title: Genomic analysis of mouse retinal development.
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.
authors.affiliation: Department of Genetics and Howard Hughes Medical Institute, Harvard Medical School, Boston, Massachusetts, USA.
authors.forename: Seth
authors.initials: S
authors.lastname: Blackshaw
authors.forename: Sanjiv
authors.initials: S
authors.lastname: Harpavat
authors.forename: Jeff
authors.initials: J
authors.lastname: Trimarchi
authors.forename: Li
authors.initials: L
authors.lastname: Cai
authors.forename: Haiyan
authors.initials: H
authors.lastname: Huang
authors.forename: Winston P
authors.initials: WP
authors.lastname: Kuo
authors.forename: Griffin
authors.initials: G
authors.lastname: Weber
authors.forename: Kyungjoon
authors.initials: K
authors.lastname: Lee
authors.forename: Rebecca E
authors.initials: RE
authors.lastname: Fraioli
authors.forename: Seo-Hee
authors.initials: SH
authors.lastname: Cho
authors.forename: Rachel
authors.initials: R
authors.lastname: Yung
authors.forename: Elizabeth
authors.initials: E
authors.lastname: Asch
authors.forename: Lucila
authors.initials: L
authors.lastname: Ohno-Machado
authors.forename: Wing H
authors.initials: WH
authors.lastname: Wong
authors.forename: Constance L
authors.initials: CL
authors.lastname: Cepko
mesh_terms: D000818:Animals; D001973:Bromodeoxyuridine / Q000494:pharmacology; D019070:Cell Lineage; D002874:Chromosome Mapping; D016000:Cluster Analysis; D019295:Computational Biology; D030541:Databases, Genetic; D020224:Expressed Sequence Tags; D005786:Gene Expression Regulation; D018507:Gene Expression Regulation, Developmental; D015723:Gene Library; D016678:Genome; D017403:In Situ Hybridization; D007395:Interneurons / Q000378:metabolism; D051379:Mice; D008938:Mitosis; D008969:Molecular Sequence Data; D009457:Neuroglia / Q000166:cytology / Q000378:metabolism; D016366:Open Reading Frames; D012333:RNA, Messenger / Q000378:metabolism; D012160:Retina / Q000196:embryology* / Q000254:growth & development* / Q000378:metabolism / Q000502:physiology*; D013234:Stem Cells / Q000166:cytology; D013997:Time Factors
chemical_list: D012333:RNA, Messenger; D001973:Bromodeoxyuridine