keyword
MENU ▼
Read by QxMD icon Read
search

TATA Box

keyword
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
#1
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
#2
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
#3
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-provide-a-selected-mechanism-for-enhancing-gene-expression-to-adapt-fe-deficiency
#4
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 plant responses and adaption to evolutionary challenges, such as changing environmental conditions. The development the Earth's aerobic atmosphere has increased the iron (Fe) demand of organisms and Fe deficiency has become a limiting environmental factor for plant growth. We demonstrate here that the adaptation of apple trees to Fe deficiency is achieved by the modification of the promoter of the Iron-Regulated Transporter1 (IRT1) gene. Specifically, an IRT1 mutant allele with a TATA-box insertion in the promoter upstream of the IRT1 coding region enhances IRT1 expression...
November 23, 2016: Plant Physiology
https://www.readbyqxmd.com/read/27866642/genetic-susceptibility-to-gilbert-s-syndrome-in-a-valencian-population-efficacy-of-the-fasting-test
#5
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
#6
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
#7
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
#8
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...
November 6, 2016: Virology
https://www.readbyqxmd.com/read/27767102/a-single-nucleotide-polymorphism-in-kidney-anion-exchanger-1-gene-is-associated-with-incomplete-type-1-renal-tubular-acidosis
#9
Takumi Takeuchi, Mami Hattori-Kato, Yumiko Okuno, Atsushi Kanatani, Masayoshi Zaitsu, Koji Mikami
Various conditions including distal renal tubular acidosis (dRTA) can induce stone formation in the kidney. dRTA is characterized by an impairment of urine acidification in the distal nephron. dRTA is caused by variations in genes functioning in intercalated cells including SLC4A1/AE1/Band3 transcribing two kinds of mRNAs encoding the Cl(-)/HCO3(-) exchanger in erythrocytes and that expressed in α-intercalated cells (kAE1). With the acid-loading test, 25% of urolithiasis patients were diagnosed with incomplete dRTA...
October 21, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27746176/regulator-of-g-protein-signaling-4-is-a-novel-target-of-gata-6-transcription-factor
#10
Yonggang Zhang, Fang Li, Xiao Xiao, Wu Deng, Chaoran Yin, Ting Zhang, Karnam S Murthy, Wenhui Hu
GATA transcription factors regulate an array of genes important in cell proliferation and differentiation. Here we report the identification of regulator of G protein signaling 4 (RGS4) as a novel target for GATA-6 transcription factor. Although three sites (a, b, c) within the proximal region of rabbit RGS4 promoter for GATA transcription factors were predicted by bioinformatics analysis, only GATA-a site (16 bp from the core TATA box) is essential for RGS4 transcriptional regulation. RT-PCR analysis demonstrated that only GATA-6 was highly expressed in rabbit colonic smooth muscle cells but GATA-4/6 were expressed in cardiac myocytes and GATA-1/2/3 expressed in blood cells...
October 13, 2016: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/27743995/withdrawn-selection-of-reference-genes-in-five-types-of-human-tissues-for-normalization-of-gene-expression-studies-in-infectious-diseases
#11
Cristina Silva Meira-Strejevitch, Vera Lucia Pereira-Chioccola, Marta Marques Maia, Daise Damaris Carnietto de Hipólito, Hui-Tzu Lin Wang, Gabriela Motoie, Aparecida Helena de Souza Gomes, Cristina Takami Kanamura, Roosecelis Brasil Martines, Cinara Cássia Brandão de Mattos, Fábio Batista Frederico, Luiz Carlos de Mattos, Cinara Cássia Brandão de Mattos, Fábio Batista Frederico, Rubens Camargo Siqueira, Mariana Previato, Amanda Pires Barbosa, Fernando Henrique Antunes Murata
This article has been withdrawn at the request of the author(s) and/or editor. The Publisher apologizes for any inconvenience this may cause. The full Elsevier Policy on Article Withdrawal can be found at http://www.elsevier.com/locate/withdrawalpolicy.
October 12, 2016: Gene
https://www.readbyqxmd.com/read/27737633/huntingtin-associated-protein-1-eutherian-adaptation-from-a%C3%A2-trak-like-protein-conserved-gene-promoter-elements-and-localization-in-the-human-intestine
#12
Amanda L Lumsden, Richard L Young, Nektaria Pezos, Damien J Keating
BACKGROUND: Huntingtin-associated Protein 1 (HAP1) is expressed in neurons and endocrine cells, and is critical for postnatal survival in mice. HAP1 shares a conserved "HAP1_N" domain with TRAfficking Kinesin proteins TRAK1 and TRAK2 (vertebrate), Milton (Drosophila) and T27A3.1 (C. elegans). HAP1, TRAK1 and TRAK2 have a degree of common function, particularly regarding intracellular receptor trafficking. However, TRAK1, TRAK2 and Milton (which have a "Milt/TRAK" domain that is absent in human and rodent HAP1) differ in function to HAP1 in that they are mitochondrial transport proteins, while HAP1 has emerging roles in starvation response...
October 13, 2016: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/27729726/isolation-and-characterization-of-the-4-coumarate-coenzyme-a-ligase-4cl1-promoter-from-eucalyptus-camaldulensis
#13
Huynh Thi Thu Hue, Duong Thi Thu Ha, Nong Van Hai, Le Thi Thu Hien
The most important enzyme of the phenylpropanoid pathway, 4-coumarate:coenzyme A ligase (4CL), is encoded by several homologous genes including 4CL1. The 4CL1 promoter is a tissue-specific gene expression element, particularly active in the secondary xylem or older stems. In this study, the 1127 bp 5'- upstream region of the 4CL1 coding sequence from Eucalyptus camaldulensis, Euc4CL1, was isolated and characterized. Essential putative cis-elements in the Euc4CL1 promoter included: a TATA-box at -22/-28 position, two CCAAT-boxes at -256/-260 and -277/-281 positions, respectively, an AC-element at -328/-336 and A-boxes at -115/-120 and -990/-995 positions...
July 2016: Physiology and Molecular Biology of Plants: An International Journal of Functional Plant Biology
https://www.readbyqxmd.com/read/27725641/increased-global-transcription-activity-as-a-mechanism-of-replication-stress-in-cancer
#14
Panagiotis Kotsantis, Lara Marques Silva, Sarah Irmscher, Rebecca M Jones, Lisa Folkes, Natalia Gromak, Eva Petermann
Cancer is a disease associated with genomic instability that often results from oncogene activation. This in turn leads to hyperproliferation and replication stress. However, the molecular mechanisms that underlie oncogene-induced replication stress are still poorly understood. Oncogenes such as HRAS(V12) promote proliferation by upregulating general transcription factors to stimulate RNA synthesis. Here we investigate whether this increase in transcription underlies oncogene-induced replication stress. We show that in cells overexpressing HRAS(V12), elevated expression of the general transcription factor TATA-box binding protein (TBP) leads to increased RNA synthesis, which together with R-loop accumulation results in replication fork slowing and DNA damage...
October 11, 2016: Nature Communications
https://www.readbyqxmd.com/read/27700103/identification-of-a-novel-autoimmune-peptide-epitope-of-prostein-in-prostate-cancer
#15
Elisa Pin, Frauke Henjes, Mun-Gwan Hong, Fredrik Wiklund, Patrik Magnusson, Anders Bjartell, Mathias Uhlén, Peter Nilsson, Jochen M Schwenk
There is a demand for novel targets and approaches to diagnose and treat prostate cancer (PCA). In this context, serum and plasma samples from a total of 609 individuals from two independent patient cohorts were screened for IgG reactivity against a sum of 3,833 human protein fragments. Starting from planar protein arrays with 3,786 protein fragments to screen 80 patients with and without PCA diagnosis, 161 fragments (4%) were chosen for further analysis based on their reactivity profiles. Adding 71 antigens from literature, the selection of antigens were corroborated for their reactivity in a set of 550 samples using suspension bead arrays...
October 4, 2016: Journal of Proteome Research
https://www.readbyqxmd.com/read/27690405/defining-a-physical-basis-for-diversity-in-protein-self-assemblies-using-a-minimal-model
#16
Srivastav Ranganathan, Samir K Maji, Ranjith Padinhateeri
Self-assembly of proteins into ordered, fibrillar structures is a commonly observed theme in biology. It has been observed that diverse set of proteins (e.g alpha-synuclein, insulin, TATA-box binding protein, Sup35, p53), independent of their sequence, native structure, or function could self-assemble into highly ordered structures known as amyloids. What are the crucial features underlying amyloidogenesis that make it so generic? Using coarse-grained simulations of peptide self-assembly, we argue that variation in two physical parameters- bending-stiffness of the polypeptide and strength of inter-molecular interactions- can give rise to many of the structural features typically associated with amyloid self-assembly...
October 3, 2016: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/27679579/calcium-sensing-receptor-gene-regulation-of-expression
#17
REVIEW
Geoffrey N Hendy, Lucie Canaff
The human calcium-sensing receptor gene (CASR) has 8 exons, and localizes to chromosome 3q. Exons 1A and 1B encode alternative 5'-untranslated regions (UTRs) that splice to exon 2 encoding the AUG initiation codon. Exons 2-7 encode the CaSR protein of 1078 amino acids. Promoter P1 has TATA and CCAAT boxes upstream of exon 1A, and promoter P2 has Sp1/3 motifs at the start site of exon 1B. Exon 1A transcripts from the P1 promoter are reduced in parathyroid tumors and colon carcinomas. Studies of colon carcinomas and neuroblastomas have emphasized the importance of epigenetic changes-promoter methylation of the GC-rich P2 promoter, histone acetylation-as well as involvement of microRNAs in bringing about CASR gene silencing and reduced CaSR expression...
2016: Frontiers in Physiology
https://www.readbyqxmd.com/read/27667393/a-real-time-study-of-the-interaction-of-tbp-with-a-tata-box-containing-duplex-identical-to-an-ancestral-or-minor-allele-of-human-gene-lep-or-tpi
#18
Olga Arkova, Nikita Kuznetsov, Olga Fedorova, Ludmila Savinkova
It is known that only a single-nucleotide substitution (SNP: a single nucleotide polymorphism) in the sequence of a TATA box can influence the affinity of the interaction of TBP with the TATA box and contribute to the pathogenesis of complex hereditary human diseases and sometimes may be a cause of monogenic diseases (for instance, β-thalassemia).. In the present work, we studied the interaction of human TBP with a double-stranded oligodeoxyribonucleotide (ODN) 15 or 26 bp long identical to a TATA box of promoters of a real-life human gene, TPI or LEP, and labeled with fluorophores TAMRA and FAM...
September 25, 2016: Journal of Biomolecular Structure & Dynamics
https://www.readbyqxmd.com/read/27587401/the-c-terminus-of-the-rna-polymerase-ii-transcription-factor-iid-tfiid-subunit-taf2-mediates-stable-association-of-subunit-taf14-into-the-yeast-tfiid-complex
#19
Jordan T Feigerle, P Anthony Weil
The evolutionarily conserved RNA polymerase II transcription factor D (TFIID) complex is composed of TATA box-binding protein (TBP) and 13 TBP-associated factors (Tafs). The mechanisms by which many Taf subunits contribute to the essential function of TFIID are only poorly understood. To address this gap in knowledge, we present the results of a molecular genetic dissection of the TFIID subunit Taf2. Through systematic site-directed mutagenesis, we have discovered 12 taf2 temperature-sensitive (ts) alleles...
October 21, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27576952/trf2-is-recruited-to-the-pre-initiation-complex-as-a-testis-specific-subunit-of-tfiia-alf-to-promote-haploid-cell-gene-expression
#20
Igor Martianov, Amandine Velt, Guillaume Davidson, Mohamed-Amin Choukrallah, Irwin Davidson
Mammalian genomes encode two genes related to the TATA-box binding protein (TBP), TBP-related factors 2 and 3 (TRF2 and TRF3). Male Trf2(-/-) mice are sterile and characterized by arrested spermatogenesis at the transition from late haploid spermatids to early elongating spermatids. Despite this characterization, the molecular function of murine Trf2 remains poorly characterized and no direct evidence exists to show that it acts as a bona fide chromatin-bound transcription factor. We show here that Trf2 forms a stable complex with TFIIA or the testis expressed paralogue ALF chaperoned in the cytoplasm by heat shock proteins...
2016: Scientific Reports
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"