Gene Reports最新文献

{"title":"Unraveling the molecular genetic basis of type 2 diabetes","authors":"Shahrzad Manavi Nameghi","doi":"10.1016/j.genrep.2024.101993","DOIUrl":"10.1016/j.genrep.2024.101993","url":null,"abstract":"<div><p>Type 2 Diabetes (T2D) as a global health challenge is characterized by insulin resistance and impaired glucose regulation. This condition has a significant impact on both human health and the global economy. Insulin plays a crucial role as a peptide hormone in regulating glucose metabolism throughout the body. Insulin resistance (IR) as one of the common implications of type 2 diabetes occurs when the body's response to insulin is disrupted, leading to dysfunction in various molecular pathways within tissues targeted by insulin. Identifying the genetic factors involved in T2D is a crucial focus of diabetes research to better comprehend its mechanisms and complications, for treatment, and prevention. Progress in genetic research during the 1980s allowed researchers to identify genetic markers associated with this hereditary trait. Genome Wide Association Studies (GWAS) have been instrumental in pinpointing genetic loci associated with various complications of diabetes. Over 300 loci have been linked to T2D, accounting for more than 19 % of the risk.</p><p>The present review manuscript aims to examine the complex interplay between genetic factors and T2D development. We review the current knowledge regarding the genetic basis, examining predisposing genetic variants, epigenetic modifications, and gene-environment interactions implicated in the disease pathogenesis. Understanding the underlying genetic mechanisms of T2D opens new avenues for personalized therapies and preventive strategies.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141990596","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of genes used by Escherichia coli to mitigate climatic stress conditions","authors":"Styliani Roufou ,&nbsp;Sholeem Griffin ,&nbsp;Lydia Katsini ,&nbsp;Monika Polańska ,&nbsp;Jan F.M. Van Impe ,&nbsp;Panagiotis Alexiou ,&nbsp;Vasilis P. Valdramidis","doi":"10.1016/j.genrep.2024.101998","DOIUrl":"10.1016/j.genrep.2024.101998","url":null,"abstract":"<div><h3>Introduction</h3><p>Increasing temperature and elevated atmospheric carbon dioxide levels could impact the survival of stress-adapted bacteria.</p></div><div><h3>Method and results</h3><p>In this study, RNA sequencing was performed to quantify <em>Escherichia coli</em> BL21 (DE3) gene expression in culture media under environmental <em>temperature</em> (27 °C and 42 °C) and <em>carbon dioxide</em> (0.2 % and 6 % <em>v</em>/v) conditions. Differential gene expression analysis between low temperature and different carbon dioxide conditions revealed up-regulated genes such as <em>ldtC</em> and <em>bioA,</em> optimising cell wall integrity and nutrient uptake. While, the downregulation of genes such as <em>malK</em> suggested a metabolic adaptation. Low temperature and high carbon dioxide levels enhanced bacterial tolerance to environmental stress. Under optimal temperatures, <em>Escherichia coli</em> adapts through various metabolic pathways while engaging in different processes at low temperatures and carbon dioxide levels, with temperature having a greater impact on gene expression than carbon dioxide levels. This study shows that complex metabolic activities are activated when both temperatures and carbon dioxide levels are combinsed, affecting antimicrobial resistance, nutrient acquisition, and adaptation strategies.</p></div><div><h3>Conclusion</h3><p>Each condition exhibited mechanisms to enhance cellular resilience and adaptation to stress, focusing on cellular integrity, optimising energy utilisation, and activating stress response pathways.</p></div><div><h3>Impact statement</h3><p>The findings stress the importance of continued research to understand the implications of climate change on microbial transcriptomes comprehensively.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141961426","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Insight into adiponectin gene impact on coronary artery disease from a polymorphism case-control study in Iraqi individuals","authors":"Majid Kadhum Hussain ,&nbsp;Ibrahem Rahem J. Al-Aadily ,&nbsp;Alhan Abdulmohsin A. Al-Rashid ,&nbsp;Abdol Hussein A. Algenabi ,&nbsp;Ahmed Naseer Kaftan ,&nbsp;Muna Abdulridha Al-Barqaawi ,&nbsp;Layth Ahmed A. Al-Fahham ,&nbsp;Teba Jaber Merza ,&nbsp;Iman Jabbar Kadhim ,&nbsp;Mohammed Ali Abdulameer Khikani","doi":"10.1016/j.genrep.2024.101996","DOIUrl":"10.1016/j.genrep.2024.101996","url":null,"abstract":"<div><h3>Background</h3><p>Coronary artery disease (CAD) is a group of diseases caused by plaque formation in the wall of arteries supplying blood to the heart. Adiponectin (<em>ADIPOQ</em>) is an adipocytokine that controls carbohydrate and lipid metabolism, has anti-diabetic properties, and correlates well with cardio-metabolic risk. <em>ADIPOQ</em> gene polymorphism is reported to be associated with CAD in numerous populations.</p></div><div><h3>Objective</h3><p>To explore the impact of adiponectin gene polymorphism, rs2241766 T &gt; G, rs1501299 G &gt; T, rs17300539 G &gt; A, rs266729 G &gt; A, and rs822395 A &gt; C SNPs, on the CAD in the Iraqi population.</p></div><div><h3>Methods</h3><p>A case-control study of 317 healthy individuals and 302 CAD patients was conducted. Standard protocols for measuring serum lipid profile levels were followed. ADIPOQ and insulin levels were estimated using the ELISA method. Genotyping of <em>ADIPOQ</em> gene was carried out using the RFLP technique.</p></div><div><h3>Results</h3><p>Genotype assessment of rs2241766, rs1501299, rs266729, and rs17300539 SNPs under several inheritance models pointed out significant (<em>P</em> = 0.012–10^{<em>−<strong>4</strong></em>}) elevations of the variant alleles in CAD patients in comparison to the control group. The haplotype analysis of the five analyzed SNPs exhibited five disease-susceptible haplotypes; they were GTCGA (OR: 7.6, 95 % CI: 2.55–21.76), TGCAA (<em>P</em> = 0.013), TGGGA (<em>P</em> = 0.046), TGGAA (<em>P</em> = 0.017), and GGGGA (<em>P</em> = 0.032). The linkage disequilibrium (LD) analysis of the five SNPs in the control versus the patient groups revealed significant LD. The variant genotype of the rs2241766 SNP was found to significantly increase the atherogenic lipids and HOMA values and decrease the ADIPOQ and high-density cholesterol (HDL-c) levels. Those of the rs1501299, rs17300539, and rs266729 SNPs were indicated to increase the metabolic parameter values except ADIPOQ and HDL-c magnitudes, which are reduced in the variant carriers.</p></div><div><h3>Conclusion</h3><p>The rs2241766, rs1501299, rs266729, and rs17300539 SNPs of the <em>ADIPOQ</em> gene are risk factors for CAD in Iraqi individuals. Both single nucleotide and haplotype analyses suggested the implication of the <em>ADIPOQ</em> gene in the pathogenesis of the disease. This implication has occurred through lowering ADIPOQ levels and increasing atherogenic lipids.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141952620","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Absence of constitutional MLH1 promoter methylation in Pakistani colorectal cancer patients","authors":"Ayesha Azeem ,&nbsp;Humaira Naeemi ,&nbsp;Noor Muhammad ,&nbsp;Asif Loya ,&nbsp;Muhammed Aasim Yusuf ,&nbsp;Muhammad Usman Rashid","doi":"10.1016/j.genrep.2024.101995","DOIUrl":"10.1016/j.genrep.2024.101995","url":null,"abstract":"<div><p>Constitutional methylation of the <em>MLH1</em> promoter is implicated in colorectal cancer (CRC) susceptibility by silencing the expression of the <em>MLH1</em> protein. While <em>MLH1</em> promoter methylation has been identified in variable frequencies among various populations, no data exist for CRC patients from Pakistan. In this study, we investigated constitutional <em>MLH1</em> promoter methylation in Pakistani CRC patients. We screened 210 CRC patients belonging to HNPCC/suspected-HNPCC (<em>n</em> = 27) and non-HNPCC (<em>n</em> = 183) groups and 100 healthy controls for constitutional <em>MLH1</em> promoter methylation using a methylation-sensitive high-resolution melting (MS-HRM) assay with methylated and unmethylated standards. Of the 210 CRC patients, 12.9 % (n = 27) had a family history of HNPCC-associated cancers, and 87.1 % (n = 183) had CRC with no family history (non-HNPCC group). The mean age at disease onset was 43.1 years (range 14–77), while controls had a mean age at enrollment of 40.0 years (range 19–74.4). Constitutional <em>MLH1</em> promoter methylation was not identified in 210 CRC patients and 100 healthy controls. Constitutional <em>MLH1</em> promoter methylation does not appear to be associated with CRC susceptibility in Pakistani patients.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141961375","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification and validation of key regulating circRNAs in Immune Thrombocytopenia by circRNAs sequencing","authors":"Wenyong Kuang ,&nbsp;Kexin Zhao ,&nbsp;Hongkai Zhu ,&nbsp;Wenzhe Yan ,&nbsp;Xianming Fu ,&nbsp;Zhao Cheng ,&nbsp;Ruijuan Li ,&nbsp;Hongling Peng","doi":"10.1016/j.genrep.2024.101992","DOIUrl":"10.1016/j.genrep.2024.101992","url":null,"abstract":"<div><p>Dysfunction of T cells is a causative factor in Immune Thrombocytopenia (ITP), an autoimmune disorder. Circular RNAs (circRNAs), which have been associated with the pathophysiology of various immunological conditions, are of particular interest. Our study aimed to identify pivotal regulatory circRNAs within the peripheral T cells of ITP patients. We utilized circRNA sequencing to discern differences in circRNA expression between the ITP cohort and healthy controls. We identified 606 upregulated and 719 downregulated circRNAs. Subsequent Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were conducted to scrutinize the parent genes of these differentially expressed circRNAs, revealing their significant involvement in metabolic processes and T cell receptor signaling pathways. Following a rigorous selection process that included DEG analysis, KEGG, and GO pathways analysis, along with an assessment of the potential roles of their parent genes, five top differentially expressed circRNAs were subjected to further validation via quantitative Polymerase Chain Reaction (RT-qPCR). Specifically, in the peripheral T cells of ITP patients, hsa_circ_0008866 (TAOK1), hsa_circ_0006856 (MAP3K5), and hsa_circ_0007444 (RHOBTB3) emerged as key regulatory circRNAs. The potential miRNA targets of these circRNAs were predicted employing miRanda, RNAhybrid, and TargetScan algorithms.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141961376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Smoking activates EMT in COPD bronchial epithelial cells through PIK3CA overexpression","authors":"Lin Chen ,&nbsp;Hui Chen ,&nbsp;Hui Zhang ,&nbsp;Guang Zhou ,&nbsp;Xuejiao Sun","doi":"10.1016/j.genrep.2024.101994","DOIUrl":"10.1016/j.genrep.2024.101994","url":null,"abstract":"<div><h3>Background</h3><p>Airway remodeling caused by smoking is an important pathological change in chronic obstructive pulmonary disease (COPD), and epithelial-mesenchymal transition (EMT) is one of the core mechanisms involved in airway remodeling. However, the exact molecules and pathway mechanisms involved in the induction of EMT in COPD remain largely unknown. Numerous previous studies have elucidated that overexpression of PIK3CA promotes the proliferation and metastasis in various types of tumors by inducing EMT, while inhibition of PIK3CA can inhibit the invasion and proliferation of tumors. However, the relationship between PIK3CA and EMT has not been reported in COPD.</p></div><div><h3>Methods</h3><p>Fresh pulmonary specimens were collected away from the tumor site from the smoker with COPD (<em>n</em> = 9) and non-smokers without COPD control group (n = 9) who underwent lung tissue resection, and conducted deep sequencing of lung tissue mRNA. It was found that the PIK3CA and EMT pathways play a significant role in the development of COPD using bioinformatics. Therefore a mouse model of emphysema exposed to cigarette smoke(CS) was constructed which demonstrated increased PIK3CA expression and EMT activation in bronchial epithelial cells with increased apoptosis by immunohistochemical and immunofluorescence. In vitro, it was further confirmed the expression of PIK3CA and the activation of EMT by cigarette smoke extract (CSE)-incubated BEAS-2B cells. By PIK3CA knockout, it was proved that PIK3CA plays an important role in the EMT process.</p></div><div><h3>Results</h3><p>Through the analysis of mRNA sequencing data of fresh pulmonary specimens from smokers with COPD and non-smokers without COPD, we found that EMT plays a core role in COPD. Through analysis of GSEA and PPI, we found that PIK3CA is a key gene in COPD. By studying the established mouse model of COPD and BEAS-2B cells incubated with CSE, we found that CS exposure increased PIK3CA expression and associated EMT activation. CSE can induce EMT in vitro by increasing PIK3CA expression, and knockout PIK3CA can reverse CSE-induced EMT.</p></div><div><h3>Conclusion</h3><p>Cigarette smoke induces EMT in bronchial epithelial cells by up-regulating PIK3CA expression. PIK3CA knockdown reversed CSE-induced EMT. EMT and PIK3CA may be potential new targets for the treatment of COPD in the future.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141851028","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Inhibitory effects of progesterone on the human acute lymphoblastic leukemia cell line","authors":"Narges Fallahi ,&nbsp;Mitra Rafiee ,&nbsp;Ehsaneh Azaryan ,&nbsp;David Wilkinson ,&nbsp;Vahid Bagheri","doi":"10.1016/j.genrep.2024.101991","DOIUrl":"10.1016/j.genrep.2024.101991","url":null,"abstract":"<div><h3>Introduction</h3><p>Acute lymphoblastic leukemia (ALL) is a rare form of blood cancer that can quickly advance if left untreated. Research has suggested that progesterone (P4) may be effective in treating certain types of tumors. Specifically, the membrane progesterone receptors may play a role in either enhancing or inhibiting cell growth in various tumors. This study aimed to investigate the impact of P4 on inhibition of NALM6 cells.</p></div><div><h3>Methods</h3><p>NALM6 cells were exposed to different concentrations of P4 (ranging from 10 to 50 μM) at 24,48 and 72 h intervals. The cell survival rate was then evaluated using an MTT assay. Additionally, the study assessed the rate of mPR expression in the cells using flow cytometry at 48 and 72 h after P4 administration (at concentrations of 20 and 10 μM, respectively). Furthermore, the level of ROS was evaluated using the dichlorofluorescein diacetate (DCFDA) flow cytometry technique.</p></div><div><h3>Results</h3><p>The study found that mPR-β was expressed in NALM6 cells and that P4 had a significant inhibitory effect on the growth of tumor cells in a time and concentration-dependent manner. Furthermore, P4 was found to reduce mPR-β expression at 48 and 72 h. The treatment also resulted in a decrease in ROS levels compared to untreated cells (<em>P</em> ≤ 0.05).</p></div><div><h3>Conclusion</h3><p>The study suggests that p4 may be effective in growth-inhibiting NALM6 cells by decreasing cell viability and reducing ROS levels. However, further research is needed to understand the mechanism of action and interactions with various receptors and to confirm its effectiveness in treating NALM6 leukemia.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141844094","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Gene expression patterns to identify stable reference genes for expression analyses in Carpophilus hemipterus (L.) (Coleoptera: Nitidulidae)","authors":"Raman Bansal,&nbsp;Charles S. Burks,&nbsp;Spencer S. Walse","doi":"10.1016/j.genrep.2024.101982","DOIUrl":"10.1016/j.genrep.2024.101982","url":null,"abstract":"<div><p>Dried fruit beetle, <em>Carpophilus hemipterus</em>, (Linnaeus, 1758) (Coleoptera: Nitidulidae) is a serious pest of ripened fresh fruit in the orchard and dried fruit in post-processing storage. Despite the economic significance and widespread distribution of <em>C. hemipterus</em>, there is a lack of functional genomics research seeking to elucidate features of developmental biology and molecular physiology for improved pest management. Performing such functional genomics studies requires validated, stably expressed reference genes for accurate normalization of real-time quantitative reverse transcription-PCR (qRT-PCR) data. Here, we identified and validated 12 common insect reference genes (<em>RPL6</em>, <em>RPL4</em>, <em>RPL9</em>, <em>RPS13</em>, <em>RPS18</em>, <em>RPSA</em>, <em>TUB</em>, <em>UBE3A</em>, <em>RPS23</em>, <em>GLU</em>, <em>EF1A</em>, and <em>RBP</em>) for expression stability in <em>C. hemipterus</em>. These genes were assessed across developmental stages and sexes (egg, three larval instars, prepupa, pupa, adult male, and adult female) as well as thermal stress conditions. Stability of candidate genes was estimated using software algorithms geNorm, NormFinder, BestKeeper, comparative delta-Ct, and RefFinder. Two genes <em>UBE3A</em> and <em>RPL9</em> showed the highest stability across the treatments, and thus were proposed for normalizing the qRT-PCR raw data. Results of this study will strengthen the application of genomics to reveal the fundamental and applied biological aspects in this important beetle species.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141850443","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Characteristics and phylogenetic implications of the mitochondrial genome of a rare species, Libellula melli","authors":"Binquan Lin,&nbsp;Hao Chen,&nbsp;Jiayu Li,&nbsp;Jian Liao","doi":"10.1016/j.genrep.2024.101986","DOIUrl":"10.1016/j.genrep.2024.101986","url":null,"abstract":"<div><p>This study sequenced and assembled the mitochondrial genome of the rare dragonfly species <em>Libellula melli</em>, and submitted the results to the NCBI GenBank database, obtaining the accession number PP588458. The mitochondrial genome spans a total length of 15,149 bp, encompassing 13 protein-coding genes (PCGs), 22 tRNA genes, 2 rRNA genes, and a control region or D-loop. Of these, 25 genes and segments are located on the heavy strand (H-strand), while the remaining 13 reside on the light strand (L-strand). The nucleotide composition of the <em>L. melli</em> mitochondrial genome exhibits a prominent AT bias (AT = 73.3 %), with T, C, A, and G bases comprising 34.5 %, 15.6 %, 38.8 %, and 11.1 % respectively, displaying a positive AT skew of 0.059. Among the 13 PCGs, the primary start codons are ATT, ATG, and TTG, while the primary stop codons are TAA, with instances of TA(C) and T(AT) also observed. RSCU analysis reveals that the most frequently used codon is UUA, with an RSCU value of 3.75, encoding leucine (Leu). The secondary structures of the proteins encoded by the 13 PCGs generally exhibit a trend of α-helix &gt; random coil &gt; extended strand &gt; β-turn. Phylogenetic analysis uncovers the phylogenetic relationships of <em>L</em>. <em>melli</em> within the reported Libellulidae species, revealing (((((((<em>L. melli</em> + <em>L. quadrimaculata</em>) + <em>L. angelina</em>) + ((<em>O. chrysis</em> + <em>O. glaucum</em>) + <em>O. albistylum</em>)) + ((<em>C. servilia servilia</em> + <em>T. virginia</em>) + <em>N. fulvia</em>) + (<em>L. albifrons</em> + <em>S. eroticum</em>)) + (<em>P. flavescens</em> + <em>T. aurora</em>)) + (<em>D. phaon</em> + <em>H. croceus</em>)) + (<em>B. contaminate</em> + <em>P. zonata</em>)). This study provides insights into the mitochondrial genome and its characteristics of this rare dragonfly species, contributing to our understanding of the intricate evolutionary relationships within the Odonata order. The data obtained serve as a foundation for further exploration of the complex phylogenetic relationships among dragonfly insects.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141954261","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Bioinformatics probe reveals early onset ovarian insufficiency associated with impaired PEDF and VEGF balance","authors":"Jing Yang ,&nbsp;Gulihumaer Ainiwaer ,&nbsp;Yanlin Liu,&nbsp;Jinling Yi","doi":"10.1016/j.genrep.2024.101988","DOIUrl":"10.1016/j.genrep.2024.101988","url":null,"abstract":"<div><h3>Objective</h3><p>To screen the key genes of patients with premature ovarian insufficiency (POI) by bioinformatics analysis, study the pathological mechanism of POI and predict the potential therapeutic targets.</p></div><div><h3>Methods</h3><p>The WGCNA algorithm was used to establish a weighted gene co-expression network, and the data downloaded from the GEO database was used to identify the relevant hub genes of premature ovarian insufficiency (GSE39501), and the relevant genes of premature ovarian insufficiency downloaded from the HMDD database were intersected to identify the key genes using Cytoscape and verified for their differential expression by QRT-PCR and Western Blot (WB) to verify their differential expression.</p></div><div><h3>Results</h3><p>A total of 20 expression modules were identified by WGCNA, and the Firebricks module was found to be highly correlated with premature ovarian insufficiency after correlation coefficient screening. 1666 up-regulated genes and 1617 down-regulated genes were screened by differential analysis in the GSE39501 dataset, and a total of 12 co-expressed genes were localized after taking the intersections with related genes in the POI of the HMD database, which were validated by QRT PCR and Western Blot (WB). Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, and found that they mainly affect the MAPK signaling pathway and VEGF signaling pathway. The top three key genes, VEGFB, PEDF and SERP1NF1, were then localized by Cytoscape, and finally the opposite expression trends of VEGF and PEDF were verified by WB and QRT-PCR experiments.</p></div><div><h3>Conclusion</h3><p>The key genes VEGFB, PEDF and SERP1NF1 may be the potential biological markers of POI, and the imbalance of PEDF and VEGF may lead to the development of POI, which needs to be verified by further experiments.</p></div>","PeriodicalId":12673,"journal":{"name":"Gene Reports","volume":null,"pages":null},"PeriodicalIF":1.0,"publicationDate":"2024-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141849920","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}