A transcription factor response element for gene expression during circadian night.
Mammalian circadian clocks consist of complex integrated feedback loops that cannot be elucidated without comprehensive measurement of system dynamics and determination of network structures. To dissect such a complicated system, we took a systems-biological approach based on genomic, molecular and cell biological techniques. We profiled suprachiasmatic nuclei and liver genome-wide expression patterns under light/dark cycles and constant darkness. We determined transcription start sites of human orthologues for newly identified cycling genes and then performed bioinformatical searches for relationships between time-of-day specific expression and transcription factor response elements around transcription start sites. Here we demonstrate the role of the Rev-ErbA/ROR response element in gene expression during circadian night, which is in phase with Bmal1 and in antiphase to Per2 oscillations. This role was verified using an in vitro validation system, in which cultured fibroblasts transiently transfected with clock-controlled reporter vectors exhibited robust circadian bioluminescence.
Ueda
Hiroki R
HR
Molecular Medicine Laboratories, Institute for Drug Discovery Research, Yamanouchi Pharmaceutical Company, Ltd, 21 Miyukigaoka, Tsukuba, Ibaraki 305-8585, Japan. hiro@m.u-tokyo.ac.jp
Chen
Wenbin
W
Adachi
Akihito
A
Wakamatsu
Hisanori
H
Hayashi
Satoko
S
Takasugi
Tomohiro
T
Nagano
Mamoru
M
Nakahama
Ken-ichi
K
Suzuki
Yutaka
Y
Sugano
Sumio
S
Iino
Masamitsu
M
Shigeyoshi
Yasufumi
Y
Hashimoto
Seiichi
S
D000818:Animals; D002460:Cell Line; D002940:Circadian Rhythm / Q000235:genetics*; D019295:Computational Biology; D003624:Darkness; D005347:Fibroblasts; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D023281:Genomics; D006801:Humans; D008027:Light; D008099:Liver / Q000378:metabolism*; D008163:Luminescent Measurements; D008297:Male; D051379:Mice; D008807:Mice, Inbred BALB C; D011401:Promoter Regions, Genetic / Q000235:genetics; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D051381:Rats; D015203:Reproducibility of Results; D020218:Response Elements / Q000235:genetics*; D013493:Suprachiasmatic Nucleus / Q000378:metabolism*; D014157:Transcription Factors / Q000378:metabolism*; D024363:Transcription Initiation Site; D014162:Transfection
D012333:RNA, Messenger; D014157:Transcription Factors