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1.
Int J Mol Sci ; 23(16)2022 Aug 22.
Article in English | MEDLINE | ID: mdl-36012759

ABSTRACT

Positive cofactor 4 (PC4) is a transcriptional coactivator that plays important roles in transcription and DNA replication. In mammals, PC4 is phosphorylated by CK2, and this event downregulates its RNA polymerase II (RNAPII) coactivator function. This work describes the effect of fission yeast PC4 phosphorylation on RNAPII transcription in a cell extract, which closely resembles the cellular context. We found that fission yeast PC4 is strongly phosphorylated by the catalytic subunit of CK2 (Cka1), while the regulatory subunit (Ckb1) downregulates the PC4 phosphorylation. The addition of Cka1 to an in vitro transcription assay can diminish the basal transcription from the Ad-MLP promoter; however, the addition of recombinant fission yeast PC4 or Ckb1 can stimulate the basal transcription in a cell extract. Fission yeast PC4 is phosphorylated in a domain which has consensus phosphorylation sites for CK2, and two serine residues were identified as critical for CK2 phosphorylation. Mutation of one of the serine residues in PC4 does not completely abolish the phosphorylation; however, when the two serine residues are mutated, CK2 is no longer able to phosphorylate PC4. The mutant which is not phosphorylated is able to stimulate transcription even though it is previously phosphorylated by Cka1, while the wild type and the point mutant are inactivated by Cka1 phosphorylation, and they cannot stimulate transcription by RNAPII in cell extracts. Those results demonstrate that CK2 can regulate the coactivator function of fission yeast PC4 and suggests that this event could be important in vivo as well.


Subject(s)
Casein Kinase II , DNA-Binding Proteins , RNA Polymerase II , Schizosaccharomyces pombe Proteins , Schizosaccharomyces , Casein Kinase II/genetics , Casein Kinase II/metabolism , Catalytic Domain , Cell Extracts , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Phosphorylation , RNA Polymerase II/metabolism , Schizosaccharomyces/genetics , Schizosaccharomyces/metabolism , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces pombe Proteins/metabolism , Serine/metabolism
2.
Int J Mol Sci ; 23(12)2022 Jun 20.
Article in English | MEDLINE | ID: mdl-35743306

ABSTRACT

The Pneumocystis genus is an opportunistic fungal pathogen that infects patients with AIDS and immunocompromised individuals. The study of this fungus has been hampered due to the inability to grow it in a (defined media/pure) culture. However, the use of modern molecular techniques and genomic analysis has helped researchers to understand its complex cell biology. The transcriptional process in the Pneumocystis genus has not been studied yet, although it is assumed that it has conventional transcriptional machinery. In this work, we have characterized the function of the RNA polymerase II (RNAPII) general transcription factor TFIIB from Pneumocystis carinii using the phylogenetically related biological model Schizosaccharomyces pombe. The results of this work show that Pneumocystis carinii TFIIB is able to replace the essential function of S. pombe TFIIB both in in vivo and in vitro assays. The S. pombe strain harboring the P carinii TFIIB grew slower than the parental wild-type S. pombe strain in complete media and in minimal media. The S. pombe cells carrying out the P. carinii TFIIB are larger than the wild-type cells, indicating that the TFIIB gene replacement confers a phenotype, most likely due to defects in transcription. P. carinii TFIIB forms very weak complexes with S. pombe TATA-binding protein on a TATA box promoter but it is able to form stable complexes in vitro when S. pombe TFIIF/RNAPII are added. P. carinii TFIIB can also replace the transcriptional function of S. pombe TFIIB in an in vitro assay. The transcription start sites (TSS) of the endogenous adh gene do not change when P. carinii TFIIB replaces S. pombe TFIIB, and neither does the TSS of the nmt1 gene, although this last gene is poorly transcribed in vivo in the presence of P. carinii TFIIB. Since transcription by RNA polymerase II in Pneumocystis is poorly understood, the results described in this study are promising and indicate that TFIIB from P. carinii can replace the transcriptional functions of S. pombe TFIIB, although the cells expressing the P. carini TFIIB show an altered phenotype. However, performing studies using a heterologous approach, like this one, could be relevant to understanding the basic molecular processes of Pneumocystis such as transcription and replication.


Subject(s)
Pneumocystis carinii , Pneumocystis , Pneumonia, Pneumocystis , Schizosaccharomyces pombe Proteins , Schizosaccharomyces , Humans , Pneumocystis/genetics , Pneumocystis/metabolism , Pneumocystis carinii/genetics , Pneumocystis carinii/metabolism , RNA Polymerase II/genetics , RNA Polymerase II/metabolism , Schizosaccharomyces/genetics , Schizosaccharomyces/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Transcription Factor TFIIB , Transcription, Genetic
3.
Genes (Basel) ; 13(2)2022 01 28.
Article in English | MEDLINE | ID: mdl-35205301

ABSTRACT

The initiator element is a core promoter element encompassing the transcription start site, which is found in yeast, Drosophila, and human promoters. This element is observed in TATA-less promoters. Several studies have defined transcription factor requirements and additional cofactors that are needed for transcription initiation of initiator-containing promoters. However, those studies have been performed with additional core promoters in addition to the initiator. In this work, we have defined the pathway of preinitiation complex formation on the fission yeast nmt1 gene promoter, which contains a functional initiator with striking similarity to the initiator of the human dihydrofolate reductase (hDHFR) gene and to the factor requirement for transcription initiation of the nmt1 gene promoter. The results show that the nmt1 gene promoter possesses an initiator encompassing the transcription start site, and several conserved base positions are required for initiator function. A preinitiation complex formation on the nmt1 initiator can be started by TBP/TFIIA or TBP/TFIIB, but not TBP alone, and afterwards follows the same pathway as preinitiation complex formation on TATA-containing promoters. Transcription initiation is dependent on the general transcription factors TBP, TFIIB, TFIIE, TFIIF, TFIIH, RNA polymerase II, Mediator, and a cofactor identified as transcription cofactor for initiator function (TCIF), which is a high-molecular-weight protein complex of around 500 kDa. However, the TAF subunits of TFIID were not required for the nmt1 initiator transcription, as far as we tested. We also demonstrate that other initiators of the nmt1/hDHFR family can be transcribed in fission yeast whole-cell extracts.


Subject(s)
Schizosaccharomyces pombe Proteins , Schizosaccharomyces , RNA Polymerase II/genetics , RNA Polymerase II/metabolism , Schizosaccharomyces/genetics , Schizosaccharomyces/metabolism , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces pombe Proteins/metabolism , Transcription Factor TFIIB/genetics , Transcription Factor TFIIB/metabolism , Transcription Factor TFIID/genetics , Transcription Factor TFIID/metabolism , Transcription, Genetic
4.
Curr Genet ; 65(1): 193-200, 2019 Feb.
Article in English | MEDLINE | ID: mdl-29916047

ABSTRACT

The objective of this paper is to develop a computational model of the fission yeast (Schizosaccharomyces pombe) cell cycle using agent-based modeling (ABM), to study the sequence of states of the proteins and time of the cell cycle phases, under the action of proteins that regulate its cell cycle. The model relies only on the conceptual model of the yeast cell cycle regulatory network, where each protein has been represented as an agent with a property called activity that represents its biological function and a stochastic Brownian movement. The results indicate that the simulated phase time did have similar results in comparison with other models using mathematical approaches. Similarly, the correct sequence of states was achieved, and the model was run under different initial states to understand its emergent behaviors. The cell reached the G1 stationary state 94% of the times when running the model under biological initial conditions and 87% of the times when running the model through all the different combinations of initial states. Such results imply that the cell was capable to fix toward the biological expected phenomena. These results show that ABM is a suitable technique to study protein-protein interactions without using, often unavailable, kinetic parameters, or differential equations. This model sets as a base for further studies that involve the cell cycle of the fission yeast, with a special attention to studies and development of drug treatments for specific types of cancer.


Subject(s)
G1 Phase/physiology , Models, Biological , Schizosaccharomyces pombe Proteins/physiology , Schizosaccharomyces/physiology
5.
J Biol Chem ; 293(52): 19957-19973, 2018 12 28.
Article in English | MEDLINE | ID: mdl-30389790

ABSTRACT

Glucosidase I (GI) removes the outermost glucose from protein-linked Glc3Man9GlcNAc2 (G3M9) in the endoplasmic reticulum (ER). Individuals with congenital disorders of glycosylation MOGS-CDG bear mutations in the GI-encoding gene (gls1). Although GI absence has been reported to produce lethality in Schizosaccharomyces pombe yeasts, here we obtained two viable Δgls1 mutants, one with a very sick but not lethal phenotype (Δgls1-S) and the other with a healthier one (Δgls1-H). The sick strain displayed only G3M9 as an ER protein-linked oligosaccharide, whereas the healthier strain had both G3M9 and Man9GlcNAc2 The lipid-linked oligosaccharide patterns of the two strains revealed that the most abundantly formed glycans were G3M9 in Δgls1-S and Glc2Man9GlcNAc2 in Δgls1-H, suggesting reduced Alg10p glucosyltransferase activity in the Δgls1-H strain. A mutation in the alg10+ gene was indeed observed in this strain. Our results indicated that abrogated G3M9 deglucosylation was responsible for the severe defects observed in Δgls1-S cells. Further studies disclosed that the defects could not be ascribed to disruption of glycoprotein entrance into calnexin-folding cycles, inhibition of the oligosaccharyltransferase by transfer reaction products, or reduced proteasomal degradation of misfolded glycoproteins. Lack of triglucosylated glycoprotein deglucosylation neither significantly prevented glycan elongation in the Golgi nor modified the overall cell wall monosaccharide composition. Nevertheless, it resulted in a distorted cell wall and in the absence of underlying ER membranes. Furthermore, Golgi expression of human endomannosidase partially restored normal growth in Δgls1-S cells. We propose that accumulation of G3M9-bearing glycoproteins is toxic and at least partially responsible for defects observed in MOGS-CDG.


Subject(s)
Congenital Disorders of Glycosylation , Gene Deletion , Models, Biological , Schizosaccharomyces pombe Proteins , Schizosaccharomyces , alpha-Glucosidases , Congenital Disorders of Glycosylation/enzymology , Congenital Disorders of Glycosylation/genetics , Endoplasmic Reticulum/enzymology , Endoplasmic Reticulum/genetics , Glucosyltransferases/genetics , Glucosyltransferases/metabolism , Glycosylation , Humans , Oligosaccharides/genetics , Oligosaccharides/metabolism , Schizosaccharomyces/enzymology , Schizosaccharomyces/genetics , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces pombe Proteins/metabolism , alpha-Glucosidases/genetics , alpha-Glucosidases/metabolism
6.
Genet Mol Res ; 15(1)2016 Feb 11.
Article in English | MEDLINE | ID: mdl-26909973

ABSTRACT

Kinesin-5 plays an essential role in spindle formation and function, and serves as a potential target for anti-cancer drugs. The aim of this study was to elucidate the molecular properties of the N-terminal extension of the Schizosaccharomyces pombe kinesin-5, Cut7. This extension is rich in charged amino acids and predicted to be intrinsically disordered. In S. pombe cells, a Cut7 construct lacking half the N-terminal extension failed to localize along the spindle microtubules and formed a monopolar spindle. However, a construct lacking the entire N-terminal extension exhibited normal localization and formed a typical bipolar spindle. In addition, in vitro analyses revealed that the truncated Cut7 constructs demonstrated similar motile velocities and directionalities as the wild-type motor protein, but the microtubule landing rates were significantly reduced. These findings suggest that the N-terminal extension is not required for normal Cut7 intracellular localization or function, but alters the microtubule-binding properties of this protein in vitro.


Subject(s)
Intrinsically Disordered Proteins/chemistry , Kinesins/chemistry , Recombinant Fusion Proteins/chemistry , Schizosaccharomyces pombe Proteins/chemistry , Schizosaccharomyces/genetics , Spindle Apparatus/metabolism , Amino Acid Sequence , Computational Biology , Cytoskeleton/metabolism , Cytoskeleton/ultrastructure , Gene Expression , Green Fluorescent Proteins/genetics , Green Fluorescent Proteins/metabolism , Histidine/genetics , Histidine/metabolism , Intrinsically Disordered Proteins/genetics , Intrinsically Disordered Proteins/metabolism , Kinesins/genetics , Kinesins/metabolism , Microtubules/metabolism , Microtubules/ultrastructure , Mitosis , Molecular Sequence Data , Oligopeptides/genetics , Oligopeptides/metabolism , Protein Binding , Protein Structure, Tertiary , Recombinant Fusion Proteins/genetics , Recombinant Fusion Proteins/metabolism , Schizosaccharomyces/metabolism , Schizosaccharomyces/ultrastructure , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces pombe Proteins/metabolism , Sequence Alignment , Spindle Apparatus/ultrastructure
7.
FEBS J ; 282(3): 491-503, 2015 Feb.
Article in English | MEDLINE | ID: mdl-25410910

ABSTRACT

In Schizosaccharomyces pombe, ribosomal protein gene (RPG) promoters contain a TATA analogue element called the HomolD box. The HomolD-binding protein Rrn7 forms a complex with the RNA polymerase II machinery. Despite the importance of ribosome biogenesis to cell survival, the mechanisms involved in the regulation of transcription of eukaryotic RPGs are unknown. In this study, we identified Rrn7 as a new substrate of the pleiotropic casein kinase 2 (CK2), which is a regulator of basal transcription. Recombinant Rrn7 from S. pombe, which is often used as a model organism for studying eukaryotic transcription, interacted with CK2 in vitro and in vivo. Furthermore, CK2-mediated phosphorylation of Rrn7 inhibited its HomolD-directed transcriptional activity and ability to bind to an oligonucleotide containing a HomolD box in vitro. Mutation of Rrn7 at Thr67 abolished these effects, indicating that this residue is a critical CK2 phosphorylation site. Finally, Rrn7 interacted with the regulatory subunit of CK2 in vivo, inhibition of CK2 in vivo potentiated ribosomal protein gene transcription, and chromatin immunoprecipitation analyses identified that the catalytic subunit of CK2 was associated with the rpk5 gene promoter in S. pombe. Taken together, these data suggest that CK2 inhibits ribosomal protein gene transcription in S. pombe via phosphorylation of Rrn7 at Thr67.


Subject(s)
Casein Kinase II/metabolism , Pol1 Transcription Initiation Complex Proteins/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Schizosaccharomyces/enzymology , Schizosaccharomyces/metabolism , Phosphorylation , Protein Binding
8.
Genet Mol Res ; 13(3): 5582-93, 2014 Jul 25.
Article in English | MEDLINE | ID: mdl-25117315

ABSTRACT

The relationship between glucose repression and the oxidative stress response was investigated in Schizosaccharomyces pombe wild type cells (972h(-)) and glucose repression resistant mutant type cells (ird11). We aimed to reveal the mechanism of simultaneous resistance to glucose repression and oxidative stress in ird11 mutants. Compared to the wild type, the expression of the sty1 gene was not altered in the ird11 mutant under normal growth conditions, but decreased after exposure to H2O2. This effect was clearly explained by the immunoblotting results, which showed elevated levels of a much more stable phosphorylated form of Sty1 mitogen-activated protein kinase in the ird11 mutant. Increased ght3 gene expression levels were also found, which may play a role in protecting the ird11 mutant from the deleterious effects of oxidative stress. In addition, decreased expression levels of glycolytic enzyme enolase- and thiamine synthesis/transport-related genes were detected. This might have resulted from the flux redirection toward mitochondrial respiration, which would enhance NADPH generation to prevent the high reactive oxygen species accumulation that is generated by respiration. Some evidence supported a flux shift toward fermentation as well as respiration. We conclude that a defect in the glucose-sensing signaling pathway in ird11 mutants likely causes erroneous low glucose-sensing signaling and high ATP production. This most likely occurs because high glucose availability in the medium induces an impairment in the respiratory chain and fermentation balance in these cells, which might explain the glucose repression and oxidative stress resistance in ird11 compared to the wild type.


Subject(s)
Glucose/metabolism , Oxidative Stress , Thiamine/metabolism , Gene Expression Profiling , Gene Expression Regulation, Fungal , Mitogen-Activated Protein Kinases/genetics , Mitogen-Activated Protein Kinases/metabolism , Mutation , Oxidative Stress/genetics , Schizosaccharomyces/genetics , Schizosaccharomyces/metabolism , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces pombe Proteins/metabolism , Transcriptional Activation
9.
PLoS One ; 6(11): e27843, 2011.
Article in English | MEDLINE | ID: mdl-22132152

ABSTRACT

This study establishes the role of P(5A)-type Cta4 ATPase in Ca(2+) sequestration in the endoplasmic reticulum by detecting an ATP-dependent, vanadate-sensitive and FCCP insensitive (45)Ca(2+)-transport in fission yeast membranes isolated by cellular fractionation. Specifically, the Ca(2+)-ATPase transport activity was decreased in ER membranes isolated from cells lacking a cta4(+) gene. Furthermore, a disruption of cta4(+) resulted in 6-fold increase of intracellular Ca(2+) levels, sensitivity towards accumulation of misfolded proteins in ER and ER stress, stimulation of the calcineurin phosphatase activity and vacuolar Ca(2+) pumping. These data provide compelling biochemical evidence for a P(5A)-type Cta4 ATPase as an essential component of Ca(2+) transport system and signaling network which regulate, in conjunction with calcineurin, the ER functionality in fission yeast.


Subject(s)
Calcium-Transporting ATPases/metabolism , Calcium/metabolism , Endoplasmic Reticulum/enzymology , Schizosaccharomyces pombe Proteins/metabolism , Schizosaccharomyces/enzymology , Adenosine Triphosphate/pharmacology , Biological Transport/drug effects , Calcineurin/metabolism , Calcineurin Inhibitors , Endoplasmic Reticulum/drug effects , Endoplasmic Reticulum Chaperone BiP , Endoplasmic Reticulum Stress/drug effects , Gene Deletion , Glycosylation/drug effects , Heat-Shock Proteins/metabolism , Intracellular Membranes/enzymology , Intracellular Space/drug effects , Intracellular Space/metabolism , Schizosaccharomyces/cytology , Schizosaccharomyces/drug effects , Schizosaccharomyces/growth & development
10.
Genet Mol Res ; 10(4): 4041-7, 2011 Nov 08.
Article in English | MEDLINE | ID: mdl-22095476

ABSTRACT

We looked for changes in gene expression and novel genes that could be involved in the interaction between glucose repression and oxidative stress response in the fission yeast, Schizosaccharomyces pombe, using a constitutive invertase mutant, ird11, which is resistant to glucose. BLAST analysis was made of the S. pombe genome database of cDNAs whose expression ratios differentially decreased or increased upon exposure to mild oxidative stress in this mutant compared to the wild type. Genes with this type of activity were identified as rpl302, encoding 60S ribosomal protein L3, and mpg1, encoding mannose-1-phosphate guanyltransferase; their expression patterns were measured using quantitative real-time PCR. We found that the expression levels of rpl302 and mpg1 genes in ird11 under unstressed conditions were increased compared to those of the wild type. Under stress conditions, the expression levels of the rpl302 gene were decreased in both strains, while mpg1 expression levels remained unchanged. These results suggest that these genes play a role in the response to oxidative stress in this mutant strain.


Subject(s)
Genes, Fungal , Glucose/metabolism , Ribosomal Proteins/genetics , Schizosaccharomyces pombe Proteins/genetics , Schizosaccharomyces/genetics , Schizosaccharomyces/metabolism , DNA, Complementary/metabolism , Gene Expression Regulation, Fungal , Genome, Fungal , Nucleotidyltransferases/genetics , Nucleotidyltransferases/metabolism , Oxidative Stress , Ribosomal Protein L3 , Ribosomal Proteins/metabolism , Schizosaccharomyces pombe Proteins/metabolism
11.
J Biol Chem ; 286(30): 26480-6, 2011 Jul 29.
Article in English | MEDLINE | ID: mdl-21673110

ABSTRACT

The region in promoters that specifies the transcription machinery is called the core promoter, displaying core promoter elements (CPE) necessary for establishment of a preinitiation complex and the initiation of transcription. A classical CPE is the TATA box. In fission yeast, Schizosaccharomyces pombe, a new CPE, called HomolD box, was discovered. Collectively, 141 ribosomal protein genes encoding the full set of 79 different ribosomal proteins and more than 60 other housekeeping genes display a HomolD box in the core promoter. Here, we show that transcription directed by the HomolD box requires the RNA polymerase II machinery, including the general transcription factors. Most intriguingly, however, we identify, by DNA affinity purification, Rrn7 as the protein binding to the HomolD box. Rrn7 is an evolutionary conserved member of the RNA polymerase I machinery involved in transcription initiation of core ribosomal DNA promoters. ChIP shows that Rrn7 cross-links to a ribosomal protein gene promoter containing the HomolD box but not to a promoter containing a TATA box. Taken together, our results suggest that Rrn7 is an excellent candidate to be involved in the coordination of ribosomal DNA and ribosomal gene transcription during ribosome synthesis and, therefore, offer a new perspective to study conservation and evolvability of regulatory networks in eukaryotes.


Subject(s)
Pol1 Transcription Initiation Complex Proteins/metabolism , RNA Polymerase I/metabolism , Response Elements/physiology , Schizosaccharomyces pombe Proteins/metabolism , Schizosaccharomyces/metabolism , Transcription, Genetic/physiology , DNA, Fungal/genetics , DNA, Fungal/metabolism , DNA, Ribosomal/genetics , DNA, Ribosomal/metabolism , Evolution, Molecular , Pol1 Transcription Initiation Complex Proteins/genetics , RNA Polymerase I/genetics , Schizosaccharomyces/genetics , Schizosaccharomyces pombe Proteins/genetics
12.
Mol Biol Cell ; 20(17): 3974-84, 2009 Sep.
Article in English | MEDLINE | ID: mdl-19605557

ABSTRACT

Glucosidase II (GII) plays a key role in glycoprotein biogenesis in the endoplasmic reticulum (ER). It is responsible for the sequential removal of the two innermost glucose residues from the glycan (Glc(3)Man(9)GlcNAc(2)) transferred to Asn residues in proteins. GII participates in the calnexin/calreticulin cycle; it removes the single glucose unit added to folding intermediates and misfolded glycoproteins by the UDP-Glc:glycoprotein glucosyltransferase. GII is a heterodimer whose alpha subunit (GIIalpha) bears the glycosyl hydrolase active site, whereas its beta subunit (GIIbeta) role is controversial and has been reported to be involved in GIIalpha ER retention and folding. Here, we report that in the absence of GIIbeta, the catalytic subunit GIIalpha of the fission yeast Schizosaccharomyces pombe (an organism displaying a glycoprotein folding quality control mechanism similar to that occurring in mammalian cells) folds to an active conformation able to hydrolyze p-nitrophenyl alpha-d-glucopyranoside. However, the heterodimer is required to efficiently deglucosylate the physiological substrates Glc(2)Man(9)GlcNAc(2) (G2M9) and Glc(1)Man(9)GlcNAc(2) (G1M9). The interaction of the mannose 6-phosphate receptor homologous domain present in GIIbeta and mannoses in the B and/or C arms of the glycans mediates glycan hydrolysis enhancement. We present evidence that also in mammalian cells GIIbeta modulates G2M9 and G1M9 trimming.


Subject(s)
Polysaccharides/metabolism , Protein Structure, Tertiary , Protein Subunits/chemistry , Protein Subunits/metabolism , Schizosaccharomyces pombe Proteins/chemistry , Schizosaccharomyces pombe Proteins/metabolism , alpha-Glucosidases/chemistry , alpha-Glucosidases/metabolism , Amino Acid Sequence , Animals , Carbohydrate Conformation , Carbohydrate Sequence , Catalytic Domain , Glucosides/metabolism , Isoenzymes/chemistry , Isoenzymes/genetics , Isoenzymes/metabolism , Molecular Sequence Data , Mutagenesis , Protein Folding , Protein Multimerization , Protein Structure, Quaternary , Protein Subunits/genetics , Rats , Receptor, IGF Type 2/genetics , Receptor, IGF Type 2/metabolism , Schizosaccharomyces/enzymology , Schizosaccharomyces pombe Proteins/genetics , Sequence Alignment , alpha-Glucosidases/genetics
13.
FEBS J ; 275(11): 2873-83, 2008 Jun.
Article in English | MEDLINE | ID: mdl-18459978

ABSTRACT

The positive cofactor 4 (PC4) protein has an important role in transcriptional activation, which has been proposed to be mediated by transcription factor IIA (TFIIA) and TATA-binding protein-associated factors. To test this hypothesis, we cloned the Schizosaccharomyces pombe PC4 gene and analysed the role of the PC4 protein in the stimulation of basal transcription driven by TATA-containing and TATA-less promoters. Sc. pombe PC4 was able to stimulate basal transcription from several TATA-containing promoters and from the Initiator sequences of the highly transcribed Sc. pombe nmt1 gene. Moreover, it was demonstrated that Sc. pombe PC4 stimulates formation of the transcription preinitiation complex. Activation of transcription by PC4 was dependent on the Mediator complex and TFIIA, but was independent of TATA-binding protein-associated factor. PC4 binds to double-stranded and single-stranded DNA and interacts with TATA-binding protein, TFIIB, TFIIA, Mediator, TFIIH and the transcriptional activator protein VP16.


Subject(s)
DNA-Binding Proteins/physiology , Gene Expression Regulation, Fungal , Schizosaccharomyces pombe Proteins/physiology , Schizosaccharomyces/metabolism , TATA Box , Amino Acid Sequence , Cloning, Molecular , DNA, Single-Stranded/chemistry , DNA-Binding Proteins/chemistry , Herpes Simplex Virus Protein Vmw65/chemistry , Humans , Molecular Sequence Data , Promoter Regions, Genetic , Protein Interaction Mapping , Schizosaccharomyces pombe Proteins/chemistry , Transcription Factor TFIIA/chemistry , Transcription, Genetic , Transcriptional Activation
14.
Mol Cell Biochem ; 303(1-2): 131-9, 2007 Sep.
Article in English | MEDLINE | ID: mdl-17508131

ABSTRACT

The family of ATP-dependent chromatin-remodeling factors plays a central role in eukaryotic transcriptional regulation. These complexes can alter the structure of chromatin by mechanisms that involve nucleosome sliding, dissociation, or replacement over a specific promoter. The SWI/SNF chromatin-remodeling complex is required for transcriptional activation or repression in a subset of genes. In the present study we have isolated the spSWI/SNF complex from Schizosaccharomyces pombe, which has at least seven subunits among them spSwi1-like and the catalytic subunit spBrg1. These subunits are homologues to Swi1 and Swi2/Snf2, respectively in Sacharomyces cerevisiae. Moreover, we have demonstrated that spSWI/SNF is able to promote in vitro transcription by RNA polymerase II (RNAPII) in a reconstituted system. In our transcription assays with cellular extracts of Sc. pombe we did not observe inhibition when alpha-Swi1 antibodies were utilized, indicating that other chromatin-remodeling complexes may allow transcription in Sc. pombe.


Subject(s)
Cell Cycle Proteins/metabolism , DNA-Binding Proteins/metabolism , Fungal Proteins/metabolism , Nucleosomes/physiology , Protein Serine-Threonine Kinases/metabolism , RNA Polymerase II/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Schizosaccharomyces/metabolism , Transcription, Genetic , Cell Cycle Proteins/genetics , Chromatin/metabolism , DNA-Binding Proteins/genetics , Fungal Proteins/genetics , HeLa Cells , Histones/metabolism , Humans , Protein Serine-Threonine Kinases/genetics , RNA Polymerase II/genetics , Schizosaccharomyces/genetics , Schizosaccharomyces/growth & development , Schizosaccharomyces pombe Proteins/genetics , Transcription Factors/metabolism , Transcriptional Activation
15.
Biophys J ; 89(4): 2693-700, 2005 Oct.
Article in English | MEDLINE | ID: mdl-16055542

ABSTRACT

A minimalist representation of protein structures using a Go-like potential for interactions is implemented to investigate the mechanisms of the domain swapping of p13suc1, a protein that exists in two native conformations: a monomer and a domain-swapped dimer formed by the exchange of a beta-strand. Inspired by experimental studies which showed a similarity of the transition states for folding of the monomer and the dimer, in this study we justify this similarity in molecular descriptions. When intermediates are populated in the simulations, formation of a domain-swapped dimer initiates from the ensemble of unfolded monomers, given by the fact that the dimer formation occurs at the folding/unfolding temperature of the monomer (T(f)). It is also shown that transitions, leading to a dimer, involve the presence of two intermediates, one of them has a dimeric form and the other is monomeric; the latter is much more populated than the former. However, at temperatures lower than T(f), the population of intermediates decreases. It is argued that the two folded forms may coexist in absence of intermediates at a temperature much lower than T(f). Computational simulations enable us to find a mechanism, "lock-and-dock", for domain swapping of p13suc1. To explore the route toward dimer formation, the folding of unstructured monomers must be retarded by first locking one of the free ends of each chain. Then, the other free termini could follow and dock at particular regions, where most intrachain contacts are formed, and thus define the transition states of the dimer. The simulations also showed that a decrease in the maximum distance between monomers increased their stability, which is explained based on confinement arguments. Although the simulations are based on models extracted from the native structure of the monomer and the dimer of p13suc1, the mechanism of the domain-swapping process could be general, not only for p13suc1.


Subject(s)
Cell Cycle Proteins/chemistry , Cell Cycle Proteins/ultrastructure , Models, Chemical , Models, Molecular , Schizosaccharomyces pombe Proteins/chemistry , Schizosaccharomyces pombe Proteins/ultrastructure , Binding Sites , Cell Cycle Proteins/analysis , Computer Simulation , Dimerization , Macromolecular Substances/analysis , Macromolecular Substances/chemistry , Protein Binding , Protein Conformation , Protein Folding , Protein Structure, Tertiary , Schizosaccharomyces pombe Proteins/analysis
16.
Mol Microbiol ; 57(1): 222-37, 2005 Jul.
Article in English | MEDLINE | ID: mdl-15948962

ABSTRACT

The Mre11-Rad50-Nbs1 protein complex has emerged as a central component in the human cellular DNA damage response, and recent observations suggest that these proteins are at least partially responsible for the linking of DNA damage detection to DNA repair and cell cycle checkpoint functions. We have identified Aspergillus nidulans sldI1444D mutant in a screen for dynein synthetic lethals. The sldI(RAD50) gene was cloned by complementation of the sporulation deficiency phenotype of this mutant. A transversion G-->C at the position 2509 (Ala-692-Pro amino acid change) in the sldI1444D mutant causes sensitivity to several DNA-damaging agents. The mutation sldI1 occurs at the CXXC hinge domain of Rad50. We have deleted part of the coiled-coil and few amino acids of the Rad50-Mre11 interaction region and assessed several phenotypic traits in this deletion strain. Besides sensitivity to a number of DNA-damaging agents, this deletion strain is also impaired in the DNA replication checkpoint response, and in ascospore viability. There is no delay of the S-phase when germlings of both sldI (RAD50) and mreA(MRE11) inactivation strains were exposed to the DNA damage caused by bleomycin. Transformation experiments and Southern blot analysis indicate homologous recombination is dependent on scaA(NBS1) function in the Mre11 complex. There are epistatic and synergistic interactions between sldI( RAD50) and bimE(APC1) at S-phase checkpoints and response to hydroxyurea and UV light. Our results suggest a possible novel feature of the Mre11 complex in A. nidulans, i.e. a relationship with bimE (APC1).


Subject(s)
Aspergillus nidulans/genetics , Cell Cycle Proteins/metabolism , DNA-Binding Proteins/metabolism , Fungal Proteins/metabolism , Saccharomyces cerevisiae Proteins/metabolism , Anaphase-Promoting Complex-Cyclosome , Apc1 Subunit, Anaphase-Promoting Complex-Cyclosome , Aspergillus nidulans/drug effects , Aspergillus nidulans/radiation effects , Bleomycin/pharmacology , Cell Cycle Proteins/genetics , Chromosomal Proteins, Non-Histone/genetics , DNA Damage/genetics , DNA Replication/genetics , DNA-Binding Proteins/genetics , Endodeoxyribonucleases/genetics , Endodeoxyribonucleases/metabolism , Epistasis, Genetic , Exodeoxyribonucleases/genetics , Exodeoxyribonucleases/metabolism , Fungal Proteins/genetics , Gene Expression Regulation, Fungal , Hydroxyurea/pharmacology , Meiosis , Mutation , Protein Subunits , Recombination, Genetic , S Phase/genetics , Saccharomyces cerevisiae Proteins/genetics , Schizosaccharomyces pombe Proteins/genetics , Sequence Homology, Amino Acid , Ubiquitin-Protein Ligase Complexes/metabolism , Ultraviolet Rays
17.
Yeast ; 22(7): 511-21, 2005 May.
Article in English | MEDLINE | ID: mdl-15942925

ABSTRACT

The acidic-rich activation domain of VP16 and the proline-rich activation domains of human AP2 and human CTF are able to activate transcription in a whole cell extract from Schizosaccharomyces pombe, whereas the glutamine-rich domains of Sp1 and Oct2 are unable to activate transcription in this system. Immunodepletion experiments of the whole cell extracts using specific antibodies against pombe TAF110, pombe TAF 72, pombe TBP and Srb4 shows that the activation of transcription by VP16, AP2 and CTF is through the mediator, since depletion of Srb4 inhibits activated transcription but does not inhibit basal transcription. Immunodepletion of TBP causes inhibition of both activated and basal transcription. On the other hand, immunodepletion of TAFs does not have an effect on either activated or basal transcription. Purified RNA polymerase holoenzyme is able to rescue the transcriptional activation activity of the anti-Srb4 immunodepleted extract. Moreover, we demonstrate that the mediator is needed for basal transcription of a TATA-less promoter.


Subject(s)
DNA-Binding Proteins/chemistry , Saccharomyces cerevisiae Proteins/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Schizosaccharomyces/genetics , Transcription Factors/chemistry , Transcription Factors/metabolism , Transcriptional Activation , Animals , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Gene Expression Regulation, Fungal , Humans , Mediator Complex , RNA Polymerase II/metabolism , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Saccharomyces cerevisiae Proteins/chemistry , Saccharomyces cerevisiae Proteins/genetics , Schizosaccharomyces/metabolism , Schizosaccharomyces pombe Proteins/chemistry , Schizosaccharomyces pombe Proteins/genetics , Transcription Factor AP-2 , Transcription Factors/genetics
18.
Mem Inst Oswaldo Cruz ; 99(7): 733-7, 2004 Nov.
Article in English | MEDLINE | ID: mdl-15654430

ABSTRACT

A ribosome association factor (AF) was isolated from the yeast Sacchharomyces cerevisiae. Partial amino acid sequence of AF was determined from its fragment of 25 kDa isolated by treating AF with 2-(2-nitrophenylsulfenyl)-3-methyl-3'-Bromoindolenine (BNPS-skatole). This sequence has a 86% identity to the product of the single-copy S. cerevisiae STM1 gene that is apparently involved in several events like binding to quadruplex and triplex nucleic acids and participating in apoptosis, stability of telomere structures, cell cycle, and ribosomal function. Here we show that AF and Stm1p share some characteristics: both bind to quadruplex and Pu triplex DNA, associates ribosomal subunits, and are thermostable. These observations suggest that these polypeptides belong to a family of proteins that may have roles in the translation process.


Subject(s)
Membrane Proteins/genetics , RNA, Fungal/genetics , RNA, Ribosomal/genetics , Ribosomal Proteins/genetics , Saccharomyces cerevisiae/genetics , Schizosaccharomyces pombe Proteins/genetics , Sequence Analysis, Protein , Blotting, Western , Electrophoresis, Polyacrylamide Gel
19.
Rev Iberoam Micol ; 20(1): 1-5, 2003 Mar.
Article in Spanish | MEDLINE | ID: mdl-12825973

ABSTRACT

Ornithine decarboxylase (ODC) is the first enzyme in polyamine biosynthesis in numerous living organisms, from bacteria to mammalian cells. Its control is under negative feedback regulation by the end products of the pathway. In dimorphic fungi, ODC activity and therefore polyamine concentrations are related to the morphogenetic process. From the fission yeast Schizosaccharomyces pombe to human, polyamines induce antizyme synthesis which in turn inactivates ODC. This is hydrolyzed by the 26S proteasome without ubiquitination. The regulatory mechanism of antizyme on polyamines is conserved, although to date no antizyme homology has been identified in some fungal species. The components that are responsible for regulating polyamine levels in cells and the current knowledge of ODC regulation in dimorphic fungi are presented in this review. ODC degradation is of particular interest because inhibitors of this pathway may lead to the discovery of novel antifungal drugs.


Subject(s)
Fungal Proteins/metabolism , Ornithine Decarboxylase/metabolism , Peptide Hydrolases/metabolism , Proteasome Endopeptidase Complex , Proteins/metabolism , Animals , Drosophila Proteins/metabolism , Enzyme Activation , Feedback, Physiological , Humans , Mammals/metabolism , Morphogenesis , Mucorales/enzymology , Mucorales/growth & development , Paracoccidioides/enzymology , Paracoccidioides/growth & development , Polyamines/metabolism , Rats , Saccharomyces cerevisiae/enzymology , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae Proteins/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Species Specificity
20.
Chromosoma ; 112(1): 38-47, 2003 Jul.
Article in English | MEDLINE | ID: mdl-12707778

ABSTRACT

Hemipteran chromosomes are holocentric and show regular, special behavior at meiosis. While the autosomes pair at pachytene, have synaptonemal complexes (SCs) and recombination nodules (RNs) and segregate at anaphase I, the sex chromosomes do not form an SC or RNs, divide equationally at anaphase I, and their chromatids segregate at anaphase II. Here we show that this behavior is shared by the X and Y chromosomes of Triatoma infestans and the X(1)X(2)Y chromosomes of Triatoma pallidipennis. As Rec8p is a widely occurring component of meiotic cohesin, involved in meiotic homolog segregation, we used an antibody against Rec8p of Caenorhabditis elegans for immunolocalization in these triatomines. We show that while Rec8p is colocalized with SCs in the autosomes, no Rec8p can be found by immunolabeling in the sex chromosomes at any stage of meiosis. Furthermore, Rec8p labeling is lost from autosomal bivalents prior to metaphase I. In both triatomine species the sex chromosomes conjoin with each other during prophase I, and lack any SC, but they form "fuzzy cores", which are observed with silver staining and with light and electron microscopy during pachytene. Thin, serial sectioning and electron microscopy of spermatocytes at metaphases I and II reveals differential behavior of the sex chromosomes. At metaphase I the sex chromosomes form separate entities, each surrounded by a membranous sheath. On the other hand, at metaphase II the sex chromatids are closely tied and surrounded by a shared membranous sheath. The peculiar features of meiosis in these hemipterans suggest that they depart from the standard meiotic mechanisms proposed for other organisms.


Subject(s)
Phosphoproteins/metabolism , Schizosaccharomyces pombe Proteins/metabolism , Sex Chromosomes/ultrastructure , Spermatocytes/ultrastructure , Triatoma/genetics , Animals , Chromatids/genetics , Chromatids/ultrastructure , Female , Immunohistochemistry , Indoles , Male , Meiosis , Mice , Microscopy, Electron , Spermatocytes/metabolism , Spindle Apparatus , Synaptonemal Complex/ultrastructure , Triatoma/ultrastructure
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