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The D*Phase-study: Comparing short-term psychodynamic psychotherapy and cognitive behavioural therapy for major depressive disorder in a randomised controlled non-inferiority trial. D*阶段研究:在一项随机对照非劣效性试验中,比较短期心理动力学心理疗法和认知行为疗法对重度抑郁症的治疗效果。
IF 4.9 2区 医学 Q1 CLINICAL NEUROLOGY Pub Date : 2025-02-15 Epub Date: 2024-10-30 DOI: 10.1016/j.jad.2024.10.122
Maartje Miggiels, Peter Ten Klooster, Aartjan Beekman, Susanne Bremer, Jack Dekker, Colin Janssen, Maarten K van Dijk

Background: Given both the large volume and manifold preferences of patients with depression, the availability of various effective treatments is important. Psychodynamic psychotherapy (PDT) has received less research in comparison to cognitive behavioural therapy (CBT) for major depressive disorder (MDD). This study aimed to establish whether short-term psychodynamic supportive psychotherapy (SPSP) is non-inferior to CBT in the treatment of MDD.

Methods: A non-inferiority trial was conducted in a Dutch mental health setting, with 290 patients randomised to receive 16 sessions of either CBT or SPSP, over eight weeks. Primary outcome was depressive symptom severity assessed using the self-rated Inventory of Depressive Symptomatology (IDS-SR). The non-inferiority margin was prespecified as a - 5 post-treatment difference on the IDS-SR. Secondary outcome measures were functional impairment caused by symptoms assessed using the Sheehan disability scale (SDS), and wellbeing measured by the Mental Health Continuum-Short Form (MHC-SF).

Results: Both intention-to-treat (baseline-adjusted mean difference 1.62, 95 % CI -1.82 to 5.05) and per-protocol analyses (mean difference 2.54; 95 % CI -0.63 to 5.72) showed SPSP to be non-inferior to CBT in reducing depressive symptoms. SPSP showed slightly but significantly higher remission rates and wellbeing scores.

Limitations: Patients opting for other therapies or medication did not take part in the trial. Follow-up measures or clinician-rated questionnaires were not included.

Conclusions: The findings support SPSP as a viable treatment option for MDD, expanding the available choices for patients and broadening treatment options.

背景:鉴于抑郁症患者人数众多且偏好各异,提供各种有效的治疗方法非常重要。与认知行为疗法(CBT)相比,心理动力学心理疗法(PDT)对重度抑郁障碍(MDD)的研究较少。本研究旨在确定短期心理动力学支持性心理疗法(SPSP)在治疗重度抑郁障碍方面是否不逊于 CBT:方法:在荷兰的一家精神卫生机构进行了一项非劣效性试验,290 名患者被随机分配接受为期 8 周、共 16 次的 CBT 或 SPSP 治疗。主要结果是使用抑郁症状自评量表(IDS-SR)评估抑郁症状的严重程度。预设的非劣效差为治疗后 IDS-SR 差异为-5。次要结果测量指标是由症状引起的功能障碍,使用希恩残疾量表(SDS)进行评估,以及由心理健康连续短表(MHC-SF)测量的幸福感:意向治疗(基线调整后的平均差异为 1.62,95 % CI -1.82 至 5.05)和按协议分析(平均差异为 2.54;95 % CI -0.63 至 5.72)均显示,在减少抑郁症状方面,SPSP 的效果不劣于 CBT。SPSP的缓解率和健康评分略高,但明显更高:选择其他疗法或药物治疗的患者未参与试验。结论:研究结果表明,SPSP 是治疗 MDD 的一种可行方法,它扩大了患者的选择范围,拓宽了治疗方案。
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引用次数: 0
Symptoms of depression, but not PTSD, influence cognitive performance in healthy Army National Guard Soldiers. 抑郁症状(而非创伤后应激障碍)会影响健康国民警卫队士兵的认知能力。
IF 4.9 2区 医学 Q1 CLINICAL NEUROLOGY Pub Date : 2025-02-15 Epub Date: 2024-11-13 DOI: 10.1016/j.jad.2024.11.038
Caitlin Ridgewell, Ashley Donovan, Caitlin Haven, Susan P Proctor, Kristin J Heaton

Introduction: Research suggests that comorbid depression and PTSD may contribute to cognitive impairment. However, few studies have explored this dynamic in military personnel who report only subclinical symptoms of PTSD and depression.

Methods: Army National Guard Soldiers (ARNG; N = 1415) completed the Automated Neuropsychological Assessment Metrics (ANAM), the PTSD Checklist (PCL), and the Center for Epidemiological Studies Depression Scale (CES-D). The effects of PTSD and depression symptoms on ANAM performance were examined using multiple linear regression analyses. Exploratory factor analysis and regression models examined the relationship between symptom clusters and ANAM performance.

Results: Six factors were identified: avoidance/flashbacks, cognitive/social difficulty, depressed mood, positive mood, sleep difficulty, and hypervigilance. Elevated symptoms of depression (measured using factor scores) were associated with poorer attention (β range -0.19-0.18, p range < 0.01-0.04, f2 effect size range 0.02-0.94).

Conclusion: Depression symptoms were associated with diminished attentional performance in a large sample of ARNG Soldiers who reported no clinical diagnosis. This study was limited in that unmeasured factors other than depression, PTSD, or demographics may explain much of the variance in cognitive performance. These findings highlight the importance of careful mental health screening and strategies to heighten awareness of the potential detrimental effects of depression and PTSD on health and performance.

导言研究表明,合并抑郁症和创伤后应激障碍可能会导致认知障碍。然而,很少有研究对仅报告有创伤后应激障碍和抑郁症亚临床症状的军人的这一动态进行探讨:陆军国民警卫队士兵(ARNG;N = 1415)完成了自动神经心理评估指标(ANAM)、创伤后应激障碍核对表(PCL)和流行病学研究中心抑郁量表(CES-D)。通过多元线性回归分析,研究了创伤后应激障碍和抑郁症状对 ANAM 成绩的影响。探索性因子分析和回归模型检验了症状群与 ANAM 成绩之间的关系:结果:确定了六个因素:回避/闪回、认知/社交困难、抑郁情绪、积极情绪、睡眠困难和过度警觉。抑郁症状升高(用因子得分衡量)与注意力减退有关(β范围-0.19-0.18,P范围2效应大小范围0.02-0.94):结论:在未报告临床诊断的大样本陆军新兵中,抑郁症状与注意力下降有关。这项研究的局限性在于,除抑郁症、创伤后应激障碍或人口统计学因素外,其他未测量的因素可能会解释认知能力差异的大部分原因。这些发现强调了仔细进行心理健康筛查的重要性,以及提高人们对抑郁症和创伤后应激障碍对健康和表现的潜在不利影响的认识的策略。
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引用次数: 0
NRAV promoted the malignant progression of gastric cancer.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-11-29 DOI: 10.1016/j.gene.2024.149134
Yuchen Wu, Dongdong Wang, Jie Zhao, Jinhui Guo, Zhenyu Gao, Qiuran Xu, Xiaoge Hu

Gastric cancer (GC) has been ranked as the third incidence tumors globally. Long non-coding RNA (lncRNA) NRAV has been reported as a tumor-enhancer in the development of human cancers, whereas the function of NRAV in GC remains to be elucidated. The aim of this research was to explore the underlying function of NRAV in GC. Through comprehensive bioinformatics analysis, a significantly elevation of NRAV was found in both human GC tissues and cell lines, which indicated the poor prognosis of GC patients. Then, we conducted a series of functional experiments to illustrate the role of NRAV in GC. The results showed that the down-regulation of NRAV exhibited a significant inhibitory effect on GC cell proliferation and migration, while NRAV overexpression promoted GC cell proliferation and migration. Through xenograft mouse tumor model, the suppression of NRAV led to a reduction in the growth of tumor mice, whereas overexpression of NRAV notably enhanced tumor growth. Finally, EFHC1 was revealed as the potential target gene of NRAV. Overall, our findings indicated the promising application of NRAV as a therapeutic target and prognostic biomarker for GC.

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引用次数: 0
New variants of the DAD1 and OXA1L genes are associated with asthma and atopy in an adult population.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-11-28 DOI: 10.1016/j.gene.2024.149124
Anaque O Pires, Louise C de Lima, Candace M de Andrade, Raísa S Coelho, Hátilla Dos S Silva, Gerson A Queiroz, Jamille Fernandes, Gabriela P Pinheiro, Álvaro A Cruz, Ryan Dos S Costa, Camila A V Figueiredo

Asthma is a complex disease characterized by reversible and intermittent airway obstruction that has shown a high prevalence and unacceptable mortality in adults. In recent years, several genome-wide association studies (GWAS) have identified variants linked to asthma susceptibility. The DAD1 gene is known for regulating programmed cell death, and OXA1L is described for its involvement in mitochondrial biogenesis and oxidative phosphorylation. The present study aimed to identify variants in the DAD1 and OXA1L genes and to evaluate the association with asthma and atopy markers in adults. 1,084 individuals were divided into mild to moderate asthma, severe asthma, and participants with no asthma (controls). Association analyses were performed using a multivariate logistic regression model adjusted for sex, age, body mass index (BMI), smoking, forced expiratory volume in 1 s (FEV1), and component ancestry master (PC1) using PLINK 1.9 software. This study identified new variants in the DAD1 and OXA1L genes that had never been described before. The C allele of rs200470407 in OXA1L was negatively associated with poor asthma control (OR: 0.32; p-value 0.049) and increased IL-13 (p-value < 0.0001). The alternative allele of rs1681577 was associated with severe asthma (OR: 2.23; p-value 0.01), pulmonary obstruction (OR: 4.12; p-value 0.046), and eosinophilia (OR: 2.42; p-value < 0.001). Our findings demonstrate that variants in the DAD1 and OXA1L genes are linked to asthma and atopy in Brazilian adults.

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引用次数: 0
Determination of blood biochemical indices and research of egg quality-related candidate gene CDH5 in Putian black duck.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-12-04 DOI: 10.1016/j.gene.2024.149142
Huihuang Li, Yue Yang, Fan Yang, Xinguo Bao, Chengfu Pan, Weilong Lin, Lianjie Lai, Weimin Lin, Ruiyi Lin

Improving egg quality and enhancing production efficiency are essential goals in poultry breeding. CDH5 encodes a cadherin involved in Ca2+ transport in endothelial cells. The role of CDH5 in regulating duck egg quality and its mechanisms affecting Ca2+ concentrations in duck uterine epithelial cells remains unclear. This study evaluated egg quality traits of the Putian black duck and conducted an association analysis with blood biochemical indices and single nucleotide polymorphisms in CDH5. Additionally, we constructed a CDH5 overexpression vector and synthesized specific siRNAs for transfection into Putian black duck uterine epithelial cells to assess Ca2+ concentrations. Our results revealed a significant association between egg quality and five novel SNPs in CDH5, along with various blood biochemical indices. Further experiments demonstrated that CDH5 overexpression and knockdown reduced Ca2+ concentrations in the uterine epithelial cells of Putian black ducks.

{"title":"Determination of blood biochemical indices and research of egg quality-related candidate gene CDH5 in Putian black duck.","authors":"Huihuang Li, Yue Yang, Fan Yang, Xinguo Bao, Chengfu Pan, Weilong Lin, Lianjie Lai, Weimin Lin, Ruiyi Lin","doi":"10.1016/j.gene.2024.149142","DOIUrl":"10.1016/j.gene.2024.149142","url":null,"abstract":"<p><p>Improving egg quality and enhancing production efficiency are essential goals in poultry breeding. CDH5 encodes a cadherin involved in Ca<sup>2+</sup> transport in endothelial cells. The role of CDH5 in regulating duck egg quality and its mechanisms affecting Ca<sup>2+</sup> concentrations in duck uterine epithelial cells remains unclear. This study evaluated egg quality traits of the Putian black duck and conducted an association analysis with blood biochemical indices and single nucleotide polymorphisms in CDH5. Additionally, we constructed a CDH5 overexpression vector and synthesized specific siRNAs for transfection into Putian black duck uterine epithelial cells to assess Ca<sup>2+</sup> concentrations. Our results revealed a significant association between egg quality and five novel SNPs in CDH5, along with various blood biochemical indices. Further experiments demonstrated that CDH5 overexpression and knockdown reduced Ca<sup>2+</sup> concentrations in the uterine epithelial cells of Putian black ducks.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149142"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142791494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Identification of SOX9-related prognostic DEGs and a prediction model for hepatitis C-induced early-stage fibrosis.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-11-30 DOI: 10.1016/j.gene.2024.149133
Haozheng Cai, Junyi Shen, Wei Peng, Xiaoyun Zhang, Tianfu Wen

Background: Hepatitis C virus (HCV) infection induces liver inflammation, activating hepatic stellate cells (HSC) and advancing fibrosis. Studies have indicated that SOX9 overexpression is closely linked to HSC activation. The study aims to identify genes associated with SOX9 and search for potential targets for detecting and treating liver fibrosis.

Method: The dataset GSE15654, containing 216 biopsy samples from HCV-induced early-stage cirrhosis patients, was obtained from the GEO database. Prognostic genes were identified through differential gene analysis, LASSO, and Cox regression analyses. CIBERSORT analysis quantified infiltration levels across 22 immune cell types. Constructing a prognostic prediction model using screened genes and conducting preliminary validation using qRT PCR and RNA sequencing techniques.

Results: Elevated SOX9 expression correlates with unfavorable outcomes in patients with early-stage liver fibrosis induced by HCV. We identified nine SOX9-related prognostic DEGs in our study. ADAMTS2, ARHGEF5, CCT8, ERG, LBH, FRMD6, INMT, and RASGRF2 were considered risk factors in the disease progression, while DHRS4 was considered a protective factor. SOX9 expression showed a positive correlation with mast cell infiltration, whereas ARHGEF5 and FRMD6 expressions were positively associated with M0 macrophage infiltration. Our combined model surpasses the commonly used APRI and FIB4 indicators in predicting patient prognosis. The testing of clinical samples also preliminarily validated our research results.

Conclusion: The prognostic model based on nine SOX9-related DEGs provides an effective tool for forecasting the progression and outcomes of liver fibrosis. This study introduces a new strategy for advancing liver fibrosis prediction and treatment.

{"title":"Identification of SOX9-related prognostic DEGs and a prediction model for hepatitis C-induced early-stage fibrosis.","authors":"Haozheng Cai, Junyi Shen, Wei Peng, Xiaoyun Zhang, Tianfu Wen","doi":"10.1016/j.gene.2024.149133","DOIUrl":"10.1016/j.gene.2024.149133","url":null,"abstract":"<p><strong>Background: </strong>Hepatitis C virus (HCV) infection induces liver inflammation, activating hepatic stellate cells (HSC) and advancing fibrosis. Studies have indicated that SOX9 overexpression is closely linked to HSC activation. The study aims to identify genes associated with SOX9 and search for potential targets for detecting and treating liver fibrosis.</p><p><strong>Method: </strong>The dataset GSE15654, containing 216 biopsy samples from HCV-induced early-stage cirrhosis patients, was obtained from the GEO database. Prognostic genes were identified through differential gene analysis, LASSO, and Cox regression analyses. CIBERSORT analysis quantified infiltration levels across 22 immune cell types. Constructing a prognostic prediction model using screened genes and conducting preliminary validation using qRT PCR and RNA sequencing techniques.</p><p><strong>Results: </strong>Elevated SOX9 expression correlates with unfavorable outcomes in patients with early-stage liver fibrosis induced by HCV. We identified nine SOX9-related prognostic DEGs in our study. ADAMTS2, ARHGEF5, CCT8, ERG, LBH, FRMD6, INMT, and RASGRF2 were considered risk factors in the disease progression, while DHRS4 was considered a protective factor. SOX9 expression showed a positive correlation with mast cell infiltration, whereas ARHGEF5 and FRMD6 expressions were positively associated with M0 macrophage infiltration. Our combined model surpasses the commonly used APRI and FIB4 indicators in predicting patient prognosis. The testing of clinical samples also preliminarily validated our research results.</p><p><strong>Conclusion: </strong>The prognostic model based on nine SOX9-related DEGs provides an effective tool for forecasting the progression and outcomes of liver fibrosis. This study introduces a new strategy for advancing liver fibrosis prediction and treatment.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149133"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142767940","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The melatonin synthase-encoding gene ASMT mediates poplar resistance to drought stress and fungi Dothiorella gregaria.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-12-06 DOI: 10.1016/j.gene.2024.149154
Peizhi Yu, Xia Tang, Banglan Chen, Zihao Chen, Wenli Cui, Yuhang Xing, Ying Li, Fangfang Zhang, Juan B Barroso, Lucas Gutierrez Rodriguez, Yinan Yao, Yongfeng Gao

In recent years, the increase in extreme climates, such as persistent high temperatures and drought, has adversely affected the growth and development of fast-growing trees. Melatonin (MT) plays an important role in plant responses to biotic and abiotic stresses, yet there is a lack of research on the specific role of limiting enzyme genes for MT biosynthesis in fast-growing woody plants. In this study, we investigated the function of PtoASMT, a key rate-limiting enzyme encoding gene for MT biosynthesis, which can be induced by drought, salt, and the phytohormones ABA, SA and JA. Our results show that: (1) PtoASMT was widely expressed in all tissues of poplar, but was highly expressed in petioles, moderately expressed in roots, stems, shoots and young leaves, exhibiting a typical diurnal expression rhythm in leaves, with the encoded protein localized on chloroplasts; (2) the content of MT was significantly promoted in overexpressing PtoASMT transgenic poplar plants, but there were no obvious differences in their growth and development; (3) overexpressing PtoASMT plants exhibited stronger drought tolerance, accumulating less reactive oxygen species (ROS) under drought stress relative to wild-type plants, whereas knockout PtoASMT plants were more sensitive and accumulated more ROS; (4) overexpressing PtoASMT plants were more resistant to fungi Dothiorella gregaria than WT plants, while knockout plants showed higher sensitivity; meanwhile, the expression of disease resistance-related genes (PRs and JAZ10) was significantly altered. We conclude that PtoASMT enhances the resistance of poplar to drought and Dothiorella gregaria by mediating MT biosynthesis in poplar. These findings contribute to a better understanding the role of ASMT gene in MT accumulation and stress resistance in poplar.

{"title":"The melatonin synthase-encoding gene ASMT mediates poplar resistance to drought stress and fungi Dothiorella gregaria.","authors":"Peizhi Yu, Xia Tang, Banglan Chen, Zihao Chen, Wenli Cui, Yuhang Xing, Ying Li, Fangfang Zhang, Juan B Barroso, Lucas Gutierrez Rodriguez, Yinan Yao, Yongfeng Gao","doi":"10.1016/j.gene.2024.149154","DOIUrl":"10.1016/j.gene.2024.149154","url":null,"abstract":"<p><p>In recent years, the increase in extreme climates, such as persistent high temperatures and drought, has adversely affected the growth and development of fast-growing trees. Melatonin (MT) plays an important role in plant responses to biotic and abiotic stresses, yet there is a lack of research on the specific role of limiting enzyme genes for MT biosynthesis in fast-growing woody plants. In this study, we investigated the function of PtoASMT, a key rate-limiting enzyme encoding gene for MT biosynthesis, which can be induced by drought, salt, and the phytohormones ABA, SA and JA. Our results show that: (1) PtoASMT was widely expressed in all tissues of poplar, but was highly expressed in petioles, moderately expressed in roots, stems, shoots and young leaves, exhibiting a typical diurnal expression rhythm in leaves, with the encoded protein localized on chloroplasts; (2) the content of MT was significantly promoted in overexpressing PtoASMT transgenic poplar plants, but there were no obvious differences in their growth and development; (3) overexpressing PtoASMT plants exhibited stronger drought tolerance, accumulating less reactive oxygen species (ROS) under drought stress relative to wild-type plants, whereas knockout PtoASMT plants were more sensitive and accumulated more ROS; (4) overexpressing PtoASMT plants were more resistant to fungi Dothiorella gregaria than WT plants, while knockout plants showed higher sensitivity; meanwhile, the expression of disease resistance-related genes (PRs and JAZ10) was significantly altered. We conclude that PtoASMT enhances the resistance of poplar to drought and Dothiorella gregaria by mediating MT biosynthesis in poplar. These findings contribute to a better understanding the role of ASMT gene in MT accumulation and stress resistance in poplar.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149154"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142793938","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Comparative transcriptome analysis and transient assays revealed AaGST and AaBGAL, respectively, contribute to skin and flesh coloration in A. arguta.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-12-04 DOI: 10.1016/j.gene.2024.149143
Xu Zhan, Yukuo Li, Zhe Song, Xiaohan Li, Lingshuai Ye, Miaomiao Lin, Ran Wang, Leiming Sun, Jinbao Fang, Dixin Chen, Xiujuan Qi

Actinidia arguta possesses different colors in the fruit skin and flesh, but the underlying mechanism has not yet been clarified. In this study, we conducted 36 samples RNA-seq to investigate the phenotypic expression of different fruit tissues (skin and flesh) in red and green A. arguta varieties during different coloring phases. GO and KEGG enrichment results of differentially expressed genes (DEGs) suggested that the red color of the skin and flesh was derived from anthocyanin transport and flesh softening, respectively. Weighted gene co-expression network analysis (WGCNA) revealed MEyellow and MEblack modules significantly correlated with skin and flesh coloration, and two genes, Glutathione S-transferases (AaGST) and β-galactosidases (AaBGAL), were identified as hub genes involved in different tissue-specific coloration. Transient overexpression in apples and kiwifruits confirmed the role of AaGST and AaBGAL in color formation. Our results preliminarily explore the mechanism of red color formation in different A. arguta fruit tissues and provide novel insights into red color formation.

{"title":"Comparative transcriptome analysis and transient assays revealed AaGST and AaBGAL, respectively, contribute to skin and flesh coloration in A. arguta.","authors":"Xu Zhan, Yukuo Li, Zhe Song, Xiaohan Li, Lingshuai Ye, Miaomiao Lin, Ran Wang, Leiming Sun, Jinbao Fang, Dixin Chen, Xiujuan Qi","doi":"10.1016/j.gene.2024.149143","DOIUrl":"10.1016/j.gene.2024.149143","url":null,"abstract":"<p><p>Actinidia arguta possesses different colors in the fruit skin and flesh, but the underlying mechanism has not yet been clarified. In this study, we conducted 36 samples RNA-seq to investigate the phenotypic expression of different fruit tissues (skin and flesh) in red and green A. arguta varieties during different coloring phases. GO and KEGG enrichment results of differentially expressed genes (DEGs) suggested that the red color of the skin and flesh was derived from anthocyanin transport and flesh softening, respectively. Weighted gene co-expression network analysis (WGCNA) revealed MEyellow and MEblack modules significantly correlated with skin and flesh coloration, and two genes, Glutathione S-transferases (AaGST) and β-galactosidases (AaBGAL), were identified as hub genes involved in different tissue-specific coloration. Transient overexpression in apples and kiwifruits confirmed the role of AaGST and AaBGAL in color formation. Our results preliminarily explore the mechanism of red color formation in different A. arguta fruit tissues and provide novel insights into red color formation.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149143"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142791481","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
miR-6760-5p suppresses neoangiogenesis by targeting Yes-associated protein 1 in patients with moyamoya disease undergoing indirect revascularization.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-12-09 DOI: 10.1016/j.gene.2024.149152
Yunyu Wen, Junda Chen, Tinghan Long, Fangzhou Chen, Zhibin Wang, Siyuan Chen, Guozhong Zhang, Mingzhou Li, Shichao Zhang, Huibin Kang, Wenfeng Feng, Gang Wang

Objective: The aim of this research was to investigate the specific regulatory role of miR-6760-5p in angiogenesis in moyamoya disease.

Methods: HUVECs were transfected with miR-6760-5p inhibitor and mimics fragments, then subjected to assays for cell proliferation, migration, and tube formation. Subsequently, downstream target genes of miR-6760-5p were predicted and the protein expression levels of these genes were evaluated. The presence of miR-6760-5p and YAP1 was verified by a dual luciferase reporter gene test, followed by an assessment of the effects of YAP1 and miR-6760-5p on the HUVECs.

Results: Comparatively to the control group, increased expression of miR-6760-5p decreased cell growth, movement, and tube formation. YAP1 gene was discovered as a target controlled by miR-6760-5p, with subsequent investigation confirming YAP1 as a gene regulated by miR-6760-5p. Additionally, miR-6760-5p was found to counteract the angiogenesis-promoting effect of YAP1.

Conclusion: The results of this research suggest a possible link between the miR-6760-5p gene found in the cerebrospinal fluid of individuals with moyamoya disease and the process of vascularization in this particular condition. The findings indicate that miR-6760-5p may be a new molecular indicator and potential target for the diagnosis of moyamoya disease.

{"title":"miR-6760-5p suppresses neoangiogenesis by targeting Yes-associated protein 1 in patients with moyamoya disease undergoing indirect revascularization.","authors":"Yunyu Wen, Junda Chen, Tinghan Long, Fangzhou Chen, Zhibin Wang, Siyuan Chen, Guozhong Zhang, Mingzhou Li, Shichao Zhang, Huibin Kang, Wenfeng Feng, Gang Wang","doi":"10.1016/j.gene.2024.149152","DOIUrl":"10.1016/j.gene.2024.149152","url":null,"abstract":"<p><strong>Objective: </strong>The aim of this research was to investigate the specific regulatory role of miR-6760-5p in angiogenesis in moyamoya disease.</p><p><strong>Methods: </strong>HUVECs were transfected with miR-6760-5p inhibitor and mimics fragments, then subjected to assays for cell proliferation, migration, and tube formation. Subsequently, downstream target genes of miR-6760-5p were predicted and the protein expression levels of these genes were evaluated. The presence of miR-6760-5p and YAP1 was verified by a dual luciferase reporter gene test, followed by an assessment of the effects of YAP1 and miR-6760-5p on the HUVECs.</p><p><strong>Results: </strong>Comparatively to the control group, increased expression of miR-6760-5p decreased cell growth, movement, and tube formation. YAP1 gene was discovered as a target controlled by miR-6760-5p, with subsequent investigation confirming YAP1 as a gene regulated by miR-6760-5p. Additionally, miR-6760-5p was found to counteract the angiogenesis-promoting effect of YAP1.</p><p><strong>Conclusion: </strong>The results of this research suggest a possible link between the miR-6760-5p gene found in the cerebrospinal fluid of individuals with moyamoya disease and the process of vascularization in this particular condition. The findings indicate that miR-6760-5p may be a new molecular indicator and potential target for the diagnosis of moyamoya disease.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149152"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142812817","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
SLC12A9 is an immunological and prognostic biomarker for glioma.
IF 2.6 3区 生物学 Q2 GENETICS & HEREDITY Pub Date : 2025-02-10 Epub Date: 2024-11-30 DOI: 10.1016/j.gene.2024.149136
Danting Li, Peilin Zheng, Shoujun Huang

Background: Glioma is one of the most common malignant brain tumors. It has a high rate of progression and a poor prognosis, and effective biomarkers still need to be identified. The solute carrier family 12 (SLC12) family has been reported to be involved in various physiological and pathological processes, but their functional roles in glioma remain unclear.

Methods: Using public datasets, we studied the mutation and expression level of SLC12 family genes in glioma and identified the significantly differentially expressed member solute carrier family 12 member 9 (SLC12A9). We further predicted the prognostic role of SLC12A9 in glioma by using the Kaplan-Meier method and Cox regression analysis. Then, we performed biological functional enrichment analysis. We focused on the relationships between SLC12A9 expression and immune infiltration in glioma. Meanwhile, we conducted in vitro experiments to evaluate the effect of SLC12A9 expression on glioma cells.

Results: Among the members of the SLC12 family, SLC12A9 had the highest mutation rate in glioma, with gene amplification as the major mutation type, and its expression was significantly upregulated in glioma. Higher SLC12A9 expression was significantly associated with older age, higher grade, wild-type isocitrate dehydrogenase (IDH), and a worse prognosis. The functional enrichment analysis indicated that SLC12A9 is mainly related to ion channel annotation. Gene set enrichment analysis (GSEA) revealed that SLC12A9 was mainly related to the DNA replication pathway. Furthermore, we found that SLC12A9 correlated with tumor-infiltrating immune cells and immune checkpoints. Thus, SLC12A9 may be involved in regulating the immune response of glioma. Finally, our in vitro experiments revealed that silencing SLC12A9 dramatically inhibited glioma cell growth and migration.

Conclusions: We showed that SLC12A9 may be a new predictive biomarker for glioma diagnosis, prognosis, and immunotherapy response, offering helpful guidelines to advance glioma treatment.

{"title":"SLC12A9 is an immunological and prognostic biomarker for glioma.","authors":"Danting Li, Peilin Zheng, Shoujun Huang","doi":"10.1016/j.gene.2024.149136","DOIUrl":"10.1016/j.gene.2024.149136","url":null,"abstract":"<p><strong>Background: </strong>Glioma is one of the most common malignant brain tumors. It has a high rate of progression and a poor prognosis, and effective biomarkers still need to be identified. The solute carrier family 12 (SLC12) family has been reported to be involved in various physiological and pathological processes, but their functional roles in glioma remain unclear.</p><p><strong>Methods: </strong>Using public datasets, we studied the mutation and expression level of SLC12 family genes in glioma and identified the significantly differentially expressed member solute carrier family 12 member 9 (SLC12A9). We further predicted the prognostic role of SLC12A9 in glioma by using the Kaplan-Meier method and Cox regression analysis. Then, we performed biological functional enrichment analysis. We focused on the relationships between SLC12A9 expression and immune infiltration in glioma. Meanwhile, we conducted in vitro experiments to evaluate the effect of SLC12A9 expression on glioma cells.</p><p><strong>Results: </strong>Among the members of the SLC12 family, SLC12A9 had the highest mutation rate in glioma, with gene amplification as the major mutation type, and its expression was significantly upregulated in glioma. Higher SLC12A9 expression was significantly associated with older age, higher grade, wild-type isocitrate dehydrogenase (IDH), and a worse prognosis. The functional enrichment analysis indicated that SLC12A9 is mainly related to ion channel annotation. Gene set enrichment analysis (GSEA) revealed that SLC12A9 was mainly related to the DNA replication pathway. Furthermore, we found that SLC12A9 correlated with tumor-infiltrating immune cells and immune checkpoints. Thus, SLC12A9 may be involved in regulating the immune response of glioma. Finally, our in vitro experiments revealed that silencing SLC12A9 dramatically inhibited glioma cell growth and migration.</p><p><strong>Conclusions: </strong>We showed that SLC12A9 may be a new predictive biomarker for glioma diagnosis, prognosis, and immunotherapy response, offering helpful guidelines to advance glioma treatment.</p>","PeriodicalId":12499,"journal":{"name":"Gene","volume":" ","pages":"149136"},"PeriodicalIF":2.6,"publicationDate":"2025-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142767909","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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