Karlin S
Department of Mathematics, Stanford University, Stanford, CA 94305-2125, USA.
Curr Opin Microbiol. 1998 Oct;1(5):598-610. doi: 10.1016/s1369-5274(98)80095-7.
Early biochemical experiments measuring nearest neighbor frequencies established that the set of dinucleotide relative abundance values (dinucleotide biases) is a remarkably stable property of the DNA of an organism. Analyses of currently available genomic sequence data have extended these earlier results, showing that the dinucleotide biases evaluated for successive 50 kb segments of a genome are significantly more similar to each other than to those of sequences from more distant organisms. From this perspective, the set of dinucleotide biases constitutes a 'genomic signature' that can discriminate sequences from different organisms. The dinucleotide biases appear to reflect species-specific properties of DNA stacking energies, modification, replication, and repair mechanisms. The genomic signature is useful for detecting pathogenicity islands in bacterial genomes.
早期测量最近邻频率的生化实验证实，二核苷酸相对丰度值集（二核苷酸偏好）是生物体DNA的一个显著稳定的特性。对现有基因组序列数据的分析扩展了这些早期结果，表明对基因组连续50 kb片段评估的二核苷酸偏好彼此之间的相似性明显高于与来自更远缘生物体序列的相似性。从这个角度来看，二核苷酸偏好集构成了一种“基因组特征”，可以区分不同生物体的序列。二核苷酸偏好似乎反映了DNA堆积能量、修饰、复制和修复机制的物种特异性特性。这种基因组特征有助于检测细菌基因组中的致病岛。
