BM-40-SPARC DOWN in 'RBF1 and RBF2' vs 'control'
G-oalpha47A UP in 'L(3)MBT' vs 'control'
CG5250 UP in 'RBF1 and RBF2' vs 'control'
vkg DOWN in 'RBF1 and RBF2' vs 'control'
(Assay) RBFs (RBF1 and RBF2) knock-down 3
vir-1 UP in 'RBF1 and RBF2' vs 'control'
CG12014 DOWN in 'RBF1 and RBF2' vs 'control'
CG10512 DOWN in 'RBF1 and RBF2' vs 'control'
Myb-MuvB (MMB)/dREAM is a nine subunit complex first described in Drosophila as a repressor of transcription, dependent upon E2F2 and the RBFs. Myb, an integral member of MMB, curiously plays no role in the silencing of the test genes previously analyzed. Moreover, Myb plays an activating role in DNA replication in Drosophila egg chamber follicle cells. The essential functions for Myb are executed as part of MMB. This duality of function lead to the hypothesis that MMB, which contains both known activator and repressor proteins, might function as part of a switching mechanism that is dependent upon DNA sites and developmental context. Here, we used proliferating Drosophila Kc tissue culture cells to explore both the network of genes regulated by MMB (employing RNAi and micro-array expression analysis) and the genomic locations of MMB following chromatin immunoprecipitation (ChIP) and tiling array analysis. MMB occupies thousands of chromosomal sites where a substantial number are proximal to repressed genes that are normally expressed in a wide range of developmental pathways. At many of these sites, E2F2 was critical for repression whereas at other non-overlapping sites, Myb was critical for repression. These data highlight that the MMB factors are utilized in a combinatorial way for targeting gene regulation. We also found sites where MMB was a positive regulator of transcript levels that included genes required for mitotic functions (G2/M), which may explain some of the chromosome instability phenotypes attributed to loss of Myb function in myb mutants. Experiment Overall Design: RNAi to deplete Lin-52, Mip40, Myb, Mip120, Mip130, E2F2, both RBFs (RBF1 and RBF2) and L(3)MBT were performed in triplicate. RNAi with a nonspecific RNA derived from a pBSK+ plasmid (named SK+) was used as control. Total RNA was extracted from RNAi-transfected cells after 4 days using RNeasy Mini Kit (QIAGEN).
Myo31DF UP in 'RBF1 and RBF2' vs 'control'
CG5080 UP in 'RBF1 and RBF2' vs 'control'
Paip2 UP in 'RBF1 and RBF2' vs 'control'
(Assay) RBFs (RBF1 and RBF2) knock-down 1
yellow-f2 UP in 'RBF1 and RBF2' vs 'control'
Glt DOWN in 'RBF1 and RBF2' vs 'control'
DNApol-alpha50 DOWN in 'E2F1' vs 'control'
Ppn DOWN in 'RBF1 and RBF2' vs 'control'
Ahcy13 DOWN in 'RBF1 and RBF2' vs 'control'
Analysis of 'RBF1 and RBF2' vs 'control'
CG4829 DOWN in 'RBF1 and RBF2' vs 'control'
DNApol-alpha60 DOWN in 'E2F1' vs 'control'
Idgf1 UP in 'RBF1 and RBF2' vs 'control'
(Sample) organism/Drosophila melanogaster
CG13084 UP in 'RBF1 and RBF2' vs 'control'
CG7997 UP in 'RBF1 and RBF2' vs 'control'
Tig DOWN in 'RBF1 and RBF2' vs 'control'
(Assay) RBFs (RBF1 and RBF2) knock-down 2
Arp53D UP in 'RBF1 and RBF2' vs 'control'
Cg25C DOWN in 'RBF1 and RBF2' vs 'control'
nAcRbeta-21C DOWN in 'Mip130' vs 'control'
Paf-AHalpha UP in 'L(3)MBT' vs 'control'
CG3163 UP in 'RBF1 and RBF2' vs 'control'
CG17119 DOWN in 'RBF1 and RBF2' vs 'control'
CG34330 DOWN in 'RBF1 and RBF2' vs 'control'
DNApol-epsilon DOWN in 'E2F1' vs 'control'
CG5592 UP in 'RBF1 and RBF2' vs 'control'
nAcRbeta-21C DOWN in 'Mip40' vs 'control'
CG7267 UP in 'RBF1 and RBF2' vs 'control'
DNApol-alpha73 DOWN in 'E2F1' vs 'control'
nAcRalpha-80B UP in 'L(3)MBT' vs 'control'
Ef1alpha100E UP in 'L(3)MBT' vs 'control'
CG6330 UP in 'RBF1 and RBF2' vs 'control'
Ubc-E2H UP in 'RBF1 and RBF2' vs 'control'
Gr63a UP in 'RBF1 and RBF2' vs 'control'
BM-40-SPARC DOWN in 'Mip40' vs 'control'
CG15130 UP in 'RBF1 and RBF2' vs 'control'
CG2887 UP in 'RBF1 and RBF2' vs 'control'
Pxn DOWN in 'RBF1 and RBF2' vs 'control'
(Factor value) RNA_INTERFERENCE/RBF1 and RBF2
CG6770 UP in 'RBF1 and RBF2' vs 'control'