Direct measurement of transcription rates reveals multiple mechanisms for configuration of the Arabidopsis ambient temperature response.
Direct measurement of transcription rates reveals multiple mechanisms for configuration of the Arabidopsis ambient temperature response.
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DOI：
10.1186/gb-2014-15-3-r45
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发表时间：
2014-03-03
期刊：
影响因子：
12.3
通讯作者：
Penfield S
中科院分区：
文献类型：
--
作者：
Sidaway-Lee K;Costa MJ;Rand DA;Finkenstadt B;Penfield S
对环境温度的感知和响应对于控制许多生物体的生长和发育是重要的，部分通过调节mRNA水平。mRNA丰度可以随温度而变化，但目前尚不清楚这是否是由于转录或衰变速率的变化，以及是否涉及被动或主动温度调节。使用碱基类似物标记方法，我们直接测量了拟南芥转录组mRNA合成和降解速率的温度系数Q10。我们表明，对于大多数基因，转录水平的缓冲对被动增加转录率通过平衡被动增加衰减率。引人注目的是，对于温度响应性转录物，增加温度主要通过促进相对于衰变的更快转录来提高转录物丰度，而不是相反，这表明存在通过温度控制mRNA丰度的全局转录过程。这部分是由于基因体H2A.Z与低转录速率Q10相关，但也受到其他标记和转录因子活性的影响。我们的数据表明，不太频繁的染色质状态可以产生温度响应，仅仅凭借其稀有性和它们的热特性与最常见的状态之间的差异，并强调直接测量动态系统中的转录速率变化的优势，而不是从mRNA丰度的变化推断速率。
Sensing and responding to ambient temperature is important for controlling growth and development of many organisms, in part by regulating mRNA levels. mRNA abundance can change with temperature, but it is unclear whether this results from changes in transcription or decay rates, and whether passive or active temperature regulation is involved. Using a base analog labelling method, we directly measured the temperature coefficient, Q10, of mRNA synthesis and degradation rates of the Arabidopsis transcriptome. We show that for most genes, transcript levels are buffered against passive increases in transcription rates by balancing passive increases in the rate of decay. Strikingly, for temperature-responsive transcripts, increasing temperature raises transcript abundance primarily by promoting faster transcription relative to decay and not vice versa, suggesting a global transcriptional process exists that controls mRNA abundance by temperature. This is partly accounted for by gene body H2A.Z which is associated with low transcription rate Q10, but is also influenced by other marks and transcription factor activities. Our data show that less frequent chromatin states can produce temperature responses simply by virtue of their rarity and the difference between their thermal properties and those of the most common states, and underline the advantages of directly measuring transcription rate changes in dynamic systems, rather than inferring rates from changes in mRNA abundance.
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DOI：
10.1073/pnas.091062498
发表时间：
2001-04-24
影响因子：
11.1
作者：
Tusher, VG;Tibshirani, R;Chu, G
通讯作者：
Chu, G
影响因子：
12.3
作者：
Covington, Michael F.;Maloof, Julin N.;Straume, Marty;Kay, Steve A.;Harmer, Stacey L.
通讯作者：
Harmer, Stacey L.
影响因子：
4.5
作者：
Coleman-Derr D;Zilberman D
通讯作者：
Zilberman D
影响因子：
64.8
作者：
Schwanhaeusser, Bjoern;Busse, Dorothea;Selbach, Matthias
通讯作者：
Selbach, Matthias
影响因子：
9.2
作者：
Koini, Maria A.;Alvey, Liz;Franklin, Keara A.
通讯作者：
Franklin, Keara A.