Yeast genes and genetic transcription factors transcription genetic. Medical search. Frequent questions

Brains of mice with conditional knockout of Nfe2l1 in neuronal cells showed decreased proteasome activity and accumulation of ubiquitin-conjugated proteins, and down regulation of genes encoding the 20S core and 19S regulatory sub-complexes of the 26S proteasome. (wikipedia.org)
this family of proteins is hereafter called EBF) are a group of DNA-binding transcription factors with the basic helix-loop-helix (bHLH) domain. (aacrjournals.org)
The third study focused on post-transcriptional regulatory networks in yeast, by mapping the regulatory activity level of RNA binding proteins (RBPs) as a quantitative trait in so-called "aQTL" analysis. (columbia.edu)
This domain occurred 399 times on human genes ( 920 proteins). (umbc.edu)
We discuss the possible roles of the newly identified proteins in CPRF1- and CPRF2-dependent target gene expression. (embl-heidelberg.de)
In this study, we combined transcript profiling and proteomic analysis to better understand which genes and proteins are altered by opaque2 in the W64A inbred line. (biomedcentral.com)
Some defense proteins such as beta-glucosidase aggregating factor were strongly down regulated and may be regulated directly by opaque2 . (biomedcentral.com)
Until now, researchers have typically relied on standard high-throughput yeast two-hybrid (Y2H) assays to determine the interactions between proteins. (salk.edu)
The genes for two proteins, each on their own circle of DNA, are added to the same cell. (salk.edu)
If the proteins of interest interact inside the cell, a gene called Cre is activated. (salk.edu)
When turned on, Cre physically splices the two individual circles of DNA together, thus pairing the genes of interacting proteins together so the team can easily find them through sequencing. (salk.edu)
The team can generate a massive library of yeast cells-each containing different pairs of proteins by introducing random combinations of genes on circular DNA called plasmids. (salk.edu)
When cells are positive for a protein interaction, the researchers can use genetic sequencing to figure out what the two proteins interacting are, using new high-throughput DNA sequencing technologies similar to those used for human genome sequencing. (salk.edu)
Ecker's group tested the new method, dubbed CrY2H-seq, on all the transcription factors-a large class of proteins-in the plant Arabidopsis . (salk.edu)
They revealed more than 8,000 interactions among those proteins tested, giving them new insight into which Arabidopsis transcription factors interact with each other. (salk.edu)
With the wealth of data accumulated from completely sequenced genomes and other high-throughput experiments, global studies of biological systems, by simultaneously investigating multiple biological entities (e.g. genes, transcripts, proteins), has become a routine. (biomedcentral.com)
Such technological improvements enable a large number of molecules, including genes, transcripts, and proteins to be simultaneously measured in different conditions over time. (biomedcentral.com)
While transcription factors bind and recruit chromatin-modifying and remodeling proteins, the relative contribution of individual cis elements residing within clusters of cis elements to the transcriptional control of endogenous loci is incompletely understood. (prolekarniky.cz)
Comparative analysis of these pathways relies on network alignment methods, much the same way as sequence matching and alignments are used for individual genes and proteins. (biomedcentral.com)
Our working hypothesis is that there are repressors that interfere with Bcd-dependent activation, and that combinations of activating and repressing proteins position and register multiple target gene expression boundaries. (nyu.edu)
As a largest plant-specific transcription factor family, NAC domain proteins play an important role in plant development and regulation of abiotic stress tolerance. (frontiersin.org)
Here, we use a reporter gene-based screen in Saccharomyces cerevisiae for the discovery of antifungal inhibitors of GPI-anchoring of proteins, and identify the oligocyclopropyl-containing natural product jawsamycin (FR-900848) as a potent hit. (nature.com)
GPI biosynthesis is a conserved process, required for anchoring proteins to the plasma membrane of fungi and thus essential for the integrity of the fungal cell wall in yeasts and molds 4 . (nature.com)
In addition, activated eIF2α can trigger production of certain proteins called transcription factors, which control gene activity. (medlineplus.gov)

Nfe2l1 knockout mice also exhibit down-regulation of Gpx1 and Hmox1, and Nfe2l1 (this gene)-deficient hepatocytes from liver-specific Nfe2l1 knockout mice showed decreased expression of various Gst genes. (wikipedia.org)
This compensatory up-regulation of proteasome genes in response to proteasome inhibition has also been demonstrated to be Nfe2l1-dependent in various other cell types. (wikipedia.org)
The short length and high degeneracy of sites recognized by DNA-binding transcription factors limit the amount of information they can carry, and individual sites are rarely sufficient to mediate the regulation of specific targets. (nih.gov)
This is due to concomitant relief of carbon catabolite repression (CCR) and activation of mitochondrial retrograde signaling, a mitochondria-to-nucleus communication pathway causing up-regulation of various nuclear target genes, such as CIT2 , encoding peroxisomal citrate synthase, dependent on the positive regulator RTG2 in response to mitochondrial dysfunction. (microbialcell.com)
The ribosome assembly gene network is controlled by the feedback regulation of transcription elongation. (us.es)
Transcriptional regulation is an important mechanism underlying gene expression and has played a crucial role in evolution. (upm.es)
Here, we show that in Xenopus, Fry plays a role in morphogenetic processes during gastrulation, in addition to its previously described function in the regulation of dorsal mesoderm gene expression. (nature.com)
Here, we have analyzed cis element regulation of the critical hematopoietic factor Gata2 , which is expressed in early precursors and repressed as GATA-1 levels rise during terminal differentiation. (prolekarniky.cz)
Models of gene regulation have led to an attractive paradigm in which repression occurs in sequential stages of increasing stability [4] . (prolekarniky.cz)
GATA factor cross-regulation represents an instructive model system for investigating the contribution of individual cis elements to the initiation and maintenance of transcriptional repression. (prolekarniky.cz)
As genome-scale measurements lead to increasingly complex models of gene regulation, systematic approaches are needed to validate and refine these models. (biomedcentral.com)
The NAC domain transcription factors in Arabidopsis function in plant development, senescence, and stress regulation. (frontiersin.org)
We further found via RNA-seq that GPF1 and CNF2 have similar mechanisms in gene expression regulation related to pathogenicity. (prelekara.sk)

Interestingly, we find that cis and trans effects at individual genes are often negatively correlated, suggesting widespread compensatory evolution to stabilize levels of chromatin accessibility. (princeton.edu)
This has created new opportunities to study genetic variation at the level of gene regulatory networks rather than individual genes. (columbia.edu)

We developed a high-throughput gene knockout system, and using this system, we obtained null mutants of 104 fungal-specific Zn2Cys6 transcription factor (TF) genes by screening 8741 primary transformants in M. oryzae. (prelekara.sk)
We found that 61 Zn2Cys6 TF genes play indispensable and diversified roles in fungal development and pathogenicity. (prelekara.sk)
Furthermore, sequence homology between mammalian and fungal genes in the GPI pathway show modest conservation raising the chances of finding fungal-selective molecules with good therapeutic index 8 . (nature.com)

The mutant also had altered expression of a number of starch biosynthesis genes and this was associated with a more highly crystalline starch. (biomedcentral.com)
Reconstructed carbon and sulfur metabolic pathways, coupled with RNA-Seq analysis, suggested a marginal Crabtree effect under high glucose and activation of sulfur metabolism toward methionine biosynthesis under sulfur limitation in this yeast. (biomedcentral.com)
Fink and his students showed that many genes related to amino acid biosynthesis were controlled by a single master regulator-the transcription factor Gcn4p. (genestogenomes.org)

BUR1, also called SGV1, is a yeast Cyclin-Dependent protein Kinase (CDK) that is functionally equivalent to mammalian CDK9. (umbc.edu)
With roughly 30,000 genes in mammalian genomes, fection with a vector encoding MyoD (Tapscott et al. (lu.se)

When Fink's career began, the discovery of DNA and the molecular biology revolution had changed little about the study of yeast genetics because there was no method to introduce DNA into a yeast cell, a critical step for tinkering with genes in vivo . (genestogenomes.org)
In 1970 Fink co-founded the influential yeast genetics course at Cold Spring Harbor Laboratory and taught it for 17 years, sharing his knowledge widely through the yeast community. (genestogenomes.org)

CCR down-regulates genes mainly involved in mitochondrial respiratory metabolism. (microbialcell.com)
Aft1p regulates genes involved in iron metabolism, and Mac1p regulates genes involved in copper homeostasis. (biomedcentral.com)
CNF1 is the first reported TF gene that strongly and negatively regulates asexual development in the rice blast fungus, and CCA1, CNF1, CNF2, CONx1, GPF1, GTA1, MoCOD1 and PCF1 are required for pathogenicity. (prelekara.sk)

The second study aimed to identify transacting chromosomal loci that regulate expression of a large number of genes. (columbia.edu)
Proposed to function in concert with members of other transcription factor families, CPRFs regulate the transcriptional activity of many target genes. (embl-heidelberg.de)
Some of the poorly understood transcription factors, they found, interact with more well-understood factors that regulate the plant's response to auxin, a hormone involved in coordinating plant growth. (salk.edu)
Fink continued to pursue the question of how eukaryotes regulate their genes, as well as many others that piqued his interest. (genestogenomes.org)
NAC transcription factors regulate the stress response in plants. (frontiersin.org)
The resulting data provide new insights into how Zn2Cys6 TF genes regulate important traits during the infection cycle of this rice blast pathogen. (prelekara.sk)

The advent of high-throughput genotyping and gene expression profiling technologies has made it possible to use messenger RNA levels as quantitative traits in linkage studies. (columbia.edu)
Surprisingly, link prediction based on joint clustering of physical and genetic interactions performs worse than predictions based on individual data sets, suggesting a lack of synergy in current high-throughput data. (biomedcentral.com)
We recently reported a procedure for inferring gene-regulatory network models by integrating gene-expression profiles with high-throughput measurements of protein interactions [ 18 ]. (biomedcentral.com)
Highly-Automated, High-Throughput Replication of Yeast-based Logic Circuit Design Assessments. (duke.edu)
However, there is no high-throughput gene knockout system constructed, and little is known about most of the genes in this fungus. (prelekara.sk)
Systematic Analysis of ZnCys Transcription Factors Required for Development and Pathogenicity by High-Throughput Gene Knockout in the Rice Blast Fungus. (prelekara.sk)

NFE2L1 was shown to directly bind and activate expression of the PsmB6 gene, which encodes a catalytic subunit of the 20S core. (wikipedia.org)
2014). AGAMOUS (AG) gene encodes MADS family of transcription factors which plays a role in specifying reproductive organ identity and acts in a negative feedback loop to limit floral stem cell proliferation. (grassius.org)
The yeast HO gene, which encodes an endonuclease involved in initiating mating type interconversion, is expressed in mother cells but not in daughters. (ox.ac.uk)
This gene encodes hexokinase 2, the predominant form found inskeletal muscle. (biomasswars.com)
The furry ( fry ) gene encodes an evolutionarily conserved protein with a wide variety of cellular functions, including cell polarization and morphogenesis in invertebrates. (nature.com)
The Furry (Fry) gene encodes a large protein (~ 330 kDa) that is evolutionarily conserved from yeast to humans. (nature.com)

To investigate this further, we developed and trained spatial models of binding site positioning and applied them to the genome of the yeast Saccharomyces cerevisiae. (nih.gov)
Gene expression can mean the difference between a functional and non-functional genome, between health and disease, and with the development of transgenic crops, the difference between survival and starvation. (nhbs.com)
In a genome-wide screen for putative tumor suppressor genes, the EBF3 locus on the human chromosome 10q26.3 was found to be deleted or methylated in 73% of the examined cases of brain tumors. (aacrjournals.org)
Genome-scale technologies allow chromatin accessibility to be mapped with high-resolution, facilitating detailed analyses into the genetic architecture and evolution of chromatin structure within and between species. (princeton.edu)
Recent genome-wide binding studies showingthat in most species condensin is enriched near highly expressed genes suggest aconserved link between condensin occupancy and high transcription rates. (ens-lyon.fr)
Cytoplasmic 5'-3' exonuclease Xrn1p is also a genome-wide transcription factor in yeast. (us.es)
Dillin and his colleagues knew that eliminating a gene involved in protein degradation -- wwp-1 -- from the C. elegans genome resulted in adult worms that were more vulnerable to environmental stresses. (supercentenarian.com)
Notably, the lack of sulfate assimilation genes in the S. fibuligera genome reflects a unique phenotype for Saccharomycopsis clades as natural sulfur auxotrophs. (biomedcentral.com)
Investigation of performance on genome-scale yeast protein interactions reveals roughly 100 top-level clusters, with a long-tailed distribution of cluster sizes. (biomedcentral.com)
With genome or EST sequences in hand, microarrays or macroarrays can be constructed to analyze gene-expression profiles at the genome-wide level over a range of conditions. (biomedcentral.com)
TFIID and Spt-Ada-Gcn5-acetyltransferase functions probed by genome-wide synthetic genetic array analysis using a Saccharomyces cerevisiae taf9-ts allele. (thebiogrid.org)
Candidate clusters are cloned into reporter genes, transformed into the genome, and tested for in vivo activity by in situ hybridization experiments. (nyu.edu)
2007) Genome-wide functional analysis of pathogenicity genes in the rice blast fungus. (prelekara.sk)
explosion further, consider that a fictitious small genome with 2002) More recently and more dramatically, the potential for 260 genes would host the same number of combinations as cell state conversions is exemplified by the reprogramming of the number of atoms in the visible universe! (lu.se)

By individually aligning these networks with the yeast interactome, we simultaneously partition the functional space of human genes, and their corresponding pathways, based on their conservation both across species and among different tissues. (biomedcentral.com)
More than 2000 human genes depend on biotin for expression. (medscape.com)

Synthetic lethal interactions suggest a role for the Saccharomyces cerevisiae Rtf1 protein in transcription elongation. (embl-heidelberg.de)
The number, position and interactions between cis-elements and transcription factors (TFs) determine the expression pattern of a gene. (upm.es)
Genetic interactions were scored as strong when growth defects were observed at both 30 and 34 degrees Celsius, and scored as conditional (heat sensitivity) when growth defects were observed at 34 degrees, but not at 30 degrees. (thebiogrid.org)
Low Throughput: Genetic interactions identified using an SGA screen were subsequently confirmed by tetrad analysis. (thebiogrid.org)

This "in vivo biochemistry" approach has enabled us to demonstrate that there are in fact several independent, competing pathways of homologous recombination, each with its own genetic requirements. (brandeis.edu)
Finally, we couple our framework with a novel statistical model to assess the conservation of tissue-specific pathways and infer the overall similarity of each tissue with yeast. (biomedcentral.com)
Botstein is honored for contributions that include developing methods for defining genetic pathways, mapping genomes, and analyzing gene expression. (genestogenomes.org)
The new data support two out of three novel regulatory pathways predicted to mediate expression changes downstream of the yeast transcriptional regulator SWI4 . (biomedcentral.com)
Our results indicated that CmNAC1 is a critical factor in ABA signaling pathways and it can be utilized in transgenic breeding to improve the abiotic stress tolerance of crops. (frontiersin.org)

To gaininsight into the mechanisms of condensin binding and mitotic chromosome condensation, we searched for factors that collaborate with condensin through a synthetic lethal genetic screen in the fission yeast Schizosaccharomyces pombe. (ens-lyon.fr)

A region of the HO promoter involved in the SWI5-dependent transcriptional activation of HO was identified by deletion analysis of the HO promoter in the chromosome, and by testing the ability of HO DNA fragments to activate transcription in the context of a heterologous promoter. (ox.ac.uk)
Genetic analysis found a 3-bp deletion in the covR gene of the HH/LC variant. (cdc.gov)

The dimorphic switch from a single-cell budding yeast to a filamentous form enables Saccharomyces cerevisiae to forage for nutrients and the opportunistic pathogen Candida albicans to invade human tissues and evade the immune system. (nih.gov)
Unique genes appear to underlie each program, but we also found core genes with general roles in filamentous growth, including MFG1 (YDL233w), whose product binds two morphogenetic transcription factors, Flo8 and Mss11, and functions as a critical transcriptional regulator of filamentous growth in both S. cerevisiae and C. albicans. (nih.gov)
We performed Formaldehyde-Assisted Isolation of Regulatory Elements sequencing (FAIRE-Seq) to map chromatin accessibility in two parental haploid yeast species, Saccharomyces cerevisiae and Saccharomyces paradoxus and their diploid hybrid. (princeton.edu)
The data for these analyses comes from segregating populations of Saccharomyces cerevisiae (baker's yeast) as well as Caenorhabditis elegans (roundworm). (columbia.edu)
Here we present genetic results that indicate a role for the Saccharomyces cerevisiae Rtf1 protein in transcription elongation. (embl-heidelberg.de)
Yeast Saccharomyces cerevisiae grown on glucose undergoes programmed cell death (PCD) induced by acetic acid (AA-PCD), but evades PCD when grown in raffinose. (microbialcell.com)
The tools of functional genomics are rapidly accelerating understanding in this field, particularly in the yeast Saccharomyces cerevisiae . (biomedcentral.com)
For example, our group has examined the genes regulated by the Zap1p transcription factor in S. cerevisiae using DNA microarrays and promoter motif analysis [ 1 ] (Figure 1 ). (biomedcentral.com)
Budding yeast, S. cerevisiae, has been used extensively as a model organism for studying cellular processes in evolutionarily distant species, including humans. (biomedcentral.com)
Budding yeast, S. cerevisiae , is widely used as an experimental system, due to its ease of manipulation in both haploid and diploid forms, and rapid growth compared to animal models. (biomedcentral.com)
Fink's work in the budding yeast Saccharomyces cerevisiae led to our deep understanding of gene expression control in eukaryotic metabolism. (genestogenomes.org)

Using this procedure, we evaluate 38 candidate regulatory networks in yeast and perform four high-priority gene knockout experiments. (biomedcentral.com)

Remarkably, of the five genes identified in this study, four encode transcription co-factors. (ens-lyon.fr)
Most of these genes encode transcription factors that are expressed in bands or stripes at specific positions along the anterior posterior axis. (nyu.edu)

For yeast, we recovered 70% of the reported eQTL hotspots from two independent studies, and discovered a new transacting locus on chromosome V. For worm, we detected six transacting loci, only two of which were previously reported as eQTL hotspots. (columbia.edu)
Our fourth study focused on the detection of loci whose allelic variation modulates the in vivo regulatory connectivity between a transcription factor and its target genes. (columbia.edu)
A stable gene expression during plant and animal development is maintained by opposite functions of Polycomb group (PcG) chromatin remodeling factors that represses target gene expression through H3K27 trimethylation and trithorax group (trxG) chromatin remodeling factors that maintain transcription of target gene loci by H3K4-trimethylation (Schwartz and Pirrotta. (grassius.org)
Gene regulatory networks (GFNs) are complex beasts, integrating multiple components of transcription factors (TFs), regulatory loci, and function - not to mention the myriad datasets and methodologies that generate datasets attempting to elucidate such networks. (plantae.org)
We have been fascinated by the process of yeast mating-type gene switching, in which cells replace about 700 bp of Ya or Y-specific DNA sequences at the MAT locus by recombining with one of two donor loci, called HMLDescription: image3 and HMRa. (brandeis.edu)
Molecular dissection of this process has been challenging as transcription factor loci are regulated by many trans -acting factors functioning through dispersed cis elements. (prolekarniky.cz)
Transcription factors in these networks occupy specific cis elements at target gene loci where they modulate chromatin remodeling and modification, and thereby transcription. (prolekarniky.cz)

The expression of cyclin-dependent kinase inhibitors was profoundly affected with early activation and then repression of p21 cip1/waf1 and persistent activation of both p27 kip1 and p57 kip2 , whereas genes involved in cell survival and proliferation were suppressed. (aacrjournals.org)
In addition to profiling the effects of dietary restriction on age-related changes to DNA methylation, the researchers also discovered a link between dietary restriction and the epigenetic repression of genes involved in lipid metabolism. (mpg.de)
The covalent modification of histones to yield specific histone marks promotes either the activation or repression of transcription [3] . (prolekarniky.cz)
Our findings elucidate the mechanisms of epigenetic targeting of germline genes and provide a paradigm for how transient repression signals by DNA-binding factors in early embryonic cells are translated into long-term epigenetic silencing during mouse development. (cnrs.fr)
By understanding how these elements work, we hope to understand the molecular mechanisms involved in position-specific activation and repression of transcription. (nyu.edu)

The results of these studies revealed specific target genes that can be investigated to further improve nutritional quality and agronomic performance of high lysine maize lines, particularly those based on the presence of the opaque2 mutation. (biomedcentral.com)
In our first experiments, we have used genetic experiments to flatten the Bcd gradient, and then measured the amounts of Bcd required for activating specific target genes. (nyu.edu)

We identified genes involved in morphologically distinct forms of filamentation: haploid invasive growth, biofilm formation, and diploid pseudohyphal growth. (nih.gov)

Yeast single and double mutants lacking RTG2 and/or certain factors regulating carbon source utilization, including MIG1 , HXK2 , ADR1 , CAT8 , and HAP4 , have been analyzed for their survival and CIT2 expression after acetic acid treatment. (microbialcell.com)
This model stems from genetic studies in which mutants affecting intercellular trafficking were found to have primary defects that affected retrograde (to the nucleus) signaling from mitochondria or plastids. (plantae.org)
It is notable that both zrt3 and zrc1 mutants grow normally under zinc-replete or zinc-limiting conditions and, thus, would have been very difficult to identify using classical genetic approaches. (biomedcentral.com)

Transactivation assay in yeast cells revealed that CmNAC1 functions as a transcription activator, and its transactivation domain is located in the C-terminus. (frontiersin.org)

A genetic screen for functional partners of condensin in fission yeast. (ens-lyon.fr)
Home / Teams / Chromatin Dynamics in Mitotic Chromosome Assembly - P. Bernard / Publications / A genetic screen for functional partners of condensin in fission yeast. (ens-lyon.fr)
We isolated novel mutations affecting condensin, as well as mutations in four genes not previously implicated in mitotic chromosome condensation in fission yeast. (ens-lyon.fr)

Nfe2l1 may also play a role in maintaining chromosomal stability and genomic integrity by inducing expression of genes encoding components of the spindle assembly and kinetochore. (wikipedia.org)

A similar effect on proteasome gene expression and function was observed in livers of mice with Nfe2l1 conditional knockout in hepatocytes. (wikipedia.org)
Induction of proteasome genes was also lost in brains and livers of Nfe2l1 conditional knockout mice. (wikipedia.org)

Computational analysis of microbial genomes has suggested that many factors function optimally when in a particular orientation and position with respect to their target promoters. (nih.gov)

NFE2L1 is a cap 'n' collar, basic-leucine zipper (bZIP) transcription factor. (wikipedia.org)
The common plant regulatory factors (CPRFs) from parsley are transcription factors with a basic-leucine-zipper motif that bind to cis-regulatory elements frequently found in promoters of light-regulated genes. (embl-heidelberg.de)

Chromatin accessibility is an important functional genomics phenotype that influences transcription factor binding and gene expression. (princeton.edu)
Our results therefore provide strong additional evidence for a functional connection between chromosome condensation and transcription. (ens-lyon.fr)
This leads to translation of an alternative and functional open reading frame of the ATF4 gene ( atf-5 in C. elegans ) [ 20 , 21 ]. (biomedcentral.com)
We conducted genetic and functional analyses of isolates from a patient with group B streptococcal (GBS) necrotizing fasciitis and toxic shock syndrome. (cdc.gov)
Genetic and functional analysis of these variants provides insight into the potential contribution of specific bacterial virulence factors to these emerging GBS clinical syndromes. (cdc.gov)
The EIF2AK4 gene mutations involved in PVOD likely lead to a complete loss of functional protein. (medlineplus.gov)
Transcription and translation Genes are segments of deoxyribonucleic acid (DNA) that contain the code for a specific protein that functions in one or more types of cells in the body or the code for functional ribonucleic. (msdmanuals.com)

Zap1p activates the transcription of its target genes in zinc-limited but not in zinc-replete yeast cells. (biomedcentral.com)

The predicted amino acid sequence derived from the cloned SWI5 gene shows homology with the repeated DNA-binding domains ('zinc fingers') of Xenopus transcription factor TFIIIA. (ox.ac.uk)
Three of these factors represent new parsley bZIP factors, designated CPRF5-CPRF7, whereas the fourth, named CPRF1-interacting protein (CIP), shows no homology to any other known protein. (embl-heidelberg.de)

We show that these signatures allow transcription factors with substantial differences in binding site specificity to share similar promoter specificities. (nih.gov)
We first analyzed a recent compendium of in vivo mRNA binding data to model the sequence specificity of 45 yeast RBPs in the form of a position- specific affinity matrix (PSAM). (columbia.edu)

As a dimorphous yeast, S. fibuligera propagates by forming abundantly branched septate hyphae along with typical budding yeast-like cells [ 2 ]. (biomedcentral.com)

Nuclear factor erythroid 2-related factor 1 (Nrf1) also known as nuclear factor erythroid-2-like 1 (NFE2L1) is a protein that in humans is encoded by the NFE2L1 gene. (wikipedia.org)
But until about two years ago, when Andrew Dillin of the Salk Institute for Biological Studies in La Jolla and his team showed that a transcription factor called PHA-4 (or FOXA in humans) was involved, little of the genetic mechanism behind the lifespan benefit had been revealed. (supercentenarian.com)
TAF9 is a TATA-binding protein associated factor (TAF) conserved from yeast to humans and shared by two transcription coactivator complexes, TFIID and SAGA. (thebiogrid.org)
Our framework provides a novel tool that can be used to assess the suitability of the yeast model for studying tissue-specific physiology and pathophysiology in humans. (biomedcentral.com)
Since many of the transcription factors we study in fruit flies are evolutionarily similar to factors in higher eukaryotes, understanding how they work in Drosophila should provide us with profound insights into developmental mechanisms in other insects and higher animals including humans. (nyu.edu)

Dig2p is indeed a known inhibitor of yeast mating response activator Ste12p. (columbia.edu)
It has been demonstrated that the SWI5 gene, which is an activator of HO expression, plays a critical role in this differential mother/daughter expression of HO. (ox.ac.uk)

Biotin is also important for cell signaling, gene expression, and chromatin structure. (medscape.com)

We found evidence of non-random organization of sites within promoters, differences in binding site density, or both for thirty-eight transcription factors. (nih.gov)
EBF3 bound directly to p21 cip1/waf1 promoter and regulated transcription from both p21 cip1/waf1 and p27 kip1 promoters in reporter assays. (aacrjournals.org)
To identify functionally relevant cis-elements in gene promoters, a phylogenetic shadowing approach with a lipase gene (LIP1) was used. (upm.es)
As a proof of concept, in silico analyses of several Brassicaceae LIP1 promoters identified a highly conserved sequence (LIP1 element) that is sufficient to drive strong expression of a reporter gene in planta. (upm.es)
In conclusion, combining in silico analyses of orthologous gene promoters with Y1H screening of the RR library represents a powerful approach to decipher cis- and trans-regulatory codes. (upm.es)

We illustrate how spatial information dictating the positioning and density of binding sites can in principle increase the information available to the organism for differentiating a transcription factor's true targets, and we indicate how this information could potentially be leveraged for the same purpose in bioinformatic analyses. (nih.gov)
Specific biochemical processes and associated biomolecules that differentiate various tissues are not completely understood, neither is the extent to which a unicellular organism, such as yeast, can be used to model these processes within each tissue. (biomedcentral.com)
We present a novel framework to systematically quantify the suitability of yeast as a model organism for different human tissues. (biomedcentral.com)
He started working with the organism as a Yale graduate student spurred by the recent discovery in bacteria of operons-clusters of genes with related function controlled by a shared regulatory element transcribed into a single messenger RNA. (genestogenomes.org)
Yeast transformation allowed the introduction of a DNA molecule from any organism into yeast cells and enabled the manipulation of the expression of those genes. (genestogenomes.org)

A genetic interaction is inferred when mutations or deletions in separate genes, each of which alone causes a minimal phenotype, result in lethality when combined in the same cell under a given condition. (thebiogrid.org)
Mutations/deletions in separate genes, each of which alone causes a minimal phenotype, but when combined in the same cell results in a more severe fitness defect or lethality under a given condition. (thebiogrid.org)
at least 22 mutations in this gene have been found in affected individuals. (medlineplus.gov)

however, the biological functions of stress-related NAC genes in this crop are largely unknown. (frontiersin.org)

Moreover, our data show that simultaneous mitochondrial retrograde pathway activation and SNF1 -dependent relief of CCR have a key role in central carbon metabolism reprogramming which modulates the yeast acetic acid-stress response. (microbialcell.com)

En: Methods in Molecular Biology. (us.es)

This study requires a combination of chromosome painting and fluorescent in situ hybridization (FISH) with yeast artificial chromosomes (YAC) and cosmids. (medscape.com)

Finally, we demonstrate that the relationship between chromatin accessibility and gene expression levels is complex, and a significant proportion of differences in chromatin accessibility might be functionally benign. (princeton.edu)

Furthermore, mRNA accumulation studies revealed that the expression of these novel bZIP genes and CIP is not altered by exposure to light. (embl-heidelberg.de)

Genomic analyses are widely applied to epidemiological, population genetic and experimental studies of pathogenic fungi. (cdc.gov)

Murguia JR, Serrano R. New functions of protein kinase Gcn2 in yeast and mammals. (medlineplus.gov)

2014). Arabidopsis gynoecium organ patterning along several axes is regulated by ULT1 and KAN1 (KANADI1) transcription factor. (grassius.org)
A collection of ca. 1,200 Arabidopsis thaliana TF open reading frames (ORFs) was arrayed in a 96-well format (RR library) and a convenient mating based yeast one hybrid (Y1H) screening procedure was established. (upm.es)

Distinct and overlapping factors are involved in lifespan extension by bacterial DR (bDR) and liquid DR (lDR) - two protocols of bacterial dilution in liquid cultures. (biomedcentral.com)
However, different human tissues, while inheriting a similar genetic code, exhibit distinct anatomical and physiological properties. (biomedcentral.com)
Another student discovered that yeast could divide by a distinct developmental pathway, producing filaments instead of buds. (genestogenomes.org)

To rigorously test this idea, we are carefully measuring the spatial relationships between potentially morphogenetic gradients and the positions of their target gene expression patterns. (nyu.edu)

In a complementary study, Foury and Talibi [ 4 ] identified genes upregulated in a yfh1 mutant strain of yeast. (biomedcentral.com)

They found that dietary restriction controlled genes involved in establishing one type of epigenetic change - the tagging of specific DNA bases with a small chemical group (called DNA methylation). (mpg.de)
Here, we demonstrate that the transcription factor E2F6, a member of the polycomb repressive complex 1.6 (PRC1.6), is critical to target and initiate epigenetic silencing at germline genes in early embryogenesis. (cnrs.fr)

The SWI5 gene product was overproduced in yeast from the GAL1-10 promoter, since the SWI5 protein is made at very low levels in wild-type strains, and protein extracts were used to demonstrate that the SWI5 protein binds in vitro to a segment of the HO promoter required for transcriptional activation in vivo. (ox.ac.uk)

Metallothioenein-1 and Metallothioenein-2 genes, which protect cells against cytotoxicity induced by toxic metals, are also direct targets of Nfe2l1. (wikipedia.org)
Re-establishment of Nfe2l1 function in Nfe2l1 null cells rescued proteasome expression and function, indicating Nfe2l1 was necessary for induction of proteasome genes (bounce-back response) in response to proteasome inhibition. (wikipedia.org)
Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification. (ox.ac.uk)
Combinations of MIMs, exemplified by the SCL/LMO2 complexes, which have variable content and binding sites, explain how individual regulators can have different targets in HSCs and erythroid cells and possibly also how HSCs maintain stem cell functions while expressing lineage-affiliated genes at low level, so-called multi-lineage priming. (ox.ac.uk)
Expression of this gene isinsulin-responsive, and studies in rat suggest that it is involved in the increased rate of glycolysisseen in rapidly growing cancer cells. (biomasswars.com)
E2F6 cooperates with MGA to silence a subgroup of germline genes in mouse embryonic stem cells and in embryos, a function that critically depends on the E2F6 marked box domain. (cnrs.fr)
2008). Historically, this concept is highlighted by the experi- factors are key intrinsic regulators of these fate decisions and mental phenomenon of lineage reprogramming, for example, that fate choice involves modulating networks of transcription by the conversion of fibroblasts to muscles cells following trans- factors. (lu.se)
Similarly, GATA-1 has been shown to induce lineage switching expression values even if, for simplicity, we assume only ``on'' of committed cells in hematopoiesis, first in cell lines (Kulessa and ``off'' states for each gene. (lu.se)
In reality, gene somatic cells to a pluripotent cell state by a handful of transcrip- expression is graded, making the potential gene expression tion factors (Takahashi and Yamanaka, 2006). (lu.se)

In most metazoans, GCN2 is one of the four known kinases that phosphorylate eukaryotic initiation factor 2, α subunit (eIF2α) to inhibit translation initiation [ 19 ]. (biomedcentral.com)
GBS production of β-h/c is encoded by the genes of the cyl operon ( 5 , 6 ) and is associated with direct lysis of a variety of eukaryotic cell types ( 7 - 9 ), inflammatory activation ( 10 - 12 ), and virulence in animal models ( 10 , 13 , 14 ). (cdc.gov)

Finally, we established that the LIP1 and IPS1 elements were differentially bound by HD-ZIP and MYB-CC family members in agreement with their genetic redundancy in planta. (upm.es)

Regulatory network motifs identified in E. coli and yeast GRNs are found in combination in these GRNs. (ox.ac.uk)
Saccharomycopsis fibuligera (synonymous with Endomyces fibuligera ), a member of the subphylum Saccharomycotina of the phylum Ascomycota of the Fungi kingdom, is found worldwide as the major amylolytic yeast utilized in indigenous food fermentation using rice and cassava. (biomedcentral.com)
Surprisingly, we have found that all tested target genes can be activated by lower concentrations than those present in the wild type gradient where boundaries for those genes are formed. (nyu.edu)
The EIF2AK4 gene is found on chromosome 15 . (medlineplus.gov)

Drosophila immune deficiency (IMD) pathway is similar to the human tumor necrosis factor receptor (TNFR) signaling pathway and is preferentially activated by Gram-negative bacterial infection. (cnrs.fr)
METHODS: Mice with K/BxN serum-induced arthritis, collagen-induced arthritis, and human tumor necrosis factor transgene insertion were studied. (cnrs.fr)

Anatomy14

Organisms10

Chemicals and Drugs124

Analytical, Diagnostic and Therapeutic Techniques and Equipment25

Phenomena and Processes83

Disciplines and Occupations2

Information Science3

Proteins24

Regulation13

Individual genes2

Fungal3

Biosynthesis3

Mammalian2

Genetics2

Regulates3

Regulate6

High-throughput6

Encodes6

Genome14

Human genes2

Interactions4

Pathways5

Schizosaccharomyces1

Deletion2

Cerevisiae11

Regulatory networks in yeast1

Encode transcription2

Loci7

Repression5

Specific target genes2

Identified genes involved1

Mutants3

Assay1

Fission3

Expression of ge1

Knockout2

Genomes1

Basic-leucine zipper2

Functional7

Activates1

Homology2

Specificity2

Budding1

Humans5

Activator2

Chromatin structure1

Promoters5

Organism5

Mutations3

Biological1

Metabolism1

Molecular Biology1

Artificial1

Functionally1

BZIP1

Analyses1

Mammals1

Arabidopsis2

Distinct3

Target gene expression1

Strain1

Epigenetic2

Vivo1

Cells9

Eukaryotic2

Planta1

Found4

Tumor2