keyword
MENU ▼
Read by QxMD icon Read
search

TATA Box

keyword
https://www.readbyqxmd.com/read/28077637/role-of-litopenaeus-vannamei-yin-yang-1-in-the-regulation-of-the-white-spot-syndrome-virus-immediate-early-gene-ie1
#1
Ping-Han Huang, Ting-Yi Huang, Pei-Si Cai, Li-Kwan Chang
: Yin Yang 1 (YY1) is a multifunctional zinc-finger transcription factor that regulates many key cellular processes. In this study, we report the cloning of YY1 from shrimp, Litopenaeus vannamei, (LvYY1). The study shows that LvYY1 is ubiquitously expressed in shrimp tissues, and knockdown of LvYY1 expression by dsRNA injection in WSSV-infected shrimp reduced both mRNA levels of the WSSV immediate-early gene, ie1, as well as overall copy numbers of the WSSV genome. The cumulative mortality of infected shrimp also declined with LvYY1 dsRNA injection...
January 11, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28071726/the-ppe2-protein-of-mycobacterium-tuberculosis-translocates-to-host-nucleus-and-inhibits-nitric-oxide-production
#2
Khalid Hussain Bhat, Shruti Srivastava, Sandeep Kumar Kotturu, Sudip Ghosh, Sangita Mukhopadhyay
Mycobacterium tuberculosis, the bacterium that causes tuberculosis, is one of the most successful pathogens of humans. It has evolved several adaptive skills and evasion mechanisms to hijack the immunologically educated host to suit its intracellular lifestyle. Here, we show that one of the unique PPE family member proteins of M. tuberculosis, PPE2, can limit nitric oxide (NO) production by inhibiting inos gene transcription. PPE2 protein has a leucine zipper DNA-binding motif and a functional nuclear localization signal...
January 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28062307/transcriptional-regulation-of-follicle-stimulating-hormone-%C3%AE-subunit-in-marmoset-by-an-alternate-distal-promoter
#3
Susha S Kutteyil, Bhakti R Pathak, Smita D Mahale
Follicle-Stimulating Hormone (FSH) is essential for mammalian folliculogenesis and spermatogenesis. Common marmoset (Callithrix jacchus) is a New World primate which exhibits an unusual FSH profile across the ovarian cycle with a mid-follicular FSH peak that is not observed in Catarrhini primates like humans. Since transcription of FSH β-subunit gene (FSHβ) is a rate-limiting step in the production of mature FSH, this study aimed to investigate the regulation of marmoset FSHβ gene expression in comparison to human...
January 3, 2017: General and Comparative Endocrinology
https://www.readbyqxmd.com/read/28060464/rna-polymerase-ii-components-and-rrn7-form-a-pre-initiation-complex-on-the-homold-box-to-promote-ribosomal-protein-gene-expression-in-schizosaccharomyces-pombe
#4
Matías Montes, Sandra Moreira-Ramos, Diego A Rojas, Fabiola Urbina, Norbert F Käufer, Edio Maldonado
In Schizosaccharomyces pombe, ribosomal protein gene (RPG) promoters contain a TATA box analog, the HomolD box, which is bound by the Rrn7 protein. Despite the importance of ribosome biogenesis for cell survival, the mechanisms underlying RPG transcription remain unknown. In this study, we found that components of the RNA polymerase II (RNAPII) system, consisting of the initiation or general transcription factors (GTFs) TFIIA, IIB, IIE, TBP and the RNAPII holoenzyme, interacted directly with Rrn7 in vitro and were able to form a pre-initiation complex (PIC) on the HomolD box...
January 6, 2017: FEBS Journal
https://www.readbyqxmd.com/read/28057501/cloning-and-characterization-of-pyruvate-carboxylase-gene-responsible-for-calcium-malate-overproduction-in-penicillium-viticola-152-and-its-expression-analysis
#5
Ibrar Khan, Sadia Qayyum, Shehzad Ahmed, Farhana Maqbool, Isfahan Tauseef, Kashif Syed Haleem, Zhen-Ming Chi
In this study, a pyruvate carboxylase gene (PYC) from a marine fungus Penicillium viticola 152 isolated from marine algae was cloned and characterized by using Genome Walking method. An open reading frame (ORF) of The PYC gene (accession number: KM593097) had 3582bp encoding 1193 amino acid protein (isoelectric point: 5.01) with a calculated molecular weight of 131.2757kDa. A putative promoter (intronless) of the gene was located at -666bp and contained a TATA box, several CAAT boxes, the 5'-SYGGRG-3' and a 5'-HGATAR-3' sequences...
January 2, 2017: Gene
https://www.readbyqxmd.com/read/28049897/expression-and-regulation-of-tal2-during-neuronal-differentiation-in-p19-cells
#6
Takanobu Kobayashi
 T-cell acute lymphocytic leukemia 2 (Tal2) is a gene encoding a member of the basic helix-loop-helix transcription factor family, which is essential for the normal development of the mouse brain. We found that Tal2 was induced during neural differentiation in P19 cells, which are pluripotent mouse embryonal carcinoma cells that differentiate into the neural lineage upon both exposure to all-trans retinoic acid (atRA) and the formation of cell aggregation. Tal2 expression during neural differentiation in P19 cells was detected within 3 h after induction with atRA and retinoic acid receptor α (RARα)...
2017: Yakugaku Zasshi: Journal of the Pharmaceutical Society of Japan
https://www.readbyqxmd.com/read/28018483/can-terminators-be-used-as-insulators-into-yeast-synthetic-gene-circuits
#7
Wenjiang Song, Jing Li, Qiang Liang, Mario Andrea Marchisio
BACKGROUND: In bacteria, transcription units can be insulated by placing a terminator in front of a promoter. In this way promoter leakage due to the read-through from an upstream gene or RNA polymerase unspecific binding to the DNA is, in principle, removed. Differently from bacterial terminators, yeast S. cerevisiae terminators contain a hexamer sequence, the efficiency element, that strongly resembles the eukaryotic TATA box i.e. the promoter sequence recognized and bound by RNA polymerase II...
2016: Journal of Biological Engineering
https://www.readbyqxmd.com/read/27994035/arabidopsis-swi-snf-chromatin-remodeling-complex-binds-both-promoters-and-terminators-to-regulate-gene-expression
#8
Rafal Archacki, Ruslan Yatusevich, Daniel Buszewicz, Katarzyna Krzyczmonik, Jacek Patryn, Roksana Iwanicka-Nowicka, Przemyslaw Biecek, Bartek Wilczynski, Marta Koblowska, Andrzej Jerzmanowski, Szymon Swiezewski
ATP-dependent chromatin remodeling complexes are important regulators of gene expression in Eukaryotes. In plants, SWI/SNF-type complexes have been shown critical for transcriptional control of key developmental processes, growth and stress responses. To gain insight into mechanisms underlying these roles, we performed whole genome mapping of the SWI/SNF catalytic subunit BRM in Arabidopsis thaliana, combined with transcript profiling experiments. Our data show that BRM occupies thousands of sites in Arabidopsis genome, most of which located within or close to genes...
December 19, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27990353/effect-of-dihydrotestosterone-on-the-expression-of-mucin-1-and-the-activity-of-wnt-signaling-in-mouse-corneal-epithelial-cells
#9
Li Qin, Cheng Pei, Qian-Yan Kang, Zhao Liu, Li Li
AIM: To explore the effects of the androgen dihydrotestosterone on the expression of mucin 1 (MUC1) and the activity of Wnt signaling in mouse corneal epithelial cells. METHODS: Primary mouse corneal epithelial cells were isolated from the corneas of BALB/c mice. Quantitative real-time polymerase chain reaction, immunofluorescence and Western blot analysis were used to quantify the differential expression of selected genes. The androgen receptor was silenced by transfecting cells with androgen receptor shRNAs...
2016: International Journal of Ophthalmology
https://www.readbyqxmd.com/read/27987179/plant-promoter-database-ppdb
#10
Kazutaka Kusunoki, Yoshiharu Y Yamamoto
ppdb ( http://ppdb.agr.gifu-u.ac.jp ) is a web-based plant promoter database that provides promoter information of each gene in genomes of Arabidopsis, rice, poplar, and Physcomitrella patens. In this database, recognition of a promoter structure is achieved by annotating genome sequences with our sequence lists of bioinformatically identified octamers for core promoter structure (TATA boxes, Initiators, Y Patches, GA and CA Elements) and regulatory element groups (REGs), together with information of transcription start sites (TSSs) that have been experimentally identified...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27979920/molecular-mechanisms-that-distinguish-tfiid-housekeeping-from-regulatable-saga-promoters
#11
Wim J de Jonge, Eoghan O'Duibhir, Philip Lijnzaad, Dik van Leenen, Marian Ja Groot Koerkamp, Patrick Kemmeren, Frank Cp Holstege
An important distinction is frequently made between constitutively expressed housekeeping genes versus regulated genes. Although generally characterized by different DNA elements, chromatin architecture and cofactors, it is not known to what degree promoter classes strictly follow regulatability rules and which molecular mechanisms dictate such differences. We show that SAGA-dominated/TATA-box promoters are more responsive to changes in the amount of activator, even compared to TFIID/TATA-like promoters that depend on the same activator Hsf1...
December 15, 2016: EMBO Journal
https://www.readbyqxmd.com/read/27929351/expression-of-the-cardiac-maintenance-and-survival-factor-fgf-16-gene-is-regulated-by-csx-nkx2-5-and-is-an-early-target-of-doxorubicin-cardiotoxicity
#12
Jie Wang, Yan Jin, Peter A Cattini
The fibroblast growth factor (FGF) 16 gene (Fgf-16) is preferentially expressed by neonatal cardiomyocytes after birth, with levels increasing into adulthood. Null mice and isolated heart studies suggest a role for FGF-16 in cardiac maintenance and survival, including increased resistance to doxorubicin (DOX)-induced injury. However, the effect of DOX on endogenous FGF-16 synthesis and specifically regulation of cardiac Fgf-16 expression has not been reported. Here we assess the effect of DOX on FGF-16 RNA levels and stability as well as promoter activity and use sequence analysis, knockdown, and overexpression to investigate the role of cardiac transcription factor(s) implicated in the response...
December 8, 2016: DNA and Cell Biology
https://www.readbyqxmd.com/read/27902763/temperature-shift-alters-dna-methylation-and-histone-modification-patterns-in-gonadal-aromatase-cyp19a1-gene-in-species-with-temperature-dependent-sex-determination
#13
Yuiko Matsumoto, Brette Hannigan, David Crews
The environment surrounding the embryos has a profound impact on the developmental process and phenotypic outcomes of the organism. In species with temperature-dependent sex determination, gonadal sex is determined by the incubation temperature of the eggs. A mechanistic link between temperature and transcriptional regulation of developmental genes, however, remains elusive. In this study, we examine the changes in DNA methylation and histone modification patterns of the aromatase (cyp19a1) gene in embryonic gonads of red-eared slider turtles (Trachemys scripta) subjected to a temperature shift during development...
2016: PloS One
https://www.readbyqxmd.com/read/27902423/characterization-of-cis-elements-in-the-promoter-of-trz2-encoding-schizosaccharomyces-pombe-mitochondrial-trna-3-end-processing-enzyme
#14
Jinyu Liu, Linting Huang, Yirong Wang, Ying Huang
The endonuclease tRNase Z is responsible for the 3'-end processing of tRNA precursors, which is one of the essential steps in tRNA maturation. The fission yeast Schizosaccharomyces pombe contains two essential tRNase ZL genes (trz1 and trz2) involved in nuclear and mitochondrial tRNA 3'-end processing, respectively. Our previous studies suggest that trz2 is expressed at a very low level. Here we report characterization of the trz2 promoter. Using lacZ as a reporter, we show that the trz2 promoter contains a HomolD box and a very weak diverged TATA element...
November 22, 2016: Microbiology
https://www.readbyqxmd.com/read/27884105/structural-features-of-dna-that-determine-rna-polymerase-ii-core-promoter
#15
Irina A Il'icheva, Mingian V Khodikov, Maria S Poptsova, Dmitry Yu Nechipurenko, Yury D Nechipurenko, Sergei L Grokhovsky
BACKGROUND: The general structure and action of all eukaryotic and archaeal RNA polymerases machinery have an astonishing similarity despite the diversity of core promoter sequences in different species. The goal of our work is to find common characteristics of DNA region that define it as a promoter for the RNA polymerase II (Pol II). RESULTS: The profiles of a large number of physical and structural characteristics, averaged over representative sets of the Pol II minimal core promoters of the evolutionary divergent species from animals, plants and unicellular fungi were analysed...
November 25, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27881725/tata-box-insertion-provides-a-selection-mechanism-underpinning-adaptations-to-fe-deficiency
#16
Meiling Zhang, Yuanda Lv, Yi Wang, Jocelyn K C Rose, Fei Shen, Zhenyun Han, Xinzhong Zhang, Xuefeng Xu, Ting Wu, Zhenhai Han
Intraspecific genetic variation is essential for the responses and adaption of plants to evolutionary challenges, such as changing environmental conditions. The development of the Earth's aerobic atmosphere has increased the demand for iron (Fe) in organisms, and Fe deficiency has become a limiting environmental factor for plant growth. Here, we demonstrate that genus Malus adapt to Fe deficiency through modification of the Iron-Regulated Transporter1 (IRT1) promoter. Specifically, an IRT1 mutant allele with a TATA-box insertion in the promoter region upstream of the coding region exhibited increased IRT1 expression...
January 2017: Plant Physiology
https://www.readbyqxmd.com/read/27866642/genetic-susceptibility-to-gilbert-s-syndrome-in-a-valencian-population-efficacy-of-the-fasting-test
#17
A K Torres, N Escartín, C Monzó, C Guzmán, I Ferrer, C González-Muñoz, P Peña, V Monzó, G Marcaida, R Rodríguez-López
OBJECTIVE: To describe the populational distribution of the UGT1A1*28 variant (genetic variant code rs8175347) located in the promotor of the UGT gene and correlate its genotypes with the results of the fasting test, as well as its relationship with the biochemical disorder of Gilbert's syndrome (GS) in a Valencian population. PATIENTS AND METHODS: We studied the prevalence of the genotypes (TA)6/6 (TA)6/7 and (TA)7/7 of the deleterious variant rs8175347 in 144 patients with hyperbilirubinemia, 38 of whom had previously undergone the fasting test to diagnose GS, and in 150 control patients...
November 17, 2016: Revista Clínica Española
https://www.readbyqxmd.com/read/27859490/genetically-modified-rodent-models-of-sca17
#18
REVIEW
Yiting Cui, Su Yang, Xiao-Jiang Li, Shihua Li
Spinocerebellar ataxia type 17 (SCA17) is a type of autosomal dominant cerebellar ataxia (ADCA) characterized by variable manifestations, including cerebellar ataxia, dementia, and psychiatric symptoms. Since the identification of a CAG repeat expansion in the TATA-box binding protein (TBP) gene in a patient with ataxia in 1999 and then verification of this expansion in patients with SCA17 in 2001, several SCA17 rodent models, including both knock-in and transgenic models in mice and rats, have been established to explore the phenotypic features and pathogenesis of SCA17...
November 18, 2016: Journal of Neuroscience Research
https://www.readbyqxmd.com/read/27830504/cellular-retinoic-acid-binding-proteins-genomic-and-non-genomic-functions-and-their-regulation
#19
Li-Na Wei
Cellular retinoic acid binding proteins (CRABPs) are high-affinity retinoic acid (RA) binding proteins that mainly reside in the cytoplasm. In mammals, this family has two members, CRABPI and II, both highly conserved during evolution. The two proteins share a very similar structure that is characteristic of a "β-clam" motif built up from10-strands. The proteins are encoded by two different genes that share a very similar genomic structure. CRABPI is widely distributed and CRABPII has restricted expression in only certain tissues...
2016: Sub-cellular Biochemistry
https://www.readbyqxmd.com/read/27829177/a-naturally-occurring-variant-of-hpv-16-e7-exerts-increased-transforming-activity-through-acquisition-of-an-additional-phospho-acceptor-site
#20
Amira Zine El Abidine, Vjekoslav Tomaić, Rahima Bel Haj Rhouma, Paola Massimi, Ikram Guizani, Samir Boubaker, Emna Ennaifer, Lawrence Banks
Human Papillomavirus E6 and E7 play critical roles in cancer development, although not all isolates of the viral oncoproteins are identical. A common E7 variant encodes an amino acid change at N29S. We show that this change increases the levels of phosphorylation by CKII by creating an additional phospho-acceptor site at S29. This confers increased phospho-dependent interaction with a number of cellular targets, including TATA Box Binding Protein (TBP) and pRb. A further consequence is an increased ability to target pRb and p130 for degradation...
January 2017: Virology
keyword
keyword
49165
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"