Three-Dimensional Encapsulation of Saccharomyces cerevisiae in Silicate Matrices Creates Distinct Metabolic States as Revealed by Gene Chip Analysis

ACS Nano ◽  
2017 ◽  
Vol 11 (4) ◽  
pp. 3560-3575 ◽  
Author(s):  
Zeeshan Fazal ◽  
Jennifer Pelowitz ◽  
Patrick E. Johnson ◽  
Jason C. Harper ◽  
C. Jeffrey Brinker ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Three Dimensional ◽  
Gene Chip ◽  
Metabolic States ◽  
Silicate Matrices ◽  
Chip Analysis

scholarly journals Constriction and Dnm1p Recruitment Are Distinct Processes in Mitochondrial Fission

2003 ◽  
Vol 14 (5) ◽  
pp. 1953-1963 ◽  
Author(s):  
Aster Legesse-Miller ◽  
Ramiro H. Massol ◽  
Tom Kirchhausen
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Fluorescence Imaging ◽  
Hot Spots ◽  
Mitochondrial Membrane ◽  
Mitochondrial Fission ◽  
Three Dimensional ◽  
Time Lapse ◽  
Outer Mitochondrial Membrane ◽  
Mitochondrial Matrix ◽  
Different Shapes

Mitochondria undergo cycles of fusion and fission crucial for organelle homeostasis. Fission is regulated partially by recruitment of the large GTPase Dnm1p to the outer mitochondrial membrane. Using three-dimensional time-lapse fluorescence imaging of Saccharomyces cerevisiae cells, we found that Dnm1p-EGFP appears and disappears at “hot spots” along mitochondrial tubes. It forms patches that convert rapidly into different shapes regardless of whether mitochondrial fission ensues or not. Moreover, the thickness of the mitochondrial matrix displays frequent temporal fluctuations apparently unrelated to fission or to recruitment of Dnm1p-EGFP. These results suggest that mitochondrial fission requires coordination of at least two distinct processes.

scholarly journals Three-dimensional Ultrastructure of Saccharomyces cerevisiae Meiotic Spindles

2005 ◽  
Vol 16 (3) ◽  
pp. 1178-1188 ◽  
Author(s):  
Mark Winey ◽  
Garry P. Morgan ◽  
Paul D. Straight ◽  
Thomas H. Giddings ◽  
David N. Mastronarde
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Meiotic Chromosome ◽  
Three Dimensional ◽  
Structural Basis ◽  
Mitotic Spindles ◽  
Yeast Saccharomyces Cerevisiae ◽  
Homologous Chromosomes ◽  
Sister Chromatids ◽  
Single Nucleus ◽  
Meiotic Spindles

Meiotic chromosome segregation leads to the production of haploid germ cells. During meiosis I (MI), the paired homologous chromosomes are separated. Meiosis II (MII) segregation leads to the separation of paired sister chromatids. In the budding yeast Saccharomyces cerevisiae, both of these divisions take place in a single nucleus, giving rise to the four-spored ascus. We have modeled the microtubules in 20 MI and 15 MII spindles by using reconstruction from electron micrographs of serially sectioned meiotic cells. Meiotic spindles contain more microtubules than their mitotic counterparts, with the highest number in MI spindles. It is possible to differentiate between MI versus MII spindles based on microtubule numbers and organization. Similar to mitotic spindles, kinetochores in either MI or MII are attached by a single microtubule. The models indicate that the kinetochores of paired homologous chromosomes in MI or sister chromatids in MII are separated at metaphase, similar to mitotic cells. Examination of both MI and MII spindles reveals that anaphase A likely occurs in addition to anaphase B and that these movements are concurrent. This analysis offers a structural basis for considering meiotic segregation in yeast and for the analysis of mutants defective in this process.

03 Affymetrix gene chip analysis of differentially expressed genes in rat post MI CHF model

2002 ◽  
Vol 34 (7) ◽  
pp. A11 ◽  
Author(s):  
Jian Wang ◽  
Lawrence Gelbert ◽  
Chad D. Geringer ◽  
Todd ◽  
G. Cook ◽  
...  
Keyword(s):  
Differentially Expressed Genes ◽  
Gene Chip ◽  
Differentially Expressed ◽  
Affymetrix Gene Chip ◽  
Chip Analysis

scholarly journals Dual-Color Monitoring Overcomes the Limitations of Single Bioluminescent Reporters in Fast-Growing Microbes and Reveals Phase-Dependent Protein Productivity during the Metabolic Rhythms of Saccharomyces cerevisiae

2015 ◽  
Vol 81 (18) ◽  
pp. 6484-6495 ◽  
Author(s):  
Archana Krishnamoorthy ◽  
J. Brian Robertson
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Gene Regulation ◽  
Inducible Promoter ◽  
Content Type ◽  
Fast Growing ◽  
Metabolic States ◽  
Dependent Protein ◽  
Protein Productivity ◽  
Yeast Metabolic Cycle ◽  
Metabolic Cycle

ABSTRACTLuciferase is a useful, noninvasive reporter of gene regulation that can be continuously monitored over long periods of time; however, its use is problematic in fast-growing microbes like bacteria and yeast because rapidly changing cell numbers and metabolic states also influence bioluminescence, thereby confounding the reporter's signal. Here we show that these problems can be overcome in the budding yeastSaccharomyces cerevisiaeby simultaneously monitoring bioluminescence from two different colors of beetle luciferase, where one color (green) reports activity of a gene of interest, while a second color (red) is stably expressed and used to continuously normalize green bioluminescence for fluctuations in signal intensity that are unrelated to gene regulation. We use this dual-luciferase strategy in conjunction with a light-inducible promoter system to test whether different phases of yeast respiratory oscillations are more suitable for heterologous protein production than others. By using pulses of light to activate production of a green luciferase while normalizing signal variation to a red luciferase, we show that the early reductive phase of the yeast metabolic cycle produces more luciferase than other phases.

scholarly journals RNA minihelices as model substrates for ATP/CTP:tRNA nucleotidyltransferase

1997 ◽  
Vol 327 (3) ◽  
pp. 847-851 ◽  
Author(s):  
Zengji LI ◽  
Yue SUN ◽  
L. David THURLOW
Keyword(s):  
Escherichia Coli ◽  
Saccharomyces Cerevisiae ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Single Base ◽  
Three Dimensional Structure ◽  
E Coli ◽  
Base Identity

Twenty-one RNA minihelices, resembling the coaxially stacked acceptor- /T-stems and T-loop found along the top of a tRNA's three-dimensional structure, were synthesized and used as substrates for ATP/CTP:tRNA nucleotidyltransferases from Escherichia coli and Saccharomyces cerevisiae. The sequence of nucleotides in the loop varied at positions corresponding to residues 56, 57 and 58 in the T-loop of a tRNA. All minihelices were substrates for both enzymes, and the identity of bases in the loop affected the interaction. In general, RNAs with purines in the loop were better substrates than those with pyrimidines, although no single base identity absolutely determined the effectiveness of the RNA as substrate. RNAs lacking bases near the 5ʹ-end were good substrates for the E. coli enzyme, but were poor substrates for that from yeast. The apparent Km values for selected minihelices were 2-3 times that for natural tRNA, and values for apparent Vmax were lowered 5-10-fold.

Gene chip analysis reveals alpha-tocopherol sensitive genes in rat liver

2004 ◽  
Vol 2004 (Spring) ◽  
Author(s):  
Elisabeth Stoecklin ◽  
Gerald Rimbach ◽  
Luca Barella
Keyword(s):  
Rat Liver ◽  
Gene Chip ◽  
Alpha Tocopherol ◽  
Chip Analysis
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