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You searched for: Subject term DNA-directed RNA polymerase Remove constraint Subject term: DNA-directed RNA polymerase Subject term DNA microarrays Remove constraint Subject term: DNA microarrays
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1. Improving Saccharomyces cerevisiae ethanol production and tolerance via RNA polymerase II subunit Rpb7

Author:
Zilong Qiu; Rongrong Jiang
Source:
Biotechnology for biofuels 2017 v.10 no.1 pp. 125
ISSN:
1754-6834
Subject:
DNA microarrays; DNA-directed RNA polymerase; Saccharomyces cerevisiae; alcoholic fermentation; directed evolution; engineering; ethanol; ethanol production; gene expression regulation; genes; glycolysis; messenger RNA; oxidative stress; phenotype; polymerase chain reaction; stress response; transcription (genetics); yeasts
Abstract:
... BACKGROUND: Classical strain engineering methods often have limitations in altering multigenetic cellular phenotypes. Here we try to improve Saccharomyces cerevisiae ethanol tolerance and productivity by reprogramming its transcription profile through rewiring its key transcription component RNA polymerase II (RNAP II), which plays a central role in synthesizing mRNAs. This is the first report on ...
DOI:
10.1186/s13068-017-0806-0
PubMed:
28515784
PubMed Central:
PMC5433082

2. On-Chip Synthesis of Protein Microarrays from DNA Microarrays via Coupled In Vitro Transcription and Translation for Surface Plasmon Resonance Imaging Biosensor Applications

Author:
Seefeld Ting H.; Halpern Aaron R.; Corn Robert M.
Source:
Journal of the American Chemical Society 2012 v.134 no.30 pp. 12358-12361
ISSN:
1520-5126
Subject:
green fluorescent protein; image analysis; messenger RNA; translation (genetics); copper; antibodies; DNA; luciferase; DNA microarrays; transcription (genetics); cell-free protein synthesis; surface plasmon resonance; DNA-directed RNA polymerase; biosensors; adsorption
Abstract:
... Protein microarrays are fabricated from double-stranded DNA (dsDNA) microarrays by a one-step, multiplexed enzymatic synthesis in an on-chip microfluidic format and then employed for antibody biosensing measurements with surface plasmon resonance imaging (SPRI). A microarray of dsDNA elements (denoted as generator elements) that encode either a His-tagged green fluorescent protein (GFP) or a His-t ...
DOI:
10.1021/ja304187r
PubMed:
22793370
PubMed Central:
PMC3415242

3. Global gene expression analysis of Aspergillus nidulans reveals metabolic shift and transcription suppression under hypoxia

Author:
Masuo, Shunsuke; Terabayashi, Yasunobu; Shimizu, Motoyuki; Fujii, Tatsuya; Kitazume, Tatsuya; Takaya, Naoki
Source:
Molecular genetics and genomics 2010 v.284 no.6 pp. 415-424
ISSN:
1617-4615
Subject:
Aspergillus nidulans; DNA microarrays; DNA-directed RNA polymerase; NAD (coenzyme); aeration; anaerobic conditions; ethanol; ethanol production; fungi; gamma-aminobutyric acid; gene expression; gene expression regulation; genes; glucose; glycolysis; hypoxia; messenger RNA; normoxia; oxygen; transcription (genetics); tricarboxylic acid cycle
Abstract:
... Hypoxia imposes a challenge upon most filamentous fungi that require oxygen for proliferation. Here, we used whole genome DNA microarrays to investigate global transcriptional changes in Aspergillus nidulans gene expression after exposure to hypoxia followed by normoxia. Aeration affected the expression of 2,864 genes (27% of the total number of genes in the fungus), of which 50% were either induc ...
DOI:
10.1007/s00438-010-0576-x

4. Promoter and regulon analysis of nitrogen assimilation factor, σ⁵⁴, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis

Author:
Zhao, Kai; Liu, Mingzhu; Burgess, Richard R.
Source:
Nucleic acids research 2010 v.38 no.4 pp. 1273-1283
ISSN:
0305-1048
Subject:
DNA microarrays; DNA-directed RNA polymerase; Escherichia coli; bacteria; biosynthesis; nitrogen; nucleic acids; nucleotides; operon; precipitin tests; promoter regions; regulon; transcription (genetics)
Abstract:
... Bacteria core RNA polymerase (RNAP) must associate with a σ factor to recognize promoter sequences. Promoters recognized by the σ⁵⁴ (or σN) associated RNA polymerase are unique in having conserved positions around -24 and -12 nucleotides upstream from the transcriptional start site. Using DNA microarrays representing the entire Escherichia coli genome and promoter validation approaches, we identif ...
DOI:
10.1093/nar/gkp1123
PubMed:
19969540
PubMed Central:
PMC2831329

5. Chum-RNA allows preparation of a high-quality cDNA library from a single-cell quantity of mRNA without PCR amplification

Author:
Tougan, Takahiro; Okuzaki, Daisuke; Nojima, Hiroshi
Source:
Nucleic acids research 2008 v.36 no.15 pp. e92
ISSN:
0305-1048
Subject:
DNA microarrays; DNA-directed RNA polymerase; cDNA libraries; chemical elements; complementary DNA; mammals; messenger RNA; polymerase chain reaction
Abstract:
... Linear RNA amplification using T7 RNA polymerase is useful in genome-wide analysis of gene expression using DNA microarrays, but exponential amplification using polymerase chain reaction (PCR) is still required for cDNA library preparation from single-cell quantities of RNA. We have designed a small RNA molecule called chum-RNA that has enabled us to prepare a single-cell cDNA library after four r ...
DOI:
10.1093/nar/gkn420
PubMed:
18603591
PubMed Central:
PMC2528176

6. Improved genome-wide localization by ChIP-chip using double-round T7 RNA polymerase-based amplification

Author:
van Bakel, Harm; van Werven, Folkert J.; Radonjic, Marijana; Brok, Mariel O.; van Leenen, Dik; Holstege, Frank C.P.; Timmers, H.T. Marc
Source:
Nucleic acids research 2008 v.36 no.4 pp. e21
ISSN:
0305-1048
Subject:
transcription factors; DNA; polymerase chain reaction; yeasts; DNA microarrays; transcription (genetics); precipitin tests; binding sites; chromatin; RNA; DNA-directed RNA polymerase
Abstract:
... Chromatin immunoprecipitation combined with DNA microarrays (ChIP-chip) is a powerful technique to detect in vivo protein-DNA interactions. Due to low yields, ChIP assays of transcription factors generally require amplification of immunoprecipitated genomic DNA. Here, we present an adapted linear amplification method that involves two rounds of T7 RNA polymerase amplification (double-T7). Using th ...
DOI:
10.1093/nar/gkm1144
PubMed:
18180247
PubMed Central:
PMC2275083

7. Disruption of essential plastid gene expression caused by T7 RNA polymerase-mediated transcription of plastid transgenes during early seedling development

Author:
Magee, Alan M.; MacLean, Daniel; Gray, John C.; Kavanagh, Tony A.
Source:
Transgenic research 2007 v.16 no.4 pp. 415-428
ISSN:
0962-8819
Subject:
DNA microarrays; DNA-directed RNA polymerase; bacteriophages; biotechnology; gels; gene expression; gene expression regulation; genetically modified organisms; leaves; mutants; phenotype; proteins; ribosomal RNA; seedlings; tobacco; transcription (genetics); transgenes
Abstract:
... Transcription of plastid transgenes by plastid-targeted T7 RNA polymerase (ptT7RNAP) during early seedling development in tobacco was associated with a pale-green leaf phenotype, depletion of plastid rRNAs and arrest of shoot development. Extensive analysis of mutant seedlings at the transcript level using DNA microarrays and RNA gel blotting revealed severe disruption of plastid rRNA accumulation ...
DOI:
10.1007/s11248-006-9045-z
PubMed:
17103239

8. The role of the omega subunit of RNA polymerase in expression of the relA gene in Escherichia coli

Author:
Chatterji, Dipankar; Ogawa, Yoshito; Shimada, Tomohiro; Ishihama, Akira
Source:
FEMS microbiology letters 2007 v.267 no.1 pp. 51-55
ISSN:
0378-1097
Subject:
messenger RNA; starvation; stress response; DNA microarrays; gene expression; ribosomal proteins; operon; DNA-directed RNA polymerase; Escherichia coli
Abstract:
... The rpoZ gene for the omega subunit of Escherichia coli RNA polymerase constitutes single operon with the spoT gene, which is responsible for the maintenance of stringent response under nutrient starvation conditions. To identify the physiological role of the omega subunit, we compared the gene expression profile of wild-type Escherichia coli with that of an rpoZ deleted strain by microarray analy ...
DOI:
10.1111/j.1574-6968.2006.00532.x

9. DNA Microarray Analysis of Plastid Gene Expression in an Arabidopsis Mutant Deficient in a Plastid Transcription Factor Sigma, SIG2

Author:
Akitomo NAGASHIMA; Mitsumasa HANAOKA; Reiko MOTOHASHI; Motoaki SEKI; Kazuo SHINOZAKI; Kengo KANAMARU; Hideo TAKAHASHI; Kan TANAKA
Source:
Bioscience, biotechnology, and biochemistry 2004 v.68 no.3 pp. 694-704
ISSN:
1347-6947
Subject:
Arabidopsis thaliana; DNA microarrays; DNA-directed RNA polymerase; biotechnology; chloroplast proteins; chloroplasts; gene expression; mutants; nuclear genome; photosynthesis; plastid genome
Abstract:
... The plastid genome of higher plants contains more than one hundred genes for photosynthesis, gene expression, and other processes. Plastid transcription is done by two types of RNA polymerase, PEP and NEP. PEP is a eubacteria-type RNA polymerase that is essential for chloroplast development. In Arabidopsis thaliana, six sigma factors (SIG1-6) are encoded by the nuclear genome, and postulated to de ...
DOI:
10.1271/bbb.68.694

10. Identification and Classification of Two-component Systems That Affect rpoS Expression in Escherichia coli

Author:
Masahito SUGIURA; Hirofumi AIBA; Takeshi MIZUNO
Source:
Bioscience, biotechnology, and biochemistry 2003 v.67 no.7 pp. 1612-1615
ISSN:
1347-6947
Subject:
DNA microarrays; DNA-directed RNA polymerase; Escherichia coli; biotechnology; stress response
Abstract:
... The rpoS-encoded σS subunit of RNA polymerase regulates the expression of stationary phase and stress response genes in Escherichia coli. Recent study of our DNA microarray analysis suggested that the rpoS expression is affected by multiple two-component systems. In this study, we identified two-component-system mutants in which the rpoS expression increased. The regulatory manner of the systems o ...
DOI:
10.1271/bbb.67.1612