The distribution of inverted repeat sequences in the Saccharomyces cerevisiae genome.
The distribution of inverted repeat sequences in the Saccharomyces cerevisiae genome.
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DOI：
10.1007/s00294-010-0302-6
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发表时间：
2010-08
期刊：
影响因子：
2.5
通讯作者：
Benham, Craig J.
中科院分区：
文献类型：
--
作者：
Strawbridge, Eva M.;Benson, Gary;Gelfand, Yevgeniy;Benham, Craig J.
尽管已经提出了反向重复序列（IR）的各种可能的功能，但尚不知道它们中的哪一个可能在体内发生。我们调查这个问题，通过评估的分布和属性的IR在酿酒酵母（SC）基因组。使用IRR 40算法，我们检测到100，514个拷贝长度大于6 bp且间隔区长度小于77 bp的IR。为了评估统计学显著性，我们还确定了S.酿酒酵母基因组我们发现S.酿酒酵母基因组中的IR相对于随机显著富集。色葡萄与来自随机化基因组的IR相比，酿酒酵母IR显著更长并且包含更少的缺陷，这表明延长和/或校正IR中的错误的过程可以在体内起作用。色葡萄酿酒酵母IR在基因间区域高度聚集，而它们在编码序列中的出现与随机一致。基因3′侧翼的聚类比5′侧翼的聚类更强。然而，S.酿酒酵母基因组中没有富集那些会挤出十字形的IR，这表明这不是一个常见的事件。这些结果的各种解释被认为是。本文的在线版本（doi：10.1007/s 00294 -010-0302-6）包含补充材料，可供授权用户使用。
Although a variety of possible functions have been proposed for inverted repeat sequences (IRs), it is not known which of them might occur in vivo. We investigate this question by assessing the distributions and properties of IRs in the Saccharomyces cerevisiae (SC) genome. Using the IRFinder algorithm we detect 100,514 IRs having copy length greater than 6 bp and spacer length less than 77 bp. To assess statistical significance we also determine the IR distributions in two types of randomization of the S. cerevisiae genome. We find that the S. cerevisiae genome is significantly enriched in IRs relative to random. The S. cerevisiae IRs are significantly longer and contain fewer imperfections than those from the randomized genomes, suggesting that processes to lengthen and/or correct errors in IRs may be operative in vivo. The S. cerevisiae IRs are highly clustered in intergenic regions, while their occurrence in coding sequences is consistent with random. Clustering is stronger in the 3′ flanks of genes than in their 5′ flanks. However, the S. cerevisiae genome is not enriched in those IRs that would extrude cruciforms, suggesting that this is not a common event. Various explanations for these results are considered. The online version of this article (doi:10.1007/s00294-010-0302-6) contains supplementary material, which is available to authorized users.
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影响因子：
2.9
作者：
BENHAM, CJ
通讯作者：
BENHAM, CJ
影响因子：
10.7
作者：
Achaz, G;Coissac, E;Netter, P
通讯作者：
Netter, P
影响因子：
4
作者：
Alvarez, D;Novac, O;Zannis-Hadjopoulos, M
通讯作者：
Zannis-Hadjopoulos, M
DOI：
10.1073/pnas.94.10.5237
发表时间：
1997-05-13
影响因子：
11.1
作者：
Cox, R;Mirkin, SM
通讯作者：
Mirkin, SM
DOI：
10.1073/pnas.93.2.819
发表时间：
1996-01-23
影响因子：
11.1
作者：
Bi, X;Liu, LF
通讯作者：
Liu, LF