| Literature DB >> 34251094 |
Wafa Ziadi1, Sami Boussetta1, Sarra Elkamel1, Andrew J Pakstis2, Kenneth K Kidd2, Imen Medimegh1, Amel Ben Ammar Elgaaied1, Lotfi Cherni1,3.
Abstract
BACKGROUND: Only a few studies have investigated the association of single nucleotide polymorphisms in STAT3 gene with the susceptibility to cancer and response to chemotherapy. Our aim was to determine the allele frequencies of rs3869550, rs957971, and rs7211777 at the STAT3 gene in North African populations and compare them to 1000 genomes populations, and to investigate their relation with cancer.Entities:
Keywords: zzm321990STAT3zzm321990; North Africa; breast cancer; miR-3606-5p; rs7211777
Mesh:
Substances:
Year: 2021 PMID: 34251094 PMCID: PMC8404238 DOI: 10.1002/mgg3.1744
Source DB: PubMed Journal: Mol Genet Genomic Med ISSN: 2324-9269 Impact factor: 2.183
FIGURE 1Localization of the seven North African populations analyzed in this study
FIGURE 2SNPs (rs7211777, rs957971, rs3869550) positions on STAT3
Allelic frequencies in North African populations at 3 SNPs (rs3869550, rs957971, rs7211777) of the STAT3 gene (2n= number of analyzed chromosomes, *ancestral reference allele)
| SNP alleles | Kairouan | Kerkennah | Kesra | Mahdia | Smar | Sousse | Libya |
|---|---|---|---|---|---|---|---|
| rs3869550 | 2n = 80 | 2n = 86 | 2n = 78 | 2n = 86 | 2n = 116 | 2n = 86 | 2n = 118 |
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| rs957971 | 2n = 76 | 2n = 84 | 2n = 84 | 2n = 90 | 2n = 122 | 2n = 92 | 2n = 134 |
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| rs7211777 | 2n = 70 | 2n = 88 | 2n = 84 | 2n = 90 | 2n = 124 | 2n = 92 | 2n = 140 |
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Linkage disequilibrium between pairs of the studied SNPs (rs3869550, rs957971, rs7211777) of the STAT3 gene in North African, African, and European populations
| Population | L1 | L2 | D′ | R2 | Distance basepairs |
|---|---|---|---|---|---|
| Kairouan | rs3869550 | rs957971 | 1.0 | 1.0 | 27,038 |
| rs3869550 | rs7211777 | 1.0 | 1.0 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 1.0 | 14,150 | |
| Kerkennah | rs3869550 | rs957971 | 1.0 | 1.0 | 27,038 |
| rs3869550 | rs7211777 | 0.892 | 0.757 | 41,188 | |
| rs957971 | rs7211777 | 0.944 | 0.77 | 14,150 | |
| Kesra | rs3869550 | rs957971 | 0.935 | 0.875 | 27,038 |
| rs3869550 | rs7211777 | 0.935 | 0.875 | 41,188 | |
| rs957971 | rs7211777 | 0.947 | 0.897 | 14,150 | |
| Mahdia | rs3869550 | rs957971 | 1.0 | 0.907 | 27,038 |
| rs3869550 | rs7211777 | 1.0 | 0.864 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 0.957 | 14,150 | |
| Smar | rs3869550 | rs957971 | 0.963 | 0.896 | 27,038 |
| rs3869550 | rs7211777 | 0.964 | 0.897 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 0.936 | 14,150 | |
| Sousse | rs3869550 | rs957971 | 1.0 | 0.952 | 27,038 |
| rs3869550 | rs7211777 | 0.951 | 0.905 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 0.915 | 14,150 | |
| Libya | rs3869550 | rs957971 | 1.0 | 0.932 | 27,038 |
| rs3869550 | rs7211777 | 0.931 | 0.866 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 0.942 | 14,150 | |
| Africa | rs3869550 | rs957971 | 1.0 | 0.976 | 27,038 |
| rs3869550 | rs7211777 | 0.993 | 0.868 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 0.859 | 14,150 | |
| Europe | rs3869550 | rs957971 | 1.0 | 0.996 | 27,038 |
| rs3869550 | rs7211777 | 1.0 | 0.996 | 41,188 | |
| rs957971 | rs7211777 | 1.0 | 1.0 | 14,150 |
FIGURE 3STAT3 haplotype frequency estimates based on 3 SNPs in 92 populations
FIGURE 4Network of the relationship between the haplotypes constructed by the three SNPs (rs7211777, rs957971, rs3869550) of the STAT3 gene
FIGURE 5The mutated sequence at rs7211777 targeted by mir‐3606‐5p
FIGURE 6(a) Haplotype generated by point mutation, (b) Haplotypes generated by combination
Targeted genes by miR‐3606‐5p in breast cancer (BRCA type) according to ONCOMIR
| Gene | Gene Description | Correlation | Correlation P‐value | Correlation FDR | miRDB Score |
|---|---|---|---|---|---|
| MKL2 | MKL/myocardin‐like 2 | −0.0824 | 1.65e‐02 | 9.46e‐01 | 53 |
| RMND1 | required for meiotic nuclear division 1 homolog (S. cerevisiae) | −0.0822 | 1.69e‐02 | 9.46e‐01 | 83 |
| NFAT5 | nuclear factor of activated T‐cells 5, tonicity‐responsive | −0.0763 | 2.65e‐02 | 9.46e‐01 | 73 |
| MEF2D | Myocyte Enhancer factor 2D | −0.0729 | 3.41e‐02 | 9.46e‐01 | 90 |
| EDNRB | Endothelin Receptor type B | −0.0720 | 3.64e‐02 | 9.46e‐01 | 58 |
| MED12L | Mediator complex subunit 12‐like | −0.0697 | 4.28e‐02 | 9.46e‐01 | 60 |
Linkage disequilibrium between pairs of the SNPs (rs3869550, rs957971, rs7211777, rs3736164, rs4796793) of the STAT3 gene worldwide populations
| All populations | |||||
|---|---|---|---|---|---|
| Rs number | rs3869550 | rs957971 | rs7211777 | rs3736164 | rs4796793 |
| D′ | |||||
| rs3869550 | 1.0 | 0.999 | 0.983 | 1.0 | 0.996 |
| rs957971 | 0.999 | 1.0 | 1.0 | 1.0 | 0.996 |
| rs7211777 | 0.983 | 1.0 | 1.0 | 1.0 | 0.996 |
| rs3736164 | 1.0 | 1.0 | 1.0 | 1.0 | 0.996 |
| rs4796793 | 0.996 | 0.996 | 0.996 | 0.996 | 1.0 |
| R2 | |||||
| rs3869550 | 1.0 | 0.98 | 0.96 | 0.623 | 0.557 |
| rs957971 | 0.98 | 1.0 | 0.976 | 0.635 | 0.567 |
| rs7211777 | 0.96 | 0.976 | 1.0 | 0.619 | 0.553 |
| rs3736164 | 0.623 | 0.635 | 0.619 | 1.0 | 0.894 |
| rs4796793 | 0.557 | 0.567 | 0.553 | 0.894 | 1.0 |