Phylogenetic analysis of the Latvian HIV-1 epidemic

AIDS Research and Human Retroviruses

Volumn 28, Issue 8, 2012, Pages 928-932

  Balode, Dace ^a   Skar, Helena ^a,b   Mild, Mattias ^a   Kolupajeva, Tatjana ^c   Ferdats, Andris ^d   Rozentale, Baiba ^c   Leitner, Thomas ^b   Albert, Jan ^a,e  

^a KAROLINSKA INSTITUTE   (Sweden)

^b LOS ALAMOS NATIONAL LABORATORY   (United States)

^c Infectology Center of Latvia   (Latvia)

^d Infectology Centre of Latvia   (Latvia)

^e KAROLINSKA UNIVERSITY HOSPITAL   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

GAG PROTEIN;

ARTICLE; CLUSTER ANALYSIS; EPIDEMIC; GENE SEQUENCE; GEOGRAPHY; HETEROSEXUALITY; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1 INFECTION; HUMAN IMMUNODEFICIENCY VIRUS INFECTED PATIENT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENETIC TREE; PHYLOGENY; PRIORITY JOURNAL; USSR; VIRUS TRANSMISSION;

EPIDEMICS; FEMALE; HIV ENVELOPE PROTEIN GP120; HIV INFECTIONS; HIV-1; HUMANS; LATVIA; MALE; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEXUAL BEHAVIOR;

EID: 84864214292     PISSN: 08892229     EISSN: 19318405     Source Type: Journal    
DOI: 10.1089/aid.2011.0310     Document Type: Article

References (14)

1. Public Health Agency, AIDS and STI, Riga, Latvia: sva.vi. gov.lv/lv/aidsunsti/statistika/hivaids/hivinfekcija/.
2. UNAIDS Report on the global AIDS epidemic 2010: www .unaids.org/ globalreport/Global-report.htm.
3. Balode D, Ferdats A, Dievberna I, et al.: Rapid epidemic spread of HIV type 1 subtype A1 among intravenous drug users in Latvia and slower spread of subtype B among other risk groups. AIDS Res Hum Retroviruses 2004;20: 245-249.
4. Liitsola K, Holm K, Bobkov A, et al.: An AB recombinant and its parental HIV type 1 strains in the area of the former Soviet Union: Low requirements for sequence identity in recombination. UNAIDS Virus Isolation Network. AIDS Res Hum Retroviruses 2000;16:1047-1053.
5. The Los Alamos HIV Sequence Database: www.hiv.lanl.gov.
6. Leitner T, Escanilla D, Marquina S, et al.: Biological and molecular characterization of subtype D, G and A/D recombinant HIV-1 transmissions in Sweden. Virology 1995; 209:136-146.
7. Leitner T, Korovina G, Marquina S, Smolskaya T, and Albert J: Molecular and biological characterization of Russian HIV-1 strains. AIDS Res Hum Retroviruses 1996;12:1595-1603.
8. Skar H, Axelsson M, Berggren I, et al.: Dynamics of two separate but linked HIV-1 CRF01-AE outbreaks among injection drug users in Stockholm, Sweden, and Helsinki, Finland. J Virol 2011;85:510-518.
9. Hall TA: BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/ NT. Nucl Acids Symp Ser 1999;41:95-98.
10. Tamura K, Dudley J, Nei M, and Kumar S: MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 2007;24:1596-1599.
11. Guindon S and Gascuel O: A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 2003;52:696-704.
12. Drummond AJ and Rambaut A: BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 2007;7:214.
13. Skar H, Borrego P, Wallstrom TC, et al.: HIV-2 genetic evolution in patients with advanced disease is faster than in matched HIV-1 patients. J Virol 2010;84:7412-7415.
14. Leitner T and Albert J: The molecular clock of HIV-1 unveiled through analysis of a known transmission history. Proc Natl Acad Sci USA 1999;96:10752-10757.