Abstract
The structural dynamics of chromatin have been implicated in the regulation of fundamental eukaryotic processes, such as DNA transcription, replication and repair. Although previous studies have revealed that the chromatin landscape, nucleosome remodeling and histone modification events are intimately tied into cellular energetics and redox state, few studies undertake defined time-resolved measurements of these state variables. Here, we use metabolically synchronous, continuously-grown yeast cultures to measure DNA occupancy and track global patterns with respect to the metabolic state of the culture. Combined with transcriptome analyses and ChIP-qPCR experiments, these paint an intriguing picture where genome-wide nucleosome focusing occurs during the recovery of energy charge, followed by clearance of the promoter regions and global transcriptional slow-down, thus indicating a nucleosome-mediated “reset point” for the cycle. The reset begins at the end of the catabolic and stress-response transcriptional programs and ends prior to the start of the anabolic and cell-growth transcriptional program, and the histones on genes from both the catabolic and anabolic superclusters are deacetylated.
| Original language | English |
|---|---|
| Pages (from-to) | 279-288 |
| Number of pages | 10 |
| Journal | Microbial Cell |
| Volume | 1 |
| Issue number | 9 |
| DOIs | |
| Publication status | Published - 2014 Sep 1 |
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Keywords
- Anabolism
- Catabolism
- Chromatin dynamics
- Energetics
- Histone modification
- Respiratory oscillation
- Transcription regulation
ASJC Scopus subject areas
- Immunology and Microbiology (miscellaneous)
- Biochemistry, Genetics and Molecular Biology (miscellaneous)
Cite this
Time resolved DNA occupancy dynamics during the respiratory oscillation uncover a global reset point in the yeast growth program. / Amariei, Cornelia; Machné, Rainer; Stolc, Viktor; Soga, Tomoyoshi; Tomita, Masaru; Murray, Douglas B.
In: Microbial Cell, Vol. 1, No. 9, 01.09.2014, p. 279-288.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Time resolved DNA occupancy dynamics during the respiratory oscillation uncover a global reset point in the yeast growth program
AU - Amariei, Cornelia
AU - Machné, Rainer
AU - Stolc, Viktor
AU - Soga, Tomoyoshi
AU - Tomita, Masaru
AU - Murray, Douglas B.
PY - 2014/9/1
Y1 - 2014/9/1
N2 - The structural dynamics of chromatin have been implicated in the regulation of fundamental eukaryotic processes, such as DNA transcription, replication and repair. Although previous studies have revealed that the chromatin landscape, nucleosome remodeling and histone modification events are intimately tied into cellular energetics and redox state, few studies undertake defined time-resolved measurements of these state variables. Here, we use metabolically synchronous, continuously-grown yeast cultures to measure DNA occupancy and track global patterns with respect to the metabolic state of the culture. Combined with transcriptome analyses and ChIP-qPCR experiments, these paint an intriguing picture where genome-wide nucleosome focusing occurs during the recovery of energy charge, followed by clearance of the promoter regions and global transcriptional slow-down, thus indicating a nucleosome-mediated “reset point” for the cycle. The reset begins at the end of the catabolic and stress-response transcriptional programs and ends prior to the start of the anabolic and cell-growth transcriptional program, and the histones on genes from both the catabolic and anabolic superclusters are deacetylated.
AB - The structural dynamics of chromatin have been implicated in the regulation of fundamental eukaryotic processes, such as DNA transcription, replication and repair. Although previous studies have revealed that the chromatin landscape, nucleosome remodeling and histone modification events are intimately tied into cellular energetics and redox state, few studies undertake defined time-resolved measurements of these state variables. Here, we use metabolically synchronous, continuously-grown yeast cultures to measure DNA occupancy and track global patterns with respect to the metabolic state of the culture. Combined with transcriptome analyses and ChIP-qPCR experiments, these paint an intriguing picture where genome-wide nucleosome focusing occurs during the recovery of energy charge, followed by clearance of the promoter regions and global transcriptional slow-down, thus indicating a nucleosome-mediated “reset point” for the cycle. The reset begins at the end of the catabolic and stress-response transcriptional programs and ends prior to the start of the anabolic and cell-growth transcriptional program, and the histones on genes from both the catabolic and anabolic superclusters are deacetylated.
KW - Anabolism
KW - Catabolism
KW - Chromatin dynamics
KW - Energetics
KW - Histone modification
KW - Respiratory oscillation
KW - Transcription regulation
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UR - http://www.scopus.com/inward/citedby.url?scp=84969315631&partnerID=8YFLogxK
U2 - 10.15698/mic2014.09.166
DO - 10.15698/mic2014.09.166
M3 - Article
AN - SCOPUS:84969315631
VL - 1
SP - 279
EP - 288
JO - Microbial Cell
JF - Microbial Cell
SN - 2311-2638
IS - 9
ER -