TY - JOUR

T1 - Candidate SNP markers of reproductive potential are predicted by a significant change in the affinity of TATA-binding protein for human gene promoters

AU - Chadaeva, Irina V.

AU - Ponomarenko, Petr M.

AU - Rasskazov, Dmitry A.

AU - Sharypova, Ekaterina B.

AU - Kashina, Elena V.

AU - Zhechev, Dmitry A.

AU - Drachkova, Irina A.

AU - Arkova, Olga V.

AU - Savinkova, Ludmila K.

AU - Ponomarenko, Mikhail P.

AU - Kolchanov, Nikolay A.

AU - Osadchuk, Ludmila V.

AU - Osadchuk, Alexandr V.

N1 - Publisher Copyright: © 2018 The Author(s).

PY - 2018/2/9

Y1 - 2018/2/9

N2 - Background: The progress of medicine, science, technology, education, and culture improves, year by year, quality of life and life expectancy of the populace. The modern human has a chance to further improve the quality and duration of his/her life and the lives of his/her loved ones by bringing their lifestyle in line with their sequenced individual genomes. With this in mind, one of genome-based developments at the junction of personalized medicine and bioinformatics will be considered in this work, where we used two Web services: (i) SNP_TATA_Comparator to search for alleles with a single nucleotide polymorphism (SNP) that alters the affinity of TATA-binding protein (TBP) for the TATA boxes of human gene promoters and (ii) PubMed to look for retrospective clinical reviews on changes in physiological indicators of reproductive potential in carriers of these alleles. Results: A total of 126 SNP markers of female reproductive potential, capable of altering the affinity of TBP for gene promoters, were found using the two above-mentioned Web services. For example, 10 candidate SNP markers of thrombosis (e.g., rs563763767) can cause overproduction of coagulation inducers. In pregnant women, Hughes syndrome provokes thrombosis with a fatal outcome although this syndrome can be diagnosed and eliminated even at the earliest stages of its development. Thus, in women carrying any of the above SNPs, preventive treatment of this syndrome before a planned pregnancy can reduce the risk of death. Similarly, seven SNP markers predicted here (e.g., rs774688955) can elevate the risk of myocardial infarction. In line with Bowles' lifespan theory, women carrying any of these SNPs may modify their lifestyle to improve their longevity if they can take under advisement that risks of myocardial infarction increase with age of the mother, total number of pregnancies, in multiple pregnancies, pregnancies under the age of 20, hypertension, preeclampsia, menstrual cycle irregularity, and in women smokers. Conclusions: According to Bowles' lifespan theory-which links reproductive potential, quality of life, and life expectancy-the above information was compiled for those who would like to reduce risks of diseases corresponding to alleles in own sequenced genomes. Candidate SNP markers can focus the clinical analysis of unannotated SNPs, after which they may become useful for people who would like to bring their lifestyle in line with their sequenced individual genomes.

AB - Background: The progress of medicine, science, technology, education, and culture improves, year by year, quality of life and life expectancy of the populace. The modern human has a chance to further improve the quality and duration of his/her life and the lives of his/her loved ones by bringing their lifestyle in line with their sequenced individual genomes. With this in mind, one of genome-based developments at the junction of personalized medicine and bioinformatics will be considered in this work, where we used two Web services: (i) SNP_TATA_Comparator to search for alleles with a single nucleotide polymorphism (SNP) that alters the affinity of TATA-binding protein (TBP) for the TATA boxes of human gene promoters and (ii) PubMed to look for retrospective clinical reviews on changes in physiological indicators of reproductive potential in carriers of these alleles. Results: A total of 126 SNP markers of female reproductive potential, capable of altering the affinity of TBP for gene promoters, were found using the two above-mentioned Web services. For example, 10 candidate SNP markers of thrombosis (e.g., rs563763767) can cause overproduction of coagulation inducers. In pregnant women, Hughes syndrome provokes thrombosis with a fatal outcome although this syndrome can be diagnosed and eliminated even at the earliest stages of its development. Thus, in women carrying any of the above SNPs, preventive treatment of this syndrome before a planned pregnancy can reduce the risk of death. Similarly, seven SNP markers predicted here (e.g., rs774688955) can elevate the risk of myocardial infarction. In line with Bowles' lifespan theory, women carrying any of these SNPs may modify their lifestyle to improve their longevity if they can take under advisement that risks of myocardial infarction increase with age of the mother, total number of pregnancies, in multiple pregnancies, pregnancies under the age of 20, hypertension, preeclampsia, menstrual cycle irregularity, and in women smokers. Conclusions: According to Bowles' lifespan theory-which links reproductive potential, quality of life, and life expectancy-the above information was compiled for those who would like to reduce risks of diseases corresponding to alleles in own sequenced genomes. Candidate SNP markers can focus the clinical analysis of unannotated SNPs, after which they may become useful for people who would like to bring their lifestyle in line with their sequenced individual genomes.

KW - Gene

KW - Keyword-based search

KW - Prediction

KW - Promoter

KW - Reproductive potential

KW - Single nucleotide polymorphism

KW - SNP marker

KW - TATA box

KW - TATA-binding protein

KW - Verification

KW - Cell Line

KW - Genomics

KW - Humans

KW - Reproduction/genetics

KW - Promoter Regions, Genetic/genetics

KW - Genetic Markers/genetics

KW - TATA-Box Binding Protein/metabolism

KW - Polymorphism, Single Nucleotide/genetics

KW - Protein Binding

KW - Female

KW - Internet

KW - POLYCYSTIC-OVARY-SYNDROME

KW - BLOOD-CELL COUNT

KW - PREGNANCY-INDUCED HYPERTENSION

KW - FUNCTIONAL POLYMORPHISM

KW - TRANSCRIPTION FACTOR-BINDING

KW - MYOCARDIAL-INFARCTION

KW - POLYMERASE-II TRANSCRIPTION

KW - HUMAN HEREDITARY-DISEASES

KW - VARIABLE IMMUNE-DEFICIENCY

KW - WEB-BASED TOOL

UR - http://www.scopus.com/inward/record.url?scp=85041802446&partnerID=8YFLogxK

U2 - 10.1186/s12864-018-4478-3

DO - 10.1186/s12864-018-4478-3

M3 - Article

C2 - 29504899

AN - SCOPUS:85041802446

VL - 19

SP - 0

JO - BMC Genomics

JF - BMC Genomics

SN - 1471-2164

IS - Suppl 3

M1 - 0

ER -