Various cyclin-dependent kinase (Cdk) complexes have been implicated in the regulation of transcription. In this study, we identified a 70-kDa Cyclin K (CycK) that binds Cdk12 and Cdk13 to form two different complexes (CycK/Cdk12 or CycK/Cdk13) in human cells. The CycK/Cdk12 complex regulates phosphorylation of Ser2 in the C-terminal domain of RNA polymerase II and expression of a small subset of human genes, as revealed in expression microarrays. Depletion of CycK/Cdk12 results in decreased expression of predominantly long genes with high numbers of exons. The most prominent group of down-regulated genes are the DNA damage response genes, including the critical regulators of genomic stability: BRCA1 (breast and ovarian cancer type 1 susceptibility protein 1), ATR (ataxia telangiectasia and Rad3-related), FANCI, and FANCD2. We show that CycK/ Cdk12, rather than CycK/Cdk13, is necessary for their expression. Nuclear run-on assays and chromatin immunoprecipitations with RNA polymerase II on the BRCA1 and FANCI genes suggest a transcriptional defect in the absence of CycK/Cdk12. Consistent with these findings, cells without CycK/Cdk12 induce spontaneous DNA damage and are sensitive to a variety of DNA damage agents. We conclude that through regulation of expression of DNA damage response genes, CycK/Cdk12 protects cells from genomic instability. The essential role of CycK for organisms in vivo is further supported by the result that genetic inactivation of CycK in mice causes early embryonic lethality.

Polyurethane foam (PUF) disk passive air samplers were evaluated under field conditionsto assessthe effect of temperature and wind speed on the sampling rate for polycyclic aromatic hydrocarbons (PAHs), polychlorinated biphenyls (PCBs), and organochlorine pesticides (OCPs). Passive samples integrated over 28-day periods were compared to high-volume air samples collected for 24 h, every 7 days. This provided a large data set of 42 passive sampling events and 168 high-volume samples over a 3-year period, starting in October 2003. Average PUF disk sampling rates for gas-phase chemicals was approximately 7 m3 d(-1) and comparable to previous reports. The high molecular weight PAHs, which are mainly particle-bound, experienced much lower sampling rates of approximately 0.7 m3 d(-1). This small rate was attributed to the ability of the sampling chamber to filter out coarse particles with only the fine/ultrafine fraction capable of penetration and collection on the PUF disk. Passive sampler-derived data were converted to equivalent air volumes (V(EQ), m3) using the high-volume air measurement results. Correlations of V(EQ) against meteorological data collected on-site yielded different behavior for gas- and particle-associated compounds. For gas-phase chemicals, sampling rates varied by about a factor of 2 with temperature and wind speed. The higher sampling rates at colder temperatures were explained bythe wind effecton sampling rates. Temperature and wind were strongly correlated with the greatest winds at coldertemperatures. Mainly particle-phase compounds (namely, the high molecular weight PAHs) had more variable sampling rates. Sampling rates increased greatly atwarmertemperatures as the high molecular weight PAH burden was shifted toward the gas phase and subject to higher gas-phase sampling rates. At colder temperatures, sampling rates were reduced as the partitioning of the high molecular weight PAHs was shifted toward the particle phase. The observed wind effect on sampling for the particle-phase compounds is believed to be tied to this strong temperature dependence on phase partitioning and hence sampling rate. For purposes of comparing passive sampler derived data for persistent organic pollutants, the factor of 2 variability observed for mainly gas-phase compounds is deemed to be acceptable in many instances for semiquantitative analysis. Depuration compounds may be used to improve accuracy and provide site-specific sampling rates, although this adds a level of complexity to the analysis. More research is needed to develop and test passive air samplers for particle-associated chemicals.

AIRE is a transcriptional activator that directs the ectopic expression of many tissue-specific genes in medullary thymic epithelial cells, which plays an important role in the negative selection of autoreactive T cells. However, its mechanism of action remains poorly understood. In this study, we found that AIRE regulates the step of elongation rather than initiation of RNA polymerase II. For these effects, AIRE bound and recruited P-TEFb to target promoters in medullary thymic epithelial cells. In these cells, AIRE activated the ectopic transcription of insulin and salivary protein 1 genes. Indeed, by chromatin immunoprecipitation, we found that RNA polymerase II was already engaged on these promoters but was unable to elongate in the absence of AIRE. Moreover, the genetic inactivation of cyclin T1 from P-TEFb abolished the transcription of AIRE-responsive genes and led to lymphocytic infiltration of lacrimal and salivary glands in the CycT1 ؊/؊ mouse. Our findings reveal critical steps by which AIRE regulates the transcription of genes that control central tolerance in the thymus.

Transcription elongation of eukaryotic genes by RNA polymerase II depends on the positive transcription elongation factor b (P-TEFb). When sequestered into the large complex, P-TEFb kinase activity is inhibited by the coordinate actions of 7SK small nuclear RNA (7SK snRNA) and hexamethylene bisacetamide (HMBA)-induced protein 1 (HEXIM1). We found that the basic region in HEXIM1 directs its nuclear import via two monopartite and two bipartite nuclear localization sequences. Moreover, the arginine-rich motif within it is essential for its binding to 7SK snRNA, P-TEFb, and inhibition of transcription. Notably, the basic region interacts with the adjacent acidic regions in the absence of RNA. The removal of the positive or negative charges from these regions in HEXIM1 leads to its sequestration into the large complex and inhibition of transcription independently of the arginine-rich motif. Finally, the removal of the negative charges from HEXIM1 results in its subnuclear localization into nuclear speckles. We propose a model where the interplay between 7SK snRNA and oppositely charged regions in HEXIM1 direct its binding to P-TEFb and subcellular localization that culminates in the inhibition of transcription.

The cyclin-dependent kinases (Cdks) regulate many cellular processes, including the cell cycle, neuronal development, transcription, and posttranscriptional processing. To perform their functions, Cdks bind to specific cyclin subunits to form a functional and active cyclin/Cdk complex. This review is focused on Cyclin K, which was originally considered an alternative subunit of Cdk9, and on its newly identified partners, Cdk12 and Cdk13. We briefly summarize research devoted to each of these proteins. We also discuss the proteins' functions in the regulation of gene expression via the phosphorylation of serine 2 in the C-terminal domain of RNA polymerase II, contributions to the maintenance of genome stability, and roles in the onset of human disease and embryo development.

Regulation of gene expression is essential to all aspects of physiological processes in single-cell as well as multicellular organisms. It gives ultimately cells the ability to efficiently respond to extraand intracellular stimuli participating in cell cycle, growth, differentiation and survival. Regulation of gene expression is executed primarily at the level of transcription of specific mRNAs by RNA polymerase II (RNAPII), typically in several distinct phases. Among them, transcription elongation is positively regulated by the positive transcription elongation factor b (P-TEFb), consisting of CDK9 and cyclin T1, T2 or K. P-TEFb enables transition from abortive to productive transcription elongation by phosphorylating carboxyl-terminal domain (CTD) in RNAPII and negative transcription elongation factors. Over the years, we have learned a great deal about molecular composition of P-TEFb complexes, their assembly and their role in transcription of specific genes, but function of P-TEFb in other physiological processes was not apparent until just recently. In light of emerging discoveries connecting P-TEFb to regulation of cell cycle, development and several diseases, I would like to discuss these observations as well as future perspectives.

Kosetice observatory is a facility of the Czech Hydrometeorological Institute, which is a part of the European Monitoring and Evaluation Programme (EMEP) network. Persistent organic pollutants (POPs: PCBs, DDTs, HCHs, PAHs) have been monitored in all environmental matrices using the integrated monitoring approach. Generally, the atmospheric levels of POPs in this Central European background station (mean values: 0.115 ng m(-3) for SigmaPCBs, 0.040 ng m(-3) for SigmaDDTs, 0.077 ng m(-3) for SigmaHCHs, and 17 ng m(-3) for SigmaPAHs) are significantly higher than those in other EMEP stations localized mostly in Northern and Western Europe. Long-term trends of POP concentrations in the ambient air and wet deposition are presented in this article and they show a slow decline in the last decade for most of the investigated compounds. Temporally increased levels of certain chemicals were associated with some local climatic (floods) or socio-economic (fuel prices) factors.

The positive transcription elongation factor b (P-TEFb) is essential for the elongation of transcription and cotranscriptional processing by RNA polymerase II. In mammals, it contains predominantly the C-type cyclin cyclin T1 (CycT1) or CycT2 and cyclin-dependent kinase 9 (Cdk9). To determine if these cyclins have redundant functions or affect distinct sets of genes, we genetically inactivated the CycT2 gene (Ccnt2) using the ␤-galactosidase-neomycin gene (␤-geo) gene trap technology in the mouse. Visualizing ␤-galactosidase during mouse embryogenesis revealed that CycT2 is expressed abundantly during embryogenesis and throughout the organism in the adult. This finding was reflected in the expression of CycT2 in all adult tissues and organs. However, despite numerous matings of heterozygous mice, we observed no CycT2 ؊/؊ embryos, pups, or adult mice. This early lethality could have resulted from decreased expression of critical genes, which were revealed by short interfering RNAs against CycT2 in embryonic stem cells. Thus, CycT1 and CycT2 are not redundant, and these different P-TEFb complexes regulate subsets of distinct genes that are important for embryonic development.Eukaryotic transcription by RNA polymerase II (RNAPII) is regulated at several distinct steps, which include initiation, promoter clearance, elongation, and cotranscriptional processing of primary transcripts (19,25,27). Of these, elongation is regulated by the positive transcription elongation factor b (PTEFb), which contains predominantly the C-type cyclin cyclin T1 (CycT1) or CycT2 and cyclin-dependent kinase 9 (Cdk9). All these different P-TEFb complexes phosphorylate serines at position 2 (S2) in the C-terminal domain (CTD) of RNAPII, as well as components of the negative transcription elongation factor, which contains minimally the DRB (5,6-dichloro-1-␤- D-ribofuranosylbenzimidazole) sensitivity-inducing factor (DSIF) and the negative elongation factor. These posttranslational modifications exchange basal transcription factors for splicing and polyadenylation machineries on RNAPII, as well as modify DSIF for productive elongation (25).Although these P-TEFb complexes can phosphorylate the CTD and lead to transcriptional elongation when recruited to RNAPII via heterologous nucleic acid-tethering systems, it is not clear whether they have redundant or unique functions in cells (18,33). Thus far, CycT1, which is the most abundant of these cyclins, has been implicated as the coactivator of the transcriptional transactivator Tat from human immunodeficiency virus, RelA from NF-B, class II transactivator, the protooncogene c-myc, several members of the steroid hormone receptor family, and the autoimmune regulator AIRE (3, 8, 14-16, 24, 29, 36). Moreover, Runx1, which is the active repressor of CD4 expression in double-negative thymocytes, decoys CycT1 away from the CD4 promoter, thus keeping the