A Novel Hypokalemic-Alkalotic Salt-Losing Tubulopathy in Patients with CLDN10 Mutations

Total Page:16

File Type:pdf, Size:1020Kb

A Novel Hypokalemic-Alkalotic Salt-Losing Tubulopathy in Patients with CLDN10 Mutations CLINICAL RESEARCH www.jasn.org A Novel Hypokalemic-Alkalotic Salt-Losing Tubulopathy in Patients with CLDN10 Mutations † ‡ † Ernie M.H.F. Bongers,* Luke M. Shelton, Susanne Milatz, Sjoerd Verkaart, | ‡ Anneke P. Bech,§ Jeroen Schoots,* Elisabeth A.M. Cornelissen, Markus Bleich, † Joost G.J. Hoenderop, Jack F.M. Wetzels,§ Dorien Lugtenberg,* and Tom Nijenhuis§ Departments of *Human Genetics, †Physiology, §Nephrology, and |Pediatric Nephrology, Radboud University Medical Center, Nijmegen, The Netherlands; and ‡Institute of Physiology, Christian Albrechts University Kiel, Kiel, Germany ABSTRACT Mice lacking distal tubular expression of CLDN10, the gene encoding the tight junction protein Claudin-10, show enhanced paracellular magnesium and calcium permeability and reduced sodium permeability in the thick ascend- ing limb (TAL), leading to a urine concentrating defect. However, the function of renal Claudin-10 in humans remains undetermined. We identified and characterized CLDN10 mutations in two patients with a hypokalemic- alkalotic salt-losing nephropathy. The first patient was diagnosed with Bartter syndrome (BS) .30 years ago. At re- evaluation, we observed hypocalciuria and hypercalcemia, suggesting Gitelman syndrome (GS). However, serum magnesium was in the upper normal to hypermagnesemic range, thiazide responsiveness was not blunted, and genetic analyses did not show mutations in genes associated with GS or BS. Whole-exome sequencing revealed compound heterozygous CLDN10 sequence variants [c.446C.G (p.Pro149Arg) and c.465–1G.A (p.Glu157_Tyr192del)]. The patient had reduced urinary concentrating ability, with a preserved aquaporin-2 response to desmopressin and an intact response to furosemide. These findings were not in line with any other known salt-losing nephropathy. Subsequently, we identified a second unrelated patient showing a similar pheno- type, in whom we detected compound heterozygous CLDN10 sequence variants [c.446C.G (p.(Pro149Arg) and c.217G.A (p.Asp73Asn)]. Cell surface biotinylation and immunofluorescence experiments in cells expressing the encoded mutants showed that only one mutation caused significant differences in Claudin-10 membrane localization and tight junction strand formation, indicating that these alterations do not fully explain the phenotype. These data suggest that pathogenic CLDN10 mutations affect TAL paracellular ion transport and cause a novel tight junction disease characterized by a non-BS, non-GS autosomal recessive hypokalemic-alkalotic salt-losing phenotype. J Am Soc Nephrol 28: ccc–ccc, 2017. doi: https://doi.org/10.1681/ASN.2016080881 Hypokalemic alkalosis is often due to increased wa- g-subunits cause Liddle syndrome, presenting ter and sodium delivery to the collecting duct with with a hypokalemic alkalosis and hypertension at concomitant enhanced aldosterone action due to young age.1,2 More proximal defects in sodium volume contraction. Both increase sodium reab- sorption, which creates a lumen-negative potential that eventually promotes excretion of potassium Received August 16, 2016. Accepted May 11, 2017. and hydrogen ions. After the exclusion of acquired E.M.H.F.B., L.M.S., and S.M. contributed equally to this work. and/or drug-induced causes of hypokalemic alka- Published online ahead of print. Publication date available at losis, the differential diagnosis includes several rare www.jasn.org. (genetic) renal tubular disorders. The most impor- Correspondence: Dr. Tom Nijenhuis, Department of Nephrol- tant molecular player in the pathogenesis of hypo- ogy, Radboud University Medical Center, 464, PO Box 9101, kalemic alkalosis is the apically located epithelial 6500 HB Nijmegen, The Netherlands. Email: Tom.Nijenhuis@ sodium channel (ENaC). Gain of function muta- Radboudumc.nl tionsinthegenesencodingENaCb-and Copyright © 2017 by the American Society of Nephrology J Am Soc Nephrol 28: ccc–ccc, 2017 ISSN : 1046-6673/2810-ccc 1 CLINICAL RESEARCH www.jasn.org reabsorption, so-called salt-losing nephropathies, can also distal from PT show enhanced TAL paracellular magnesium induce a hypokalemic alkalosis by increasing distal tubular and calcium permeability and reduced paracellular sodium flow and sodium delivery. Several molecular players in these permeability, leading to a urine concentrating defect. The reabsorption processes were identified by studying the rare functional significance of renal Claudin-10 expression in hu- genetic tubular salt-losing disorders Bartter syndrome (BS) mans has remained elusive. and Gitelman syndrome (GS). In BS, transcellular sodium- In this study, we report the molecular identification of a chloride reabsorption in the thick ascending limb of Henle novel non-Bartter, non-Gitelman hereditary salt-losing ne- loop (TAL) is disrupted due to mutations in transporters phropathy and describe the clinical phenotype in two unrelated and channels involved in this process.3–7 GS is caused by mu- patients, in whom we identified compound heterozygous var- tations affecting distal convoluted tubular (DCT) transcellular iants in the CLDN10 gene encoding Claudin-10. This is the sodium-chloride reabsorption.8 first description of a hypokalemic-alkalotic salt-losing ne- Salt-losing disorders distal from the TAL (e.g., GS) generally phropathy putatively on the basis of a primary defect of para- lead to hypocalciuria due to either increased proximal tubular cellular ion transport in TAL. paracellular transport or increased transcellular calcium reab- sorption in the DCT.9–11 In contrast, salt-losing disorders in the TAL (e.g., BS) are frequently accompanied by hypercalciu- RESULTS ria due to reduced passive paracellular reabsorption of calcium (and magnesium) in the TAL. In this tubular segment, about Patient 1 60%–70% of filtered magnesium and 10%–20% of calcium This woman was referred to the endocrinologist in 1980 at the are reabsorbed, driven by the lumen-positive transepithelial age of 21 years old because of hypokalemia detected at cardio- gradient that is maintained by transcellular sodium, chloride, logic evaluation for atypical chest pains. Detailed examination and potassium transport processes.12 The lumen-positive gra- revealed a hypokalemic alkalosis with mild renal dient permits the passive paracellular transport of cations like insufficiency, a polyuria of 3–5 L/d, and a reduced urine con- calcium and magnesium but also, sodium from the prourine centrating ability (Tables 1 and 2). Her BP was in the lower through tight junctions and back to the interstitium and vas- normal range without orthostatic hypotension. Serum mag- cular compartment.12,13 The main constituent of the size- and nesium was reported once, which was in the normal range charge-selective tight junction is the family of claudins, en- (0.98 mmol/L). At that time, in the absence of genetic screen- compassing at least 24 members in mammals.14 Claudin pro- ing tests, a presumptive diagnosis of BS was made. teins consist of four transmembrane segments, intracellular N In 2012, she was re-evaluated at our nephrology outpatient and C termini, and two extracellular loops that extend into the clinic. Her renal insufficiency had only mildly progressed, but a intercellular cleft between adjacent cells. They interact with persistent hypocalciuria with serum calcium levels in the upper other claudins within the same cell membrane (in cis)and normal to high range was noted, which in retrospect, had been claudins in the membrane of the adjacent cell (in trans). present since diagnosis in 1980 (Tables 1 and 2). A hypokale- Trans-interaction via the extracellular loops bridges the cleft mic alkalosis with hypocalciuria is more in line with GS, which between neighboring cells and results in the formation of se- is classically accompanied by hypomagnesemia. However, lective paracellular pores. The sum of multiple claudin inter- serum magnesium levels were persistently normal to even in- actions leads to the establishment of a complex tight junction creased (up to 1.22 mmol/L) at several occasions, and a chal- strand meshwork. lenge with hydrochlorothiazide showed an exaggerated rather The paracellular calcium and magnesium reabsorption in than the generally blunted response expected in GS (Tables 1 the TAL closely depends on the expression of Claudin-16 and and 2). Moreover, a challenge with furosemide, which can be -19, and mutations in the corresponding genes CLDN16 and blunted in patients with BS, also resulted in an exaggerated CLDN19 cause familial hypomagnesemia with hypercalciuria response. Mutations in SLC12A3 and CLCNKB were not and nephrocalcinosis, in which renal calcium and magnesium detected by Sanger sequencing. Recently, we showed that pa- wasting occurs.15–18 Claudin-14 was shown to be a negative tients with ADTKD-HNF1b can also show a hypo- or normo- regulator of paracellular calcium reabsorption, probably by magnesemic Gitelman-like phenotype with either preserved modifying the permeability properties of Claudin-16.19,20 or blunted response to thiazides.24,25 Because of a small right Claudin-10 exists in two major isoforms, Claudin-10a and kidney with a single cyst, the presence of an HNF1B mutation -10b, due to alternative splicing.21 Claudin-10a and -10b differ or deletion was also excluded by Sanger sequencing and Mul- only in their first transmembrane segment and first extracel- tiplex Ligation–Dependent Probe Amplification (MLPA). Re- lular loop. Claudin-10a is present in the proximal renal tubule nal ultrasound and abdominal CT scanning did not show any (PT) and thought to form an anion-selective
Recommended publications
  • Molecular and Physiological Basis for Hair Loss in Near Naked Hairless and Oak Ridge Rhino-Like Mouse Models: Tracking the Role of the Hairless Gene
    University of Tennessee, Knoxville TRACE: Tennessee Research and Creative Exchange Doctoral Dissertations Graduate School 5-2006 Molecular and Physiological Basis for Hair Loss in Near Naked Hairless and Oak Ridge Rhino-like Mouse Models: Tracking the Role of the Hairless Gene Yutao Liu University of Tennessee - Knoxville Follow this and additional works at: https://trace.tennessee.edu/utk_graddiss Part of the Life Sciences Commons Recommended Citation Liu, Yutao, "Molecular and Physiological Basis for Hair Loss in Near Naked Hairless and Oak Ridge Rhino- like Mouse Models: Tracking the Role of the Hairless Gene. " PhD diss., University of Tennessee, 2006. https://trace.tennessee.edu/utk_graddiss/1824 This Dissertation is brought to you for free and open access by the Graduate School at TRACE: Tennessee Research and Creative Exchange. It has been accepted for inclusion in Doctoral Dissertations by an authorized administrator of TRACE: Tennessee Research and Creative Exchange. For more information, please contact [email protected]. To the Graduate Council: I am submitting herewith a dissertation written by Yutao Liu entitled "Molecular and Physiological Basis for Hair Loss in Near Naked Hairless and Oak Ridge Rhino-like Mouse Models: Tracking the Role of the Hairless Gene." I have examined the final electronic copy of this dissertation for form and content and recommend that it be accepted in partial fulfillment of the requirements for the degree of Doctor of Philosophy, with a major in Life Sciences. Brynn H. Voy, Major Professor We have read this dissertation and recommend its acceptance: Naima Moustaid-Moussa, Yisong Wang, Rogert Hettich Accepted for the Council: Carolyn R.
    [Show full text]
  • Supplementary Table 1: Adhesion Genes Data Set
    Supplementary Table 1: Adhesion genes data set PROBE Entrez Gene ID Celera Gene ID Gene_Symbol Gene_Name 160832 1 hCG201364.3 A1BG alpha-1-B glycoprotein 223658 1 hCG201364.3 A1BG alpha-1-B glycoprotein 212988 102 hCG40040.3 ADAM10 ADAM metallopeptidase domain 10 133411 4185 hCG28232.2 ADAM11 ADAM metallopeptidase domain 11 110695 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 195222 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 165344 8751 hCG20021.3 ADAM15 ADAM metallopeptidase domain 15 (metargidin) 189065 6868 null ADAM17 ADAM metallopeptidase domain 17 (tumor necrosis factor, alpha, converting enzyme) 108119 8728 hCG15398.4 ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) 117763 8748 hCG20675.3 ADAM20 ADAM metallopeptidase domain 20 126448 8747 hCG1785634.2 ADAM21 ADAM metallopeptidase domain 21 208981 8747 hCG1785634.2|hCG2042897 ADAM21 ADAM metallopeptidase domain 21 180903 53616 hCG17212.4 ADAM22 ADAM metallopeptidase domain 22 177272 8745 hCG1811623.1 ADAM23 ADAM metallopeptidase domain 23 102384 10863 hCG1818505.1 ADAM28 ADAM metallopeptidase domain 28 119968 11086 hCG1786734.2 ADAM29 ADAM metallopeptidase domain 29 205542 11085 hCG1997196.1 ADAM30 ADAM metallopeptidase domain 30 148417 80332 hCG39255.4 ADAM33 ADAM metallopeptidase domain 33 140492 8756 hCG1789002.2 ADAM7 ADAM metallopeptidase domain 7 122603 101 hCG1816947.1 ADAM8 ADAM metallopeptidase domain 8 183965 8754 hCG1996391 ADAM9 ADAM metallopeptidase domain 9 (meltrin gamma) 129974 27299 hCG15447.3 ADAMDEC1 ADAM-like,
    [Show full text]
  • Comprehensive Analysis of Expression and Prognostic Value of the Claudin Family in Human Breast Cancer
    www.aging-us.com AGING 2021, Vol. 13, No. 6 Research Paper Comprehensive analysis of expression and prognostic value of the claudin family in human breast cancer Guangda Yang1, Liumeng Jian2, Qianya Chen1 1Department of Cancer Chemotherapy, Zengcheng District People’s Hospital of Guangzhou, Guangdong Province, China 2Department of Neurology, Zengcheng District People’s Hospital of Guangzhou, Guangdong Province, China Correspondence to: Liumeng Jian; email: [email protected], https://orcid.org/0000-0002-0558-1655 Keywords: claudins, breast cancer, prognosis, ONCOMINE, bc-GenExMiner v4.3 Received: December 2, 2020 Accepted: January 25, 2021 Published: March 10, 2021 Copyright: © 2021 Yang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. ABSTRACT Claudins (CLDN) are structural components of tight junctions that function in paracellular transport and maintain the epithelial barrier function. Altered expression and distribution of members of the claudin family have been implicated in several cancers including breast cancer (BC). We performed a comprehensive analysis of the expression and prognostic value of claudins in BC using various online databases. Compared with normal tissues, CLDN3, 4, 6, 7, 9, and 14 were upregulated in BC tissues, whereas CLDN2, 5, 8, 10, 11, 15, 19, and 20 were downregulated. A high expression of CLDN2, 5, 6, 9, 10, 11, and 14–20 was associated with better relapse- free survival (RFS), whereas a high CLDN3 expression correlated with poor RFS. In addition, a high expression of CLDN3, 4, 14, and 20 was associated with poor overall survival (OS), whereas that of CLDN5 and CLDN11 was linked to a better OS.
    [Show full text]
  • Claudins in Renal Physiology and Pathology Caroline Prot-Bertoye, Pascal Houillier
    Claudins in Renal Physiology and Pathology Caroline Prot-Bertoye, Pascal Houillier To cite this version: Caroline Prot-Bertoye, Pascal Houillier. Claudins in Renal Physiology and Pathology. Genes, MDPI, 2020, 11 (3), pp.290. 10.3390/genes11030290. hal-02611242 HAL Id: hal-02611242 https://hal.sorbonne-universite.fr/hal-02611242 Submitted on 18 May 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. G C A T T A C G G C A T genes Review Claudins in Renal Physiology and Pathology Caroline Prot-Bertoye 1,2,3,4,5 and Pascal Houillier 1,2,3,4,5,* 1 Centre de Recherche des Cordeliers, INSERM, Sorbonne Université, Université de Paris, F-75006 Paris, France; [email protected] 2 Service de Physiologie, Hôpital Européen Georges Pompidou, Assistance Publique-Hôpitaux de Paris, F-75015 Paris, France 3 Centre de Référence des Maladies Rénales Héréditaires de l’Enfant et de l’Adulte (MARHEA), F-75015 Paris, France 4 Centre de Référence des Maladies Rares du Calcium et du Phosphate, F-75015 Paris, France 5 CNRS, ERL8228, F-75006 Paris, France * Correspondence: [email protected] Received: 15 January 2020; Accepted: 24 February 2020; Published: 10 March 2020 Abstract: Claudins are integral proteins expressed at the tight junctions of epithelial and endothelial cells.
    [Show full text]
  • The Global Gene Expression Profile of the Secondary Transition During Pancreatic Development
    ÔØ ÅÒÙ×Ö ÔØ The global gene expression profile of the secondary transition during pancre- atic development Stefanie J. Willmann, Nikola S. Mueller, Silvia Engert, Michael Sterr, Ingo Burtscher, Aurelia Raducanu, Martin Irmler, Johannes Beckers, Steffen Sass, Fabian J. Theis, Heiko Lickert PII: S0925-4773(15)30037-X DOI: doi: 10.1016/j.mod.2015.11.004 Reference: MOD 3386 To appear in: Received date: 19 June 2015 Revised date: 26 November 2015 Accepted date: 27 November 2015 Please cite this article as: Willmann, Stefanie J., Mueller, Nikola S., Engert, Sil- via, Sterr, Michael, Burtscher, Ingo, Raducanu, Aurelia, Irmler, Martin, Beckers, Johannes, Sass, Steffen, Theis, Fabian J., Lickert, Heiko, The global gene expres- sion profile of the secondary transition during pancreatic development, (2015), doi: 10.1016/j.mod.2015.11.004 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. ACCEPTED MANUSCRIPT The global gene expression profile of the secondary transition during pancreatic development Stefanie J. Willmann*1,5, Nikola S. Mueller*2, Silvia Engert1, Michael Sterr1, Ingo Burtscher1, Aurelia Raducanu1, Martin Irmler3, Johannes Beckers3,4,5,
    [Show full text]
  • NIH Public Access Author Manuscript Dev Biol
    NIH Public Access Author Manuscript Dev Biol. Author manuscript; available in PMC 2013 January 1. NIH-PA Author ManuscriptPublished NIH-PA Author Manuscript in final edited NIH-PA Author Manuscript form as: Dev Biol. 2012 January 1; 361(1): 68±78. doi:10.1016/j.ydbio.2011.10.004. Regulation of intrahepatic biliary duct morphogenesis by Claudin 15-like b Isla D. Cheung1, Michel Bagnat1,2, Taylur P. Ma3, Anirban Datta4, Kimberley Evason1,5, John C. Moore6, Nathan Lawson6, Keith E. Mostov4, Cecilia B. Moens3, and Didier Y.R. Stainier1,* 1Department of Biochemistry and Biophysics; Programs in Developmental and Stem Cell Biology, Genetics and Human Genetics; Liver Center, Diabetes Center, and Institute for Regeneration Medicine; University of California, San Francisco, CA 94158, USA 3HHMI and Division of Basic Science, Fred Hutchinson Cancer Research Center, Seattle WA 98109, USA 4Department of Anatomy, University of California, San Francisco, CA 94143, USA 5Department of Pathology, University of California, San Francisco, CA 94110, USA 6Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA Abstract The intrahepatic biliary ducts transport bile produced by the hepatocytes out of the liver. Defects in biliary cell differentiation and biliary duct remodeling cause a variety of congenital diseases including Alagille Syndrome and polycystic liver disease. While the molecular pathways regulating biliary cell differentiation have received increasing attention (Lemaigre, 2010), less is known about the cellular behavior underlying biliary duct remodeling. Here, we have identified a novel gene, claudin 15-like b (cldn15lb), which exhibits a unique and dynamic expression pattern in the hepatocytes and biliary epithelial cells in zebrafish.
    [Show full text]
  • Single Cell Transcriptional and Chromatin Accessibility Profiling Redefine Cellular Heterogeneity in the Adult Human Kidney
    ARTICLE https://doi.org/10.1038/s41467-021-22368-w OPEN Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney Yoshiharu Muto 1,7, Parker C. Wilson 2,7, Nicolas Ledru 1, Haojia Wu1, Henrik Dimke 3,4, ✉ Sushrut S. Waikar 5 & Benjamin D. Humphreys 1,6 1234567890():,; The integration of single cell transcriptome and chromatin accessibility datasets enables a deeper understanding of cell heterogeneity. We performed single nucleus ATAC (snATAC- seq) and RNA (snRNA-seq) sequencing to generate paired, cell-type-specific chromatin accessibility and transcriptional profiles of the adult human kidney. We demonstrate that snATAC-seq is comparable to snRNA-seq in the assignment of cell identity and can further refine our understanding of functional heterogeneity in the nephron. The majority of differ- entially accessible chromatin regions are localized to promoters and a significant proportion are closely associated with differentially expressed genes. Cell-type-specific enrichment of transcription factor binding motifs implicates the activation of NF-κB that promotes VCAM1 expression and drives transition between a subpopulation of proximal tubule epithelial cells. Our multi-omics approach improves the ability to detect unique cell states within the kidney and redefines cellular heterogeneity in the proximal tubule and thick ascending limb. 1 Division of Nephrology, Department of Medicine, Washington University in St. Louis, St. Louis, MO, USA. 2 Department of Pathology and Immunology, Washington University in St. Louis, St. Louis, MO, USA. 3 Department of Cardiovascular and Renal Research, Institute of Molecular Medicine, University of Southern Denmark, Odense, Denmark. 4 Department of Nephrology, Odense University Hospital, Odense, Denmark.
    [Show full text]
  • Effect of Chronic Treatment with the Gonadotrophin-Releasing Hormone Agonist Azagly-Nafarelin on Basal Concentrations of LH in Prepubertal Bulls
    REPRODUCTIONRESEARCH Focus on Mammalian Embryogenomics Dynamic changes in messenger RNA profiles of bovine endometrium during the oestrous cycle Katrin Mitko1,2, Susanne E Ulbrich3, Hendrik Wenigerkind4, Fred Sinowatz5, Helmut Blum2, Eckhard Wolf1,2 and Stefan Bauersachs1,2 1Institute of Molecular Animal Breeding and Biotechnology and 2Laboratory for Functional Genome Analysis (LAFUGA), Gene Center, LMU Munich, Feodor-Lynen-Strasse 25, 81377 Munich, Germany, 3Physiology- Weihenstephan, Technical University of Munich, Weihenstephaner Berg 3, 85354 Freising, Germany, 4Bavarian Research Centre for Biology of Reproduction, Hackerstr. 27, 85764 Oberschleissheim, Germany and 5Institute of Veterinary Anatomy, Histology and Embryology, LMU Munich, Veterina¨rstr. 13, 80539 Munich, Germany Correspondence should be addressed to S Bauersachs; Email: [email protected] Abstract During the oestrous cycle, the bovine endometrium exhibits characteristic morphological and functional changes, which are mainly induced by progesterone (P4), oestrogens and oxytocin. We studied the response of the endometrium to this changing hormonal environment at the transcriptome level using a custom-made cDNA microarray. Endometrium samples were recovered from Simmental heifers on days 0 (oestrus), 3.5 (metoestrus), 12 (dioestrus) and 18. The latter group was divided into animals with high (late dioestrus) and low P4 levels (preoestrus). Significance analysis of microarrays revealed 269 genes exhibiting significant changes in their transcript levels during the oestrous
    [Show full text]
  • Viral Micrornas Encoded by Nucleocapsid Gene of SARS-Cov-2 Are Detected During Infection, and Targeting Metabolic Pathways in Host Cells
    cells Communication Viral MicroRNAs Encoded by Nucleocapsid Gene of SARS-CoV-2 Are Detected during Infection, and Targeting Metabolic Pathways in Host Cells Fei Meng 1, Gilman Kit-Hang Siu 1, Bobo Wing-Yee Mok 2,3, Jiahong Sun 1, Kitty S. C. Fung 4, Jimmy Yiu-Wing Lam 5, Nonthaphat Kent Wong 1, Lealem Gedefaw 1, Shumeng Luo 1, Thomas M. H. Lee 6 , Shea Ping Yip 1,* and Chien-Ling Huang 1,* 1 Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong, China; [email protected] (F.M.); [email protected] (G.K.-H.S.); [email protected] (J.S.); [email protected] (N.K.W.); [email protected] (L.G.); [email protected] (S.L.) 2 Department of Microbiology, The University of Hong Kong, Hong Kong, China; [email protected] 3 State Key Laboratory for Emerging Infectious Diseases, The University of Hong Kong, Hong Kong, China 4 Department of Pathology, United Christian Hospital, Kwun Tong, Hong Kong, China; [email protected] 5 Department of Clinical Pathology, Pamela Youde Nethersole Eastern Hospital, Chai Wan, Hong Kong, China; [email protected] 6 Department of Biomedical Engineering, The Hong Kong Polytechnic University, Kowloon, Hong Kong, China; [email protected] * Correspondence: [email protected] (S.P.Y.); [email protected] (C.-L.H.) Citation: Meng, F.; Siu, G.K.-H.; Abstract: MicroRNAs (miRNAs) are critical regulators of gene expression that may be used to identify Mok, B.W.-Y.; Sun, J.; Fung, K.S.C.; the pathological pathways influenced by disease and cellular interactions.
    [Show full text]
  • Comprehensive Analysis Reveals Novel Gene Signature in Head and Neck Squamous Cell Carcinoma: Predicting Is Associated with Poor Prognosis in Patients
    5892 Original Article Comprehensive analysis reveals novel gene signature in head and neck squamous cell carcinoma: predicting is associated with poor prognosis in patients Yixin Sun1,2#, Quan Zhang1,2#, Lanlin Yao2#, Shuai Wang3, Zhiming Zhang1,2 1Department of Breast Surgery, The First Affiliated Hospital of Xiamen University, School of Medicine, Xiamen University, Xiamen, China; 2School of Medicine, Xiamen University, Xiamen, China; 3State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, China Contributions: (I) Conception and design: Y Sun, Q Zhang; (II) Administrative support: Z Zhang; (III) Provision of study materials or patients: Y Sun, Q Zhang; (IV) Collection and assembly of data: Y Sun, L Yao; (V) Data analysis and interpretation: Y Sun, S Wang; (VI) Manuscript writing: All authors; (VII) Final approval of manuscript: All authors. #These authors contributed equally to this work. Correspondence to: Zhiming Zhang. Department of Surgery, The First Affiliated Hospital of Xiamen University, Xiamen, China. Email: [email protected]. Background: Head and neck squamous cell carcinoma (HNSC) remains an important public health problem, with classic risk factors being smoking and excessive alcohol consumption and usually has a poor prognosis. Therefore, it is important to explore the underlying mechanisms of tumorigenesis and screen the genes and pathways identified from such studies and their role in pathogenesis. The purpose of this study was to identify genes or signal pathways associated with the development of HNSC. Methods: In this study, we downloaded gene expression profiles of GSE53819 from the Gene Expression Omnibus (GEO) database, including 18 HNSC tissues and 18 normal tissues.
    [Show full text]
  • Single Cell Transcriptional and Chromatin Accessibility Profiling Redefine Cellular Heterogeneity in the Adult Human Kidney
    bioRxiv preprint doi: https://doi.org/10.1101/2020.06.14.151167; this version posted June 15, 2020. 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. Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney Yoshiharu Muto1†, Parker C. Wilson2†, Haojia Wu1, Sushrut S. Waikar3, Benjamin D. Humphreys1,4* 1Division of Nephrology, Department of Medicine, Washington University in St. Louis, St. Louis, MO, USA 2Department of Pathology and Immunology, Washington University in St. Louis, St. Louis, MO, USA 3Division of Nephrology, Department of Medicine, Boston University Medical School, Boston, MA, USA 4Department of Developmental Biology, Washington University in St. Louis, St. Louis, MO, USA 5These authors contributed equally. †These authors contributed equally to this work. *Correspondence should be addressed to B.D.H ([email protected]) bioRxiv preprint doi: https://doi.org/10.1101/2020.06.14.151167; this version posted June 15, 2020. 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 The integration of single cell transcriptome and chromatin accessibility datasets enables a deeper understanding of cell heterogeneity. We performed single nucleus ATAC (snATAC-seq) and RNA (snRNA-seq) sequencing to generate paired, cell-type-specific chromatin accessibility and transcriptional profiles of the adult human kidney.
    [Show full text]
  • Ep 2327796 A1
    (19) & (11) EP 2 327 796 A1 (12) EUROPEAN PATENT APPLICATION (43) Date of publication: (51) Int Cl.: 01.06.2011 Bulletin 2011/22 C12Q 1/68 (2006.01) (21) Application number: 10184813.3 (22) Date of filing: 09.06.2004 (84) Designated Contracting States: • Spira, Avrum AT BE BG CH CY CZ DE DK EE ES FI FR GB GR Newton, Massachusetts 02465 (US) HU IE IT LI LU MC NL PL PT RO SE SI SK TR (74) Representative: Brown, David Leslie (30) Priority: 10.06.2003 US 477218 P Haseltine Lake LLP Redcliff Quay (62) Document number(s) of the earlier application(s) in 120 Redcliff Street accordance with Art. 76 EPC: Bristol 04776438.6 / 1 633 892 BS1 6HU (GB) (71) Applicant: THE TRUSTEES OF BOSTON Remarks: UNIVERSITY •This application was filed on 30-09-2010 as a Boston, MA 02218 (US) divisional application to the application mentioned under INID code 62. (72) Inventors: •Claims filed after the date of filing of the application/ • Brody, Jerome S. after the date of receipt of the divisional application Newton, Massachusetts 02458 (US) (Rule 68(4) EPC). (54) Detection methods for disorders of the lung (57) The present invention is directed to prognostic vides a minimally invasive sample procurement method and diagnostic methods to assess lung disease risk in combination with the gene expression-based tools for caused by airway pollutants by analyzing expression of the diagnosis and prognosis of diseases of the lung, par- one or more genes belonging to the airway transcriptome ticularly diagnosis and prognosis of lung cancer provided herein.
    [Show full text]