Аннотации статей. Том 60, 2024 г., № 6
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Kucher, A.N., Shipulina, S.A., Goncharova, I.A. et al.
DNA Methylation in Aortic Aneurysms of Different Localizations.
DOI: 10.1134/S1022795424700145
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Puzakova, L.V., Puzakov, M.V. & Puzakova, P.M.
L31 Transposons of Hexacorallia: Distribution, Diversity, and Evolution
DOI: 10.1134/S1022795424700157
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Zhigarev, I.A., Borisov, Y.M.
Dynamic of the B Chromosome System in the Population of the Korean Field Mouse Apodemus peninsulae (Mammalia, Rodentia) in the Northern Region of the Pritelets Taiga of the Altai Mountains over a 36-Year Period.
DOI: 10.1134/S1022795424700169
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Kovalenko, I.L., Galyamina, A.G., Smagin, D.A. et al.
Effects of Chronic Social Stress on the Expression of Neurotransmitter System–Associated Genes in the Hypothalamus of Male Mice.
DOI: 10.1134/S1022795424700170
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Bytov, M.V., Zubareva, V.D., Volskaya, S.V. et al.
Assessing the Genetic Diversity of Five Cattle Breeds Using SNP Markers Associated with Health.
DOI: 10.1134/S1022795424700182
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Moskaev, A.V., Bega, A.G., Panov, V.I. et al.
Chromosomal Polymorphism of Malaria Mosquitoes of Karelia and Expansion of Northern Boundaries of Species Ranges.
DOI: 10.1134/S1022795424700194
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Kazimirov, P.A., Belokon, Y.S., Belokon, M.M. et al.
Genetic Identification of Putative Hybrids between Grey Wolf and Golden Jackal.
DOI: 10.1134/S1022795424700200
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Kharkov, V.N., Kolesnikov, N.A., Zarubin, A.A. et al.
Paleo-Siberian Substrate in the Gene Pool of Koryaks according to Data on Autosomal SNP Polymorphism and Y-Chromosome Haplogroups.
DOI: 10.1134/S1022795424700236
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Veselovskaya, E.V., Rashkovskaya, Y.V., Dyomin, A.S. et al.
Anthropology and Genetics of the Tolyonsky Burial Ground No. 93. Udmurtia, Polomskaya Archaeological Culture.
DOI: 10.1134/S1022795424700248
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Kiselev, I.S., Kozin, M.S., Baulina, N.M. et al.
The Novel Frameshift Variant of the MYBPC3 Gene Associated with Hypertrophic Cardiomyopathy Significantly Decreases the Level of This Gene Transcript in the Myocardium.
DOI: 10.1134/S102279542470025X
Translated version (Russ J Genet. Volume 60, issue 6, 2024):
Moiseeva, E.M., Fadeev, V.V., Fadeeva, Y.V. et al.
Analysis of the Effectiveness of CRISPR/Cas9-Editing of the GEX2 Gene by Ribonucleoprotein Complexes in Maize Protoplasts.
DOI: 10.1134/S1022795424700285
Статьи, опубликованные только в Russian J. of Genetics, № 6 – 2024 г.
The Complete Mitochondrial Genome of the Mashen Pig (Sus scrofa)
1 Institute of Applied Biotechnology, College of Agronomy and Life Science, Shanxi Datong University, 037009, Datong, China
2 Datong North Four Seasons Pasture Food Co., Ltd., 038106, Datong, China
Correspondence to H. Bai
Mashen pig (Sus scrofa) is one of the famous local breeds in China. In this study, we sequenced and reported the complete mitochondrial genome of the Mashen pig. The complete mitogenome sequence is 16 649 bp in length, containing those typical complement of 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNAs, and a non-coding control region. Our new sequenced complete mitogenome of the Mashen pig will provide valuable information for the application to conservation genetics and evolutionary studies for Chinese local pig breeds.
DOI: 10.1134/S1022795424700212
К статье на сайте SpringerLink
Genomic Microsatellite Mining and Characteristic Analysis of Gobiidae Fish
The Key Laboratory of Mariculture (Ocean University of China), Ministry of Education, 266003, Qingdao, Shandong, China
Correspondence to N. Song
Microsatellites or single sequence repeats (SSRs) are widespread in the genome of eukaryotes and prokaryotes, and are usually used for studying genetic diversity and constructing the genetic map. The distribution characteristics and effective markers of microsatellites in the Gobiidae family were still unclearly. In this study, genomes of 16 Gobiidae fish were downloaded from the National Center for Biotechnology Information (NCBI) and Ensembl Genomes databases which were analyzed by bioinformatics. The content of microsatellites for Gobiidae fish occurred differently and the coverage degree varied from 0.12 to 2.36%. The total number of microsatellites ranged from 288 730 to 846 829 and the total sequence length ranged from 515577 to 1561092. The mononucleotide repeats were the most common types in the microsatellites for 13 Gobiidae fish, but dinucleotide repeats were most common for Acanthogobius ommaturus, Chaenogobius annularis and Eucyclogobius newberryi. Moreover, the frequency of microsatellite motifs varied in Gobiidae fish. Within the dinucleotide repeats, the AC/GT was the most abundant microsatellite of 13 Gobiidae fish, while the most dinucleotide repeat was AG/CT of Lythrypnus dalli, Lesueurigobius sanzi and Rhinogobius similis. Our study suggested that the distribution and characteristics of microsatellites are various in these Gobiidae genomes, which may be related to the genome diversity of Gobiidae. The data could not only provide new insights into the studies of genetic evolution but also provide powerful support for the development of more microsatellites of Gobiidae.
DOI: 10.1134/S1022795424700224
К статье на сайте SpringerLink
Identification of miRNA-Target Gene-Transcription Factor Regulatory Network as Functional Motifs Involved in Glomerular Diabetic Nephropathy
1 Men’s Health and Reproductive Health Research Center, Shahid Beheshti University of Medical Sciences, Tehran, Iran
2 Department of Cell and Molecular Biology, University of Shiraz, Shiraz, Iran
3 Islamic Azad University, Tehran Medical Branch, Tehran, Iran
4 Department of Tissue Engineering and Applied Cell Sciences, School of Advanced Technologies in Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
5 Proteomics Research Center, Shahid Beheshti University of Medical Sciences, Tehran, Iran
Correspondence to H. Zali
The gene regulatory approach based on retrieving information from the database provides a detailed characterization of the molecular mechanisms of disease progression at the level of miRNAs, Transcription Factors (TFs), and genes. Moreover, gene regulatory networks can find an interaction between the miRNAs, TFs, and genes involved in diabetic nephropathy (DN), but the underlying mechanisms of motif remain unclear. We first gathered genes related to glomeruli diabetic nephropathy from GEO and CTD database. Besides, miRNAs targeting genes were collected from the public databases and GEO. Furthermore, regulator TFs were accumulated from related public databases. After that, we explored the regulatory relationships between TF-miRNA, miRNA-Gene, TF-Gene, and miRNA–TF using FANMOD software. Finally, a gene regulatory network consisting of miRNAs, genes, and TFs was constructed, helping the Cytoscape. The global const parameter in FANMOD software used to discover the interaction between miRNAs, genes, TFs, and 3-node regulatory motif types were detected in the resulting network. Among them, it led to the discovery of the two-node feedback motif (2FB) in charge of the up-regulation of miRNA-target gene-TF and TF-mediated cascade motif and co-pointing motif (COP) responsible for the down-regulation of miRNA-target gene–TF. In this study, we found a correlation between miRNAs, TFs, and target genes using a gene regulatory network. We revealed the candidate 3-node motifs associated with the progression of DN. Therefore, detected molecular mechanisms, as well as the relationship between previous studies, demonstrated targets that can help in the discovery of a novel treatment for DN.
DOI: 10.1134/S1022795424700261
К статье на сайте SpringerLink
Bioinformatics Analysis of Non-Synonymous Single Nucleotide Polymorphisms in Human Adk Gene
School of Biology, Damghan University, 36716-41167, Damghan, Iran
Correspondence to P. Farrokh
Adenosine kinase (ADK) controls adenosine levels. Abnormal concentration of adenosine lead to multiple disorders in humans. In this study, the effect of non-synonymous single nucleotide polymorphisms (nsSNPs) in human Adk was evaluated on the structure and function of long and short ADK isoforms (ADK-L and ADK-S) using computational tools. Of the 244 coding nsSNPs retrived in Adk, 66 amino acid changes were deleterious by at least five tools: SIFT, PhD-SNP, SNPs&GO, SuSPect, SNAP2, FATHMM, and PolyPhen-2. I-Mutant 2.0 and MUpro showed that among them, 26 substitutions had a strong destabilizing effect on both ADK isoforms. The conserved region and secondary structure of ADK isoforms were predicted by the ConSurf and NetSurfP-3.0 servers, respectively. The HOPE server displayed that 11 nsSNPs, due to the change in amino acid properties, had adverse effects on ADK isoforms. Docking analysis showed that L151 and F218 in ADK-L and their corresponding residues in ADK-S are located in the ligand-binding site and their mutations changed the cavity structure or ligand binding affinity. In conclusion, this study, by using computational methods, identified 11 harmful nsSNPs in human Adk. These predictive results facilitate the association of these nsSNPs with disease susceptibility in population studies.
DOI: 10.1134/S1022795424700273
К статье на сайте SpringerLink