Genomic analysis of mouse retinal development

Seth Blackshaw, Sanjiv Harpavat, Jeff Trimarchi, Li Cai, Haiyan Huang, Winston P. Kuo, Griffin Weber, Kyungjoon Lee, Rebecca E. Fraioli, Seo Hee Cho, Rachel Yung, Elizabeth Asch, Lucila Ohno-Machado, Wing H. Wong, Constance L. Cepko

Research output: Contribution to journalArticle

402 Citations (Scopus)

Abstract

The vertebrate retina is comprised of seven major cell types that are generated in overlapping but well-defined intervals. To identify genes that might regulate retinal development, gene expression in the developing retina was profiled at multiple time points using serial analysis of gene expression (SAGE). The expression patterns of 1,051 genes that showed developmentally dynamic expression by SAGE were investigated using in situ hybridization. A molecular atlas of gene expression in the developing and mature retina was thereby constructed, along with a taxonomic classification of developmental gene expression patterns. Genes were identified that label both temporal and spatial subsets of mitotic progenitor cells. For each developing and mature major retinal cell type, genes selectively expressed in that cell type were identified. The gene expression profiles of retinal Müller glia and mitotic progenitor cells were found to be highly similar, suggesting that Müller glia might serve to produce multiple retinal cell types under the right conditions. In addition, multiple transcripts that were evolutionarily conserved that did not appear to encode open reading frames of more than 100 amino acids in length ("noncoding RNAs") were found to be dynamically and specifically expressed in developing and mature retinal cell types. Finally, many photoreceptor-enriched genes that mapped to chromosomal intervals containing retinal disease genes were identified. These data serve as a starting point for functional investigations of the roles of these genes in retinal development and physiology.

Original languageEnglish (US)
JournalPLoS Biology
Volume2
Issue number9
DOIs
StatePublished - Sep 2004
Externally publishedYes

Fingerprint

Gene expression
Genes
genomics
mice
gene expression
Gene Expression
retina
genes
Retina
Cells
Neuroglia
cells
stem cells
Stem Cells
Developmental Genes
retinal diseases
Retinal Diseases
Untranslated RNA
Atlases
Physiology

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)

Cite this

Blackshaw, S., Harpavat, S., Trimarchi, J., Cai, L., Huang, H., Kuo, W. P., ... Cepko, C. L. (2004). Genomic analysis of mouse retinal development. PLoS Biology, 2(9). https://doi.org/10.1371/journal.pbio.0020247

Genomic analysis of mouse retinal development. / Blackshaw, Seth; Harpavat, Sanjiv; Trimarchi, Jeff; Cai, Li; Huang, Haiyan; Kuo, Winston P.; Weber, Griffin; Lee, Kyungjoon; Fraioli, Rebecca E.; Cho, Seo Hee; Yung, Rachel; Asch, Elizabeth; Ohno-Machado, Lucila; Wong, Wing H.; Cepko, Constance L.

In: PLoS Biology, Vol. 2, No. 9, 09.2004.

Research output: Contribution to journalArticle

Blackshaw, S, Harpavat, S, Trimarchi, J, Cai, L, Huang, H, Kuo, WP, Weber, G, Lee, K, Fraioli, RE, Cho, SH, Yung, R, Asch, E, Ohno-Machado, L, Wong, WH & Cepko, CL 2004, 'Genomic analysis of mouse retinal development', PLoS Biology, vol. 2, no. 9. https://doi.org/10.1371/journal.pbio.0020247
Blackshaw S, Harpavat S, Trimarchi J, Cai L, Huang H, Kuo WP et al. Genomic analysis of mouse retinal development. PLoS Biology. 2004 Sep;2(9). https://doi.org/10.1371/journal.pbio.0020247
Blackshaw, Seth ; Harpavat, Sanjiv ; Trimarchi, Jeff ; Cai, Li ; Huang, Haiyan ; Kuo, Winston P. ; Weber, Griffin ; Lee, Kyungjoon ; Fraioli, Rebecca E. ; Cho, Seo Hee ; Yung, Rachel ; Asch, Elizabeth ; Ohno-Machado, Lucila ; Wong, Wing H. ; Cepko, Constance L. / Genomic analysis of mouse retinal development. In: PLoS Biology. 2004 ; Vol. 2, No. 9.
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