Effects of Maternal Immune Activation on Gene Expression Patterns in the Fetal Brain
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Appendix 4. Top 50 Highest Expressed Genes in Epithelial Cells Based on RPKM Values
Appendix 4. Top 50 highest expressed genes in epithelial cells based on RPKM values Gene Description E_RPKM F_RPKM E_counts F_counts FC* p_value symbol Cryaa Crystallin, alpha A 29,373.3 177,267.7 366,616.4 6,264,319. 17.09 9.11E-118 1 RP23– Long intergenic non-coding RNA 11,888.5 2702.4 261,760.9 134,763.0 −1.94 1 81C12.3 Cryab Crystallin, alpha B 5673.3 10,124.2 65,971.7 333,597.9 5.06 2.71E-43 mt-Nd1 NADH dehydrogenase, subunit 1 5655.6 1798.9 53,082.3 47,748.1 −1.11 0.838775756 Cryba1 Crystallin, beta A1 5622.0 155,230.3 43,420.9 3,380,176. 77.85 1.34E-240 5 Crybb3 Crystallin, beta B3 4743.1 37,636.3 34,717.7 736,007.9 21.20 4.45E-135 Cryga Crystallin, gamma A 2333.2 83,496.3 10,854.5 1,162,864. 107.1 5.89E-270 6 3 Sparc Secreted acidic cysteine rich 2257.4 809.8 39,749.7 34,033.9 −1.17 0.462853166 glycoprotein Slc2a1 Solute carrier family 2, member 1 1832.8 162.9 43,031.4 10,654.8 −4.04 1.67E-05 Hsp90ab1 Heat shock protein 90 kDa alpha, class 1480.7 1139.7 18,998.2 35,901.2 1.89 3.84E-05 B member 1 Igfbp7 Insulin-like growth factor binding 1464.6 428.3 15,428.3 12,626.8 −1.22 0.154954147 protein 7 mt-Nd2 NADH-ubiquinone oxidoreductase 1450.9 615.2 14,644.7 17,789.5 1.21 0.833748849 chain 2 Eef1a1 Eukaryotic translation elongation 1389.1 587.5 11,489.2 12,607.2 1.10 0.754135917 factor 1 alpha 1 Crybb1 Crystallin, beta B1 1376.6 34,662.8 11,455.5 820,406.2 71.62 5.82E-233 Htra3 HtrA serine peptidase 3 1338.6 162.0 23,197.6 6433.9 −3.61 3.93E-05 Gnb2l1 Guanine nucleotide-binding protein 1293.3 670.1 14,495.1 21,652.1 1.49 0.001685952 -
CRYGB Rabbit Pab
Leader in Biomolecular Solutions for Life Science CRYGB Rabbit pAb Catalog No.: A14569 Basic Information Background Catalog No. Crystallins are separated into two classes: taxon-specific, or enzyme, and ubiquitous. A14569 The latter class constitutes the major proteins of vertebrate eye lens and maintains the transparency and refractive index of the lens. Since lens central fiber cells lose their Observed MW nuclei during development, these crystallins are made and then retained throughout 21kDa life, making them extremely stable proteins. Mammalian lens crystallins are divided into alpha, beta, and gamma families; beta and gamma crystallins are also considered as a Calculated MW superfamily. Alpha and beta families are further divided into acidic and basic groups. 20kDa Seven protein regions exist in crystallins: four homologous motifs, a connecting peptide, and N- and C-terminal extensions. Gamma-crystallins are a homogeneous group of Category highly symmetrical, monomeric proteins typically lacking connecting peptides and terminal extensions. They are differentially regulated after early development. Four Primary antibody gamma-crystallin genes (gamma-A through gamma-D) and three pseudogenes (gamma-E, gamma-F, gamma-G) are tandemly organized in a genomic segment as a Applications gene cluster. Whether due to aging or mutations in specific genes, gamma-crystallins WB have been involved in cataract formation. Cross-Reactivity Mouse, Rat Recommended Dilutions Immunogen Information WB 1:500 - 1:2000 Gene ID Swiss Prot 1419 P07316 Immunogen Recombinant fusion protein containing a sequence corresponding to amino acids 80-135 of human CRYGB (NP_005201.2). Synonyms CRYGB;CRYG2;CTRCT39 Contact Product Information www.abclonal.com Source Isotype Purification Rabbit IgG Affinity purification Storage Store at -20℃. -
A Comprehensive Analysis of the Expression of Crystallins in Mouse Retina Jinghua Xi Washington University School of Medicine in St
Washington University School of Medicine Digital Commons@Becker Open Access Publications 2003 A comprehensive analysis of the expression of crystallins in mouse retina Jinghua Xi Washington University School of Medicine in St. Louis Rafal Farjo University of Michigan - Ann Arbor Shigeo Yoshida University of Michigan - Ann Arbor Timothy S. Kern Case Western Reserve University Anand Swaroop University of Michigan - Ann Arbor See next page for additional authors Follow this and additional works at: https://digitalcommons.wustl.edu/open_access_pubs Recommended Citation Xi, Jinghua; Farjo, Rafal; Yoshida, Shigeo; Kern, Timothy S.; Swaroop, Anand; and Andley, Usha P., ,"A comprehensive analysis of the expression of crystallins in mouse retina." Molecular Vision.9,. 410-419. (2003). https://digitalcommons.wustl.edu/open_access_pubs/1801 This Open Access Publication is brought to you for free and open access by Digital Commons@Becker. It has been accepted for inclusion in Open Access Publications by an authorized administrator of Digital Commons@Becker. For more information, please contact [email protected]. Authors Jinghua Xi, Rafal Farjo, Shigeo Yoshida, Timothy S. Kern, Anand Swaroop, and Usha P. Andley This open access publication is available at Digital Commons@Becker: https://digitalcommons.wustl.edu/open_access_pubs/1801 Molecular Vision 2003; 9:410-9 <http://www.molvis.org/molvis/v9/a53> © 2003 Molecular Vision Received 28 May 2003 | Accepted 19 August 2003 | Published 28 August 2003 A comprehensive analysis of the expression of crystallins in mouse retina Jinghua Xi,1 Rafal Farjo,3 Shigeo Yoshida,3 Timothy S. Kern,5 Anand Swaroop,3,4 Usha P. Andley1,2 Departments of 1Ophthalmology and Visual Sciences and 2Biochemistry and Molecular Biophysics, Washington University School of Medicine, St. -
Related Macular Degeneration and Cutis Laxa
UvA-DARE (Digital Academic Repository) Genetic studies of age-related macular degeneration Baas, D.C. Publication date 2012 Document Version Final published version Link to publication Citation for published version (APA): Baas, D. C. (2012). Genetic studies of age-related macular degeneration. General rights It is not permitted to download or to forward/distribute the text or part of it without the consent of the author(s) and/or copyright holder(s), other than for strictly personal, individual use, unless the work is under an open content license (like Creative Commons). Disclaimer/Complaints regulations If you believe that digital publication of certain material infringes any of your rights or (privacy) interests, please let the Library know, stating your reasons. In case of a legitimate complaint, the Library will make the material inaccessible and/or remove it from the website. Please Ask the Library: https://uba.uva.nl/en/contact, or a letter to: Library of the University of Amsterdam, Secretariat, Singel 425, 1012 WP Amsterdam, The Netherlands. You will be contacted as soon as possible. UvA-DARE is a service provided by the library of the University of Amsterdam (https://dare.uva.nl) Download date:05 Oct 2021 G������ S������ �� A��-������� M������ D����������� D����������� M������ G������ S������ �� A��-������� | 2012 D�������� C. B��� G������ S������ �� A��-������� M������ D����������� D�������� C. B��� cover.indd 1 31-10-12 08:36 Genetic Studies of Age-related Macular Degeneration Dominique C. Baas Chapter 0.indd 1 23-10-12 19:24 The research described in this thesis was conducted at the Netherlands Institute for Neuroscience (NIN), an institute of the Royal Netherlands Academy of Arts and Sciences, Department of Clinical and Molecular Ophthalmogenetics, Amsterdam, The Netherlands. -
Congenital Cataracts Due to a Novel 2‑Bp Deletion in CRYBA1/A3
1614 MOLECULAR MEDICINE REPORTS 10: 1614-1618, 2014 Congenital cataracts due to a novel 2‑bp deletion in CRYBA1/A3 JING ZHANG1, YANHUA ZHANG1, FANG FANG1, WEIHONG MU1, NING ZHANG2, TONGSHUN XU3 and QINYING CAO1 1Prenatal Diagnosis Center, Shijiazhuang Obstetrics and Gynecology Hospital; 2Department of Cardiology, The Second Hospital of Hebei Medical University; 3Department of Surgery, Shijiazhuang Obstetrics and Gynecology Hospital, Shijiazhuang, Hebei, P.R. China Received September 22, 2013; Accepted April 11, 2014 DOI: 10.3892/mmr.2014.2324 Abstract. Congenital cataracts, which are a clinically and located in the eye lens. The major human crystallins comprise genetically heterogeneous group of eye disorders, lead to 90% of protein in the mature lens and contain two different visual impairment and are a significant cause of blindness superfamilies: the small heat‑shock proteins (α-crystallins) in childhood. A major proportion of the causative mutations and the βγ-crystallins. for congenital cataracts are found in crystallin genes. In the In this study a functional candidate approach was used present study, a novel deletion mutation (c.590-591delAG) in to investigate the known crystallin genes, including CRYAA, exon 6 of CRYBA1/A3 was identified in a large family with CRYAB, CRYBA1/A3, CRYBB1, CRYBB2, CRYGC, CRYGD autosomal dominant congenital cataracts. An increase in and CRYGS, in which a major proportion of the mutations local hydrophobicity was predicted around the mutation site; identified in a large family with congenital cataracts were however, further studies are required to determine the exact found. effect of the mutation on βA1/A3-crystallin structure and function. To the best of our knowledge, this is the first report Subjects and methods of an association between a frameshift mutation in exon 6 of CRYBA1/A3 and congenital cataracts. -
Congenital Eye Disorders Gene Panel
Congenital eye disorders gene panel Contact details Introduction Regional Genetics Service Ocular conditions are highly heterogeneous and show considerable phenotypic overlap. 1 in Levels 4-6, Barclay House 2,500 children in the UK are diagnosed as blind or severely visually impaired by the time they 37 Queen Square reach one year old. As many as half of these cases are likely to be inherited and remain undiagnosed due to the vast number of genes involved in these conditions. Many congenital London, WC1N 3BH eye disorders causing visual impairment or blindness at birth or progressive visual impairment T +44 (0) 20 7762 6888 also include syndromic conditions involving additional metabolic, developmental, physical or F +44 (0) 20 7813 8578 sensory abnormalities. Gene panels offer the enhanced probability of diagnosis as a very large number of genes can be interrogated. Samples required Ocular birth defects include all inheritance modalities. Autosomal dominant and recessive 5ml venous blood in plastic EDTA diseases as well as X-linked dominant and recessive diseases are seen. These conditions can bottles (>1ml from neonates) also be caused by de novo variants. Prenatal testing must be arranged Referrals in advance, through a Clinical Genetics department if possible. Patients presenting with a phenotype appropriate for the requested sub-panel Amniotic fluid or CV samples Referrals will be accepted from clinical geneticists and consultants in ophthalmology. should be sent to Cytogenetics for Prenatal testing dissecting and culturing, with instructions to forward the sample Prenatal diagnosis may be offered as appropriate where pathogenic variants have been to the Regional Molecular Genetics identified in accordance with expected inheritance pattern and where appropriate parental laboratory for analysis testing and counselling has been conducted. -
Transgenic Zebrafish Models Reveal Distinct Molecular Mechanisms for Cataract-Linked Αa-Crystallin Mutants
bioRxiv preprint doi: https://doi.org/10.1101/364125; this version posted July 8, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Transgenic Zebrafish Models Reveal Distinct Molecular Mechanisms for Cataract-linked αA-Crystallin Mutants Shu-Yu Wu, Ping Zou, Sanjay Mishra, Hassane S Mchaourab* Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN 37232, USA Running title: Distinct mechanisms of α-crystallin mutations * Corresponding author: Hassane Mchaourab 741 Light Hall 2215 Garland Avenue Molecular Physiology & Biophysics Nashville, TN 37232 Office: 615.322.3307 Fax: 615.322.7236 Email: [email protected] bioRxiv preprint doi: https://doi.org/10.1101/364125; this version posted July 8, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Abstract Mutations in the small heat shock proteins a-crystallins have been linked to autosomal dominant cataracts in humans. Extensive studies in vitro have revealed a spectrum of alterations to the structure and function of these proteins including shifts in the size of the oligomer, modulation of subunit exchange and modification of their affinity to client proteins. Although mouse models of these mutants were instrumental in identifying changes in cellular proliferation and lens development, a direct comparative analysis of their effects on lens proteostasis has not been performed. -
Supplementary Materials
Supplementary materials Gene Nucleotide Amino acid change Clinical phenotype Ref symbol change CRYAA c.35G>T p. R12L lens protein gene [1] CRYAB c.32G>A p. R11H lens protein gene [2] CRYBA1 c.279-281delG p.ΔG91 lens protein gene [3] AG CRYBA4 c.206T>C p. L69P lens protein gene [4] CRYBB1 c.658G>T p. G220X lens protein gene [5] CRYBB2 c.563G>A p. R188H lens protein gene [6] CRYBB3 c.314G>A p. R105Q lens protein gene [7] CRYGA c.196T>C p. Y66H lens protein gene [8] CRYGB c.449G>T p. G150V lens protein gene [8] CRYGC c.385G>T p. G129C lens protein gene [9] CRYGD c.70C>A p. P24T lens protein gene [10] CRYGS c.53G>T :p.G18V lens protein gene [11] GJA3 c.188A>G p.N63S membrane protein [12] gene GJA8 c.262C>T p.P88S membrane protein [13] gene BFSP1 c736-1384_c.9 T246fsX7 cytoskeleton protein [14] 57-66del gene BFSP2 c.1091G>A p.G364D cytoskeleton protein [15] gene PAX6 c.307C>T p.R103X developmental [16] regulatory protein gen PITX3 c.38G>A p.S13N developmental [17] regulatory protein gen HSF4 c.524G>C p.R175P developmental [18] regulatory protein gen MAF c.863G>C p.R288P developmental [19] regulatory protein gen CHMP4B c.481G>A p. E161K chromatin modified [20] protein gene EPHA2 c.2842G>T p. G948W tyrosine kinase [21] receptor gene COL4A1 c.2345G>C p. G782A syndrome-related [22] genes FTL c.160G>A p.E54K developmental [23] regulatory protein gen GALK1 c.416T>C p. -
Alpha a Crystallin (CRYAA) Mouse Monoclonal Antibody [Clone ID: OTI3B12] Product Data
OriGene Technologies, Inc. 9620 Medical Center Drive, Ste 200 Rockville, MD 20850, US Phone: +1-888-267-4436 [email protected] EU: [email protected] CN: [email protected] Product datasheet for CF505577 alpha A Crystallin (CRYAA) Mouse Monoclonal Antibody [Clone ID: OTI3B12] Product data: Product Type: Primary Antibodies Clone Name: OTI3B12 Applications: IF, IHC, WB Recommended Dilution: WB 1:2000, IHC 1:150, IF 1:100 Reactivity: Human, Mouse, Rat Host: Mouse Isotype: IgG2b Clonality: Monoclonal Immunogen: Full length human recombinant protein of human CRYAA(NP_000385) produced in HEK293T cell. Formulation: Lyophilized powder (original buffer 1X PBS, pH 7.3, 8% trehalose) Reconstitution Method: For reconstitution, we recommend adding 100uL distilled water to a final antibody concentration of about 1 mg/mL. To use this carrier-free antibody for conjugation experiment, we strongly recommend performing another round of desalting process. (OriGene recommends Zeba Spin Desalting Columns, 7KMWCO from Thermo Scientific) Purification: Purified from mouse ascites fluids or tissue culture supernatant by affinity chromatography (protein A/G) Conjugation: Unconjugated Storage: Store at -20°C as received. Stability: Stable for 12 months from date of receipt. Predicted Protein Size: 19.7 kDa Gene Name: Homo sapiens crystallin alpha A (CRYAA), transcript variant 1, mRNA. Database Link: NP_000385 Entrez Gene 12954 MouseEntrez Gene 24273 RatEntrez Gene 1409 Human P02489 This product is to be used for laboratory only. Not for diagnostic or therapeutic use. View online » ©2021 OriGene Technologies, Inc., 9620 Medical Center Drive, Ste 200, Rockville, MD 20850, US 1 / 5 alpha A Crystallin (CRYAA) Mouse Monoclonal Antibody [Clone ID: OTI3B12] – CF505577 Background: Crystallins are separated into two classes: taxon-specific, or enzyme, and ubiquitous. -
Congenital Polymorphic Cataract Associated with a G to a Splice Site Mutation in the Human Beta-Crystallin Gene Cryβa3/A1
Molecular Vision 2012; 18:2213-2220 <http://www.molvis.org/molvis/v18/a234> © 2012 Molecular Vision Received 6 April 2012 | Accepted 4 August 2012 | Published 8 August 2012 Congenital polymorphic cataract associated with a G to A splice site mutation in the human beta-crystallin gene CRYβA3/A1 Yibo Yu, Jinyu Li, Jia Xu, Qiwei Wang, Yinhui Yu, Ke Yao (The first two authors contributed equally to the work) Eye Center of the 2nd Affiliated Hospital, Medical College of Zhejiang University, Hangzhou, China Purpose: To identify the underlying genetic defect in four generations of a Chinese family affected with bilateral congenital polymorphic cataracts. Methods: Family history and clinical data were recorded. The phenotype was documented using slit-lamp photography. Genomic DNA samples were extracted from peripheral blood of family members. Candidate genes were amplified using polymerase chain reaction (PCR) and screened for mutations on both strands using bidirectional sequencing. Results: Affected individuals exhibited variable opacities in the embryonic nucleus, sutures, and peripheral cortical opacities. The phenotype for this family was identified as polymorphic. Direct sequencing revealed a splice site mutation (c.215+1G>A) at the first base of intron 3 of the crystallin beta A3/A1 (CRYBA3/A1) gene. This mutation co-segregated with all affected individuals in the family and was not found in unaffected family members or in 100 unrelated controls. Conclusions: Our results identified a recurrent c.215+1G>A mutation in CRYBA3/A1 in a polymorphic congenital cataract family, summarized the variable phenotypes among the patients, which expanded the phenotypic spectrum of congenital cataract in a different ethnic background, and suggested a mechanism that influences cataractogenesis. -
Alpha-Crystallin Mutations Alter Lens Metabolites in Mouse Models of Human Cataracts
Washington University School of Medicine Digital Commons@Becker Open Access Publications 1-1-2020 Alpha-crystallin mutations alter lens metabolites in mouse models of human cataracts Cheryl Frankfater Stephanie L. Bozeman Fong-Fu Hsu Usha P. Andley Follow this and additional works at: https://digitalcommons.wustl.edu/open_access_pubs PLOS ONE RESEARCH ARTICLE Alpha-crystallin mutations alter lens metabolites in mouse models of human cataracts 1 2 1 2 Cheryl Frankfater , Stephanie L. Bozeman , Fong-Fu Hsu , Usha P. AndleyID * 1 Mass Spectrometry Resource, Division of Endocrinology, Diabetes, Metabolism, and Lipid Research, Department of Medicine, Washington University School of Medicine, St. Louis, MO, United States of America, 2 Departments of Ophthalmology and Visual Sciences, Washington University School of Medicine, St. Louis, MO, United States of America a1111111111 a1111111111 * [email protected] a1111111111 a1111111111 a1111111111 Abstract Cataracts are a major cause of blindness worldwide and commonly occur in individuals over 70 years old. Cataracts can also appear earlier in life due to genetic mutations. The lens pro- OPEN ACCESS teins, αA- and αB-crystallins, are chaperone proteins that have important roles maintaining Citation: Frankfater C, Bozeman SL, Hsu F-F, protein solubility to prevent cataract formation. Mutations in the CRYAA and CRYAB crystal- Andley UP (2020) Alpha-crystallin mutations alter lin genes are associated with autosomal dominant early onset human cataracts. Although lens metabolites in mouse models of human studies about the proteomic and genomic changes that occur in cataracts have been cataracts. PLoS ONE 15(8): e0238081. https://doi. reported, metabolomics studies are very limited. Here, we directly investigated cataract org/10.1371/journal.pone.0238081 metabolism using gas-chromatography-mass spectrometry (GC-MS) to analyze the metab- Editor: Ram Nagaraj, University of Colorado olites in adult Cryaa-R49C and Cryab-R120G knock-in mouse lenses. -
A Novel Γd-Crystallin Mutation Causes Mild Changes in Protein Properties but Leads to Congenital Coralliform Cataract
Molecular Vision 2009; 15:1521-1529 <http://www.molvis.org/molvis/v15/a162> © 2009 Molecular Vision Received 29 April 2009 | Accepted 3 August 2009 | Published 6 August 2009 A novel γD-crystallin mutation causes mild changes in protein properties but leads to congenital coralliform cataract Li-Yun Zhang,1 Bo Gong,1 Jian-Ping Tong,2 Dorothy Shu-Ping Fan,1 Sylvia Wai-Yee Chiang,1 Dinghua Lou,2 Dennis Shun-Chiu Lam,1 Gary Hin-Fai Yam,1 Chi-Pui Pang1 1Department of Ophthalmology and Visual Sciences, The Chinese University of Hong Kong, Hong Kong, China; 2Department of Ophthalmology, the First Affiliated Hospital, College of Medicine, Zhejiang University, Hangzhou, China Purpose: To identify the genetic lesions for congenital coralliform cataract. Methods: Two Chinese families with autosomal dominant coralliform cataract, 12 affected and 14 unaffected individuals, were recruited. Fifteen known genes associated with autosomal dominant congenital cataract were screened by two-point linkage analysis with gene based single nucleotide polymorphisms and microsatellite markers. Sequence variations were identified. Recombinant FLAG-tagged wild type or mutant γD-crystallin was expressed in human lens epithelial cells and COS-7 cells. Protein solubility and intracellular distribution were analyzed by western blotting and immunofluorescence, respectively. Results: A novel heterozygous change, c.43C>A (R15S) of γD-crystallin (CRYGD) co-segregated with coralliform cataract in one family and a known substitution, c.70C>A (P24T), in the other family. Unaffected family members and 103 unrelated control subjects did not carry these mutations. Similar to the wild type protein, R15S γD-crystallin was detergent soluble and was located in the cytoplasm.