Global analysis of mRNA stability in the archaeon Sulfolobus
Global analysis of mRNA stability in the archaeon Sulfolobus
复制标题
DOI：
10.1186/gb-2006-7-10-r99
复制
发表时间：
2006-01-01
期刊：
影响因子：
12.3
通讯作者：
Nilsson, Peter
中科院分区：
文献类型：
--
作者：
Andersson, Anders F.;Lundgren, Magnus;Nilsson, Peter
背景：转录物半衰期在生物体之间以及同一生物体内的基因组之间不同。这些差异背后的机制尚不清楚，决定转录物稳定性的生化特性也不清楚。为了解决这些问题，已经在真核生物和细菌中进行了全基因组mRNA衰变研究。相比之下，对生命的第三个结构域--在这里，我们提出了一个基于微阵列的分析mRNA的半衰期在极端嗜热crenarchea硫磺硫化叶菌和Sulfolobus acidocaldarius，构成了第一个全基因组的研究RNA衰变在archaea.Results：两个转录组显示类似的半衰期分布，中位数约为5分钟。与生长相关的基因，如参与转录、翻译和能量产生的基因，在不稳定的转录本中占主导地位，而未表征的基因在最稳定的转录本中占主导地位。半衰期与转录丰度呈负相关，与其他生物体的情况不同，也与转录length.Conclusion负相关：硫化叶菌属物种的mRNA半衰期分布是类似的那些更快地增长的细菌，与早期的观察，中位mRNA半衰期是成比例的细胞周期的最小长度。相反，短半衰期可能是原核转录组的一般特征，可能与核的缺乏和/或更有限的转录后调控机制有关。与生长相关的转录物的模式在硫化叶菌中是最不稳定的，这也可能表明，短的半衰期反映了在环境条件突然变化时迅速重新编程基因表达的必要性。
Background: Transcript half-lives differ between organisms, and between groups of genes within the same organism. The mechanisms underlying these differences are not clear, nor are the biochemical properties that determine the stability of a transcript. To address these issues, genome-wide mRNA decay studies have been conducted in eukaryotes and bacteria. In contrast, relatively little is known about RNA stability in the third domain of life, Archaea. Here, we present a microarray-based analysis of mRNA half-lives in the hyperthermophilic crenarchaea Sulfolobus solfataricus and Sulfolobus acidocaldarius, constituting the first genome-wide study of RNA decay in archaea.Results: The two transcriptomes displayed similar half-life distributions, with medians of about five minutes. Growth-related genes, such as those involved in transcription, translation and energy production, were over-represented among unstable transcripts, whereas uncharacterized genes were over-represented among the most stable. Half-life was negatively correlated with transcript abundance and, unlike the situation in other organisms, also negatively correlated with transcript length.Conclusion: The mRNA half-life distribution of Sulfolobus species is similar to those of much faster growing bacteria, contrasting with the earlier observation that median mRNA half-life is proportional to the minimal length of the cell cycle. Instead, short half-lives may be a general feature of prokaryotic transcriptomes, possibly related to the absence of a nucleus and/or more limited post-transcriptional regulatory mechanisms. The pattern of growth-related transcripts being among the least stable in Sulfolobus may also indicate that the short half-lives reflect a necessity to rapidly reprogram gene expression upon sudden changes in environmental conditions.