Click here to close Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly. We suggest using a current version of Chrome, FireFox, or Safari.
Dev Biol August 1, 2001; 236 (1): 64-75.
Show Gene links Show Anatomy links

Microarray-based analysis of early development in Xenopus laevis.

Altmann CR , Bell E , Sczyrba A , Pun J , Bekiranov S , Gaasterland T , Brivanlou AH .

In order to examine transcriptional regulation globally, during early vertebrate embryonic development, we have prepared Xenopus laevis cDNA microarrays. These prototype embryonic arrays contain 864 sequenced gastrula cDNA. In order to analyze and store array data, a microarray analysis pipeline was developed and integrated with sequence analysis and annotation tools. In three independent experimental settings, we demonstrate the power of these global approaches and provide optimized protocols for their application to molecular embryology. In the first set, by comparing maternal versus zygotic transcription, we document groups of genes that are temporally regulated. This analytical approach resulted in the discovery of novel temporally regulated genes. In the second, we examine changes in gene expression spatially during development by comparing dorsal and ventral mesoderm dissected from early gastrula embryos. We have discovered novel genes with spatial enrichment from these experiments. Finally, we use the prototype microarray to examine transcriptional responses from embryonic explants treated with activin. We selected genes (two of which are novel) regulated by activin for further characterization. All results obtained by the arrays were independently tested by RT-PCR or by in situ hybridization to provide a direct assessment of the accuracy and reproducibility of these approaches in the context of molecular embryology.

PubMed ID: 11456444
Article link: Dev Biol
Grant support: [+]

Species referenced: Xenopus laevis
Genes referenced: cirbp eif3a eif4g1 eif4g2 gata4 gmnn gpd1 gpd1l gypc hnrnpa2b1 hnrnpl hnrnpu hsp90ab1 mapk1 nop56 orc6 pttg1ip.1 rbmx sp5l ssr2 trmt5 ttc30a washc2a XB5905938 [provisional:pttg1]

Article Images: [+] show captions