| Literature DB >> 29765957 |
Sanish Sathyan1, Nir Barzilai2,3, Gil Atzmon2,3,4, Sofiya Milman2, Emmeline Ayers1, Joe Verghese1,2.
Abstract
Frailty is a complex aging phenotype associated with increased vulnerability to disability and death. Understanding the biological antecedents of frailty may provide clues to healthy aging. The genome-wide association study hotspot, 9p21-23 region, is a risk locus for a number of age-related complex disorders associated with frailty. Hence, we conducted an association study to examine whether variations in 9p21-23 locus plays a role in the pathogenesis of frailty in 637 community-dwelling Ashkenazi Jewish adults aged 65 and older enrolled in the LonGenity study. The strongest association with frailty (adjusted for age and gender) was found with the SNP rs518054 (odds ratio: 1.635, 95% CI = 1.241-2.154; p-value: 4.81 × 10-04) intergenic and located between LOC105375977 and C9orf146. The prevalence of four SNPs (rs1324192, rs7019262, rs518054, and rs571221) risk alleles haplotype in this region was significantly higher (compared with other haplotypes) in frail older adults compared with non-frail older adults (29.7 vs. 20.8%, p = 0.0005, respectively). Functional analyses using in silico approaches placed rs518054 in the CTCF binding site as well as DNase hypersensitive region. Furthermore, rs518054 was found to be in an enhancer site of NFIB gene located downstream. NFIB is a transcription factor that promotes cell differentiation during development, has antiapoptotic effect, maintains stem cell populations in adult tissues, and also acts as epigenetic regulators. Our study found novel association of SNPs in the regulatory region in the 9p21-23 region with the frailty phenotype; signifying the importance of this locus in aging.Entities:
Keywords: 9p21-23 locus; aging; frailty; fried index; genetics
Year: 2018 PMID: 29765957 PMCID: PMC5938407 DOI: 10.3389/fmed.2018.00105
Source DB: PubMed Journal: Front Med (Lausanne) ISSN: 2296-858X
Clinical characteristics of cohort.
| Variables | LonGenity | Frailty | Normal |
|---|---|---|---|
| Participants | 637 | 206 | 431 |
| Age, mean ± SD, years | 75.41 ± 6.55 | 77.72 ± 6.75 | 74.29 ± 6.16 |
| Women, % | 52.9% | 55.3 | 51.6 |
| Education, mean, years | 17.47 ± 2.70 | 17.33 ± 2.73 | 17.55 ± 2.68 |
| Gait speed, mean ± SD, cm/s | 110 ± 20.1 | 100.9 ± 21.4 | 114 ± 17.6 |
| Offspring of Parents with Exceptional Longevity/Offspring of Parents with Usual Survival (%) | 43.6/56.4 | 40.7/59.3 | 44.8/55.2 |
| Cardiovascular disease, % | 9.1 | 12.30 | 7.50 |
| Stroke, % | 3.6 | 6.90 | 2.10 |
| Diabetes, % | 9.2 | 11.80 | 8.20 |
| Parkinson disease, % | 1.4 | 2.50 | 0.90 |
| Arthritis, % | 40.9 | 56.90 | 34.10 |
| Hypertension, % | 43.6 | 62.00 | 40.80 |
| Men <75 years | 88.55 | ||
| Men ≥75 years | 76.44 | ||
| Women <75 years | 87.4 | ||
| Women ≥75 years | 71.28 | ||
| Men <75 years | 32.05 | ||
| Men ≥75 years | 24.21 | ||
| Women <75 years | 17.67 | ||
| Women ≥75 years | 14.27 | ||
Logistic regression analysis of 9p21-23 locus with Frailty with genotyped SNPs adjusted for age and gender (Model 1).
| CHR | SNP | Position | Allele | Frail | Normal | STAT | Odds ratio (95% CI) | |
|---|---|---|---|---|---|---|---|---|
| 9 | rs518054 | 13689066 | G | 0.314 | 0.214 | 3.491 | 1.635 (1.241–2.154) | 4.81 × 10−04 |
| 9 | rs10511667 | 18989696 | G | 0.164 | 0.106 | 3.411 | 1.855 (1.301–2.645) | 6.48 × 10−04 |
| 9 | rs1855850 | 10480030 | T | 0.329 | 0.419 | −3.401 | 0.635 (0.489–0.825) | 6.73 × 10−04 |
| 9 | rs571221 | 13690235 | C | 0.314 | 0.219 | 3.341 | 1.597 (1.213–2.101) | 8.35 × 10−04 |
| 9 | rs7019262 | 13614384 | G | 0.510 | 0.400 | 3.330 | 1.517 (1.187–1.938) | 8.68 × 10−04 |
| 9 | rs7034231 | 28119512 | G | 0.186 | 0.115 | 3.254 | 1.780 (1.258–2.519) | 1.14 × 10−03 |
| 9 | rs1324192 | 13612345 | A | 0.483 | 0.383 | 3.176 | 1.488 (1.164–1.902) | 1.50 × 10−03 |
| 9 | rs7038172 | 16708269 | C | 0.147 | 0.087 | 3.125 | 1.802 (1.245–2.607) | 1.78 × 10−03 |
SNPs with p-value < 0.002 is shown in this table.
Figure 1LocusZoom plot of the region studied with frailty on chromosome 9p21-23. Genes and ESTs within the region are shown in the lower panel, and the unbroken blue line indicates the recombination rate within the region. Each filled circle represents the p-value for one SNP, with the top SNP rs518054 shown in purple and SNPs in the region colored depending on their degree of correlation (r2) with rs518054 [as estimated internally by LocusZoom on the basis of CEU (Utah residents of Northern and Western European ancestry) HapMap haplotypes].
Figure 2(A) Genome wide association study hotspot locus of 9p21-23 region screened in this study. Frailty-associated SNPs are marked in rsIDs, and lower dots indicate disease-associated SNPs in this region and level of significance. (B) Localized view of associated SNPs showing its location between LOC105375977 and LINC00583 (C9orf146). NFIB is the nearest well-characterized gene to SNP rs518054. Genomic region data adapted from NCBI dbSNP database.
Haplotype analysis of the associated SNPs in the 9p21-23 region.
| Sl. no. | rs1324192 | rs7019262 | rs518054 | rs571221 | Frailty | Normal | Odds ratio (95% CI) | |
|---|---|---|---|---|---|---|---|---|
| 1 | G | A | T | T | 0.487 | 0.597 | 1 | |
| 3 | A | G | T | T | 0.184 | 0.173 | 1.300 (0.934–1.818) | 0.12 |
| 4 | G | G | T | T | 0.012 | 0.011 | 1.010 (0.312–3.226) | 0.99 |
Significant difference in the haplotype (2) involving the risk alleles of associated SNPs was observed with 29.7% in individuals with frailty compared with 20.8% in normal.
Haplotype analysis was adjusted for age and gender.
Details of putative regulatory functions of associated lead SNPs.
| Variant | Ref | Alt | EUR freq | Promoter histone marks | Enhancer histone marks | DNAse | Proteins bound | Motifs changed | Chromatin state | Variant interacting gene | Frailty-associated cell line/tissue | Regulome Db score |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs7019262 | G | A | 0.63 | – | ESDR, LNG | MUS | P300 | Pax-4, YY1 | Enhancer | – | Skeletal muscle | 4 |
| rs571221 | T | C | 0.20 | – | MUS | MUS, VAS | – | – | – | – | Skeletal muscle | 5 |
| rs10511667 | A | G | 0.89 | – | Skin/lung | – | – | – | Enhancer | – | – | 5 |
| rs7034231 | T | G | 0.83 | – | Neuron cells | – | – | – | Enhancer | – | – | 5 |
| rs7038172 | T | C | 0.94 | – | Multiple tissues | – | GATA3 | – | Enhancer | BNC2 | – | 6 |
| rs1855850 | C | T | 0.67 | – | – | – | – | – | – | – | – | – |
| rs1324192 | A | G | 0.66 | – | – | – | – | – | – | – | – | – |
MUS, skeletal muscle, male; VAS, HUVEC umbilical vein endothelial primary cells; ESDR, H1 BMP4-derived trophoblast cultured cells; LNG, lung.
Data are derived from HaploReg v4.1 (.
Lead SNP rs518054 is marked in bold.