scholarly journals Regulation of Gene Expression by Glucose inSaccharomyces cerevisiae: a Role for ADA2and ADA3/NGG1

1999 ◽  
Vol 181 (16) ◽  
pp. 4755-4760 ◽  
Author(s):  
Mei Wu ◽  
Laura Newcomb ◽  
Warren Heideman
Keyword(s):  
Regulation Of Gene Expression ◽  
Deletion Mutants ◽  
Phase Growth ◽  
Transcriptional Responses ◽  
Positive Regulation ◽  
Environmental Signals ◽  
Rapid Induction ◽  
Number Of Genes ◽  
Global Increase

ABSTRACT When Saccharomyces cerevisiae cells are transferred from poor medium to fresh medium containing glucose, they rapidly increase the transcription of a large group of genes as they resume rapid growth and accelerate progress through the cell cycle. Among those genes induced by glucose is CLN3, encoding a G1 cyclin that is thought to play a pivotal role in progression through Start. Deletion of CLN3 delays the increase in proliferation normally observed in response to glucose medium. ADA2 and ADA3/NGG1 are necessary for the rapid induction of CLN3 message levels in response to glucose. Loss of either ADA2 or ADA3/NGG1 also affects a large number of genes and inhibits the rapid global increase in transcription that occurs in response to glucose. Surprisingly, these effects are transitory, and expression of CLN3 and total poly(A)+ RNA appear normal when ADA2 orADA3/NGG1 deletion mutants are examined in log-phase growth. These results indicate a role for ADA2 andADA3/NGG1 in allowing rapid transcriptional responses to environmental signals. Consistent with the role of the Ada proteins in positive regulation of CLN3, deletion of RPD3, encoding a histone deacetylase, prevented the down regulation ofCLN3 mRNA in the absence of glucose.

scholarly journals Regulation of gene expression at low temperature: role of cold-inducible promoters

Microbiology ◽  
2014 ◽  
Vol 160 (7) ◽  
pp. 1291-1296 ◽  
Author(s):  
Ashish Kumar Singh ◽  
Kirti Sad ◽  
Shailendra Kumar Singh ◽  
Sisinthy Shivaji
Keyword(s):  
Low Temperature ◽  
Regulation Of Gene Expression ◽  
Inducible Promoters ◽  
Promoter Sequences ◽  
Expression Of Genes ◽  
Number Of Genes ◽  
Micro Organisms ◽  
Distinct Features ◽  
Unique Ability

Psychrophilic micro-organisms are the most dominant flora in cold habitats. Their unique ability to survive and multiply at low temperatures (<5 °C) is based on their ability to modulate the rigidity of the membrane, to transcribe, to translate and to catalyse biochemical reactions at low temperature. A number of genes are known to be upregulated during growth at low temperature and cold-inducible promoters are known to regulate the expression of genes at low temperature. In this review, we attempted to compile promoter sequences of genes that are cold-inducible so as to identify similarities and to compare the distinct features of each type of promoter when microbes are grown in the cold.

scholarly journals Geoffrey Herbert Beale MBE. 11 June 1913 — 16 October 2009

2011 ◽  
Vol 57 ◽  
pp. 45-62
Author(s):  
John R. Preer ◽  
Andrew Tait
Keyword(s):  
Research Group ◽  
Regulation Of Gene Expression ◽  
Genetic Material ◽  
Nuclear Genes ◽  
Environmental Signals ◽  
International Reputation ◽  
Cold Spring ◽  
Advisory Role

Professor Geoffrey Beale was one of the UK's leading protozoan geneticists with an international reputation. His enthusiasm for the use of genetic analysis to address fundamental questions in the biology of both free-living and parasitic protozoa was based on the influence of a series of leading geneticists whom he worked with in the early part of his career in the John Innes Horticultural Institute and Cold Spring Harbor. His research started with plants and Escherichia coli . Later he moved his research to Paramecium , under the mentorship of Tracy Sonneborn (ForMemRS 1964). His work on the surface antigens of Paramecium was published in the early 1950s, at a time when there was much debate about the role of nuclear genes and elements in the cytoplasm in determining phenotype. This was a period when the nature of the genetic material was uncertain and many scientists believed that genes were proteins. Two of his papers published at that time provided a synthesis that explained how environmental signals and the cytoplasmic state determined whether a gene was expressed (1, 2)*. These findings provided one of the first cases of the regulation of gene expression at a conceptual level and provided a bridge between those promoting cytoplasmic inheritance and those fixed on nuclear genes as the sole determinants of phenotype. In the period from 1966, he also initiated research on extranuclear (mitochondrial) genetics and on the genetics of rodent and human malaria parasites, leading to several fundamental and important findings. This was a very productive period and included the establishment of links with a malaria research group in Thailand directed by Dr Sodsri Thaithong, leading to studies on the genetic basis of malaria drug resistance and studies on strain variation in Plasmodium falciparum . In the latter part of his career and into retirement, he took a more advisory role in his research group but his enthusiasm and interest stimulated those around him enormously.

scholarly journals The Role of RNA Secondary Structure in Regulation of Gene Expression in Bacteria

2021 ◽  
Vol 22 (15) ◽  
pp. 7845
Author(s):  
Agnieszka Chełkowska-Pauszek ◽  
Jan Grzegorz Kosiński ◽  
Klementyna Marciniak ◽  
Marta Wysocka ◽  
Kamilla Bąkowska-Żywicka ◽  
...  
Keyword(s):  
Gene Expression ◽  
Rna Structure ◽  
Current Knowledge ◽  
Regulation Of Gene Expression ◽  
Regulatory Mechanisms ◽  
Environmental Signals ◽  
Bacterial Transcription ◽  
Modulation Of Gene Expression ◽  
High Dynamics

Due to the high exposition to changing environmental conditions, bacteria have developed many mechanisms enabling immediate adjustments of gene expression. In many cases, the required speed and plasticity of the response are provided by RNA-dependent regulatory mechanisms. This is possible due to the very high dynamics and flexibility of an RNA structure, which provide the necessary sensitivity and specificity for efficient sensing and transduction of environmental signals. In this review, we will discuss the current knowledge about known bacterial regulatory mechanisms which rely on RNA structure. To better understand the structure-driven modulation of gene expression, we describe the basic theory on RNA structure folding and dynamics. Next, we present examples of multiple mechanisms employed by RNA regulators in the control of bacterial transcription and translation.

scholarly journals Analysis of Spt7 Function in the Saccharomyces cerevisiae SAGA Coactivator Complex

2002 ◽  
Vol 22 (15) ◽  
pp. 5367-5379 ◽  
Author(s):  
Pei-Yun Jenny Wu ◽  
Fred Winston
Keyword(s):  
Saccharomyces Cerevisiae ◽  
The Other ◽  
Deletion Mutants ◽  
Saga Complex ◽  
Number Of Genes ◽  
Processed Form ◽  
Altered Form ◽  
And Function ◽  
Coactivator Complex

ABSTRACT The Saccharomyces cerevisiae SAGA complex is required for the normal transcription of a large number of genes. Complex integrity depends on three core subunits, Spt7, Spt20, and Ada1. We have investigated the role of Spt7 in the assembly and function of SAGA. Our results show that Spt7 is important in controlling the levels of the other core subunits and therefore of SAGA. In addition, partial SAGA complexes containing Spt7 can be assembled in the absence of both Spt20 and Ada1. Through biochemical and genetic analyses of a series of spt7 deletion mutants, we have identified a region of Spt7 required for interaction with the SAGA component Spt8. An adjacent Spt7 domain was found to be required for a processed form of Spt7 that is present in a previously identified altered form of SAGA called SLIK, SAGAalt, or SALSA. Analysis of an spt7 mutant with greatly reduced levels of SLIK/SAGAalt/SALSA suggests a subtle role for this complex in transcription that may be redundant with a subset of SAGA functions.

The Role of the Endothelium in Premature Atherosclerosis: Molecular Mechanisms

2020 ◽  
Vol 27 (7) ◽  
pp. 1041-1051 ◽  
Author(s):  
Michael Spartalis ◽  
Eleftherios Spartalis ◽  
Antonios Athanasiou ◽  
Stavroula A. Paschou ◽  
Christos Kontogiannis ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Low Density Lipoprotein ◽  
Critical Role ◽  
Density Lipoprotein ◽  
Number Of Genes ◽  
Causes Of Mortality ◽  
Artery Disease ◽  
Genetic And Environmental Factors ◽  
Made In

Atherosclerotic disease is still one of the leading causes of mortality. Atherosclerosis is a complex progressive and systematic artery disease that involves the intima of the large and middle artery vessels. The inflammation has a key role in the pathophysiological process of the disease and the infiltration of the intima from monocytes, macrophages and T-lymphocytes combined with endothelial dysfunction and accumulated oxidized low-density lipoprotein (LDL) are the main findings of atherogenesis. The development of atherosclerosis involves multiple genetic and environmental factors. Although a large number of genes, genetic polymorphisms, and susceptible loci have been identified in chromosomal regions associated with atherosclerosis, it is the epigenetic process that regulates the chromosomal organization and genetic expression that plays a critical role in the pathogenesis of atherosclerosis. Despite the positive progress made in understanding the pathogenesis of atherosclerosis, the knowledge about the disease remains scarce.

The Role of microRNAs in the Viral Infections

2019 ◽  
Vol 24 (39) ◽  
pp. 4659-4667 ◽  
Author(s):  
Mona Fani ◽  
Milad Zandi ◽  
Majid Rezayi ◽  
Nastaran Khodadad ◽  
Hadis Langari ◽  
...  
Keyword(s):  
Viral Infections ◽  
Rna Viruses ◽  
Regulation Of Gene Expression ◽  
Molecular Structures ◽  
Main Function ◽  
Cellular Functions ◽  
Viral Genes ◽  
Non Coding Rnas ◽  
Post Transcriptional Regulation

MicroRNAs (miRNAs) are non-coding RNAs with 19 to 24 nucleotides which are evolutionally conserved. MicroRNAs play a regulatory role in many cellular functions such as immune mechanisms, apoptosis, and tumorigenesis. The main function of miRNAs is the post-transcriptional regulation of gene expression via mRNA degradation or inhibition of translation. In fact, many of them act as an oncogene or tumor suppressor. These molecular structures participate in many physiological and pathological processes of the cell. The virus can also produce them for developing its pathogenic processes. It was initially thought that viruses without nuclear replication cycle such as Poxviridae and RNA viruses can not code miRNA, but recently, it has been proven that RNA viruses can also produce miRNA. The aim of this articles is to describe viral miRNAs biogenesis and their effects on cellular and viral genes.

scholarly journals The MarR-Type Regulator PA3458 Is Involved in Osmoadaptation Control in Pseudomonas aeruginosa

2021 ◽  
Vol 22 (8) ◽  
pp. 3982
Author(s):  
Karolina Kotecka ◽  
Adam Kawalek ◽  
Kamil Kobylecki ◽  
Aneta Agnieszka Bartosik
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Binding Sites ◽  
Transcriptional Profiling ◽  
Mrna Level ◽  
Transcriptional Regulators ◽  
Resistance Mechanisms ◽  
Chronic Infections ◽  
Environmental Signals ◽  
Regulatory Systems

Pseudomonas aeruginosa is a facultative human pathogen, causing acute and chronic infections that are especially dangerous for immunocompromised patients. The eradication of P. aeruginosa is difficult due to its intrinsic antibiotic resistance mechanisms, high adaptability, and genetic plasticity. The bacterium possesses multilevel regulatory systems engaging a huge repertoire of transcriptional regulators (TRs). Among these, the MarR family encompasses a number of proteins, mainly acting as repressors, which are involved in response to various environmental signals. In this work, we aimed to decipher the role of PA3458, a putative MarR-type TR from P. aeruginosa. Transcriptional profiling of P. aeruginosa PAO1161 overexpressing PA3458 showed changes in the mRNA level of 133 genes; among them, 100 were down-regulated, suggesting the repressor function of PA3458. Concomitantly, ChIP-seq analysis identified more than 300 PA3458 binding sites in P. aeruginosa. The PA3458 regulon encompasses genes involved in stress response, including the PA3459–PA3461 operon, which is divergent to PA3458. This operon encodes an asparagine synthase, a GNAT-family acetyltransferase, and a glutamyl aminopeptidase engaged in the production of N-acetylglutaminylglutamine amide (NAGGN), which is a potent bacterial osmoprotectant. We showed that PA3458-mediated control of PA3459–PA3461 expression is required for the adaptation of P. aeruginosa growth in high osmolarity. Overall, our data indicate that PA3458 plays a role in osmoadaptation control in P. aeruginosa.

scholarly journals Horizontal Gene Transfer Involving Chloroplasts

2021 ◽  
Vol 22 (9) ◽  
pp. 4484
Author(s):  
Ewa Filip ◽  
Lidia Skuza
Keyword(s):  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Driving Force ◽  
Genetic Material ◽  
Adaptive Significance ◽  
Chloroplast Genomes ◽  
Organelle Genomes ◽  
Number Of Genes ◽  
Cellular Compartments

Horizontal gene transfer (HGT)- is defined as the acquisition of genetic material from another organism. However, recent findings indicate a possible role of HGT in the acquisition of traits with adaptive significance, suggesting that HGT is an important driving force in the evolution of eukaryotes as well as prokaryotes. It has been noted that, in eukaryotes, HGT is more prevalent than originally thought. Mitochondria and chloroplasts lost a large number of genes after their respective endosymbiotic events occurred. Even after this major content loss, organelle genomes still continue to lose their own genes. Many of these are subsequently acquired by intracellular gene transfer from the original plastid. The aim of our review was to elucidate the role of chloroplasts in the transfer of genes. This review also explores gene transfer involving mitochondrial and nuclear genomes, though recent studies indicate that chloroplast genomes are far more active in HGT as compared to these other two DNA-containing cellular compartments.

scholarly journals WNT/β-catenin-suppressed FTO expression increases m6A of c-Myc mRNA to promote tumor cell glycolysis and tumorigenesis

2021 ◽  
Vol 12 (5) ◽  
Author(s):  
Xueying Yang ◽  
Fei Shao ◽  
Dong Guo ◽  
Wei Wang ◽  
Juhong Wang ◽  
...  
Keyword(s):  
Tumor Cell ◽  
Promoter Region ◽  
Critical Role ◽  
Mrna Translation ◽  
Poor Survival ◽  
Subsequent Increase ◽  
Critical Pathways ◽  
Number Of Genes ◽  
Promote Tumor Cell

AbstractFTO removes the N6-methyladenosine (m6A) modification from genes and plays a critical role in cancer development. However, the mechanisms underlying the regulation of FTO and its subsequent impact on the regulation of the epitranscriptome remain to be further elucidated. Here, we demonstrate that FTO expression is downregulated and inversely correlated with poor survival of lung adenocarcinoma patients. Mechanistically, Wnt signaling induces the binding of EZH2 to β-catenin. This protein complex binds to the LEF/TCF-binding elements at the promoter region of FTO, where EZH2 enhances H3K27me3 and inhibits FTO expression. Downregulated FTO expression substantially enhances the m6A levels in the mRNAs of a large number of genes in critical pathways, particularly metabolic pathway genes, such as MYC. Enhanced m6A levels on MYC mRNA recruit YTHDF1 binding, which promotes MYC mRNA translation and a subsequent increase in glycolysis and proliferation of tumor cells and tumorigenesis. Our findings uncovered a critical mechanism of epitranscriptome regulation by Wnt/β-catenin-mediated FTO downregulation and underscored the role of m6A modifications of MYC mRNA in regulating tumor cell glycolysis and growth.

scholarly journals Histone lactylation drives oncogenesis by facilitating m6A reader protein YTHDF2 expression in ocular melanoma

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Jie Yu ◽  
Peiwei Chai ◽  
Minyue Xie ◽  
Shengfang Ge ◽  
Jing Ruan ◽  
...  
Keyword(s):  
Macrophage Polarization ◽  
Regulation Of Gene Expression ◽  
Metabolic Stress ◽  
Ocular Melanoma ◽  
Rna Modifications ◽  
M1 Macrophage ◽  
Melanoma Therapy

Abstract Background Histone lactylation, a metabolic stress-related histone modification, plays an important role in the regulation of gene expression during M1 macrophage polarization. However, the role of histone lactylation in tumorigenesis remains unclear. Results Here, we show histone lactylation is elevated in tumors and is associated with poor prognosis of ocular melanoma. Target correction of aberrant histone lactylation triggers therapeutic efficacy both in vitro and in vivo. Mechanistically, histone lactylation contributes to tumorigenesis by facilitating YTHDF2 expression. Moreover, YTHDF2 recognizes the m6A modified PER1 and TP53 mRNAs and promotes their degradation, which accelerates tumorigenesis of ocular melanoma. Conclusion We reveal the oncogenic role of histone lactylation, thereby providing novel therapeutic targets for ocular melanoma therapy. We also bridge histone modifications with RNA modifications, which provides novel understanding of epigenetic regulation in tumorigenesis.

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