Skip Navigation


Human Molecular Genetics Advance Access originally published online on May 26, 2004
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (PDF) Freely available
Right arrow Supplementary Material
Right arrow All Versions of this Article:
13/14/1487    most recent
ddh160v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (41)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Yoshida, S.
Right arrow Articles by Swaroop, A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Yoshida, S.
Right arrow Articles by Swaroop, A.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Human Molecular Genetics, 2004, Vol. 13, No. 14 1487-1503
DOI: 10.1093/hmg/ddh160
Human Molecular Genetics, Vol. 13, No. 14 © Oxford University Press 2004; all rights reserved

Expression profiling of the developing and mature Nrl–/– mouse retina: identification of retinal disease candidates and transcriptional regulatory targets of Nrl

Shigeo Yoshida1,{dagger},{ddagger}, Alan J. Mears1,{dagger},¶, James S. Friedman1, Todd Carter4, Shirley He1, Edwin Oh1, Yuezhou Jing2, Rafal Farjo1,§, Gilles Fleury5, Carrolee Barlow4,||, Alfred O. Hero2 and Anand Swaroop1,3,*

1Department of Ophthalmology and Visual Sciences, 2Departments of EECS, Biomedical Engineering and Statistics and 3Department of Human Genetics, University of Michigan, Ann Arbor, MI, USA, 4The Salk Institute for Biological Studies, San Diego, California, USA and 5Service des Mesures Ecole Supérieure d'Electricité, Gif-sur-Yvette, France

Received March 20, 2004; Accepted May 14, 2004

The rod photoreceptor-specific neural retina leucine zipper protein Nrl is essential for rod differentiation and plays a critical role in regulating gene expression. In the mouse retina, rods account for 97% of the photoreceptors; however, in the absence of Nrl (Nrl–/–), no rods are present and a concomitant increase in cones is observed. A functional all-cone mouse retina represents a unique opportunity to investigate, at the molecular level, differences between the two photoreceptor subtypes. Using mouse GeneChips (Affymetrix), we have generated expression profiles of the wild-type and Nrl–/– retina at three time-points representing distinct stages of photoreceptor differentiation. Comparative data analysis revealed 161 differentially expressed genes; of which, 78 exhibited significantly lower and 83 higher expression in the Nrl–/– retina. Hierarchical clustering was utilized to predict the function of these genes in a temporal context. The differentially expressed genes primarily encode proteins associated with signal transduction, transcriptional regulation, intracellular transport and other processes, which likely correspond to differences between rods and cones and/or retinal remodeling in the absence of rods. A significant number of these genes may serve as candidates for diseases involving rod or cone dysfunction. Chromatin immunoprecipitation assay showed that in addition to the rod phototransduction genes, Nrl might modulate the promoters of many functionally diverse genes in vivo. Our studies provide molecular insights into differences between rod and cone function, yield interesting candidates for retinal diseases and assist in identifying transcriptional regulatory targets of Nrl.

* To whom correspondence should be addressed at: Department of Ophthalmology and Visual Sciences and Department of Human Genetics, W.K. Kellogg Eye Center, University of Michigan, 1000 Wall Street, Ann Arbor, MI 48105-0714, USA. Tel: +1 7347633731; Fax: +1 7346470228; Email: swaroop{at}umich.edu


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 IOVSHome page
D. Trifunovic, M. Karali, D. Camposampiero, D. Ponzin, S. Banfi, and V. Marigo
A High-Resolution RNA Expression Atlas of Retinitis Pigmentosa Genes in Human and Mouse Retinas
Invest. Ophthalmol. Vis. Sci., June 1, 2008; 49(6): 2330 - 2336.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. C. Corbo, C. A. Myers, K. A. Lawrence, A. P. Jadhav, and C. L. Cepko
A typology of photoreceptor gene expression patterns in the mouse
PNAS, July 17, 2007; 104(29): 12069 - 12074.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
E. C. T. Oh, N. Khan, E. Novelli, H. Khanna, E. Strettoi, and A. Swaroop
From the Cover: Transformation of cone precursors to functional rod photoreceptors by bZIP transcription factor NRL
PNAS, January 30, 2007; 104(5): 1679 - 1684.
[Abstract] [Full Text] [PDF]

Home page
 Hum Mol GenetHome page
H. Cheng, T. S. Aleman, A. V. Cideciyan, R. Khanna, S. G. Jacobson, and A. Swaroop
In vivo function of the orphan nuclear receptor NR2E3 in establishing photoreceptor identity during mammalian retinal development
Hum. Mol. Genet., September 1, 2006; 15(17): 2588 - 2602.
[Abstract] [Full Text] [PDF]

Home page
 IOVSHome page
L. G. Glushakova, A. M. Timmers, J. Pang, J. T. Teusner, and W. W. Hauswirth
Human blue-opsin promoter preferentially targets reporter gene expression to rat s-cone photoreceptors.
Invest. Ophthalmol. Vis. Sci., August 1, 2006; 47(8): 3505 - 3513.
[Abstract] [Full Text] [PDF]

Home page
 IOVSHome page
B. Zangerl, Q. Sun, J. Pillardy, J. L. Johnson, P. A. Schweitzer, A. G. Hernandez, L. Liu, G. M. Acland, and G. D. Aguirre
Development and characterization of a normalized canine retinal cDNA library for genomic and expression studies.
Invest. Ophthalmol. Vis. Sci., June 1, 2006; 47(6): 2632 - 2638.
[Abstract] [Full Text] [PDF]

Home page
 IOVSHome page
A. G. Diehl, S. Zareparsi, M. Qian, R. Khanna, R. Angeles, and P. J. Gage
Extraocular Muscle Morphogenesis and Gene Expression Are Regulated by Pitx2 Gene Dose
Invest. Ophthalmol. Vis. Sci., May 1, 2006; 47(5): 1785 - 1793.
[Abstract] [Full Text] [PDF]

Home page
 J. Cell Biol.Home page
R. Farjo, J. S. Skaggs, B. A. Nagel, A. B. Quiambao, Z. A. Nash, S. J. Fliesler, and M. I. Naash
Retention of function without normal disc morphogenesis occurs in cone but not rod photoreceptors
J. Cell Biol., April 10, 2006; 173(1): 59 - 68.
[Abstract] [Full Text] [PDF]

Home page
 IOVSHome page
D. N. Zacks, Y. Han, Y. Zeng, and A. Swaroop
Activation of signaling pathways and stress-response genes in an experimental model of retinal detachment.
Invest. Ophthalmol. Vis. Sci., April 1, 2006; 47(4): 1691 - 1695.
[Abstract] [Full Text] [PDF]

Home page
 J. Gen. Physiol.Home page
S. S. Nikonov, R. Kholodenko, J. Lem, and E. N. Pugh Jr.
Physiological Features of the S- and M-cone Photoreceptors of Wild-type Mice from Single-cell Recordings
J. Gen. Physiol., March 27, 2006; 127(4): 359 - 374.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
M. Akimoto, H. Cheng, D. Zhu, J. A. Brzezinski, R. Khanna, E. Filippova, E. C. T. Oh, Y. Jing, J.-L. Linares, M. Brooks, et al.
From the Cover: Targeting of GFP to newborn rods by Nrl promoter and temporal expression profiling of flow-sorted photoreceptors
PNAS, March 7, 2006; 103(10): 3890 - 3895.
[Abstract] [Full Text] [PDF]

Home page
 Hum Mol GenetHome page
G. Abou-Sleymane, F. Chalmel, D. Helmlinger, A. Lardenois, C. Thibault, C. Weber, K. Merienne, J.-L. Mandel, O. Poch, D. Devys, et al.
Polyglutamine expansion causes neurodegeneration by altering the neuronal differentiation program
Hum. Mol. Genet., March 1, 2006; 15(5): 691 - 703.
[Abstract] [Full Text] [PDF]

Home page
 Hum Mol GenetHome page
J. Liu, Q. Huang, J. Higdon, W. Liu, T. Xie, T. Yamashita, K. Cheon, C. Cheng, and J. Zuo
Distinct gene expression profiles and reduced JNK signaling in retinitis pigmentosa caused by RP1 mutations
Hum. Mol. Genet., October 1, 2005; 14(19): 2945 - 2958.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. Qian, N. Esumi, Y. Chen, Q. Wang, I. Chowers, and D. J. Zack
Identification of regulatory targets of tissue-specific transcription factors: application to retina-specific gene regulation
Nucleic Acids Res., June 20, 2005; 33(11): 3479 - 3491.
[Abstract] [Full Text] [PDF]

Home page
 IOVSHome page
L. L. Daniele, C. Lillo, A. L. Lyubarsky, S. S. Nikonov, N. Philp, A. J. Mears, A. Swaroop, D. S. Williams, and E. N. Pugh Jr
Cone-like Morphological, Molecular, and Electrophysiological Features of the Photoreceptors of the Nrl Knockout Mouse
Invest. Ophthalmol. Vis. Sci., June 1, 2005; 46(6): 2156 - 2167.
[Abstract] [Full Text] [PDF]

Home page
 J. Gen. Physiol.Home page
S. S. Nikonov, L. L. Daniele, X. Zhu, C. M. Craft, A. Swaroop, and E. N. Pugh Jr.
Photoreceptors of Nrl -/- Mice Coexpress Functional S- and M-cone Opsins Having Distinct Inactivation Mechanisms
J. Gen. Physiol., February 28, 2005; 125(3): 287 - 304.
[Abstract] [Full Text] [PDF]

Home page
 J. Neurosci.Home page
J. Chen, A. Rattner, and J. Nathans
The Rod Photoreceptor-Specific Nuclear Receptor Nr2e3 Represses Transcription of Multiple Cone-Specific Genes
J. Neurosci., January 5, 2005; 25(1): 118 - 129.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
J. Yu, S. He, J. S. Friedman, M. Akimoto, D. Ghosh, A. J. Mears, D. Hicks, and A. Swaroop
Altered Expression of Genes of the Bmp/Smad and Wnt/Calcium Signaling Pathways in the Cone-only Nrl-/- Mouse Retina, Revealed by Gene Profiling Using Custom cDNA Microarrays
J. Biol. Chem., October 1, 2004; 279(40): 42211 - 42220.
[Abstract] [Full Text] [PDF]

Home page
 J. Neurosci.Home page
E. Strettoi, A. J. Mears, and A. Swaroop
Recruitment of the Rod Pathway by Cones in the Absence of Rods
J. Neurosci., August 25, 2004; 24(34): 7576 - 7582.
[Abstract] [Full Text] [PDF]

Home page
 Hum Mol GenetHome page
H. Cheng, H. Khanna, E. C.T. Oh, D. Hicks, K. P. Mitton, and A. Swaroop
Photoreceptor-specific nuclear receptor NR2E3 functions as a transcriptional activator in rod photoreceptors
Hum. Mol. Genet., August 1, 2004; 13(15): 1563 - 1575.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.