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Series GSE6127 Query DataSets for GSE6127
Status Public on Oct 25, 2007
Title The expression of Spt5 targeted genes
Organism Danio rerio
Experiment type Expression profiling by array
Summary The Spt4-Spt5 complex, and its human homolog DSIF (DRB sensitivity-inducing factor), is unique in its ability to regulate Pol II processivity. Previous studies have shown that Spt5 has the characteristics of a general transcription-elongation factor. However, mutagenesis of Spt5 showed specific phenotypes during development, which were far less severe than those of Pol II defects or TBP deficient embryos. It seems paradoxical that a mutation which alters a general elongation factor can cause rather specific developmental defects. By using Spt5 knockdown zebrafish embryos and microarrays, here we showed that transcript abundance for only a small subset of genes is altered by loss of Spt5. Further investigation of the down-regulated genes showed that the genes most intensely repressed by the knockdown were strongly activated during early development in untreated embryos. Thus, this study shows that gene activation levels may create different requirements for Pol II processivity. Active transcription requires Spt5 for efficient elongation through its stimulatory activity on Pol II processivity.
Keywords: Spt5, microarray analysis, development, transcription, transcription elongation
 
Overall design The expression pattern of Spt5 knockdown embryos was compared to that of the control mopholino oligo injected embryos, both at 21 hours post-fertilization, to show the targets of Spt5. The activation levels of the Spt5-knockdown affected genes were measured by compareing the abundance of transcripts in 21 hours post-fertilization untreated embryos to that in 5 hours post-fertilization untreated embryos.
 
Contributor(s) Zhu W, Wada T, Okabe S, Taneda T, Kohara Y, Watanabe H, Yamaguchi Y, Handa H
Citation(s) 21205096
Submission date Oct 25, 2006
Last update date Jan 25, 2018
Contact name Tadashi Wada
E-mail(s) wada.t.ac@m.titech.ac.jp
Phone +81-45-924-5798
Fax +81-45-924-5834
URL http://www.handa.bio.titech.ac.jp/
Organization name Tokyo Institute of Technology
Department Bioscience and Biotechnology
Lab The lab of Dr. HANDA Hiroshi and Dr. WADA Tadashi
Street address 4259 Nagatsuta-cho, Midori-ku
City Yokohama
State/province Kanagawa
ZIP/Postal code 226-8503
Country Japan
 
Platforms (1)
GPL1319 [Zebrafish] Affymetrix Zebrafish Genome Array
Samples (6)
GSM142316 Untreated zebrafish embryo 5hpf-1
GSM142317 Untreated zebrafish embryo 21hpf-1
GSM142318 Spt5 knockdown zebrafish embryo 21hpf-1
Relations
BioProject PRJNA97627

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6127_RAW.tar 19.2 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file

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