Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster.
Polycomb/Trithorax response elements (PRE/TREs) maintain transcriptional decisions to ensure correct cell identity during development and differentiation. There are thought to be over 100 PRE/TREs in the Drosophila genome, but only very few have been identified due to the lack of a defining consensus sequence. Here we report the definition of sequence criteria that distinguish PRE/TREs from non-PRE/TREs. Using this approach for genome-wide PRE/TRE prediction, we identify 167 candidate PRE/TREs, which map to genes involved in development and cell proliferation. We show that candidate PRE/TREs are bound and regulated by Polycomb proteins in vivo, thus demonstrating the validity of PRE/TRE prediction. Using the larger data set thus generated, we identify three sequence motifs that are conserved in PRE/TRE sequences.
Ringrose
Leonie
L
ZMBH, Universität Heidelberg, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany.
Rehmsmeier
Marc
M
Dura
Jean-Maurice
JM
Paro
Renato
R
D000818:Animals; D001483:Base Sequence; D002455:Cell Division / Q000502:physiology; D002460:Cell Line; D016000:Cluster Analysis; D004268:DNA-Binding Proteins / Q000235:genetics* / Q000378:metabolism; D029721:Drosophila Proteins / Q000235:genetics* / Q000378:metabolism; D004331:Drosophila melanogaster / Q000033:anatomy & histology / Q000235:genetics* / Q000502:physiology; D005260:Female; D005786:Gene Expression Regulation; D016678:Genome; D008297:Male; D008969:Molecular Sequence Data; D063150:Polycomb Repressive Complex 1; D020218:Response Elements / Q000235:genetics*; D017422:Sequence Analysis, DNA; D014157:Transcription Factors; D019076:Transgenes
D004268:DNA-Binding Proteins; D029721:Drosophila Proteins; C066770:Pc protein, Drosophila; D014157:Transcription Factors; C063460:Trl protein, Drosophila; D063150:Polycomb Repressive Complex 1