Skewed oligomers and origins of replication
Skewed oligomers and origins of replication
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DOI：
10.1016/s0378-1119(98)00374-6
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发表时间：
1998-09-14
期刊：
影响因子：
3.5
通讯作者：
Tomb, JF
中科院分区：
文献类型：
--
作者：
Salzberg, SL;Salzberg, AJ;Tomb, JF
原核生物基因组中假定的复制起点可以通过一种新的方法来定位，这种方法可以找到短的寡聚体，这些寡聚体的方向优先围绕起点倾斜。偏斜寡聚体方法被证明适用于所有细菌基因组和迄今为止测序的三个古细菌基因组之一，在大多数情况下证实了已知或预测的起源，在三种情况下证实了已知或预测的起源。pylori、M.和集胞藻属（Synechocystis sp.），这表明它的起源是未知的在许多情况下，保守基因和核苷酸基序的存在证实了预测。描述了一种用于找到这些偏斜的七碱基和八碱基序列的算法，沿着与用于结合来自多个偏斜寡聚体的证据以准确定位复制起点的方法。歪斜的低聚物的现象可能的解释进行了讨论。解释了为什么一些细菌基因组含有数百个高度偏斜的寡聚体，而其他细菌基因组只含有少数。(C)1998 Elsevier Science B.V.保留所有权利。
The putative origin of replication in prokaryotic genomes can be located by a new method that finds short oligomers whose orientation is preferentially skewed around the origin. The skewed oligomer method is shown to work for all bacterial genomes and one of three archaeal genomes sequenced to date, confirming known or predicted origins in most cases and in three cases (H. pylori, M. thermoautotrophicum, and Synechocystis sp.), suggesting origins that were previously unknown. In many cases, the presence of conserved genes and nucleotide motifs confirms the predictions. An algorithm for finding these skewed seven-base and eight-base sequences is described, along with a method for combining evidence from multiple skewed oligomers to accurately locate the replication origin. Possible explanations for the phenomenon of skewed oligomers are discussed. Explanations are presented for why some bacterial genomes contain hundreds of highly skewed oligomers, whereas others contain only a handful. (C) 1998 Elsevier Science B.V. All rights reserved.