| Literature DB >> 34054948 |
Luyue Qi1,2, Lianyong Liu3, Li Li1, Weiwei Hu1, Wenzhen Fu1, Ji Hu2, Youjia Xu4, Zhenlin Zhang1.
Abstract
OBJECTIVE: The purpose of this study was to explore the effect of the SOST gene polymorphisms on body composition in Chinese nuclear families with male offspring.Entities:
Year: 2021 PMID: 34054948 PMCID: PMC8123982 DOI: 10.1155/2021/6698822
Source DB: PubMed Journal: Int J Endocrinol ISSN: 1687-8337 Impact factor: 3.257
Primers used for PCR.
| Tag SNPs | Primers (forward/reverse) | Extended primers |
|---|---|---|
| rs7220711 | (F) 5'-AGGAGCAGCTGCAAGGAAGACA-3' | (F) 5'-TTTTTTTTTTTTAGTTCCCATTTAGTATAAAAGCTGGCTC-3' |
| (R) 5'-CCACCCTAGGCCCTGAAATAGC-3' | ||
| rs1513670 | (F) 5'-TGGCAACAGTGGCAGCTACAA-3' | (F) 5'-GCCCCACATGCCAGGACAC-3' |
| (R) 5'-TCTAATGCTCCCCATTCCTCTCC-3' | ||
| rs865429 | (F) 5'-GGAATGAGGCAAGGTTGGGACT-3' | (R) 5'-TTTTTTTTTCCTGCAGTGTGCATTGCCCA-3' |
| (R) 5'-TGGGGGACAGATCTCCACAAAG-3' | ||
| rs851057 | (F) 5'-GCCTTGGCCCTGCATATAATGA-3' | (R) 5'-TTTTTTTTTTTTTTTTTTTTTTTTTTTCCCCCACGCCTCTACCTGC-3' |
| (R) 5'-AGGATCTGGGCAGCCTCTTCAC-3' | ||
| rs2023794 | (F) 5'-CCTTCAGGGCAGATGAAAACAGC-3' | (F) 5'-TTTTTTTTTTTTGATGAAAACAGCTGTGGCCATTGT-3' |
| (R) 5'-GCAAGAAGGCAGTCGTCTGGTC-3' | ||
| rs851058 | (F) 5'-CCAGCAGAGCCGGTAGTGTTGT-3' | (R) 5'-TTTTTTTTTTTTTTTTTTTAGGGTCATAGACAAGGGGAGGTGG-3' |
| (R) 5'-GCAAGAAGGCAGTCGTCTGGTC-3' | ||
| rs74252774 | (F) 5'-AAAGGAGGGGTGACTGCAGGAT-3' | (R) 5'-TTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGAAAGGAAAGGAAAGGAAATCACGT-3' |
| (R) 5'-CTGAGCCATTCAGAGGGGTGTG-3' | ||
| rs1708635 | (F) 5'-CGAGGCTGCAGTGAGCCATAC-3' | (R) 5'-TTTTTTTTTTTTTTTTTTTTTTTTTTTGAGAYGGGGTCTCACTCTGTCA-3' |
| (R) 5'-GTTTCGCAAGGTGTTATTGTTGTGG-3' | ||
| rs1634330 | (F) 5'-GGAAGGAGGTGGGCAACAGG-3' | (R) 5'-TGTGCACGCACACAGTAGAGGTTAA-3' |
| (R) 5'-TGACACAATTTACCAATCTTACCCACA-3' | ||
| rs1234612 | (F) 5'-CCCAGCCGATTTTTTTAAACATTGA-3' | (R) 5'-TTTTTTTTATTAAACGTTTGGCGAGTGAACATC-3' |
| (R) 5'-TGGTATGCGAGCTCCTGGAGAG-3' |
Basic characteristics of the subjects (mean ± SD).
| Characteristics | Father ( | Mother ( | Son ( |
|---|---|---|---|
| Age (years) | 60.8 ± 7.1 | 58.2 ± 6.4 | 29.5 ± 6.1 |
| Height (cm) | 167.8 ± 6.0 | 155.8 ± 5.6 | 172.9 ± 6.1 |
| Weight (kg) | 69.5 ± 9.6 | 58.0 ± 8.1 | 70.5 ± 10.3 |
| BMI (kg/m2) | 24.7 ± 3.1 | 23.9 ± 3.0 | 23.6 ± 3.2 |
| Arms FM (kg) | — | — | 1.254 ± 0.718 |
| Trunk FM (kg) | — | — | 9.250 ± 4.275 |
| Legs FM (kg) | — | — | 4.661 ± 1.855 |
| Total FM (kg) | — | — | 15.750 ± 6.734 |
| PFM (%) | — | — | 21.66 ± 7.02 |
| Arms LM (kg) | — | — | 5.778 ± 0.783 |
| Trunk LM (kg) | — | — | 24.264 ± 2.736 |
| Legs LM (kg) | — | — | 17.372 ± 2.206 |
| Total LM (kg) | — | — | 51.364 ± 5.543 |
| PLM (%) | — | — | 73.51 ± 6.74 |
Information of the analyzed SOST tag SNPs.
| Tag SNP | Domain | Polymorphism | Physical position | HWE | MAF in dbSNP (CEU) | MAF in dbSNP (CHB) | MAF in this study |
|---|---|---|---|---|---|---|---|
| rs7220711 | 3' flanking | G/A | 41789965 | 0.827 | G:0.384 | G:0.272 | G:0.297 |
| rs1513670 | 3' flanking | C/T | 41807331 | 0.278 | C:0.616 | C:0.388 | C:0.374 |
| rs865429 | Intron | G/A | 41835215 | 0.953 | G:0.121 | G:0.248 | G:0.278 |
| rs851057 | 5' flanking | C/G | 41837264 | 0.935 | C:0.884 | C:0.364 | C:0.357 |
| rs2023794 | 5' flanking | C/T | 41837660 | 0.242 | C:0.040 | C:0.087 | C:0.074 |
| rs851058 | 5' flanking | A/G | 41837719 | 0.333 | A:0.364 | A:0.364 | A:0.306 |
| rs74252774 | 5' flanking | G/T | 41838012 | 0.415 | G:1.000 | G:0.918 | G:0.934 |
| rs1708635 | 5' flanking | T/A | 41838894 | 0.276 | T:0.606 | T:0.296 | T:0.317 |
| rs1634330 | 5' flanking | C/T | 41839069 | 0.249 | C:0.606 | C:0.296 | C:0.317 |
| rs1234612 | 5' flanking | C/T | 41840802 | 0.406 | C:0.303 | C:0.141 | C:0.169 |
SNP: single-nucleotide polymorphism; HWE: Hardy–Weinberg equilibrium; MAF: minor allele frequency; and dbSNP: SNP database.
Figure 1Linkage disequilibrium (LD) patterns for the SOST gene. The pairwise LD values (D' × 100) of all SNPs are given in each diamond. D' is calculated as D divided by the theoretical maximum for the observed allele frequencies. Bright red filled diamonds without values indicate a D' = 1. One block with high LD was identified. Numbers in bracket indicate the length of the block.
The structure and frequency of SOST haplotypes for all available SNPs.
| Index | rs1513670 | rs1634330 | rs1708635 | rs2023794 | rs7220711 | rs74252774 | rs851057 | rs851058 | Frequency |
|---|---|---|---|---|---|---|---|---|---|
| 1 | T | A | G | T | G | G | A | T | 0.336 |
| 2 | T | G | G | T | G | G | A | T | 0.247 |
| 3 | C | A | C | T | A | G | T | C | 0.224 |
| 4 | C | A | C | C | A | T | T | C | 0.066 |
| 5 | C | A | C | T | G | G | A | T | 0.039 |
| 6 | C | A | G | T | G | G | A | T | 0.037 |
P values of tests for population stratification, total association, and within-family association in SOST tag SNPs using QTDT.
| rs7220711 | rs1513670 | rs865429 | rs851057 | rs2023794 | rs851058 | rs74252774 | rs1708635 | rs1634330 | rs1234612 | |
|---|---|---|---|---|---|---|---|---|---|---|
|
| ||||||||||
| BMI | 0.7074 | 0.6894 | 0.7586 | 0.7587 | 0.8942 | 0.4900 | 0.7200 | 0.4716 | 0.4893 | 0.8076 |
| Arms FM |
|
| 0.2552 | 0.0732 | 0.6766 | 0.6049 | 0.9380 | 0.7242 | 0.7303 | 0.6490 |
| Trunk FM |
|
| 0.1334 | 0.0341 | 0.6383 | 0.4957 | 1.000 | 0.6549 | 0.6644 | 0.4218 |
| Legs FM |
| 0.0580 | 0.0507 | 0.1997 | 0.4166 | 0.7020 | 0.6692 | 0.7908 | 0.8235 | 0.1418 |
| Total FM | 0.1185 | 0.1368 | 1.0000 | 0.0554 | 0.2569 | 1.0000 |
| 1.0000 | 0.8551 | 0.6295 |
| PFM | 0.1153 | 0.3676 | 0.9686 | 0.7228 | 0.6640 | 0.8898 | 0.7927 | 0.9960 | 0.9757 | 0.4735 |
| Arms LM | 0.1239 | 0.4489 | 0.6243 | 0.7506 | 0.9115 | 0.3548 | 0.9985 | 0.4969 | 0.5412 | 0.9973 |
| Trunk LM | 0.5131 | 1.0000 | 0.2753 | 1.0000 | 0.4952 | 1.0000 | 1.0000 | 1.0000 | 0.7838 | 1.0000 |
| Legs LM | 0.1240 | 0.4516 | 0.8182 | 0.9848 | 0.7818 | 0.8764 | 1.0000 | 0.7451 | 0.7795 | 0.8853 |
| Total LM |
| 0.1939 | 0.5489 | 0.7441 | 0.3545 | 0.2245 | 1.0000 | 0.2848 | 0.4609 | 1.0000 |
| PLM | 0.3937 | 0.9953 | 0.7482 | 0.6091 | 0.6667 | 0.8943 | 0.8248 | 0.9387 | 0.9776 | 0.4766 |
|
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| BMI | 0.1142 | 0.2459 | 0.3638 | 0.2068 | 0.4186 | 0.4013 | 0.4467 | 0.4696 | 0.4545 | 0.5933 |
| Arms FM | 0.4535 | 0.0842 | 0.8849 | 0.0968 | 0.7375 | 0.6908 | 0.9506 | 0.5982 | 0.5941 | 0.6581 |
| Trunk FM | 0.4794 |
| 0.5984 |
| 0.6767 | 0.4312 | 0.8598 | 0.3854 | 0.3807 | 0.9208 |
| Legs FM | 0.8614 | 0.1845 | 0.7668 | 0.2279 | 0.8633 | 0.9596 | 0.9311 | 0.8576 | 0.8532 | 0.7517 |
| Total FM | 0.3567 | 0.0697 | 0.6320 | 0.1024 | 1.0000 | 0.7282 | 1.0000 | 0.6995 | 0.6738 | 0.8949 |
| PFM | 0.9585 | 0.2622 | 0.4958 | 0.6412 | 0.9750 | 0.7642 | 0.7684 | 0.9840 | 0.9939 | 0.1933 |
| Arms LM | 0.9474 | 0.3626 | 0.7602 | 0.6595 | 0.7027 | 0.8896 | 0.8348 | 0.7267 | 0.7276 | 0.6528 |
| Trunk LM | 0.5472 | 0.5204 | 1.0000 | 1.0000 | 1.0000 | 0.9470 | 0.7455 | 0.6553 | 0.6528 | 0.2226 |
| Legs LM | 0.9256 | 0.3803 | 0.6209 | 0.7734 | 0.8946 | 1.0000 | 0.9760 | 0.7943 | 0.7841 | 0.2845 |
| Total LM | 0.5000 | 0.1247 | 0.5408 | 0.5108 | 0.9062 | 0.9663 | 0.9218 | 0.5606 | 0.5544 |
|
| PLM | 0.5649 | 0.6311 | 0.5855 | 0.8600 | 1.0000 | 0.7001 | 0.7971 | 0.9627 | 0.9678 | 0.1491 |
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| BMI | 0.2775 | 0.3756 | 0.9067 | 0.3953 | 0.7896 | 0.8153 | 0.5033 | 0.7473 | 0.7760 | 0.6544 |
| Arms FM |
|
| 0.3213 |
| 0.8167 | 0.5253 | 0.9231 | 0.5924 | 0.5958 | 0.8017 |
| Trunk FM |
|
| 0.1091 |
| 0.7916 | 0.3342 | 1.0000 | 0.4481 | 0.4470 | 0.4615 |
| Legs FM |
|
| 0.0556 | 0.0954 | 0.5109 | 0.7119 | 0.6709 | 0.7524 | 0.7790 | 0.2183 |
| Total FM |
|
| 0.2781 |
| 0.6715 | 0.6309 | 1.0000 | 0.6646 | 1.0000 | 1.0000 |
| PFM | 0.2011 | 0.1732 | 0.7028 | 0.5826 | 0.7312 | 0.9657 | 0.7029 | 1.0000 | 0.9755 | 0.2026 |
| Arms LM | 0.2015 | 0.2661 | 0.7754 | 0.6197 | 0.9173 | 0.3837 | 0.9144 | 0.4451 | 0.4820 | 0.6600 |
| Trunk LM | 0.7724 | 0.4325 | 0.6181 | 0.6255 | 0.4947 | 0.6238 | 0.7352 | 0.4396 |
| 0.3835 |
| Legs LM | 0.2007 | 1.0000 | 0.9831 | 0.8793 | 0.8470 | 0.6209 | 0.9872 | 0.6821 | 0.6998 | 0.5455 |
| Total LM | 0.0860 | 0.0588 | 0.6200 | 0.5459 | 0.4581 | 0.2041 | 0.9568 | 0.2234 | 0.2579 | 0.1249 |
| PLM | 0.6961 | 0.8008 | 1.0000 | 0.5987 | 0.7195 | 0.9266 | 0.7445 | 0.9672 | 1.0000 | 0.1814 |
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| BMI | 0.2930 | 0.3870 | 0.9170 | 0.4040 | 0.7880 | 0.8320 | 0.5220 | 0.7390 | 0.7690 | 0.6740 |
| Arms FM | 0.0740 |
| 0.5470 | 0.1040 | 0.8630 | 0.6970 | 0.9530 | 0.7170 | 0.7170 | 0.8840 |
| Trunk FM | 0.1560 |
| 0.2910 | 0.0680 | 0.8010 | 0.5500 | 0.9330 | 0.6450 | 0.6430 | 0.6430 |
| Legs FM | 0.0930 | 0.0890 | 0.1750 | 0.2150 | 0.6300 | 0.8000 | 0.7640 | 0.8260 | 0.8430 | 0.3940 |
| Total FM | 0.1270 | 0.0860 | 0.4170 | 0.1090 | 0.6320 | 0.6410 | 0.7510 | 0.6360 | 0.8170 | 0.8820 |
| PFM | 0.1310 | 0.930 | 0.6530 | 0.5470 | 0.7100 | 0.9670 | 0.6830 | 1.0000 | 0.9730 | 0.1780 |
| Arms LM | 0.2080 | 0.2420 | 0.7770 | 0.630 | 0.9280 | 0.3950 | 0.9230 | 0.4550 | 0.4980 | 0.6880 |
| Trunk LM | 0.7130 | 0.3860 | 0.5700 | 0.5840 | 0.4640 | 0.5890 | 0.7010 | 0.4390 |
| 0.3990 |
| Legs LM | 0.1650 | 0.9920 | 0.9340 | 0.8440 | 0.7990 | 0.6050 | 0.9050 | 0.6580 | 0.6730 | 0.5350 |
| Total LM | 0.3040 | 0.2440 | 0.7130 | 0.6730 | 0.6310 | 0.4560 | 0.8770 | 0.4700 | 0.5040 | 0.4050 |
| PLM | 0.6130 | 0.7240 | 0.9950 | 0.4860 | 0.6710 | 0.8940 | 0.7070 | 0.9540 | 0.9990 | 0.1000 |
BMI: body mass index; QTDT: quantitative transmission disequilibrium test; FM: fat mass; LM: lean mass; PFM: percentage of FM; and PLM: percentage of LM. BMI and body composition phenotype values are adjusted for age. Bold numbers indicate significant p values (p < 0.05).
P values of tests for population stratification, total association, and within-family association in SOST haplotypes using QTDT.
| CACTGGAT | CACTAGTC | CACCATTC | CAGTGGAT | TGGTGGAT | TAGTGGAT | |
|---|---|---|---|---|---|---|
|
| ||||||
| BMI | 0.1345 | 0.7036 | 0.6155 | 0.5591 | 0.8234 | 0.9163 |
| Arms FM | 0.0785 | 0.3957 | 0.2127 | 0.0892 | 0.5264 | 0.0933 |
| Trunk FM | 0.0568 | 0.3232 | 0.2205 | 0.0973 | 0.3628 | 0.0644 |
| Legs FM | 0.2020 | 0.8096 | 0.0718 | 0.0677 | 0.0967 | 0.4443 |
| Total FM |
| 0.5896 | 0.1747 | 0.5626 | 0.0895 | 1.0000 |
| PFM | 0.4952 | 0.7563 | 0.3280 | 0.4137 | 0.9272 | 0.2319 |
| Arms LM | 0.0987 | 0.1793 | 0.4772 | 0.3501 | 0.3760 | 0.1518 |
| Trunk LM |
| 0.0728 | 0.4102 | 0.6748 | 1.0000 | 0.1411 |
| Legs LM | 0.1733 | 0.4275 | 0.4275 | 0.2240 | 0.5944 | 0.2561 |
| Total LM | 0.0730 | 0.0845 | 0.1240 |
| 1.0000 | 0.0531 |
| PLM |
| 0.8282 | 0.4909 | 0.5839 | 0.7417 | 0.6347 |
|
| ||||||
|
| ||||||
| BMI | 0.3953 | 0.6183 | 0.3097 | 0.9612 | 0.3564 | 0.0512 |
| Arms FM |
| 0.3659 | 0.9312 | 0.9970 | 0.7207 | 0.0906 |
| Trunk FM |
| 0.1507 | 0.8193 | 1.0000 | 0.8968 | 0.1262 |
| Legs FM |
| 0.6696 | 0.9652 | 0.7794 | 0.9623 | 0.4744 |
| Total FM |
| 1.0000 | 0.7718 | 0.7693 | 1.0000 | 0.1930 |
| PFM | 0.1041 | 0.7912 | 0.6941 | 0.7276 | 0.8148 | 0.9042 |
| Arms LM | 0.2736 | 0.3777 | 0.5566 | 0.7820 | 0.8393 | 0.7380 |
| Trunk LM | 1.0000 | 1.0000 | 1.0000 | 0.9348 | 1.0000 | 1.0000 |
| Legs LM | 0.2736 | 0.5674 | 0.6738 | 0.7456 | 1.0000 | 0.9580 |
| Total LM |
| 0.2871 | 0.3573 | 1.0000 | 0.8362 | 0.8887 |
| PLM | 0.4696 | 0.9138 | 0.5649 | 0.8140 | 0.8730 | 0.6295 |
|
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| BMI | 0.0857 | 0.9137 | 0.3587 | 0.6015 | 0.5560 | 0.3028 |
| Arms FM |
| 0.2485 | 0.2746 | 0.1440 | 0.6497 | 0.0243 |
| Trunk FM |
| 0.1300 | 0.3120 | 0.2244 | 0.3492 | 0.0193 |
| Legs FM |
| 0.6888 | 0.1074 | 0.1533 | 0.1195 | 0.3160 |
| Total FM |
| 0.3215 | 0.2122 | 0.2295 | 0.6707 | 0.0204 |
| PFM | 0.7896 | 0.6866 | 0.5433 | 0.3850 | 0.9724 | 0.2876 |
| Arms LM | 0.3637 | 0.1087 | 0.7530 | 0.3517 | 0.3786 | 0.1621 |
| Trunk LM | 1.0000 | 0.9068 | 1.0000 | 0.2177 | 1.0000 | 0.0386 |
| Legs LM | 0.4767 | 0.3316 | 0.6029 | 0.2354 | 0.6333 | 1.0000 |
| Total LM | 0.1135 |
| 0.3482 | 0.0748 | 0.6653 | 0.1095 |
| PLM | 0.1585 | 0.8092 | 0.7888 | 0.5596 | 0.8334 | 0.8953 |
|
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| BMI | 0.1220 | 0.9080 | 0.4040 | 0.6430 | 0.5910 | 0.3360 |
| Arms FM | 0.1110 | 0.4720 | 0.5300 | 0.3360 | 0.7690 | 0.1490 |
| Trunk FM | 0.0820 | 0.3350 | 0.5010 | 0.3850 | 0.5280 | 0.1380 |
| Legs FM | 0.0561 | 0.7780 | 0.2460 | 0.2990 | 0.2760 | 0.5090 |
| Total FM | 0.1610 | 0.4870 | 0.4040 | 0.3860 | 0.7330 | 0.1410 |
| PFM | 0.7910 | 0.6150 | 0.4260 | 0.2010 | 0.9630 | 0.2220 |
| Arms LM | 0.4700 | 0.1030 | 0.7530 | 0.5680 | 0.4040 | 0.1880 |
| Trunk LM | 0.8480 | 0.7370 | 0.7420 | 0.1440 | 0.7540 | 0.0850 |
| Legs LM | 0.4440 | 0.2780 | 0.5140 | 0.1030 | 0.5810 | 0.9570 |
| Total LM | 0.4310 | 0.2490 | 0.5320 | 0.1830 | 0.7620 | 0.3440 |
| PLM | 0.1130 | 0.7580 | 0.7230 | 0.5070 | 0.7970 | 0.8850 |
BMI: body mass index; QTDT: quantitative transmission disequilibrium test; FM: fat mass; LM: lean mass; PFM: percentage of FM; and PLM: percentage of LM. BMI and body composition phenotype values are adjusted for age. Bold numbers indicate significant p values (p < 0.05).