae Hee, Allingham, R Rand, Hauser, Michael A, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John, Gaasterland, Douglas, Gaasterland, Terry, Kraft, Peter, Lee, Richard K, Lichter, Paul R, Liu, Yutao, Medeiros, Felipe, Moroi, Syoko E, Richards, Julia E, Realini, Tony, Ritch, Robert, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret, Weinreb, Robert N, Haines, Jonathan L, Pasquale, Louis R, and Wiggs, Janey L
- Abstract
PurposeRecent studies indicate that mitochondrial proteins may contribute to the pathogenesis of primary open-angle glaucoma (POAG). In this study, we examined the association between POAG and common variations in gene-encoding mitochondrial proteins.MethodsWe examined genetic data from 3430 POAG cases and 3108 controls derived from the combination of the GLAUGEN and NEIGHBOR studies. We constructed biological-system coherent mitochondrial nuclear-encoded protein gene-sets by intersecting the MitoCarta database with the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. We examined the mitochondrial gene-sets for association with POAG and with normal-tension glaucoma (NTG) and high-tension glaucoma (HTG) subsets using Pathway Analysis by Randomization Incorporating Structure.ResultsWe identified 22 KEGG pathways with significant mitochondrial protein-encoding gene enrichment, belonging to six general biological classes. Among the pathway classes, mitochondrial lipid metabolism was associated with POAG overall (P = 0.013) and with NTG (P = 0.0006), and mitochondrial carbohydrate metabolism was associated with NTG (P = 0.030). Examining the individual KEGG pathway mitochondrial gene-sets, fatty acid elongation and synthesis and degradation of ketone bodies, both lipid metabolism pathways, were significantly associated with POAG (P = 0.005 and P = 0.002, respectively) and NTG (P = 0.0004 and P < 0.0001, respectively). Butanoate metabolism, a carbohydrate metabolism pathway, was significantly associated with POAG (P = 0.004), NTG (P = 0.001), and HTG (P = 0.010).ConclusionsWe present an effective approach for assessing the contributions of mitochondrial genetic variation to open-angle glaucoma. Our findings support a role for mitochondria in POAG pathogenesis and specifically point to lipid and carbohydrate metabolism pathways as being important.
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- 2016
48. Meta-analysis of genome-wide association studies identifies novel loci that influence cupping and the glaucomatous process
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Springelkamp, Henriët., Höhn, René, Mishra, Aniket, Hysi, Pirro G., Khor, Chiea-Chuen, Loomis, Stephanie J., Bailey, Jessica N. Cooke, Gibson, Jane, Thorleifsson, Gudmar, Janssen, Sarah F., Luo, Xiaoyan, Ramdas, Wishal D., Vithana, Eranga, Nongpiur, Monisha E., Montgomery, Grant W., Xu, Liang, Mountain, Jenny E., Gharahkhani, Puya, Lu, Yi, Amin, Najaf, Karssen, Lennart C., Sim, Kar-Seng, van Leeuwen, Elisabeth M., Iglesias, Adriana I., Verhoeven, Virginie J. M., Hauser, Michael A., Loon, Seng-Chee, Despriet, Dominiek D. G., Nag, Abhishek, Venturini, Cristina, Sanfilippo, Paul G., Schillert, Arne, Kang, Jae H., Landers, John, Jonasson, Fridbert, Cree, Angela J., van Koolwijk, Leonieke M. E., Rivadeneira, Fernando, Souzeau, Emmanuelle, Jonsson, Vesteinn, Menon, Geeta, Mitchell, Paul, Wang, Jie Jin, Rochtchina, Elena, Attia, John, Scott, Rodney, Holliday, Elizabeth G., Wong, Tien-Yin, Baird, Paul N., Xie, Jing, Inouye, Michael, Viswanathan, Ananth, Sim, Xueling, Weinreb, Robert N., de Jong, Paulus T. V. M., Oostra, Ben A., Uitterlinden, André G., Hofman, Albert, Ennis, Sarah, Thorsteinsdottir, Unnur, Burdon, Kathryn P., Allingham, R. Rand, Brilliant, Murray H., Budenz, Donald L., Cooke Bailey, Jessica N., Christen, William G., Fingert, John, Friedman, David S., Gaasterland, Douglas, Gaasterland, Terry, Haines, Jonathan L., Kang, Jae Hee, Kraft, Peter, Lee, Richard K., Lichter, Paul R., Liu, Yutao, Moroi, Sayoko E., Pasquale, Louis R., Pericak-Vance, Margaret A., Realini, Anthony, Richards, Julia E., Schuman, Joel S., Scott, William K., Singh, Kuldev, Sit, Arthur J., Vollrath, Douglas, Wiggs, Janey L., Wollstein, Gadi, Zack, Donald J., Zhang, Kang, Donnelly (Chair), Peter, Barroso (Deputy Chair), Ines, Blackwell, Jenefer M., Bramon, Elvira, Brown, Matthew A., Casas, Juan P., Corvin, Aiden, Deloukas, Panos, Duncanson, Audrey, Jankowski, Janusz, Markus, Hugh S., Mathew, Christopher G., Palmer, Colin N. A., Plomin, Robert, Rautanen, Anna, Sawcer, Stephen J., Trembath, Richard C., Viswanathan, Ananth C., Wood, Nicholas W., Spencer, Chris C. A., Band, Gavin, Bellenguez, Céline, Freeman, Colin, Hellenthal, Garrett, Giannoulatou, Eleni, Pirinen, Matti, Pearson, Richard, Strange, Amy, Su, Zhan, Vukcevic, Damjan, Donnelly, Peter, Langford, Cordelia, Hunt, Sarah E., Edkins, Sarah, Gwilliam, Rhian, Blackburn, Hannah, Bumpstead, Suzannah J., Dronov, Serge, Gillman, Matthew, Gray, Emma, Hammond, Naomi, Jayakumar, Alagurevathi, McCann, Owen T., Liddle, Jennifer, Potter, Simon C., Ravindrarajah, Radhi, Ricketts, Michelle, Waller, Matthew, Weston, Paul, Widaa, Sara, Whittaker, Pamela, Barroso, Ines, Mathew (Chair), Christopher G., Spector, Timothy D., Mirshahi, Alireza, Saw, Seang-Mei, Vingerling, Johannes R., Teo, Yik-Ying, Wolfs, Roger C. W., Lemij, Hans G., Tai, E-Shyong, Jansonius, Nomdo M., Jonas, Jost B., Cheng, Ching-Yu, Aung, Tin, Klaver, Caroline C. W., Craig, Jamie E., Macgregor, Stuart, Mackey, David A., Lotery, Andrew J., Stefansson, Kari, Bergen, Arthur A. B., Young, Terri L., Pfeiffer, Norbert, Hewitt, Alex W., van Duijn, Cornelia M., Hammond, Christopher J., Netherlands Institute for Neuroscience (NIN), Perceptual and Cognitive Neuroscience (PCN), Other departments, Ophthalmology, ANS - Amsterdam Neuroscience, Human Genetics, Erasmus MC other, Epidemiology, Internal Medicine, Clinical Genetics, and Obstetrics & Gynecology
- Subjects
DISRUPTION ,TO-DISC RATIO ,genetic structures ,Optic disk ,General Physics and Astronomy ,Glaucoma ,Genome-wide association study ,Neurodegenerative ,Eye ,INTRAOCULAR-PRESSURE ,0302 clinical medicine ,Gene Frequency ,2.1 Biological and endogenous factors ,Aetiology ,POPULATION ,0303 health sciences ,education.field_of_study ,Multidisciplinary ,HERITABILITY ,ABNORMALITIES ,NEIGHBORHOOD Consortium ,Single Nucleotide ,3. Good health ,Phenotype ,medicine.anatomical_structure ,Optic nerve ,OPEN-ANGLE GLAUCOMA ,Optic disc ,Asian Continental Ancestry Group ,medicine.medical_specialty ,Genotype ,SUSCEPTIBILITY LOCI ,European Continental Ancestry Group ,Optic Disk ,Population ,Polymorphism, Single Nucleotide ,Article ,White People ,General Biochemistry, Genetics and Molecular Biology ,PARAMETERS ,03 medical and health sciences ,Asian People ,Blue Mountains Eye Study—GWAS group ,Ophthalmology ,Genetics ,medicine ,Humans ,Polymorphism ,education ,CENTRAL CORNEAL THICKNESS ,Eye Disease and Disorders of Vision ,030304 developmental biology ,Genetic association ,business.industry ,Gene Expression Profiling ,Wellcome Trust Case Control Consortium 2 ,Human Genome ,Neurosciences ,Case-control study ,Optic Nerve ,General Chemistry ,A300 ,medicine.disease ,eye diseases ,Case-Control Studies ,030221 ophthalmology & optometry ,sense organs ,business ,Genome-Wide Association Study - Abstract
Glaucoma is characterized by irreversible optic nerve degeneration and is the most frequent cause of irreversible blindness worldwide. Here, the International Glaucoma Genetics Consortium conducts a meta-analysis of genome-wide association studies of vertical cup-disc ratio (VCDR), an important disease-related optic nerve parameter. In 21,094 individuals of European ancestry and 6,784 individuals of Asian ancestry, we identify 10 new loci associated with variation in VCDR. In a separate risk-score analysis of five case-control studies, Caucasians in the highest quintile have a 2.5-fold increased risk of primary open-angle glaucoma as compared with those in the lowest quintile. This study has more than doubled the known loci associated with optic disc cupping and will allow greater understanding of mechanisms involved in this common blinding condition., Glaucoma is the most common cause of irreversible blindness worldwide. Here, the authors carry out a large meta-analysis of genetic data from individuals of European and Asian ancestry and identify 10 new loci associated with vertical cup-disc ratio, a key factor in the clinical assessment of patients with glaucoma.
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- 2014
49. SPP2 Mutations Cause Autosomal Dominant Retinitis Pigmentosa
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Liu, Yuan, primary, Chen, Xue, additional, Xu, Qihua, additional, Gao, Xiang, additional, Tam, Pancy O. S., additional, Zhao, Kanxing, additional, Zhang, Xiumei, additional, Chen, Li Jia, additional, Jia, Wenshuang, additional, Zhao, Qingshun, additional, Vollrath, Douglas, additional, Pang, Chi Pui, additional, and Zhao, Chen, additional
- Published
- 2015
- Full Text
- View/download PDF
50. DNA copy number variants of known glaucoma genes in relation to primary open-angle glaucoma.
- Author
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Liu, Yutao, Liu, Yutao, Garrett, Melanie E, Yaspan, Brian L, Bailey, Jessica Cooke, Loomis, Stephanie J, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Kang, Jae H, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Weinreb, Robert, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Haines, Jonathan L, Pasquale, Louis R, Wiggs, Janey L, Allingham, R Rand, Ashley-Koch, Allison E, Hauser, Michael A, Liu, Yutao, Liu, Yutao, Garrett, Melanie E, Yaspan, Brian L, Bailey, Jessica Cooke, Loomis, Stephanie J, Brilliant, Murray, Budenz, Donald L, Christen, William G, Fingert, John H, Gaasterland, Douglas, Gaasterland, Terry, Kang, Jae H, Lee, Richard K, Lichter, Paul, Moroi, Sayoko E, Realini, Anthony, Richards, Julia E, Schuman, Joel S, Scott, William K, Singh, Kuldev, Sit, Arthur J, Vollrath, Douglas, Weinreb, Robert, Wollstein, Gadi, Zack, Donald J, Zhang, Kang, Pericak-Vance, Margaret A, Haines, Jonathan L, Pasquale, Louis R, Wiggs, Janey L, Allingham, R Rand, Ashley-Koch, Allison E, and Hauser, Michael A
- Abstract
PurposeWe examined the role of DNA copy number variants (CNVs) of known glaucoma genes in relation to primary open angle glaucoma (POAG).MethodsOur study included DNA samples from two studies (NEIGHBOR and GLAUGEN). All the samples were genotyped with the Illumina Human660W_Quad_v1 BeadChip. After removing non-blood-derived and amplified DNA samples, we applied quality control steps based on the mean Log R Ratio and the mean B allele frequency. Subsequently, data from 3057 DNA samples (1599 cases and 1458 controls) were analyzed with PennCNV software. We defined CNVs as those ≥5 kilobases (kb) in size and interrogated by ≥5 consecutive probes. We further limited our investigation to CNVs in known POAG-related genes, including CDKN2B-AS1, TMCO1, SIX1/SIX6, CAV1/CAV2, the LRP12-ZFPM2 region, GAS7, ATOH7, FNDC3B, CYP1B1, MYOC, OPTN, WDR36, SRBD1, TBK1, and GALC.ResultsGenomic duplications of CDKN2B-AS1 and TMCO1 were each found in a single case. Two cases carried duplications in the GAS7 region. Genomic deletions of SIX6 and ATOH7 were each identified in one case. One case carried a TBK1 deletion and another case carried a TBK1 duplication. No controls had duplications or deletions in these six genes. A single control had a duplication in the MYOC region. Deletions of GALC were observed in five cases and two controls.ConclusionsThe CNV analysis of a large set of cases and controls revealed the presence of rare CNVs in known POAG susceptibility genes. Our data suggest that these rare CNVs may contribute to POAG pathogenesis and merit functional evaluation.
- Published
- 2014
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