1. Multi-omic studies on missense PLG variants in families with otitis media
- Author
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Tori C. Bootpetch, Todd Wine, Melissa A. Scholes, Patricia J. Yoon, Michael J. Bamshad, Sven-Olrik Streubel, Daniel N. Frank, Stephen P. Cass, Harold S. Pine, Tasnee Chonmaitree, Michèle M. Sale, Herman A. Jenkins, Ayesha Yousaf, Elisabet Einarsdottir, Erin E. Baschal, Ani Manichaikul, Juha Kere, Kenny H. Chan, Petri S. Mattila, Christina L Elling, Jeremy D. Prager, Regie Lyn P. Santos-Cortez, Lena Hafrén, Norman R. Friedman, Wasyl Szeremeta, Eric D. Larson, Saima Riazuddin, Allen F. Ryan, Rehan S. Shaikh, Rafaqat Ishaq, Suzanne M. Leal, Deborah A. Nickerson, Kathleen Daly, Samuel P. Gubbels, Zubair M. Ahmed, Clinicum, HUS Head and Neck Center, University of Helsinki, Helsinki University Hospital Area, Department of Ophthalmology and Otorhinolaryngology, Biosciences, Päivi Marjaana Saavalainen / Principal Investigator, Research Programs Unit, STEMM - Stem Cells and Metabolism Research Program, Juha Kere / Principal Investigator, and Korva-, nenä- ja kurkkutautien klinikka
- Subjects
Male ,Saliva ,PREDICTION ,lcsh:Medicine ,CHILDREN ,030204 cardiovascular system & hematology ,NETWORKANALYST ,Mice ,0302 clinical medicine ,3123 Gynaecology and paediatrics ,Bacterial genetics ,Missense mutation ,DNA sequencing ,lcsh:Science ,Exome ,Sanger sequencing ,Genetics ,0303 health sciences ,Multidisciplinary ,Microbiota ,Medical genetics ,1184 Genetics, developmental biology, physiology ,RNA sequencing ,Genomics ,Targeted resequencing ,Pedigree ,3. Good health ,Sequence annotation ,symbols ,Female ,medicine.symptom ,Microbial genetics ,DATABASE ,Mutation, Missense ,Ear, Middle ,Genetic predisposition to disease ,Biology ,Polymorphism, Single Nucleotide ,Article ,03 medical and health sciences ,symbols.namesake ,medicine ,LINKAGE ,Animals ,Humans ,3125 Otorhinolaryngology, ophthalmology ,Gene ,030304 developmental biology ,Genetic association study ,CONSEQUENCES ,MUTATIONS ,lcsh:R ,Disease mechanisms ,Plasminogen ,Omics ,FRAMEWORK ,GENE ,Otitis Media ,Otitis ,HUMAN PLASMINOGEN ,Next-generation sequencing ,lcsh:Q ,Gene expression - Abstract
Otitis media (OM), a very common disease in young children, can result in hearing loss. In order to potentially replicate previously reported associations between OM and PLG, exome and Sanger sequencing, RNA-sequencing of saliva and middle ear samples, 16S rRNA sequencing, molecular modeling, and statistical analyses including transmission disequilibrium tests (TDT) were performed in a multi-ethnic cohort of 718 families and simplex cases with OM. We identified four rare PLG variants c.112A > G (p.Lys38Glu), c.782G > A (p.Arg261His), c.1481C > T (p.Ala494Val) and c.2045 T > A (p.Ile682Asn), and one common variant c.1414G > A (p.Asp472Asn). However TDT analyses for these PLG variants did not demonstrate association with OM in 314 families. Additionally PLG expression is very low or absent in normal or diseased middle ear in mouse and human, and salivary expression and microbial α-diversity were non-significant in c.1414G > A (p.Asp472Asn) carriers. Based on molecular modeling, the novel rare variants particularly c.782G > A (p.Arg261His) and c.2045 T > A (p.Ile682Asn) were predicted to affect protein structure. Exploration of other potential disease mechanisms will help elucidate how PLG contributes to OM susceptibility in humans. Our results underline the importance of following up findings from genome-wide association through replication studies, preferably using multi-omic datasets.
- Published
- 2020