{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T11:35:42Z","timestamp":1772105742553,"version":"3.50.1"},"reference-count":60,"publisher":"World Scientific Pub Co Pte Ltd","issue":"03","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Bioinform. Comput. Biol."],"published-print":{"date-parts":[[2010,6]]},"abstract":"<jats:p>Evolutionary trends have been examined in 146 HIV-1 forms (2662 copies, 2311 isolates) polymorphic for the TATA box using the \"DNA sequence\u2192affinity for TBP\" regression (TBP is the TATA binding protein). As a result, a statistically significant excess of low-affinity TATA box HIV-1 variants corresponding to a low level of both basal and TAT-dependent expression and, consequently, slow replication of HIV-1 have been detected. A detailed analysis revealed that the excess of slowly replicating HIV-1 is associated with the subtype E-associated TATA box core sequence \"CATAAAA\". Principal Component Analysis performed on 2662 HIV-1 TATA box copies in 70 countries revealed the presence of two principal components, PC1 (75.7% of the variance) and PC2 (23.3% of the variance). They indicate that each of these countries is specifically associated with one of the following trends in HIV-1 evolution: neutral drift around the normal TATA box; neutral drift around the slowly replicating TATA box core sequence (phylogenetic inertia); an adaptive increase in the frequency of the slowly replicating form.<\/jats:p>","DOI":"10.1142\/s0219720010004677","type":"journal-article","created":{"date-parts":[[2010,3,5]],"date-time":"2010-03-05T06:57:21Z","timestamp":1267772241000},"page":"607-625","source":"Crossref","is-referenced-by-count":15,"title":["SNPS IN THE HIV-1 TATA BOX AND THE AIDS PANDEMIC"],"prefix":"10.1142","volume":"08","author":[{"given":"VALENTIN V.","family":"SUSLOV","sequence":"first","affiliation":[{"name":"Sector of Evolutionary Bioinformatics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]},{"given":"PETR M.","family":"PONOMARENKO","sequence":"additional","affiliation":[{"name":"Laboratory of Theoretical Genetics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]},{"given":"VADIM M.","family":"EFIMOV","sequence":"additional","affiliation":[{"name":"Laboratory of Theoretical Genetics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]},{"given":"LUDMILA K.","family":"SAVINKOVA","sequence":"additional","affiliation":[{"name":"Laboratory of Theoretical Genetics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]},{"given":"MIKHAIL P.","family":"PONOMARENKO","sequence":"additional","affiliation":[{"name":"Laboratory of Theoretical Genetics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]},{"given":"NIKOLAY A.","family":"KOLCHANOV","sequence":"additional","affiliation":[{"name":"Laboratory of Theoretical Genetics, Institute of Cytology and Genetics, 10 Lavrentyev Ave., Novosibirsk, 630090, Russia"}]}],"member":"219","published-online":{"date-parts":[[2011,11,21]]},"reference":[{"key":"rf1","first-page":"267","volume":"61","author":"Gupta R. 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