Global survey of genetic variation in CCR5, RANTES, and MIP-1alpha : Impact on the epidemiology of the HIV-1 pandemic -- Data Supplement - Supplemental Data -- Proceedings of the National Academy of Sciences

Supplementary material for Gonzalez et al. (2001) Proc. Natl. Acad. Sci. USA 98 (9), 5199-5204. (10.1073/pnas.091056898)

Supplemental Figure 5 Fig. 5.
The numbering of the polymorphic sites in this report is based on the Nomenclature System for the Human Gene Mutations (http://www3.interscience.wiley.com/cgi-bin/abstract/5001291/START) and considers the adenine (A) in ATG, the initiator Met codon as nucleotide +1. Also, for clarity we have used the common synonyms MIP-1a (LD78a, MIP-1aS) and RANTES instead of the official names of their respective genes (i.e., SCYA3 and SCYA5, respectively). The single nucleotide polymorphism (SNP) at position +459 in the MIP-1a gene (SCYA3) was identified by comparing the sequences available in GenBank (accession nos. D90144 and AC0033976), and confirmed by sequencing using MIP-1aS-specific primers. An additional polymorphism in the MIP-1a gene at +113 was identified during the sequencing of the PCR amplicons. The SNPs at positions –96 and –471 in the RANTES gene (SCYA5) were discovered by sequencing the region –1024 to +10 from 20 HIV-infected individuals. Additional rare polymorphisms were identified in the MIP-1a and RANTES gene (data not shown). (a) The primers used for PCR--restriction fragment length polymorphism (RFLP) are shown; the change introduced into the primer to create the RFLP for genotyping is in boldface type. (b and c) PCR and PCR-RFLP conditions are shown.