Research output: Contribution to journal › Article › peer-review
A bioinformatics model of human diseases on the basis of differentially expressed genes (Of domestic versus wild animals) that are orthologs of human genes associated with reproductive‐potential changes. / Vasiliev, Gennady; Chadaeva, Irina; Rasskazov, Dmitry et al.
In: International Journal of Molecular Sciences, Vol. 22, No. 5, 2346, 01.03.2021, p. 1-17.Research output: Contribution to journal › Article › peer-review
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TY - JOUR
T1 - A bioinformatics model of human diseases on the basis of differentially expressed genes (Of domestic versus wild animals) that are orthologs of human genes associated with reproductive‐potential changes
AU - Vasiliev, Gennady
AU - Chadaeva, Irina
AU - Rasskazov, Dmitry
AU - Ponomarenko, Petr
AU - Sharypova, Ekaterina
AU - Drachkova, Irina
AU - Bogomolov, Anton
AU - Savinkova, Ludmila
AU - Ponomarenko, Mikhail
AU - Kolchanov, Nikolay
AU - Osadchuk, Alexander
AU - Oshchepkov, Dmitry
AU - Osadchuk, Ludmila
N1 - Funding Information: Manuscript writing was supported by Russian government project #0259?2021?0009 (for M.P.). The data curation was supported by project #28.12487.2018/12.1 from the Ministry of Science and Higher Education of the Russian Federation (for G.V.). The conceptualization and supervision of the investigation were supported by the Russian Federal Science & Technology Program for the Development of Genetic Technologies (for N.K., D.R., P.P., I.C., E.S., I.D., L.S., and D.O.). The methodology and software development were supported by project #19?15?00075 from the Russian Science Foundation (for A.O., L.O., and A.B.). We are grateful to Nikolai Shevchuk (Shevchuk Editing Co., Brooklyn, NY, USA) for useful discussions of the work and assistance in adapting it to the requirements of the English language for scientific publications. Publisher Copyright: © 2021 by the author. Licensee MDPI, Basel, Switzerland. Copyright: Copyright 2021 Elsevier B.V., All rights reserved.
PY - 2021/3/1
Y1 - 2021/3/1
N2 - Earlier, after our bioinformatic analysis of single‐nucleotide polymorphisms of TATA-binding protein‐binding sites within gene promoters on the human Y chromosome, we suggested that human reproductive potential diminishes during self‐domestication. Here, we implemented bioinformatics models of human diseases using animal in vivo genome‐wide RNA‐Seq data to com-pare the effect of co‐directed changes in the expression of orthologous genes on human reproductive potential and during the divergence of domestic and wild animals from their nearest common an-cestor (NCA). For example, serotonin receptor 3A (HTR3A) deficiency contributes to sudden death in pregnancy, consistently with Htr3a underexpression in guinea pigs (Cavia porcellus) during their divergence from their NCA with cavy (C. aperea). Overall, 25 and three differentially expressed genes (hereinafter, DEGs) in domestic animals versus 11 and 17 DEGs in wild animals show the direction consistent with human orthologous gene‐markers of reduced and increased reproductive potential. This indicates a reliable association between DEGs in domestic animals and human orthologous genes reducing reproductive potential (Pearson’s χ2 test p < 0.001, Fisher’s exact test p <0.05, binomial distribution p < 0.0001), whereas DEGs in wild animals uniformly match human orthologous genes decreasing and increasing human reproductive potential (p > 0.1; binomial dis-tribution), thus enforcing the norm (wild type).
AB - Earlier, after our bioinformatic analysis of single‐nucleotide polymorphisms of TATA-binding protein‐binding sites within gene promoters on the human Y chromosome, we suggested that human reproductive potential diminishes during self‐domestication. Here, we implemented bioinformatics models of human diseases using animal in vivo genome‐wide RNA‐Seq data to com-pare the effect of co‐directed changes in the expression of orthologous genes on human reproductive potential and during the divergence of domestic and wild animals from their nearest common an-cestor (NCA). For example, serotonin receptor 3A (HTR3A) deficiency contributes to sudden death in pregnancy, consistently with Htr3a underexpression in guinea pigs (Cavia porcellus) during their divergence from their NCA with cavy (C. aperea). Overall, 25 and three differentially expressed genes (hereinafter, DEGs) in domestic animals versus 11 and 17 DEGs in wild animals show the direction consistent with human orthologous gene‐markers of reduced and increased reproductive potential. This indicates a reliable association between DEGs in domestic animals and human orthologous genes reducing reproductive potential (Pearson’s χ2 test p < 0.001, Fisher’s exact test p <0.05, binomial distribution p < 0.0001), whereas DEGs in wild animals uniformly match human orthologous genes decreasing and increasing human reproductive potential (p > 0.1; binomial dis-tribution), thus enforcing the norm (wild type).
KW - Animal model of human disease
KW - Differentially expressed gene
KW - Domestication
KW - In vivo verifi-cation
KW - Reproductive potential
KW - RNA‐seq
UR - http://www.scopus.com/inward/record.url?scp=85101526363&partnerID=8YFLogxK
UR - https://www.mendeley.com/catalogue/e6bd1e57-d7ef-3a53-a54d-a8139628cfdd/
U2 - 10.3390/ijms22052346
DO - 10.3390/ijms22052346
M3 - Article
C2 - 33652917
AN - SCOPUS:85101526363
VL - 22
SP - 1
EP - 17
JO - International Journal of Molecular Sciences
JF - International Journal of Molecular Sciences
SN - 1661-6596
IS - 5
M1 - 2346
ER -
ID: 28014086