Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Letter
  • Published:

Nephrocystin-5, a ciliary IQ domain protein, is mutated in Senior-Loken syndrome and interacts with RPGR and calmodulin

Abstract

Nephronophthisis (NPHP) is the most frequent genetic cause of chronic renal failure in children1,2,3. Identification of four genes mutated in NPHP subtypes 1–4 (refs. 49) has linked the pathogenesis of NPHP to ciliary functions9. Ten percent of affected individuals have retinitis pigmentosa, constituting the renal-retinal Senior-Loken syndrome (SLSN). Here we identify, by positional cloning, mutations in an evolutionarily conserved gene, IQCB1 (also called NPHP5), as the most frequent cause of SLSN. IQCB1 encodes an IQ-domain protein, nephrocystin-5. All individuals with IQCB1 mutations have retinitis pigmentosa. Hence, we examined the interaction of nephrocystin-5 with RPGR (retinitis pigmentosa GTPase regulator), which is expressed in photoreceptor cilia and associated with 10–20% of retinitis pigmentosa. We show that nephrocystin-5, RPGR and calmodulin can be coimmunoprecipitated from retinal extracts, and that these proteins localize to connecting cilia of photoreceptors and to primary cilia of renal epithelial cells. Our studies emphasize the central role of ciliary dysfunction in the pathogenesis of SLSN.

This is a preview of subscription content, access via your institution

Access options

Buy this article

Prices may be subject to local taxes which are calculated during checkout

Figure 1: Refinement of the IQCB1 gene locus by haplotype analysis in the consanguineous pedigree A132 with SLSN.
Figure 2: Identification of IQCB1 by direct mutational analysis in positional candidates.
Figure 3: Nephrocystin-5 directly interacts with calmodulin and is complexed with RPGR.
Figure 4: Nephrocystin-5 localizes to primary cilia in renal tubular epithelial cells and retinal cells.

Similar content being viewed by others

Accession codes

Accessions

GenBank/EMBL/DDBJ

References

  1. Smith, C. & Graham, J. Congenital medullary cysts of the kidneys with severe refractory anemia. Am. J. Dis. Child. 69, 369–377 (1945).

    Google Scholar 

  2. Fanconi, G., Hanhart, E. & Albertini, A. Die familiäre juvenile Nephronophthise. Hel. Pediatr. Acta 6, 1–49 (1951).

    CAS  Google Scholar 

  3. Hildebrandt, F. Nephronophthisis—medullary cystic kidney disease. in Pediatric Nephrology (eds. Avner, E.D. & Niaudet, P.) 665–673 (Lippincott, Williams & Wilkins, Philadelphia, 2004).

    Google Scholar 

  4. Hildebrandt, F. et al. A novel gene encoding an SH3 domain protein is mutated in nephronophthisis type 1. Nat. Genet. 17, 149–153 (1997).

    Article  CAS  Google Scholar 

  5. Saunier, S. et al. A novel gene that encodes a protein with a putative src homology 3 domain is a candidate gene for familial juvenile nephronophthisis. Hum. Mol. Genet. 6, 2317–2323 (1997).

    Article  CAS  Google Scholar 

  6. Otto, E. et al. A gene mutated in nephronophthisis and retinitis pigmentosa encodes a novel protein, nephroretinin, conserved in evolution. Am. J. Hum. Genet. 71, 1161–1167 (2002).

    Article  CAS  Google Scholar 

  7. Mollet, G. et al. The gene mutated in juvenile nephronophthisis type 4 encodes a novel protein that interacts with nephrocystin. Nat. Genet. 32, 300–305 (2002).

    Article  CAS  Google Scholar 

  8. Olbrich, H. et al. Mutations in a novel gene, NPHP3, cause adolescent nephronophthisis, tapeto-retinal degeneration and hepatic fibrosis. Nat. Genet. 34, 455–459 (2003).

    Article  CAS  Google Scholar 

  9. Otto, E.A. et al. Mutations in INVS encoding inversin cause nephronophthisis type 2, linking renal cystic disease to the function of primary cilia and left-right axis determination. Nat. Genet. 34, 413–420 (2003).

    Article  CAS  Google Scholar 

  10. Dehal, P. et al. The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science 298, 2157–2167 (2002).

    Article  CAS  Google Scholar 

  11. Otto, E. et al. Nephrocystin gene expression and sequence conservation between human, mouse, and Caenorhabditis elegans. J. Am. Soc. Nephrol. 11, 270–282 (2000).

    CAS  PubMed  Google Scholar 

  12. Morgan, D. et al. The left-right determinant inversin has highly conserved ankyrin repeat and IQ domains and interacts with calmodulin. Hum. Genet. 110, 377–384 (2002).

    Article  CAS  Google Scholar 

  13. Hong, D.H. et al. RPGR isoforms in photoreceptor connecting cilia and the transitional zone of motile cilia. Invest. Ophthalmol. Vis. Sci. 44, 2413–2421 (2003).

    Article  Google Scholar 

  14. Vervoort, R. et al. Mutational hot spot within a new RPGR exon in X-linked retinitis pigmentosa. Nat. Genet. 25, 462–466 (2000).

    Article  CAS  Google Scholar 

  15. Breuer, D.K. et al. A comprehensive mutation analysis of RP2 and RPGR in a North American cohort of families with X-linked retinitis pigmentosa. Am. J. Hum. Genet. 70, 1545–1554 (2002).

    Article  CAS  Google Scholar 

  16. Watnick, T. & Germino, G. From cilia to cyst. Nat. Genet. 34, 355–356 (2003).

    Article  CAS  Google Scholar 

  17. Roepman, R. et al. The retinitis pigmentosa GTPase regulator (RPGR) interacts with novel transport-like proteins in the outer segments of rod photoreceptors. Hum. Mol. Genet. 9, 2095–2105 (2000).

    Article  CAS  Google Scholar 

  18. Cuenca, N. et al. The neurons of the ground squirrel retina as revealed by immunostains for calcium binding proteins and neurotransmitters. J. Neurocytol. 31, 649–666 (2002).

    Article  CAS  Google Scholar 

  19. Chen, T.Y. et al. Subunit 2 (or beta) of retinal rod cGMP-gated cation channel is a component of the 240-kDa channel-associated protein and mediates Ca2+-calmodulin modulation. Proc. Natl Acad. Sci. USA 91, 11757–11761 (1994).

    Article  CAS  Google Scholar 

  20. Besharse, J.C. et al. The photoreceptor connecting cilium: a model for the transition zone. in The Photoreceptor Connecting Cilium: A Model for the Transitions Zone (ed. Ra, B.) 409–431 (Plenum, New York, 1990).

    Google Scholar 

  21. Gattone, V.H. II, Wang, X., Harris, P.C. & Torres, V.E. Inhibition of renal cystic disease development and progression by a vasopressin V2 receptor antagonist. Nat. Med. 9, 1323–1326 (2003).

    Article  CAS  Google Scholar 

  22. Wilkinson, D.G. Whole mount in situ hybridization of vertebrate embryos. in In Situ Hybridization: A Practical Approach (ed. Wilkinson, D.G.) 75–84 (Oxford University Press, Oxford, 1992).

    Google Scholar 

  23. Hong, D.H. & Li, T. Complex expression pattern of RPGR reveals a role for purine-rich exonic splicing enhancers. Invest. Ophthalmol. Vis. Sci. 43, 3373–3382 (2002).

    PubMed  Google Scholar 

  24. Cheng, H. et al. Photoreceptor-specific nuclear receptor NR2E3 functions as a transcriptional activator in rod photoreceptors. Hum. Mol. Genet. 13, 1563–1575 (2004).

    Article  CAS  Google Scholar 

  25. Gibbs, D. et al. Role of myosin VIIa and Rab27a in the motility and localization of RPE melanosomes. J. Cell Sci. 117, 6473–6483 (2004).

    Article  CAS  Google Scholar 

Download references

Acknowledgements

We thank the affected individuals and their families for participation; R.H. Lyons for large-scale sequencing; M. Petry for technical assistance; and G. Feldhoff, T. Bonzel, H.P. Krohn, C.R. Lincke, H. Ruder, M.J. Schuermann, S. Briese, W. Wuyts, A. Raes, Y. Pirson and C. Dahan for contribution of materials and clinical data from affected individuals. This research was supported by grants from US National Institutes of Health to F.H., to A.S. and to D.S.W.; by grants to A.S. from the Foundation Fighting Blindness and Research to Prevent Blindness; and by grants from the German Research Foundation to H.O. F.H. is a Frederick G.L. Huetwell Professor. A.S. is Harold F. Falls Collegiate Professor and recipient of RPB Senior Scientific Investigator Award. B.M. is an investigator of the Howard Hughes Medical Institute. J. Hellemans is funded by the Institute for the Promotion of Innovation by Science and Technology in Flanders. A.K. is supported by grants from the German Research Foundation.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Friedhelm Hildebrandt.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Supplementary information

Supplementary Fig. 1

Northern blot analysis of NPHP5. (PDF 298 kb)

Supplementary Fig. 2

Whole-mount in situ hybridization analysis of Nphp5 expression during embryonic development of mouse and C. intestinalis, respectively. (PDF 188 kb)

Supplementary Fig. 3

Amino acid sequence alignment for nephrocystin-5 (NPHP5) orthologs of mouse, rat, human, zebrafish, and C. intestinalis. (PDF 191 kb)

Supplementary Fig. 4

Characterization of anti-NPHP5 antibody by immunoblot analysis. (PDF 178 kb)

Supplementary Fig. 5

Characterization of the anti-ORG15CP antibody. (PDF 228 kb)

Supplementary Table 1

Exon-flanking primers used for PCR in the human NPHP5 gene. (PDF 159 kb)

Rights and permissions

Reprints and permissions

About this article

Cite this article

Otto, E., Loeys, B., Khanna, H. et al. Nephrocystin-5, a ciliary IQ domain protein, is mutated in Senior-Loken syndrome and interacts with RPGR and calmodulin. Nat Genet 37, 282–288 (2005). https://doi.org/10.1038/ng1520

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/ng1520

This article is cited by

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing