NRAMP1, VDR, HLA-DRB1, and HLA-DQB1 Gene Polymorphisms in Susceptibility to Tuberculosis among the Chinese Kazakh Population: A Case-Control Study

Table 2

NRAMP1 and VDR polymorphism sites and sequence variants.

Name	Nucleotide and amino acid change	Primers, 5′ to 3′	Polymorphic site	Genopytes	Fragment (bp)
NRAMP1-; 3′UTR	Deletion of TGTG in the 3′UTR (55 nt 3′ to the last codon in exon 15)	GCATCTCCCCAATTCATGGT		TGTGdel/del	240
		AACTGTCCCACTCTATCCTG	TGGA TGTGGA	TGTG+/del	240, 211, 33
		(240 or 242 bp)	FokI	TGTG+/+	211, 33
VDR-FokI	A T/C transition; polymorphism in exon 2	AGCTGGCCCTGGCACTGACTCTGCTCT		C/C-FF	267
		ATGGAAACACCTTGCTTCTTCTCCCTC	CAGGGA TGGAGG	T/C-Ff	267, 197, 70
		(267 bp)	FokI	T/T-ff	197, 70
VDR-TaqI	A single base change	CAGAGCATGGACAGGGAGC		T/T-TT	455
	C to T in codon 352 at the 3′ end of the	AGGAGAGGCAGCGGTACTG	ACAGGAG CTCT	T/C-Tt	455, 290, 165
	VDR gene	(455 bp)	TaqI	C/C-tt	290, 165

Note: Underlined letters denote different restriction sites in which bold letters represent polymorphism sites. Genotypes of both genes were defined as follows. For the NRAMP1 gene, individuals were scored as 3′UTR-TGTG+/+ wild homozygote, 3′UTR-TGTGdel/del mutant homozygote, and 3′UTRTGTG+/del heterozygote, respectively.
+= presence of TGTG; del = absence of these four bases.
For the VDR gene, individuals were scored as FokI-FF, TaqI-TT wild homozygotes, FokI-ff, TaqI-tt mutant homozygotes, FokI-Ff, and TaqI-Tt heterozygotes, respectively.