Genes influencing spinal bone mineral density in inbred F344, LEW, COP, and DA rats

Imranul Alam, Qiwei Sun, Daniel L. Koller, Lixiang Liu, Yunlong Liu, Howard Edenberg, Tatiana Foroud, Charles H. Turner

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Previously, we identified the regions of chromosomes 10q12-q31 and 15p16-q21 harbor quantitative trait loci (QTLs) for lumbar volumetric bone mineral density (vBMD) in female F2 rats derived from Fischer 344 (F344) × Lewis (LEW) and Copenhagen 2331 (COP) × Dark Agouti (DA) crosses. The purpose of this study is to identify the candidate genes within these QTL regions contributing to the variation in lumbar vBMD. RNA was extracted from bone tissue of F344, LEW, COP, and DA rats. Microarray analysis was performed using Affymetrix Rat Genome 230 2.0 Arrays. Genes differentially expressed among the rat strains were then ranked based on the strength of the correlation with lumbar vBMD in F2 animals derived from these rats. Quantitative PCR (qPCR) analysis was performed to confirm the prioritized candidate genes. A total of 285 genes were differentially expressed among all strains of rats with a false discovery rate less than 10%. Among these genes, 18 candidate genes were prioritized based on their strong correlation (r 2 > 0.90) with lumbar vBMD. Of these, 14 genes (Akap1, Asgr2, Esd, Fam101b, Irf1, Lcp1, Ltc4s, Mdp-1, Pdhb, Plxdc1, Rabep1, Rhot1, Slc2a4, Xpo4) were confirmed by qPCR. We identified several novel candidate genes influencing spinal vBMD in rats.

Original languageEnglish
Pages (from-to)63-72
Number of pages10
JournalFunctional and Integrative Genomics
Volume10
Issue number1
DOIs
StatePublished - Mar 2010

Fingerprint

Bone Density
Genes
Quantitative Trait Loci
Polymerase Chain Reaction
Inbred F344 Rats
Microarray Analysis
Dasyproctidae
Chromosomes
Genome
RNA
Bone and Bones

Keywords

  • Gene expression
  • Lumbar vBMD
  • Microarray
  • Osteoporotic fracture
  • QTLs

ASJC Scopus subject areas

  • Genetics

Cite this

Genes influencing spinal bone mineral density in inbred F344, LEW, COP, and DA rats. / Alam, Imranul; Sun, Qiwei; Koller, Daniel L.; Liu, Lixiang; Liu, Yunlong; Edenberg, Howard; Foroud, Tatiana; Turner, Charles H.

In: Functional and Integrative Genomics, Vol. 10, No. 1, 03.2010, p. 63-72.

Research output: Contribution to journalArticle

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