SIMPLE REPETITIVE DNA-SEQUENCES FROM PRIMATES - COMPILATION AND ANALYSIS
SIMPLE REPETITIVE DNA-SEQUENCES FROM PRIMATES - COMPILATION AND ANALYSIS
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DOI：
10.1007/bf00167107
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发表时间：
1995-02-01
影响因子：
3.9
通讯作者：
PETHIYAGODA, C
中科院分区：
文献类型：
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作者：
JURKA, J;PETHIYAGODA, C
简单重复组成的串联重复单位1-6核苷酸（nt）长已从一组选定的灵长类动物基因组DNA序列中提取。在这501个理论上可能存在的重复序列中，在超过12 nt的至少两个不同大小范围内，只有67个重复序列存在于所分析的数据库中。它们包括灵长类基因组中已知的所有多态简单重复序列。一个列表的适度扩大和非扩大寡核苷酸模式也包括在内。此外，我们还编制了统计数据，重点分析了最丰富的67种重复序列的总体变异性。我们已经证明，至少一些简单重复序列的可扩展性可能受到整体碱基组成和侧翼序列的影响。特别是，CAG和GCC三联体外显子串联重复的发生与其G+C含量呈正相关。我们还注意到，在Alu序列附近的四聚体重复序列比在整个基因组DNA中更丰富。本文可作为鉴定最丰富和最具潜在多态性的简单重复序列的综合指南。这对于理解侧翼序列和整体序列组成对简单重复序列变异性的贡献也具有更广泛的意义。
Simple repeats composed of tandemly repeated units 1-6 nucleotides (nt) long have been extracted from a selected set of primate genomic DNA sequences. Of the 501 theoretically possible, different types of repeats only 67 were present in the analyzed database in at least two different size ranges over 12 nt. They include all simple repeats known to be polymorphic in the primate genome. A list of moderately expanding and nonexpanding oligonucleotide patterns has also been included. Furthermore, we have compiled statistical data with emphasis on the overall variability of the most abundant 67 types of repeats. We have demonstrated that the expandability of at least some simple repeats may be affected by the overall base composition and by flanking sequences. In particular, the occurrence of tandemly repeated CAG and GCC triplets in exons positively correlates with their G+C content. We also noted that in the vicinity of Alu sequences tetrameric repeats are more abundant than in the total genomic DNA. This paper can be used as a comprehensive guide in identification of the most abundant and potentially polymorphic simple repeats. It is also of broader significance as a step toward understanding the contribution of flanking sequences and the overall sequence composition to variability of simple repeats.