Pandit Aridaman, Vadlamudi Jyothirmayi, Sinha Somdatta
Centre for Cellular and Molecular Biology (CSIR), Hyderabad 500 007, India.
J Genet. 2013 Dec;92(3):403-12. doi: 10.1007/s12041-013-0281-8.
Dinucleotide usage is known to vary in the genomes of organisms. The dinucleotide usage profiles or genome signatures are similar for sequence samples taken from the same genome, but are different for taxonomically distant species. This concept of genome signatures has been used to study several organisms including viruses, to elucidate the signatures of evolutionary processes at the genome level. Genome signatures assume greater importance in the case of host-pathogen interactions, where molecular interactions between the two species take place continuously, and can influence their genomic composition. In this study, analyses of whole genome sequences of the HIV-1 subtype B, a retrovirus that caused global pandemic of AIDS, have been carried out to analyse the variation in genome signatures of the virus from 1983 to 2007. We show statistically significant temporal variations in some dinucleotide patterns highlighting the selective evolution of the dinucleotide profiles of HIV-1 subtype B, possibly a consequence of host specific selection.
已知二核苷酸使用情况在生物体基因组中存在差异。对于从同一基因组获取的序列样本，其二核苷酸使用谱或基因组特征是相似的，但对于分类学上距离较远的物种则不同。基因组特征这一概念已被用于研究包括病毒在内的多种生物体，以阐明基因组水平上进化过程的特征。在宿主 - 病原体相互作用的情况下，基因组特征具有更重要的意义，因为这两个物种之间的分子相互作用持续发生，并可能影响它们的基因组组成。在本研究中，对导致全球艾滋病大流行的逆转录病毒HIV - 1 B亚型的全基因组序列进行了分析，以研究该病毒在1983年至2007年间基因组特征的变化。我们发现某些二核苷酸模式存在统计学上显著的时间变化，突出了HIV - 1 B亚型二核苷酸谱的选择性进化，这可能是宿主特异性选择的结果。
