Autosomal-Recessive Hearing Impairment due to Rare Missense Variants within S1PR2

Regie Lyn P Santos-Cortez, Rabia Faridi, Atteeq U Rehman, Kwanghyuk Lee, Muhammad Ansar, Xin Wang, Robert J Morell, Rivka Isaacson, Inna A Belyantseva, Hang Dai, Anushree Acharya, Tanveer A Qaiser, Dost Muhammad, Rana Amjad Ali, Sulaiman Shams, Muhammad Jawad Hassan, Shaheen Shahzad, Syed Irfan Raza, Zil-E-Huma Bashir, Joshua D SmithDeborah A Nickerson, Michael J Bamshad, Sheikh Riazuddin, Wasim Ahmad, Thomas B Friedman, Suzanne M Leal, University of Washington Center for Mendelian Genomics

Research output: Contribution to journalArticlepeer-review

40 Citations (Scopus)


The sphingosine-1-phosphate receptors (S1PRs) are a well-studied class of transmembrane G protein-coupled sphingolipid receptors that mediate multiple cellular processes. However, S1PRs have not been previously reported to be involved in the genetic etiology of human traits. S1PR2 lies within the autosomal-recessive nonsyndromic hearing impairment (ARNSHI) locus DFNB68 on 19p13.2. From exome sequence data we identified two pathogenic S1PR2 variants, c.323G>C (p.Arg108Pro) and c.419A>G (p.Tyr140Cys). Each of these variants co-segregates with congenital profound hearing impairment in consanguineous Pakistani families with maximum LOD scores of 6.4 for family DEM4154 and 3.3 for family PKDF1400. Neither S1PR2 missense variant was reported among ∼120,000 chromosomes in the Exome Aggregation Consortium database, in 76 unrelated Pakistani exomes, or in 720 Pakistani control chromosomes. Both DNA variants affect highly conserved residues of S1PR2 and are predicted to be damaging by multiple bioinformatics tools. Molecular modeling predicts that these variants affect binding of sphingosine-1-phosphate (p.Arg108Pro) and G protein docking (p.Tyr140Cys). In the previously reported S1pr2(-/-) mice, stria vascularis abnormalities, organ of Corti degeneration, and profound hearing loss were observed. Additionally, hair cell defects were seen in both knockout mice and morphant zebrafish. Family PKDF1400 presents with ARNSHI, which is consistent with the lack of gross malformations in S1pr2(-/-) mice, whereas family DEM4154 has lower limb malformations in addition to hearing loss. Our findings suggest the possibility of developing therapies against hair cell damage (e.g., from ototoxic drugs) through targeted stimulation of S1PR2.

Original languageEnglish
Pages (from-to)331-338
Number of pages7
JournalAmerican Journal of Human Genetics
Issue number2
Early online date21 Jan 2016
Publication statusE-pub ahead of print - 21 Jan 2016


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