Gene expression screening in Xenopus identifies molecular pathways, predicts gene function and provides a global view of embryonic patterning

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• 作者：Gawantka ; Volker ; et. al.
• 关键词：Chromatin ; Delta ; Endoplasmic reticulum ; Bmp4 ; Functional genomics ; Gene expression ; Genome ; Regionalization ; Synexpression ; Xenopus laevis ; Screening ; In situ hybridization ; Expressed sequence tags ; Partial cDNA sequencing ; Early development ; Epidermis
• 刊名：Mechanisms of Development
• 出版年：1998
• 出版时间：September, 1998
• 年：1998
• 卷：77
• 期：2
• 页码：95-141
• 全文大小：14 M

文摘

In a large-scale gene expression screen 1765 randomly picked cDNAs were analyzed by whole-mount in situ hybridization in Xenopus embryos. Two hundred and seventy three unique, differentially expressed genes were identified, 204 of which are novel in Xenopus. Partial DNA sequences and expression patterns were documented and assembled into a database, `AXelDB'. Approximately 30 % of cDNAs analyzed represent differentially expressed genes and about 5 % show highly regionalized expression. Novel marker genes and potential developmental regulators were found. Differential expression of mitochondrial genes was observed. Marker genes were used to study regionalization of the entire gastrula as well as the tail forming region and the epidermis of the tailbud embryo. Four `synexpression' groups representing genes with shared, complex expression pattern that predict molecular pathways involved in patterning and differentiation were identified. According to their probable functional significance these groups are designated as Delta1, Bmp4, ER-import and Chromatin group. Within synexpression groups, a likely function of genes without sequence similarity can be predicted. The results indicate that synexpression groups have strong prognostic value. A cluster analysis was made by comparing gene expression patterns to derive a novel parameter, `tissue relatedness'. In conclusion, this study describes a semi-functional approach to investigate genes expressed during early development and provides global insight into embryonic patterning. Publisher: Elsevier Science Language of Publication: English Item Identifier: S0925-4773(98)00115-4 Publication Type: Article ISSN: 0925-4773 Cited by:

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Footnotes:

1. These authors contributed equally to the study.

2. The nucleotide sequence of the gcCITED cDNA has been deposited in GenBank under accession number AY225852.