Two new single-nucleotide polymorphisms in the COL1A1 upstream regulatory region and their relationship to bone mineral density

J Bone Miner Res. 2002 Mar;17(3):384-93. doi: 10.1359/jbmr.2002.17.3.384.


Single-nucleotide polymorphisms (SNPs) in regulatory regions of candidate genes may determine variability in bone mineral density (BMD) because they may be responsible for differences in levels of a gene product in response to external signals. Under this hypothesis, we scanned an 800-base pair (bp) region within the COL1A1 promoter, known to harbor cis elements important for in vivo expression, and we found two new polymorphisms: -1663indelT and -1997 G/T. The G to T transversion at -1997 was associated with lumbar spine BMD (p = 0.015) when tested in a cohort of 256 postmenopausal women after adjusting by age, body weight, and years since menopause; a lower degree of association was detected also for femoral neck BMD in a subgroup of 146 women in univariate analysis and after adjusting by age (p = 0.044). The polymorphism -1663indelT, which corresponds to a deletion of a T in a tract of eight T residues (-1670 to -1663), did not show significant association with BMD. Interestingly, -1663indelT is in strong linkage disequilibrium (LD) with the previously described Sp1 polymorphism of intron 1, which in this study did not show association with BMD either. Significant interaction between -1997 G/T and -1663indelT (p = 0.019), and between -1997 G/T and Sp1 (p = 0.045) was observed also. Individuals heterozygous for the three polymorphisms showed the highest mean BMD value. Gel retardation assays showed that oligonucleotides containing either the -1663 or the -1997 polymorphic sites specifically bind primary osteoblast nuclear proteins. We named these binding sites as PCOL1 and PCOL2, respectively. In summary, this study describes two new SNPs in the COL1A1 promoter, which may affect bone mass determination.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Binding Sites / genetics
  • Bone Density / genetics*
  • Cell Nucleus / metabolism
  • Collagen / genetics*
  • Collagen Type I*
  • DNA-Binding Proteins / metabolism
  • Female
  • Humans
  • In Vitro Techniques
  • Linkage Disequilibrium
  • Middle Aged
  • Oligodeoxyribonucleotides / genetics
  • Oligodeoxyribonucleotides / metabolism
  • Polymorphism, Single Nucleotide*
  • Promoter Regions, Genetic


  • Collagen Type I
  • DNA-Binding Proteins
  • Oligodeoxyribonucleotides
  • collagen type I, alpha 1 chain
  • Collagen