Pub Date : 2024-04-08DOI: 10.1134/s1022795424030074
N. V. Kovalyuk, A. E. Volchenko, E. V. Shiryaeva, L. I. Yakusheva, Yu. Yu. Shakhnazarova
Abstract
During studies using molecular biological methods, 3000 cow blood samples of the Ayrshire, Holstein, and Jersey breeds from the herds of Krasnodar and Stavropol krais were genotyped by the loci BM1818, BM1824, BM2113, ETH10, ETH225, ETH3, INRA023, SPS115, TGLA126, TGLA122, TGLA227, TGLA53, CSN2 (rs43703011), and CSN3 (rs43703016). On average, the frequency of occurrence of homozygous genotypes for 12 microsatellite loci in Jersey cattle was 0.38; in Holstein and Ayrshire cattle, it was 0.30 and 0.27, respectively; the highest allelic diversity was found in Holstein cattle (9.0 ± 1.7 alleles per locus). It should be noted that there are significant differences in the genetic profile of Ayrshire cattle. For Ayrshire animals, the following allelic variants turned out to be typical (but rare in Jersey and Holstein cattle): 270 of the locus BM1818, 137 of the locus BM2113, 213 of the locus ETH10, 119 of the locus ETH3, 142 of the locus ETH225, 87 of the locus TGLA227, 166 of the locus TGLA53. In the studied subpopulation of Jersey cattle, the frequency of occurrence of the A2A2 genotype of the CSN2 locus (rs43703011) (beta casein) was 0.68, and in the Ayrshire and Holstein groups, it was only 0.25 and 0.31, respectively. The BB genotype of the CSN3 locus (rs43703016) (casein kappa) was found in the Jersey group of animals with a frequency of 0.76, and in Ayrshires and Holsteins, it was 0.04 and 0.15, respectively. The genotyped groups of Jersey, Ayrshire, and Holstein animals are significant in volume; we assume that the identified patterns are typical of cattle of these breeds in the south of Russia. We believe that the data obtained can be used in the future in practical work on classifying certain groups of livestock as typical Holstein, Ayrshire, or Jersey and when creating herds that produce milk of a certain type (for example, type A2 milk).
{"title":"Structure of Subpopulations of Ayrshire, Holstein, and Jersey Cattle in the Southern Regions of Russia by CSN2 (rs43703011), CSN3 (rs43703016), and Microsatellite Loci (BM1818, BM1824, BM2113, ETH10, ETH225, ETH3, INRA023, SPS115, TGLA126, TGLA122, TGLA227, TGLA53)","authors":"N. V. Kovalyuk, A. E. Volchenko, E. V. Shiryaeva, L. I. Yakusheva, Yu. Yu. Shakhnazarova","doi":"10.1134/s1022795424030074","DOIUrl":"https://doi.org/10.1134/s1022795424030074","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>During studies using molecular biological methods, 3000 cow blood samples of the Ayrshire, Holstein, and Jersey breeds from the herds of Krasnodar and Stavropol krais were genotyped by the loci <i>BM1818</i>, <i>BM1824</i>, <i>BM2113</i>, <i>ETH10</i>, <i>ETH225</i>, <i>ETH3</i>, <i>INRA023</i>, <i>SPS115</i>, <i>TGLA126</i>, <i>TGLA122</i>, <i>TGLA227</i>, <i>TGLA53</i>, <i>CSN2</i> (rs43703011), and <i>CSN3</i> (rs43703016). On average, the frequency of occurrence of homozygous genotypes for 12 microsatellite loci in Jersey cattle was 0.38; in Holstein and Ayrshire cattle, it was 0.30 and 0.27, respectively; the highest allelic diversity was found in Holstein cattle (9.0 ± 1.7 alleles per locus). It should be noted that there are significant differences in the genetic profile of Ayrshire cattle. For Ayrshire animals, the following allelic variants turned out to be typical (but rare in Jersey and Holstein cattle): 270 of the locus <i>BM1818</i>, 137 of the locus <i>BM2113</i>, 213 of the locus <i>ETH10</i>, 119 of the locus <i>ETH3</i>, 142 of the locus <i>ETH225</i>, 87 of the locus <i>TGLA227</i>, 166 of the locus <i>TGLA53</i>. In the studied subpopulation of Jersey cattle, the frequency of occurrence of the <i>A2A2</i> genotype of the <i>CSN2</i> locus (rs43703011) (beta casein) was 0.68, and in the Ayrshire and Holstein groups, it was only 0.25 and 0.31, respectively. The <i>BB</i> genotype of the <i>CSN3</i> locus (rs43703016) (casein kappa) was found in the Jersey group of animals with a frequency of 0.76, and in Ayrshires and Holsteins, it was 0.04 and 0.15, respectively. The genotyped groups of Jersey, Ayrshire, and Holstein animals are significant in volume; we assume that the identified patterns are typical of cattle of these breeds in the south of Russia. We believe that the data obtained can be used in the future in practical work on classifying certain groups of livestock as typical Holstein, Ayrshire, or Jersey and when creating herds that produce milk of a certain type (for example, type A2 milk).</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"13 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580640","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s102279542403013x
N. A. Surin, L. N. Shevtsova, N. S. Kozulina, Yu. M. Borisov
Abstract
The article discusses and summarizes the results of studies of polymorphism of hordeins (HRD) of spring barley by electrophoresis at the Krasnoyarsk Research Institute of Agriculture for the period from 1988 to 2021. The analysis of the dynamics of the genetic diversity of barley varieties from the ecological and breeding nurseries of the Krasnoyarsk Research Institute of Agriculture released and approved for use in Krasnoyarsk krai showed a significant narrowing of the frequency of occurrence and the loss of a number of alleles characteristic of the conditions of Yenisei Siberia and the appearance of rare variants for the Siberian region. On the basis of long-term observations of the composition of hordeins of breeding samples (promising and rejection) created in different areas of breeding, a number of alleles were found to be associated with economically valuable traits.
{"title":"Variability of Genetic Diversity of Spring Barley by Hordein-Coding Locus over a 40-Year Period of Scientific Breeding in Krasnoyarsk Krai","authors":"N. A. Surin, L. N. Shevtsova, N. S. Kozulina, Yu. M. Borisov","doi":"10.1134/s102279542403013x","DOIUrl":"https://doi.org/10.1134/s102279542403013x","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>The article discusses and summarizes the results of studies of polymorphism of hordeins (HRD) of spring barley by electrophoresis at the Krasnoyarsk Research Institute of Agriculture for the period from 1988 to 2021. The analysis of the dynamics of the genetic diversity of barley varieties from the ecological and breeding nurseries of the Krasnoyarsk Research Institute of Agriculture released and approved for use in Krasnoyarsk krai showed a significant narrowing of the frequency of occurrence and the loss of a number of alleles characteristic of the conditions of Yenisei Siberia and the appearance of rare variants for the Siberian region. On the basis of long-term observations of the composition of hordeins of breeding samples (promising and rejection) created in different areas of breeding, a number of alleles were found to be associated with economically valuable traits.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"49 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580728","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s1022795424030050
S. V. Beketov, G. R. Svishcheva, V. P. Upelniek, S. A. Senator, S. B. Kuznetsov, E. A. Nikolaeva, Yu. A. Stolpovsky
Abstract
Comparative genotyping of a population of zeboid cattle (Bos taurus × Bos indicus) and eight populations of B. taurus breeds, including six domestic breeds (the Kholmogory, Yaroslavl, Red Gorbatov, Kostroma, Tagil, and Gray Ukrainian) and two transboundary European breeds (Holstein and Brown Swiss), has been conducted using 14 STR markers (BM1824, BM2113, CSRM60, CSSM66, ETH3, ETH10, ETH225, ILSTS006, INRA023, SPS115, TGLA53, TGLA122, TGLA126, and TGLA227). A total of 562 individuals were examined. On the basis of the results of the STR analysis, it was found that all population samples of B. taurus were characterized by an average allelic richness AR = 4.87–6.7 and a fairly high level of genetic variability HE = 0.69–0.76 with a slight predominance of random matings FIS = –0.1–0.0. In zeboid cattle, the corresponding indicators were AR = 5.96, HE = 0.72, and FIS = –0.0278. At the same time, differences in the genetic structure of the B. taurus breeds under consideration were largely determined by population demographic fluctuations, and the genetic and the phenotypic heterogeneity detected in the population of zeboid cattle were determined by a decrease in the effect of artificial selection.
{"title":"Comparative Microsatellite Analysis of Zeboid Cattle with Breeds of Bos taurus","authors":"S. V. Beketov, G. R. Svishcheva, V. P. Upelniek, S. A. Senator, S. B. Kuznetsov, E. A. Nikolaeva, Yu. A. Stolpovsky","doi":"10.1134/s1022795424030050","DOIUrl":"https://doi.org/10.1134/s1022795424030050","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Comparative genotyping of a population of zeboid cattle (<i>Bos taurus</i> × <i>Bos indicus</i>) and eight populations of <i>B. taurus</i> breeds, including six domestic breeds (the Kholmogory, Yaroslavl, Red Gorbatov, Kostroma, Tagil, and Gray Ukrainian) and two transboundary European breeds (Holstein and Brown Swiss), has been conducted using 14 STR markers (<i>BM1824</i>, <i>BM2113</i>, <i>CSRM60</i>, <i>CSSM66</i>, <i>ETH3</i>, <i>ETH10</i>, <i>ETH225</i>, <i>ILSTS006</i>, <i>INRA023</i>, <i>SPS115</i>, <i>TGLA53</i>, <i>TGLA122</i>, <i>TGLA126</i>, and <i>TGLA227</i>). A total of 562 individuals were examined. On the basis of the results of the STR analysis, it was found that all population samples of <i>B. taurus</i> were characterized by an average allelic richness <i>A</i><sub>R</sub> = 4.87–6.7 and a fairly high level of genetic variability <i>H</i><sub>E</sub> = 0.69–0.76 with a slight predominance of random matings <i>F</i><sub>IS</sub> = –0.1–0.0. In zeboid cattle, the corresponding indicators were <i>A</i><sub>R</sub> = 5.96, <i>H</i><sub>E</sub> = 0.72, and <i>F</i><sub>IS</sub> = –0.0278. At the same time, differences in the genetic structure of the <i>B. taurus</i> breeds under consideration were largely determined by population demographic fluctuations, and the genetic and the phenotypic heterogeneity detected in the population of zeboid cattle were determined by a decrease in the effect of artificial selection.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"55 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580969","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s1022795424030062
S. A. Borovaya, A. G. Klykov, N. G. Boginskaya
Abstract
The paper evaluates four ISSR markers (М1, М2, М7, and М11) for their effectiveness in research on the genetic distances of regenerated Fagopyrum esculentum plants, which were obtained in vitro on selective media with high doses of ZnSO4·7 H2O (808–1313 mg/L). The level of polymorphism was determined to be high in the combined sample (74.4%). The obtained specimens might be used in the breeding of new varieties with economically important traits.
{"title":"Аnalyzing Buckwheat Genotypes Obtained on Selective Media with Zinc In Vitro Using ISSR Markers","authors":"S. A. Borovaya, A. G. Klykov, N. G. Boginskaya","doi":"10.1134/s1022795424030062","DOIUrl":"https://doi.org/10.1134/s1022795424030062","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>The paper evaluates four ISSR markers (М1, М2, М7, and М11) for their effectiveness in research on the genetic distances of regenerated <i>Fagopyrum esculentum</i> plants, which were obtained in vitro on selective media with high doses of ZnSO<sub>4</sub>·7 H<sub>2</sub>O (808–1313 mg/L). The level of polymorphism was determined to be high in the combined sample (74.4%). The obtained specimens might be used in the breeding of new varieties with economically important traits.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"46 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580638","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s1022795424030116
T. V. Pankova, M. N. Lomonosova, O. V. Vaulin, A. Yu. Korolyuk, E. A. Korolyuk, D. N. Shaulo, B. Osmonali
Abstract
The cytogeography of the polyploid complex Bassia prostrata s. l. was studied by flow cytometry (FCM) on material from 39 populations in Armenia, Kazakhstan, and Russia. On the basis of the determination of the DNA content in the nuclei (2C-value), three cytotypes were identified: diploid (2n = 18), tetraploid (2n = 36), and hexaploid (2n = 54). Verification of the ploidy level determined by DNA content was carried out by parallel direct counting of the chromosome number. Most of the studied populations are represented by a single cytotype; in three populations, mixed ploidy is noted, when tetraploids or hexaploids are found along with diploids. The genetic isolation of chloroplast DNA of diploid and polyploid cytotypes was revealed. Presumable variants of the evolutionary relationship of cytotypes are shown on the basis of cpDNA restriction spectra.
摘要 通过流式细胞仪（FCM）对来自亚美尼亚、哈萨克斯坦和俄罗斯 39 个种群的材料进行了多倍体复合体 Bassia prostrata s. l.的细胞地理学研究。根据细胞核中 DNA 含量（2C 值）的测定，确定了三种细胞型：二倍体（2n = 18）、四倍体（2n = 36）和六倍体（2n = 54）。根据 DNA 含量确定的倍性水平是通过平行直接计算染色体数目来验证的。所研究的大多数种群都是单一细胞型；在三个种群中发现了混合倍性，即四倍体或六倍体与二倍体同时存在。二倍体和多倍体细胞型叶绿体 DNA 的遗传分离得到了揭示。根据 cpDNA 限制性谱图，推测了细胞型进化关系的变体。
{"title":"Cytogeography of the Polyploid Complex Bassia prostrata s. l. (Chenopodiaceae) Based on Genome Size Analysis and PCR-RFLP cpDNA","authors":"T. V. Pankova, M. N. Lomonosova, O. V. Vaulin, A. Yu. Korolyuk, E. A. Korolyuk, D. N. Shaulo, B. Osmonali","doi":"10.1134/s1022795424030116","DOIUrl":"https://doi.org/10.1134/s1022795424030116","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>The cytogeography of the polyploid complex <i>Bassia prostrata</i> s. l. was studied by flow cytometry (FCM) on material from 39 populations in Armenia, Kazakhstan, and Russia. On the basis of the determination of the DNA content in the nuclei (2C-value), three cytotypes were identified: diploid (<i>2n</i> = 18), tetraploid (2<i>n</i> = 36), and hexaploid (2<i>n</i> = 54). Verification of the ploidy level determined by DNA content was carried out by parallel direct counting of the chromosome number. Most of the studied populations are represented by a single cytotype; in three populations, mixed ploidy is noted, when tetraploids or hexaploids are found along with diploids. The genetic isolation of chloroplast DNA of diploid and polyploid cytotypes was revealed. Presumable variants of the evolutionary relationship of cytotypes are shown on the basis of cpDNA restriction spectra.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"30 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580639","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s1022795424030086
L. A. Lavrenchenko, A. R. Gromov, A. A. Martynov, D. S. Kostin, V. A. Komarova, D. M. Krivonogov, E. V. Cherepanova
Abstract
Patterns of introgression of several genetic markers across the hybrid zone between allied species of the common vole Microtus arvalis s. str. and M. obscurus was studied in four of its sections: in northwest Nizhny Novgorod oblast, east Vladimir and southwest Nizhny Novgorod oblasts, south Lipetsk oblast, and northwest Voronezh oblast. Analysis of the clinal variability for three molecular genetic markers (cytb, tp53, SMCY11) and for karyotypes showed a structural similarity between the “Vladimir–Nizhny Novgorod,” “Nizhny Novgorod,” and “Voronezh” sections. The maximum width was shown for the cytb cline; the minimum width was shown for the SMCY11 cline; the tp53 cline and chromosomal cline occupy an intermediate position for this parameter. Furthermore, in these transects, the center of the cline for the cytb is shifted southeastward (into the distribution range of M. obscurus) from the centers of three other clines. The revealed asymmetric introgression of mitochondrial genome from M. arvalis to M. obscurus may be explained by the fact that the hybrid zone was formed as a result of invasion of M. obscurus into the range of M. arvalis. The “Lipetsk” transect differs from the three above-mentioned transects in very narrow clines with nearly coinciding centers. Such characteristics of the “Lipetsk” transect are obviously caused by localization of the hybrid zone in this section along Voronezh River. The obtained results led us to suppose that the structure of the studied hybrid zone is determined mainly by coincidence (or noncoincidence) of its center with local physical barriers.
摘要 在下诺夫哥罗德州西北部、弗拉基米尔州东部和下诺夫哥罗德州西南部、利佩茨克州南部和沃罗涅日州西北部的四个地段研究了普通田鼠Microtus arvalis s.str.和M. obscurus同种杂交区中几个遗传标记的引入模式。对三个分子遗传标记（cytb、tp53、SMCY11）和核型的支系变异性分析表明，"弗拉基米尔-下诺夫哥罗德"、"下诺夫哥罗德 "和 "沃罗涅日 "切片之间在结构上具有相似性。细胞克隆的宽度最大；SMCY11克隆的宽度最小；tp53克隆和染色体克隆在这一参数上处于中间位置。此外，在这些横断面上，cytb cline 的中心从其他三个 cline 的中心向东南偏移（进入 M. obscurus 的分布范围）。所揭示的线粒体基因组从 M. arvalis 向 M. obscurus 的非对称导入可能是由于 M. obscurus 入侵 M. arvalis 的分布区而形成的杂交区。利佩茨克 "横断面与上述三个横断面的不同之处在于，它的支系非常狭窄，中心几乎重合。利佩茨克 "横断面的这种特征显然是由于杂交区位于沃罗涅日河沿岸的这一地段造成的。根据所获得的结果，我们认为所研究的杂交区的结构主要是由其中心与当地物理屏障的重合（或不重合）决定的。
{"title":"Structure of the Hybrid Zone between Allied Species of the Common Vole, Microtus arvalis and M. obscurus: Influence of Genetic Factors and Landscape-Geographical Conditions","authors":"L. A. Lavrenchenko, A. R. Gromov, A. A. Martynov, D. S. Kostin, V. A. Komarova, D. M. Krivonogov, E. V. Cherepanova","doi":"10.1134/s1022795424030086","DOIUrl":"https://doi.org/10.1134/s1022795424030086","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Patterns of introgression of several genetic markers across the hybrid zone between allied species of the common vole <i>Microtus arvalis</i> s. str. and <i>M. obscurus</i> was studied in four of its sections: in northwest Nizhny Novgorod oblast, east Vladimir and southwest Nizhny Novgorod oblasts, south Lipetsk oblast, and northwest Voronezh oblast. Analysis of the clinal variability for three molecular genetic markers (<i>cytb</i>, <i>tp53</i>, <i>SMCY11</i>) and for karyotypes showed a structural similarity between the “Vladimir–Nizhny Novgorod,” “Nizhny Novgorod,” and “Voronezh” sections. The maximum width was shown for the <i>cytb</i> cline; the minimum width was shown for the <i>SMCY11</i> cline; the <i>tp53</i> cline and chromosomal cline occupy an intermediate position for this parameter. Furthermore, in these transects, the center of the cline for the <i>cytb</i> is shifted southeastward (into the distribution range of <i>M. obscurus</i>) from the centers of three other clines. The revealed asymmetric introgression of mitochondrial genome from <i>M. arvalis</i> to <i>M. obscurus</i> may be explained by the fact that the hybrid zone was formed as a result of invasion of <i>M. obscurus</i> into the range of <i>M. arvalis</i>. The “Lipetsk” transect differs from the three above-mentioned transects in very narrow clines with nearly coinciding centers. Such characteristics of the “Lipetsk” transect are obviously caused by localization of the hybrid zone in this section along Voronezh River. The obtained results led us to suppose that the structure of the studied hybrid zone is determined mainly by coincidence (or noncoincidence) of its center with local physical barriers.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"319 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580636","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-04-08DOI: 10.1134/s1022795424030165
H. Xu, J. Zhao, T. Zhang, Y. Gao, C. Shi
Abstract
Cervical cancer is a serious threat to women’s health. The aim of this study was to provide new insights into the mechanism of cervical cancer by constructing immune-related prognostic model and ceRNA network. The mRNA and circRNA datasets of cervical cancer were downloaded from NCBI GEO database. Wilcox.test was used to screen the differential immune cells between cervical cancer patients and normal participants. WGCNA was performed for identification immune related genes. A circRNA-lncRNA-mRNA network was constructed and the genes in the network were further screened for genes related to prognosis using survival package in R software. The prognostic risk model was further validated in the TCGA database. Finally, GSEA was performed to investigate the different enrichment pathways between high_risk and low_risk groups. Nine genes (BEX4, CCL14, CCL3, CMPK2, FMOD, GHR, HLF, IGFBP5, PAG1) were selected to construct the prognostic model. Patients in the low_risk group had a significantly better prognosis than those in the high_risk group. hsa_circ_0021727-hsa-miR-133b-PAG1 regulatory axis may participate in the regulatory of cervical cancer. The enrichment pathways to patients in the high-risk group and the low-risk group were different. The results were not validated by in vitro and in vivo experiments. We developed an immune-related prognostic model and lncRNA-miRNA-mRNA ceRNA network, which can predict prognosis and understand the mechanism of cervical cancer.
{"title":"Development Immune-Related Prognostic Model and LncRNA-miRNA-mRNA ceRNA Network for Cervical Cancer","authors":"H. Xu, J. Zhao, T. Zhang, Y. Gao, C. Shi","doi":"10.1134/s1022795424030165","DOIUrl":"https://doi.org/10.1134/s1022795424030165","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Cervical cancer is a serious threat to women’s health. The aim of this study was to provide new insights into the mechanism of cervical cancer by constructing immune-related prognostic model and ceRNA network. The mRNA and circRNA datasets of cervical cancer were downloaded from NCBI GEO database. Wilcox.test was used to screen the differential immune cells between cervical cancer patients and normal participants. WGCNA was performed for identification immune related genes. A circRNA-lncRNA-mRNA network was constructed and the genes in the network were further screened for genes related to prognosis using survival package in R software. The prognostic risk model was further validated in the TCGA database. Finally, GSEA was performed to investigate the different enrichment pathways between high_risk and low_risk groups. Nine genes (BEX4, CCL14, CCL3, CMPK2, FMOD, GHR, HLF, IGFBP5, PAG1) were selected to construct the prognostic model. Patients in the low_risk group had a significantly better prognosis than those in the high_risk group. hsa_circ_0021727-hsa-miR-133b-PAG1 regulatory axis may participate in the regulatory of cervical cancer. The enrichment pathways to patients in the high-risk group and the low-risk group were different. The results were not validated by in vitro and in vivo experiments. We developed an immune-related prognostic model and lncRNA-miRNA-mRNA ceRNA network, which can predict prognosis and understand the mechanism of cervical cancer.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"51 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580729","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-03-11DOI: 10.1134/s1022795424020054
K. O. Karandasheva, E. S. Makashova, F. A. Ageeva, K. I. Anoshkin, P. A. Sparber, A. O. Borovikov, P. A. Vasiluev, M. S. Pashchenko, A. S. Tanas, V. V. Strelnikov
Abstract
Neurofibromatosis type 2 is a hereditary disease with predisposition to the development of multiple tumors of the central and peripheral nervous system. The disease is characterized by significant variability in the clinical picture; the number of neoplasms, their location, and growth rate largely determine the severity of the course. However, assessing the rate of tumor growth requires the availability of a consistent series of instrumental studies conducted within a certain time range, which is not always available at the time of initial treatment. In this study, on the basis of quantitative (age of onset, age of examination) and qualitative (large number of intracranial tumors, large number of spinal tumors, severity of neurological symptoms, mosaic status of the genetic variant) characteristics, an alternative classification of clinical subtypes of neurofibromatosis type 2 was developed. We have revealed statistically significant differences (p-value = 0.037) in the representation of Halliday prognostic classes between the groups identified using the proposed classification, which allows us to suggest the possibility of integrating this approach into clinical practice.
{"title":"Role of Molecular Genetic Factors in Formation of the Clinical Type of Neurofibromatosis Type 2","authors":"K. O. Karandasheva, E. S. Makashova, F. A. Ageeva, K. I. Anoshkin, P. A. Sparber, A. O. Borovikov, P. A. Vasiluev, M. S. Pashchenko, A. S. Tanas, V. V. Strelnikov","doi":"10.1134/s1022795424020054","DOIUrl":"https://doi.org/10.1134/s1022795424020054","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Neurofibromatosis type 2 is a hereditary disease with predisposition to the development of multiple tumors of the central and peripheral nervous system. The disease is characterized by significant variability in the clinical picture; the number of neoplasms, their location, and growth rate largely determine the severity of the course. However, assessing the rate of tumor growth requires the availability of a consistent series of instrumental studies conducted within a certain time range, which is not always available at the time of initial treatment. In this study, on the basis of quantitative (age of onset, age of examination) and qualitative (large number of intracranial tumors, large number of spinal tumors, severity of neurological symptoms, mosaic status of the genetic variant) characteristics, an alternative classification of clinical subtypes of neurofibromatosis type 2 was developed. We have revealed statistically significant differences (<i>p</i>-value = 0.037) in the representation of Halliday prognostic classes between the groups identified using the proposed classification, which allows us to suggest the possibility of integrating this approach into clinical practice.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"39 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140098417","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-03-11DOI: 10.1134/s1022795424020108
B. Mando, A. Al Athamneh, B. Alkhawaja, C. Shannakian, A. Khaleel
Abstract
Nanoparticles are an essential aspect of current scientific evolution, offering several potential applications in a number of fields. Particularly, in the therapeutic field such as in wound healing, the unique physical and chemical properties of silica nanoparticles (SiNPs) have attracted attention to it. In this study, we intend to investigate the relationship between silica nanoparticles and wound healing by analyzing altered gene expression before and after the treatment with (SiNPs), of 40 tissue repair related genes, giving special attention to (Matrix Metalloproteinase-9 (MMP-9), hyaluronan synthase 2 (HAS-2), integrin subunit alpha X (ITGA-X), integrin subunit alpha V (ITGA-V), integrin subunit alpha 5 (ITGA-5), S100 calcium binding protein A4 (S100A4), and vascular endothelial growth factor A (VEGFA)), to study the implications of these findings for better wound healing and to provide better insight into how SiNPs might be used to regenerate tissues and repair wounds. Our results showed that silica nanoparticles can significantly enhance wound healing by upregulating the expression of these key genes involved in the process.
摘要 纳米粒子是当前科学发展的一个重要方面，在许多领域都有潜在的应用。特别是在伤口愈合等治疗领域，二氧化硅纳米粒子（SiNPs）独特的物理和化学特性引起了人们的关注。整合素亚基α V (ITGA-V)、整合素亚基α 5 (ITGA-5)、S100钙结合蛋白 A4 (S100A4) 和血管内皮生长因子 A (VEGFA)），以研究这些发现对更好的伤口愈合的影响，并更好地了解如何利用硅纳米粒子再生组织和修复伤口。我们的研究结果表明，二氧化硅纳米粒子可以通过上调这些参与伤口愈合过程的关键基因的表达，显著促进伤口愈合。
{"title":"Investigating the Effect of Silica Nanoparticles on MMP9, HAS2, ITGAX, and Additional Key Genes: Implications for Enhanced Wound Healing","authors":"B. Mando, A. Al Athamneh, B. Alkhawaja, C. Shannakian, A. Khaleel","doi":"10.1134/s1022795424020108","DOIUrl":"https://doi.org/10.1134/s1022795424020108","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Nanoparticles are an essential aspect of current scientific evolution, offering several potential applications in a number of fields. Particularly, in the therapeutic field such as in wound healing, the unique physical and chemical properties of silica nanoparticles (SiNPs) have attracted attention to it. In this study, we intend to investigate the relationship between silica nanoparticles and wound healing by analyzing altered gene expression before and after the treatment with (SiNPs), of 40 tissue repair related genes, giving special attention to (Matrix Metalloproteinase-9 (MMP-9), hyaluronan synthase 2 (HAS-2), integrin subunit alpha X (ITGA-X), integrin subunit alpha V (ITGA-V), integrin subunit alpha 5 (ITGA-5), S100 calcium binding protein A4 (S100A4), and vascular endothelial growth factor A (VEGFA)), to study the implications of these findings for better wound healing and to provide better insight into how SiNPs might be used to regenerate tissues and repair wounds. Our results showed that silica nanoparticles can significantly enhance wound healing by upregulating the expression of these key genes involved in the process.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"39 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140098420","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-03-11DOI: 10.1134/s1022795424020121
H. M. Suo, H. H. Ni, L. Hu, F. Y. Yuan, M. W. Zhang, S. M. Zhang
Abstract
Caffeoyl coenzyme A-O-methyltransferase (CCoAOMT) has a critical function in the lignin biosynthesis pathway. However, its role in pomegranate is not clear. In this research, we identified 11 members of the CCoAOMT gene family based on pomegranate genome-wide data. The 11 CCoAOMT genes were distributed non-uniformly on chromosomes 2, 3 and 4 of pomegranate. Phylogenetic analysis showed that pomegranate CCoAOMT9 and Camellia sinensis CCoAOMT genes clustered into one branch. Promoter cis-acting progenitor analysis revealed a role for the pomegranate CCoAOMT gene in the ABA/MeJA response. The expression of CCoAOMT8, CCoAOMT9 and CCoAOMT10 was higher in hard-seeded cultivars (‘Hongyushizi’ and ‘Baiyushizi’) than in soft-seeded cultivar (Tunisia) as detected and analyzed by q-PCR. The results suggested that CCoAOMT8, CCoAOMT9, and CCoAOMT10 might be related to lignin biosynthesis. The findings of this work provided a basis for further investigation of the role of the pomegranate CCoAOMT gene in lignin biosynthesis.
{"title":"Genome-Wide Identification and Analysis of the CCoAOMT Gene Family Revealed Its Relationship to Pomegranate Seed Hardness","authors":"H. M. Suo, H. H. Ni, L. Hu, F. Y. Yuan, M. W. Zhang, S. M. Zhang","doi":"10.1134/s1022795424020121","DOIUrl":"https://doi.org/10.1134/s1022795424020121","url":null,"abstract":"<h3 data-test=\"abstract-sub-heading\">Abstract</h3><p>Caffeoyl coenzyme A-O-methyltransferase (CCoAOMT) has a critical function in the lignin biosynthesis pathway. However, its role in pomegranate is not clear. In this research, we identified 11 members of the <i>CCoAOMT</i> gene family based on pomegranate genome-wide data. The 11 <i>CCoAOMT</i> genes were distributed non-uniformly on chromosomes 2, 3 and 4 of pomegranate. Phylogenetic analysis showed that pomegranate <i>CCoAOMT9</i> and Camellia sinensis <i>CCoAOMT</i> genes clustered into one branch. Promoter cis-acting progenitor analysis revealed a role for the pomegranate <i>CCoAOMT</i> gene in the ABA/MeJA response. The expression of <i>CCoAOMT8</i>, <i>CCoAOMT9</i> and <i>CCoAOMT10</i> was higher in hard-seeded cultivars (‘Hongyushizi’ and ‘Baiyushizi’) than in soft-seeded cultivar (Tunisia) as detected and analyzed by q-PCR. The results suggested that <i>CCoAOMT8</i>, <i>CCoAOMT9</i>, and <i>CCoAOMT10</i> might be related to lignin biosynthesis. The findings of this work provided a basis for further investigation of the role of the pomegranate <i>CCoAOMT</i> gene in lignin biosynthesis.</p>","PeriodicalId":21441,"journal":{"name":"Russian Journal of Genetics","volume":"40 1","pages":""},"PeriodicalIF":0.6,"publicationDate":"2024-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140098448","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
扫码关注我们
求助内容：
应助结果提醒方式：
京公网安备 11010802042870号