Posttranslational modifications of core histones are central to the regulation of gene expression. Histone deacetylases (HDACs) repress transcription by deacetylating histones, and class I HDACs have a crucial role in mouse, Xenopus laevis, zebra fish, and Caenorhabditis elegans development. The role of individual class I HDACs in tumor cell proliferation was investigated using RNA interference-mediated protein knockdown. We show here that in the absence of HDAC1 cells can arrest either at the G 1 phase of the cell cycle or at the G 2 /M transition, resulting in the loss of mitotic cells, cell growth inhibition, and an increase in the percentage of apoptotic cells. On the contrary, HDAC2 knockdown showed no effect on cell proliferation unless we concurrently knocked down HDAC1. Using gene expression profiling analysis, we found that inactivation of HDAC1 affected the transcription of specific target genes involved in proliferation and apoptosis. Furthermore, HDAC2 downregulation did not cause significant changes compared to control cells, while inactivation of HDAC1, HDAC1 plus HDAC2, or HDAC3 resulted in more distinct clusters. Loss of these HDACs might impair cell cycle progression by affecting not only the transcription of specific target genes but also other biological processes. Our data support the idea that a drug targeting specific HDACs could be highly beneficial in the treatment of cancer.

Protein phosphatase 2A (PP2A) is an essential intracellular serine/threonine phosphatase containing a catalytic subunit that possesses the potential to dephosphorylate promiscuously tyrosine-phosphorylated substrates in vitro. How PP2A acquires its intracellular specificity and activity for serine/threonine-phosphorylated substrates is unknown. Here we report a novel and phylogenetically conserved mechanism to generate active phospho-serine/threonine-specific PP2A in vivo. Phosphotyrosyl phosphatase activator (PTPA), a protein of so far unknown intracellular function, is required for the biogenesis of active and specific PP2A. Deletion of the yeast PTPA homologs generated a PP2A catalytic subunit with a conformation different from the wild-type enzyme, as indicated by its altered substrate specificity, reduced protein stability, and metal dependence. Complementation and RNA-interference experiments showed that PTPA fulfills an essential function conserved from yeast to man. Protein phosphorylation is a posttranslational modification, mostly reversible, that is used in cells for the regulation of multiple processes. Analyses of eukaryotic genomes reveal that the genes coding for protein kinases, the enzymes catalyzing the phosphorylation reaction, outnumber by two-to threefold genes for protein phosphatases, the enzymes catalyzing dephosphorylation (Zolnierowicz 2000). Protein phosphatases counterbalance the activity of the large number of substrate-specific kinases by the combinatorial assembly of holoenzymes with different substrate specificity. Holoenzymes of a certain protein phosphatase family consist of a common catalytic subunit associated with different regulatory subunits that determine substrate targeting and modulate catalytic activity. Hence, the catalytic subunits of the major protein phosphatase families are produced in abundance. For instance, the catalytic subunit (C subunit) of protein phosphatase 2A (PP2A), comprises, dependent on the cell type, 0.3%-1% of total cellular protein (Virshup 2000).Based on its specificity for phosphorylated serine/ threonine residues, the PP2A C subunit belongs to the family of eukaryotic protein-serine/threonine phosphatases (PSTPs). PSTPs possess a catalytic core structure that is distinct from the core of protein tyrosine phosphatases (PTPs) and dual specificity phosphatases (DSPs). In consequence of the structural differences, the different protein phosphatase families use distinct catalytic mechanisms for the hydrolysis of the phosphoester bond. In contrast to PTPs (and the DSP subfamily) PSTPs are metallo-phosphoesterases that require metals in the active site for catalysis and for their structural integrity. When isolated from eukaryotic sources, the PSTP family members protein phosphatase 1 (PP1) and PP2A ("native" PP1 or PP2A) do not require the addition of metal ions for their activity. However, PP1 and PP2A convert into metal-dependent enzymes during long-term storage or on treatment with the phosphatase inhibitors ATP, pyrophosphate (PPi), or NaF (Burche...

Upstream ORFs (uORFs) are translational control elements found predominantly in transcripts of key regulatory genes. No mammalian genetic model exists to experimentally validate the physiological relevance of uORF-regulated translation initiation. We report that mice deficient for the CCAAT/enhancer-binding protein b (C/EBPb) uORF initiation codon fail to initiate translation of the autoantagonistic LIP (liver inhibitory protein) C/EBPb isoform. C/EBPb DuORF mice show hyperactivation of acute-phase response genes, persistent repression of E2F-regulated genes, delayed and blunted S-phase entry of hepatocytes after partial hepatectomy, and impaired osteoclast differentiation. These data and the widespread prevalence of uORFs in mammalian transcriptomes suggest a comprehensive role of uORF-regulated translation in (patho)physiology.Supplemental material is available at http://www.genesdev.org.

Histone H1 is an intrinsic component of chromatin, whose important contribution to chromatin structure is well-established in vitro. Little is known, however, about its functional roles in vivo. Here, we have addressed this question in Drosophila, a model system offering many advantages since it contains a single dH1 variant. For this purpose, RNAi was used to efficiently deplete dH1 in flies. Expression-profiling shows that dH1 depletion affects expression of a relatively small number of genes in a regional manner. Furthermore, depletion up-regulates inactive genes, preferentially those located in heterochromatin, while active euchromatic genes are down-regulated, suggesting that the contribution of dH1 to transcription regulation is mainly structural, organizing chromatin for proper gene-expression regulation. Up-regulated genes are remarkably enriched in transposons. In particular, R1/R2 retrotransposons, which specifically integrate in the rDNA locus, are strongly up-regulated. Actually, depletion increases expression of transposon-inserted rDNA copies, resulting in synthesis of aberrant rRNAs and enlarged nucleolus. Concomitantly, dH1-depleted cells accumulate extra-chromosomal rDNA, show increased γH2Av content, stop proliferation and activate apoptosis, indicating that depletion causes genome instability and affects proliferation. Finally, the contributions to maintenance of genome integrity and cell proliferation appear conserved in human hH1s, as their expression rescues proliferation of dH1-depleted cells.

The transcription factor CCAAT/enhancer-binding protein ␣ (C/EBP␣) coordinates proliferation arrest and the differentiation of myeloid progenitors, adipocytes, hepatocytes, keratinocytes, and cells of the lung and placenta. C/EBP␣ transactivates lineage-specific differentiation genes and inhibits proliferation by repressing E2F-regulated genes. The myeloproliferative C/EBP␣ BRM2 mutant serves as a paradigm for recurrent human C-terminal bZIP C/EBP␣ mutations that are involved in acute myeloid leukemogenesis. BRM2 fails to repress E2F and to induce adipogenesis and granulopoiesis. The data presented here show that, independently of pocket proteins, C/EBP␣ interacts with the dimerization partner (DP) of E2F and that C/EBP␣-E2F/DP interaction prevents both binding of C/EBP␣ to its cognate sites on DNA and transactivation of C/EBP target genes. The BRM2 mutant, in addition, exhibits enhanced interaction with E2F-DP and reduced affinity toward DNA and yet retains transactivation potential and differentiation competence that becomes exposed when E2F/DP levels are low. Our data suggest a tripartite balance between C/EBP␣, E2F/DP, and pocket proteins in the control of proliferation, differentiation, and tumorigenesis.