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Gene Expression Regulation, Fungal (0):
Recent article
Gene Expression Regulation, Fungal
Abstract
We show that the combined action of Isw1 and Chd1 nucleosome-spacing enzymes is required to maintain this organization. In the absence of these enzymes, regular positioning of the majority of nucleosomes is lost. Exceptions include the region upstream of the promoter, the +1 nucleosome, and a subset...
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PMID: 21940898
PDF is available here.
PDF is available here.
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Science Signaling (4)192 2011
Abstract
We used mathematical modeling and quantitative in vivo experiments to define the contributions of individual components of the G₁-S network downstream of Hog1 to this stress-induced delay in the cell cycle. The length of the arrest depended on the degree of stress and the temporal proximity of the...
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PMID: 21954289
PDF is available here.
PDF is available here.
Abstract
Our results indicated that there were 23 combinatorial patterns for 12 histone modifications investigated when a general Bayesian network was constructed. Meanwhile, different networks were also constructed for the genes with high transcript levels (H-network) and low transcript levels (L-network),...
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PMID: 21815215
PDF is available here.
PDF is available here.
Eukaryotic Cell (10)9 2011
Cell wall chitosan is necessary for virulence in the opportunistic pathogen Cryptococcus neoformans.
Abstract
We demonstrate chitosan is necessary for virulence and persistence in the mammalian host....
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PMID: 21784998
PDF is available here.
PDF is available here.
Systems Biology, IET (5)5 2011
Abstract
Qualitative models allow understanding the relation between the structure and the dynamics of gene regulatory networks. The dynamical properties of these models can be automatically analysed by means of formal verification methods, like model checking. This facilitates the model-vali...
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PMID: 22010757
PDF is available here.
PDF is available here.
Abstract
We discovered that intimate physical interaction of the important model fungus Aspergillus nidulans with the soil-dwelling bacterium Streptomyces rapamycinicus specifically activated silent fungal secondary metabolism genes, resulting in the production of the archetypal polyketide orsellinic acid an...
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PMID: 21825172
PDF is available here.
PDF is available here.
Fungal Biology (115)8 2011
Abstract
We report the cloning and characterization of the cDNA encoding the ACO of P. brasiliensis (PbACO). The cDNA showed a 2361 bp open reading frame (ORF) and encoded a predicted protein with 787 amino acids. Polyclonal antibodies against the purified recombinant PbACO was obtained in order to analyze t...
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PMID: 21802049
PDF is available here.
PDF is available here.
Abstract
Abstract In industrial fermentations of Saccharomyces cerevisiae, transient changes in oxygen concentration commonly occur and it is important to understand the behavior of cells during these changes. Glucose-limited chemostat cultivations were used to study the time-dependent effect...
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PMID: 21348598
PDF is available here.
PDF is available here.
Systems Biology, IET (5)4 2011
Abstract
The gene expression response of yeast to various types of stresses/perturbations shows a common functional and dynamical pattern for the vast majority of genes, characterised by a quick transient peak (affecting primarily short genes) followed by a return to the pre-stimulus level. K...
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PMID: 21823758
PDF is available here.
PDF is available here.
PLoS Genetics (7)6 2011
Abstract
We show that Saccharomyces cerevisiae NMD mutants accumulate 5'-extended RNAs (CD-CUTs) of many subtelomeric genes. Using the subtelomeric ZRT1 and FIT3 genes activated in response to zinc and iron deficiency, respectively, we show that transcription of these CD-CUTs mediates repression at the bona...
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PMID: 21738494
PDF is available here.
PDF is available here.
PLoS Genetics (7)6 2011
Abstract
We show that untimely activation of replication origins during the G1 phase is genotoxic and induces genomic instability in the budding yeast Saccharomyces cerevisiae. Our data indicate that cells preserve a low level of the initiation factor Sld2 to prevent untimely initiation during the normal cel...
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PMID: 21698130
PDF is available here.
PDF is available here.
Fungal Biology (115)6 2011
Abstract
Two modes of cellular morphogenesis predominate within the fungal kingdom; yeast growth and hyphal growth. The availability of complete genome sequences that span the kingdom has made possible the use of comparative approaches that address important questions regarding the evolution...
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PMID: 21640312
PDF is available here.
PDF is available here.
DNA Repair (10)5 2011
Abstract
We examined the consequences of overexpressing SRS2 as well as two helicase-dead mutants, srs2-K41A and srs2-K41R, in the collection of 4827 yeast haploid deletion mutants. We identified 274 genes affecting a large variety of cellular functions that are required for cell growth when SRS2 or its muta...
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PMID: 21459050
PDF is available here.
PDF is available here.
PLoS Genetics (7)5 2011
Abstract
We investigated the effects of over 400 gene deletions on this de novo induction of [PSI+]. Two classes of gene deletions were identified. Class I deletions (bug1Δ, bem1Δ, arf1Δ, and hog1Δ) reduced the efficiency of [PSI+] induction, but formed rings normally. Class II deletions (las17Δ, vps5Δ...
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PMID: 21625618
PDF is available here.
PDF is available here.
PLoS Genetics (7)5 2011
Abstract
We demonstrate that the dun1 ixr1 synthetic lethality is caused by an inadequate RNR activity. The deletion of IXR1 results in decreased dNTP levels due to a reduced RNR1 expression. The ixr1 single mutants compensate for the reduced Rnr1 levels by the Mec1-Rad53-Dun1-Crt1-dependent elevation of Rnr...
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PMID: 21573136
PDF is available here.
PDF is available here.
Cell Cycle (10)8 2011
Abstract
Cell Host & Microbe (9)3 2011
Abstract
We have determined that Gat201 controls the mRNA levels of ∼1100 genes (16% of the genome) and binds the upstream regions of ∼130 genes. Seven Gat201-bound genes encode for putative and known transcription factors--including two previously implicated in virulence--suggesting an extensive regulat...
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PMID: 21402362
PDF is available here.
PDF is available here.
Systems Biology, IET (5)2 2011
Abstract
Many methods had been developed on inferring transcriptional network from gene expression. However, it is still necessary to design new method that discloses more detailed and exact network information. Using network-assisted regression, the authors combined the averaged three-way mu...
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PMID: 21405197
PDF is available here.
PDF is available here.
Abstract
We describe here the first lichen PKS cluster likely to be implicated in the biosynthesis of a depside and a depsidone, compounds in a class almost exclusively produced by lichen fungi (mycobionts). Using degenerate PCR with primers biased towards presumed PKS genes for depsides and depsidones, we i...
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PMID: 21289108
PDF is available here.
PDF is available here.
Abstract
Our results highlighted the potential for the adaptation of the fungus to local conditions, leading to genetic clusters among the French population of the fungus, as well as genotype flow between clusters at the regional scale....
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PMID: 21289103
PDF is available here.
PDF is available here.
Abstract
We could show that OSID contacts a second pleiotropic corepressor, Ssn6 (=Cyc8), which together with Tup1 is also able to recruit HDACs. Interestingly, mutations sin3 and ssn6 turned out as synthetically lethal. Our analysis further revealed that OSID not only binds to PAH1 but also interacts with t...
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PMID: 21104417
PDF is available here.
PDF is available here.
Abstract
We functionally characterized the MoMSB2 and MoSHO1 genes. Whereas the Momsb2 mutant was significantly reduced in appressorium formation and virulence, the Mosho1 mutant was only slightly reduced. The Mosho1 Momsb2 double mutant rarely formed appressoria on artificial hydrophobic surfaces, had a red...
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PMID: 21283781
PDF is available here.
PDF is available here.
Abstract
The proposed methods are capable of distinguishing metabolic time trends resulting from different treatments and associate significance levels to these differences. Among several nonlinear mixed-effects regression models tested, a three-parameter logistic function represents the data with highest ac...
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PMID: 21518445
PDF is available here.
PDF is available here.
Abstract
We show that genes directly involved in the unfolded protein response (UPR), ER-associated degradation (ERAD) and ER-phagy are transcriptionally up-regulated more quickly and to higher levels in response to expression of more highly-destabilised HuL variants and those variants are secreted to lower...
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PMID: 21818368
PDF is available here.
PDF is available here.
Abstract
We therefore have reanalyzed transcription factor binding to the PHO5 promoter in vivo, using 'chromatin endogenous cleavage' (ChEC). Our results unambiguously demonstrate that nucleosomes effectively interfere with the binding of Pho4 and other critical transcription factors to regulatory sequences...
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PMID: 21408617
PDF is available here.
PDF is available here.
Abstract
The enzyme glutamine: fructose-6-phosphate aminotransferase (GFAT), also known as glucosamine synthase (GlmS), catalyzes the formation of glucosamine-6-phosphate from fructose-6-phosphate and is the first and rate-limiting enzyme of the hexosamine biosynthetic pathway. For the first time, the GFAT ge...
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PMID: 21340036
PDF is available here.
PDF is available here.
Abstract
We describe several methods for the analysis of the effects of farnesol on biofilm formation and function....
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PMID: 21031315
PDF is available here.
PDF is available here.
Abstract
We isolated and characterized sixteen Fusarium strains from naturally infected potato plants in the field. Pathogenicity tests were carried out in the greenhouse to evaluate the virulence of the strains on potato plants as well as their trichothecene production capacity, and the most aggressive stra...
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PMID: 21455305
PDF is available here.
PDF is available here.
Abstract
We demonstrate that RNAi also functions to repress genomic elements other than constitutive heterochromatin. Using DNA adenine methyltransferase identification (DamID), we show that the RNAi proteins Dcr1 and Rdp1 physically associate with some euchromatic genes, noncoding RNA genes and retrotranspo...
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PMID: 21151114
PDF is available here.
PDF is available here.
PLoS Genetics (7)1 2011
H3K9me-independent gene silencing in fission yeast heterochromatin by Clr5 and histone deacetylases.
Abstract
We report that silencing of the fission yeast mating-type cassettes, which are located in a well-characterized heterochromatic region, is hardly affected in cells lacking the H3K9 methyltransferase Clr4. We document the existence of a pathway parallel to H3K9me ensuring gene repression in the absenc...
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PMID: 21253571
PDF is available here.
PDF is available here.
Abstract
We show that a strain carrying a deletion of cre-1 has increased cellulolytic activity and increased expression of cellulolytic genes during growth on crystalline cellulose (Avicel). Constitutive expression of cre-1 complements the phenotype of a N. crassa Δcre-1 strain grown on Avicel, and also re...
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PMID: 21980519
PDF is available here.
PDF is available here.
Comptes Rendus Biologies (334)8-9 2011
Abstract
Gene regulation is a major source of phenotypic diversity between and within species. This aspect of evolution has long been addressed from the sole point of view of the genome sequence. The incredible development of transcriptomics approaches now allows one to actually study the top...
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PMID: 21819947
PDF is available here.
PDF is available here.
Abstract
Abstract
We demonstrated that the +1 frameshifting was increased in the mutant strain. Further characterizations revealed involvement of the Imp3 protein in DNA repair and telomere length control, pointing to a functional relationship between both pathways and ribosome biogenesis....
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PMID: 21559332
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (285)53 2010
Abstract
We analyzed the role of Tom7 in assembly of β-barrel proteins, including Tom40, a central channel subunit of the TOM40 complex, and porin. Depletion of Tom7 decreased transient accumulation of Tom40 at the level of the TOB complex and retarded assembly of porin in vitro. On the other hand, overexpr...
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PMID: 21036907
PDF is available here.
PDF is available here.
Abstract
We evaluated the involvement of mitochondria and intracellular oxidative stress in M-to-Y differentiation. M-to-Y transition was delayed by the inhibition of mitochondrial Complexes III and IV or alternative oxidase (AOX) and was blocked by the association of AOX with Complexes III or IV inhibitors....
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PMID: 21183691
PDF is available here.
PDF is available here.
Abstract
We report the regulation of expression of the two activator genes xyr1 and ace2, and the corepressor gene ace1 during induction of cellulase biosynthesis by the inducer lactose in a low producing strain T. reesei QM 9414. We show that all three genes are induced by lactose. Xyr1 is also induced by D...
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PMID: 21169417
PDF is available here.
PDF is available here.
Abstract
We asked whether the PHO pathway was the same in the distantly related fission yeast, Schizosaccharomyces pombe. We screened a deletion collection for mutants aberrant in phosphatase activity, which is primarily a consequence of pho1(+) transcription. We identified a novel zinc finger-containing pro...
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PMID: 21169418
PDF is available here.
PDF is available here.
Abstract
We used the yeast two-hybrid system to search for Atg28 interaction partners from P. pastoris and identified a new Atg protein, named Atg35. The atg35∆ mutant was not affected in macropexophagy, cytoplasm-to-vacuole targeting or general autophagy. However, both Atg28 and Atg35 were required for mi...
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PMID: 21169734
PDF is available here.
PDF is available here.
Abstract
We report here that in addition to MGA2's role in regulation of unsaturated fatty acids, MGA2 is required for full basal expression of ERG1. Mga2p was found to be controlled by a novel regulator in its activation of ERG1, as neither unsaturated fatty acids nor cobalt affected ERG1 expression, as had...
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PMID: 21075079
PDF is available here.
PDF is available here.
Abstract
An overview of current trends in Latin American Experimental Medical Mycological research since the beginning of the 21(st) century is done (search from January 2000 to December 2009). Using the PubMed and LILACS databases, the authors have chosen publications on medically important fungi which, acco...
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PMID: 21167301
PDF is available here.
PDF is available here.
Abstract
We review the molecular and phenotypic characteristics of different fungal Skn7 proteins and consider how each of these properties may contribute to fungal virulence....
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PMID: 21131436
PDF is available here.
PDF is available here.
Abstract
We describe by the first time a homologue of EndoG in the filamentous fungi by investigating if the Aspergillus nidulans EndoG homologue, named nucA(ENDOG), is being activated during farnesol-induced cell death. Our results suggest that NucA is not involved in cell death but it plays a role in the D...
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PMID: 21131437
PDF is available here.
PDF is available here.
Abstract
We employed transcriptional fusions between CgPdr1 target promoters, like CgCDR1, to demonstrate that CgPdr1 stimulates gene expression via binding to elements called Pleiotropic Drug Response Elements (PDREs). Deletion mapping and electrophoretic mobility shift assays demonstrated that a single PDR...
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PMID: 21131438
PDF is available here.
PDF is available here.
Abstract
We characterized the iron-responsive regulator Hap43, which is the C. albicans homolog of HapX/Php4 and is repressed by the GATA-type repressor Sfu1 under iron-sufficient conditions. We provided evidence that Hap43 is essential for the growth of C. albicans under low-iron conditions and for C. albic...
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PMID: 21131439
PDF is available here.
PDF is available here.
Abstract
We first studied homologous genes to OAF1 and PIP2 of Saccharomyces cerevisiae, but their disruption did not change growth on oleic acid at all. We next characterized a Y. lipolytica gene, POR1 (primary oleate regulator 1), an ortholog of farA encoding a transcriptional activator that regulates fatt...
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PMID: 20977884
PDF is available here.
PDF is available here.
Abstract
We briefly summarize previous work on the characterization of such oscillations using systems approaches, and present the long-period, Yeast Metabolic Cycle as an excellent model system for deciphering the temporal organization of fundamental cellular and metabolic processes at unprecedented resolut...
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PMID: 21051220
PDF is available here.
PDF is available here.
Trends in Microbiology (18)12 2010
Abstract
We should study it.
Copyright © 2010 Elsevier Ltd. All rights reserved....
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PMID: 21035346
PDF is available here.
PDF is available here.
Abstract
The pathogenic mechanisms of fungal infection during human keratomycosis were investigated in an ex vivo corneal model that used strains of Fusarium oxysporum differing in the production of a fungal transcription factor.
A pacC loss-of-function mutant and a pacC dominant-activating mutant were const...
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PMID: 20856109
PDF is available here.
PDF is available here.
Abstract
We will show how quantitative proteomics has been used to study the effect of different stresses on yeast....
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PMID: 20695824
PDF is available here.
PDF is available here.
Abstract
Abstract
Paramutation refers to the process by which homologous DNA sequences communicate in trans to establish meiotically heritable expression states. Although mechanisms are unknown, current data are consistent with the hypothesis that the establishment and heritable transmission of specific chromatin sta...
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PMID: 21030647
PDF is available here.
PDF is available here.
Fungal Genetics and Biology (47)11 2010
Abstract
We show that RCO-1 and RCM-1, the Neurospora homologs of the components of the yeast Tup1-Ssn6 repressor complex, participate in photoadaptation. Mutation in either rco-1 or rcm-1 result in high and sustained accumulation of mRNAs for con-10 and other light-regulated genes after long exposures to li...
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PMID: 20709620
PDF is available here.
PDF is available here.
Fungal Genetics and Biology (47)11 2010
Abstract
The agaricomycete (homobasidiomycete) Coprinopsis cinerea has been used as a model to study the molecular mechanism for photomorphogenesis. Molecular genetic analyses of mutants defective in fruiting body (mushroom) photomorphogenesis of C. cinerea identified two genes, dst1 and dst2. dst1 encodes a...
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PMID: 20471485
PDF is available here.
PDF is available here.
Fungal Genetics and Biology (47)11 2010
Abstract
Virtually all organisms exposed to light are capable of sensing this environmental signal. In recent years the photoreceptors that mediate the ability of fungi to "see" have been identified in diverse species, and increasingly characterized. The small sizes of fungal genomes and ease in genetic and...
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PMID: 20451644
PDF is available here.
PDF is available here.
Fungal Genetics and Biology (47)11 2010
Abstract
Fungal Genetics and Biology (47)11 2010
Abstract
Light is an environmental signal that modulates many aspects of the biology of zygomycete fungi. Light regulation has been investigated in the zygomycetes Phycomyces blakesleeanus, Mucor circinelloides and Pilobolus crystallinus. Examples of light regulation include the phototropism of the fruiting...
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PMID: 20466063
PDF is available here.
PDF is available here.
Abstract
I of SQS is essential for binding of the diphosphate substrate....
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PMID: 20585832
PDF is available here.
PDF is available here.
Abstract
We focus particularly on the various signaling pathways that control the activity of the enzymes of glycogen storage. We also discuss our recent understanding of the important role played by the vacuole in glycogen metabolism. In the case of bacterial glycogen, special emphasis is placed on aspects...
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PMID: 20412306
PDF is available here.
PDF is available here.
FEMS Yeast Research (10)7 2010
Abstract
We identified 177 ORFs and 56 proteins among those most expressed during the process, thus highlighting cell stress response, mitochondrial and carbohydrate metabolism as the most represented functional categories. A direct correlation between mRNA changes and protein abundance was observed for seve...
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PMID: 20738407
PDF is available here.
PDF is available here.