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Identification of post-transcriptional regulation reveals complexity in peanut pod development by Direct RNA 转录后调控的鉴定揭示了直接RNA在花生豆荚发育中的复杂性
IF 5 4区 农林科学
aBIOTECH Pub Date : 2025-09-08 DOI: 10.1007/s42994-025-00224-5
Wei Wang, Haosong Guo, Jianxin Bian, Fa Cui, Xiaoqin Liu
{"title":"Identification of post-transcriptional regulation reveals complexity in peanut pod development by Direct RNA","authors":"Wei Wang,&nbsp;Haosong Guo,&nbsp;Jianxin Bian,&nbsp;Fa Cui,&nbsp;Xiaoqin Liu","doi":"10.1007/s42994-025-00224-5","DOIUrl":"10.1007/s42994-025-00224-5","url":null,"abstract":"<div><p>Peanut (<i>Arachis hypogaea</i>) is widely cultivated worldwide as an important source of edible vegetable oil and protein. Peanut seed pods develop below ground from a gynophore that forms above ground and then penetrates the soil surface to bury the developing pod. Numerous studies have explored transcriptional regulation during peanut pod development. Here, we explored post-transcriptional regulation, including polyadenylation, alternative splicing, and RNA adenosine methylation (m<sup>6</sup>A), in peanut pods across four developmental stages by performing direct RNA sequencing. This produced 70.43 million long reads with average lengths of 890–1,136 nucleotides (nt) from 12 samples across four developmental stages, yielding a total of 14,627 newly identified transcripts. We detected a negative relationship between poly(A) tail lengths and transcript abundance, with the shortest poly(A) tails at the subterranean peg and expanded pod 1 stages, and longest poly(A) tails at the aerial gynophore and expanded pod 2 stages. Moreover, throughout pod development, from the penetration of the gynophore into the soil to pod enlargement, the splicing machinery utilized more proximal than distal alternative polyadenylation sites in the transcripts. The date showed no correlation between m<sup>6</sup>A modification and gene expression in peanut, but found more transcripts with alternative first and last exon types of alternative splicing events. Transcripts that were differentially abundant across developmental stages were primarily enriched in the Gene Ontology terms photosynthesis, response to oxidative stress, response to auxin, plant-type cell wall organization, and lignin catabolism. This study lays a foundation for revealing the roles of epigenetics and post-transcriptional regulation in pod development in peanut. </p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"6 3","pages":"554 - 568"},"PeriodicalIF":5.0,"publicationDate":"2025-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-025-00224-5.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145100600","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Construction and analysis of molecular genetic map of perennial Chinese rice. 中国多年生水稻分子遗传图谱的构建与分析。
遗传 Pub Date : 2025-09-01 DOI: 10.16288/j.yczz.24-340
Ting-Shen Peng, Jiu-Yan Lu, Yu-Xin Yan, Lin Tan, Wen-Bin Nan, Xiao-Jian Qin, Ming Li, Jun-Yi Gong, Yong-Shu Liang
{"title":"Construction and analysis of molecular genetic map of perennial Chinese rice.","authors":"Ting-Shen Peng, Jiu-Yan Lu, Yu-Xin Yan, Lin Tan, Wen-Bin Nan, Xiao-Jian Qin, Ming Li, Jun-Yi Gong, Yong-Shu Liang","doi":"10.16288/j.yczz.24-340","DOIUrl":"https://doi.org/10.16288/j.yczz.24-340","url":null,"abstract":"<p><p>To develop perennial rice varieties and realize one planting (year) more harvest planting pattern of increasing yield and farmer's income is one of the most cost-effective strategy involved in safeguarding China's grain supply. In this study, construction and analysis of molecular maps of perennial rice was performed to elucidate the genetic laws of microsatellite loci in perennial Chinese rice, two half-sib F<sub>2</sub> populations derived from two perennial Chinese <i>japonica</i> rice (HN2<sup>#</sup> and CB7<sup>#</sup>) crossed to the annual <i>indica</i> rice XieqingzaoB (XQZB) were developed to construct two half-sib linkage maps. We established linkage map lengths of 2,036.10 cM and 1,878.23 cM with average genetic distance of 18.85 cM and 17.23 cM by using 108 and 109 SSR markers in both HN2<sup>#</sup> and CB7<sup>#</sup> map, respectively. Chi-square value (<i>χ</i><sup>2</sup>) for genotypes in the F<sub>2</sub> populations of both HN2<sup>#</sup> and CB7<sup>#</sup> were 134.85 and 291.02, respectively, and exhibited extreme significant bias towards XQZB. <i>χ</i><sup>2</sup> value for genotype on each linkage group of both HN2<sup>#</sup> and CB7<sup>#</sup> map ranged from 2.23 to 175.67, from 4.53 to 191.52, respectively. Genotypes on linkage groups of both the 1<sup>st</sup>, 2<sup>nd</sup>, 3<sup>rd</sup>, 4<sup>th</sup>, 6<sup>th</sup>, 8<sup>th</sup>, 9<sup>th</sup>, 10<sup>th</sup>, and 12<sup>th</sup> in HN2<sup>#</sup> map and 1<sup>st</sup>, 2<sup>nd</sup>, 3<sup>rd</sup>, 5<sup>th</sup>, 6<sup>th</sup>, 7<sup>th</sup>, 9<sup>th</sup>, 11<sup>th</sup>, and 12<sup>th</sup> in CB7<sup>#</sup> map deviated from the Mendelian ratio. There 38 F<sub>2</sub> individual in HN2<sup>#</sup> and 47 F<sub>2</sub> individual in CB7<sup>#</sup> population deviated from the Mendelian ratio, respectively. Altogether 32 markers showed segregation distortion (29.63%) and clustered on the 3<sup>rd</sup>, 4<sup>th</sup> and 6<sup>th</sup> of linkage in HN2<sup>#</sup> map, there 44 markers showed segregation distortion (40.37%) and clustered on the 3<sup>rd</sup>, 5<sup>th</sup>, 6<sup>th</sup>, 7<sup>th</sup>, 9<sup>th</sup>, and 12<sup>th</sup> of linkage in CB7<sup>#</sup> map. Overall, this study lays a good foundation for the mining of beneficial genes and the innovation and utilization of perennial Chinese rice genetic resources.</p>","PeriodicalId":35536,"journal":{"name":"遗传","volume":"47 9","pages":"1042-1056"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145081949","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}
引用次数: 0
Evaluation of heterotic effects and inbreeding depression of F2 populations of Brassica juncea based on yield and yield-contributing traits 基于产量和产量贡献性状的芥菜F2居群杂种优势及近交抑制评价
Oil Crop Science Pub Date : 2025-09-01 DOI: 10.1016/j.ocsci.2025.04.008
Fatema Tuj Johora, Niloy Gain, Md. Zahidur Rahman, Jamilur Rahman
{"title":"Evaluation of heterotic effects and inbreeding depression of F2 populations of Brassica juncea based on yield and yield-contributing traits","authors":"Fatema Tuj Johora,&nbsp;Niloy Gain,&nbsp;Md. Zahidur Rahman,&nbsp;Jamilur Rahman","doi":"10.1016/j.ocsci.2025.04.008","DOIUrl":"10.1016/j.ocsci.2025.04.008","url":null,"abstract":"<div><div>Indian mustard is recognized as a resilient and economically important oilseed crop. However, its potential remains untapped due to the limited availability of short-duration, high-yielding varieties capable of outcompeting other <em>rabi</em> crops. Considering this notion, we have evaluated twenty-one F<sub>2</sub> and six BC<sub>1</sub>F<sub>1</sub> populations derived from seven diversified parents of <em>B</em><em>rassica</em> <em>juncea</em> following a Randomized Complete Block Design at Sher-e-Bangla Agricultural University. Based on key agronomic traits, the genetic components, heterosis, inbreeding depression, and gene action were studied to select early maturing and high-yielding populations. The percentage of heterosis was manifested in various cross-combinations, including P4 ​× ​P6 (91.45% for yield per plant) and P5 ​× ​P6 (28.52% for thousand seed weight), emerging as promising candidates for increasing productivity while managing negative inbreeding effects. Conversely, significant inbreeding depression was noted in traits like days to siliquae maturity and yield, particularly in crosses, P1 ​× ​P2 (6.29%) and P3 ​× ​P5 (21.74%), underscoring the need for careful selection in breeding programs to mitigate these effects. Variance analysis indicated that both additive and non-additive genetic interactions play a pivotal role in the inheritance patterns of the traits of interest. Among the six backcrosses, one promising line was (P5 ​× ​P6) ​× ​P5, demonstrating early maturity (107.00 DAS) with improved seed yield (12.47 ​g). This combination exhibited the potential for enhancing the adaptability and productivity by maintaining the maturity index and accelerating yield. Furthermore, significant phenotypic variation across yield-contributing traits was notable, whereas thousand seed weight and yield per plant showed high broad-sense and narrow-sense of heritability. Besides, positive correlations between seed yield and its attributing traits were noted, suggesting potential avenues for selection breeding. Collectively, the obtained findings enhance the understanding of genetic mechanisms underlying heterosis and inbreeding depression in <em>B. juncea</em>, providing insights and effective strategies for developing superior cultivars with optimized agronomic traits.</div></div>","PeriodicalId":34095,"journal":{"name":"Oil Crop Science","volume":"10 3","pages":"Pages 223-234"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145109666","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}
引用次数: 0
Evaluation of the nutritional qualities of flaxseeds from five main producing areas in China 中国五个主要产区亚麻籽的营养品质评价
Oil Crop Science Pub Date : 2025-09-01 DOI: 10.1016/j.ocsci.2025.05.003
Peiyao Luo , Xuefang Wang , Mengxue Fang , Fei Ma , Li Yu , Wei Fan , Shiyin Guo , Huiying Lv , Liangxiao Zhang , Qianchun Deng , Peiwu Li , Zhonghai Tang
{"title":"Evaluation of the nutritional qualities of flaxseeds from five main producing areas in China","authors":"Peiyao Luo ,&nbsp;Xuefang Wang ,&nbsp;Mengxue Fang ,&nbsp;Fei Ma ,&nbsp;Li Yu ,&nbsp;Wei Fan ,&nbsp;Shiyin Guo ,&nbsp;Huiying Lv ,&nbsp;Liangxiao Zhang ,&nbsp;Qianchun Deng ,&nbsp;Peiwu Li ,&nbsp;Zhonghai Tang","doi":"10.1016/j.ocsci.2025.05.003","DOIUrl":"10.1016/j.ocsci.2025.05.003","url":null,"abstract":"<div><div>Flax (<em>Linum usitatissimum</em> L.) is an important oil crop in the high-altitude arid regions of China. Flaxseed is rich in various nutrients. However, the nutritional qualities of flaxseeds from different producing areas are still unclear. In this study, the nutritional characteristics of flaxseed from five producing areas in China were investigated. Twenty five nutritional quality indices in flaxseed were analyzed. Subsequently, chemometric methods, including cluster analysis, principal component analysis (PCA) and partial least square discriminant analysis (PLS-DA), were employed to discover the characteristics of nutritional qualities in flaxseeds. The results revealed there are significant differences in nutritional qualities among flaxseeds from different production areas. Six quality indices including γ-tocopherol, vitamin E, phytosterols, oleic acid, α-linolenic acid, and cycloartenol were susceptible to producing area. In detail, the superiorcharacteristic nutrients of Ningxia flaxseed, Inner Mongolia flaxseed and Hebei flaxseed are vitamin E (17.3 ​mg/100g), α-linolenic acid (52.6%) and cycloartenol (1738.1 ​mg/kg), and phytosterols (3032.0 ​mg/kg), respectively. This study promotes the high-value development and utilization of local flaxseed industry.</div></div>","PeriodicalId":34095,"journal":{"name":"Oil Crop Science","volume":"10 3","pages":"Pages 205-211"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145109664","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}
引用次数: 0
Overexpression of Vitreoscilla hemoglobin gene enhances flooding resistance in Brassica napus 玻璃颤菌血红蛋白基因的过表达增强了甘蓝型油菜的抗洪能力
Oil Crop Science Pub Date : 2025-09-01 DOI: 10.1016/j.ocsci.2025.03.002
Jiaxin Liu , Jinfeng Wu , Xinhong Liu , Lili Liu , Mingli Yan , Bao Li
{"title":"Overexpression of Vitreoscilla hemoglobin gene enhances flooding resistance in Brassica napus","authors":"Jiaxin Liu ,&nbsp;Jinfeng Wu ,&nbsp;Xinhong Liu ,&nbsp;Lili Liu ,&nbsp;Mingli Yan ,&nbsp;Bao Li","doi":"10.1016/j.ocsci.2025.03.002","DOIUrl":"10.1016/j.ocsci.2025.03.002","url":null,"abstract":"<div><div>Flooding can lead to oxygen deprivation in rapeseed, negatively affecting its growth and development and ultimately reducing yields. <em>Vitreoscilla</em> hemoglobin (VHb), a bacterial hemoglobin with a high oxygen-binding affinity, plays a key role in enhancing oxygen uptake and metabolic efficiency under low-oxygen conditions. Through genetic transformation, we overexpressed the <em>VHb</em> gene in rapeseed, which resulted in significant improvements in survival rate, root length, and biomass under submerged conditions. Additionally, we observed that transgenic plants developed adventitious roots in response to submergence stress. These transgenic plants also exhibited increased activities of ethanol dehydrogenase and pyruvate decarboxylase—enzymes associated with anaerobic respiration. Our findings indicate that <em>VHb</em> enhances flooding tolerance in rapeseed by promoting adventitious root formation and strengthening the plant's capacity for fermentation metabolism under anaerobic conditions.</div></div>","PeriodicalId":34095,"journal":{"name":"Oil Crop Science","volume":"10 3","pages":"Pages 186-193"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145098759","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}
引用次数: 0
Analysis of the effect of temperature and packing method on the quality and oxidative stability of walnuts in storage 温度和包装方式对核桃贮藏品质及氧化稳定性的影响分析
Oil Crop Science Pub Date : 2025-09-01 DOI: 10.1016/j.ocsci.2025.02.005
Xuan Ma , Chongbo Huang , Chang Zheng , Fangyan Long , Mandi Zhao , Changsheng Liu
{"title":"Analysis of the effect of temperature and packing method on the quality and oxidative stability of walnuts in storage","authors":"Xuan Ma ,&nbsp;Chongbo Huang ,&nbsp;Chang Zheng ,&nbsp;Fangyan Long ,&nbsp;Mandi Zhao ,&nbsp;Changsheng Liu","doi":"10.1016/j.ocsci.2025.02.005","DOIUrl":"10.1016/j.ocsci.2025.02.005","url":null,"abstract":"<div><div>Walnuts are rich in a variety of nutritional components. However, due to their high content of unsaturated fatty acids (UFAs), the quality of walnuts tends to decline during storage, which adversely affects the development of the walnut industry. This study was aimed to investigate the impacts of temperature and packaging methods on the storage quality and oxidative stability of walnuts. The Wen 185 walnut variety was selected, and the physical-chemical and nutritional indexes of walnuts stored for 42 weeks under different temperatures (−18 ​°C, 4 ​°C, and room temperature) and packaging methods (vacuum light-exposed, vacuum light-proof, vacuum-radiation light-exposed, vacuum-radiation light-proof, nitrogen-filled light-exposed, nitrogen-filled light-proof) were measured. The results showed that low temperatures, especially −18 ​°C, in combination with vacuum lightproof packaging, could effectively suppress the increase in oxidative stability indicators such as acid value (AV) and peroxide value (PV), and maintain high retention rates of nutritional indicators like tocopherol and phytosterol. This study has elucidated that low temperatures and appropriate packaging methods play the crucial roles in maintaining the quality and oxidative stability of walnuts during storage. It has provided comprehensive and valuable data support and theoretical basis for the scientific storage of walnuts, contributing to the development of the walnut industry and the guarantee of product quality.</div></div>","PeriodicalId":34095,"journal":{"name":"Oil Crop Science","volume":"10 3","pages":"Pages 212-222"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145109665","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}
引用次数: 0
Double nano-emulsions for stabilizing Vitamin C and enhancing antioxidant capacity with macadamia oil and tea tree essential oil 双重纳米乳液,稳定维生素C,增强抗氧化能力,含有夏威夷果油和茶树精油
Oil Crop Science Pub Date : 2025-09-01 DOI: 10.1016/j.ocsci.2025.04.007
Dinh Quan Nguyen , Ngoc Thien Phuc Nguyen , Thi Trinh To , Le Minh Dat Nguyen , Thi Khanh Van Pham , Gia Man Vu , Long Phuoc Lieu
{"title":"Double nano-emulsions for stabilizing Vitamin C and enhancing antioxidant capacity with macadamia oil and tea tree essential oil","authors":"Dinh Quan Nguyen ,&nbsp;Ngoc Thien Phuc Nguyen ,&nbsp;Thi Trinh To ,&nbsp;Le Minh Dat Nguyen ,&nbsp;Thi Khanh Van Pham ,&nbsp;Gia Man Vu ,&nbsp;Long Phuoc Lieu","doi":"10.1016/j.ocsci.2025.04.007","DOIUrl":"10.1016/j.ocsci.2025.04.007","url":null,"abstract":"<div><div>Vitamin C, a potent antioxidant with broad therapeutic applications, is limited by rapid degradation under environmental stressors, which compromises its stability and bioactivity. This study addresses these limitations by formulating a double nano-emulsion (W/O/W) system incorporating macadamia oil and tea tree oil, using homogenization and phase inversion temperature (PIT) techniques. Comprehensive physicochemical characterization, including droplet size, polydispersity index (PDI), zeta potential, turbidity, Fourier transform infrared spectroscopy (FTIR), and SEM, was conducted alongside stability assessments under varying pH, temperature, and storage conditions. The optimized nano-emulsions exhibited nanoscale droplet sizes (10–40 ​nm), low PDI values (indicating high uniformity), and robust stability. Interestingly, the formulation with 2% W/O loading, with a particle size of 11.57 ​nm and a PDI of 0.04, demonstrated an antioxidant capacity of 4622.62 ​μg ascorbic acid equivalents (AA)/g, which was significantly higher (p ​&lt; ​0.05) compared to both natural oils (macadamia oil: 20.91 ​μg AA/g, tea tree oil: 16.86 ​μg AA/g) and a 10% Vitamin C aqueous solution (592.94 ​μg AA/g). FTIR analysis confirmed the molecular integrity of Vitamin C and its successful encapsulation with macadamia and tea tree oils, while SEM images revealed uniformly spherical and well-dispersed droplets. Moreover, the formulation retained its structural integrity and antioxidant functionality under diverse pH and thermal conditions. These findings underscore the potential of double nano-emulsion systems to overcome the stability challenges of Vitamin C, offering a promising approach to enhance its bioavailability and therapeutic performance in pharmaceutical and cosmetic applications.</div></div>","PeriodicalId":34095,"journal":{"name":"Oil Crop Science","volume":"10 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145098757","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}
引用次数: 0
Developmental regulatory factors promote the efficiency of crop genetic transformation. 发育调控因子促进作物遗传转化效率的提高。
遗传 Pub Date : 2025-09-01 DOI: 10.16288/j.yczz.24-345
Ying-Ying Xie, Ke-Jian Wang, Yu-Chun Rao, Yong Huang
{"title":"Developmental regulatory factors promote the efficiency of crop genetic transformation.","authors":"Ying-Ying Xie, Ke-Jian Wang, Yu-Chun Rao, Yong Huang","doi":"10.16288/j.yczz.24-345","DOIUrl":"https://doi.org/10.16288/j.yczz.24-345","url":null,"abstract":"<p><p>Genetic transformation technology is a core tool for generating plants with gain- or loss-of-function in modern biology and agricultural biotechnology. In recent years, developmental regulatory factors (DRs) have shown great potential in enhancing the efficiency of crop genetic transformation. In this review, we systematically examine the main crop genetic transformation methods, including <i>Agrobacterium</i>-mediated transformation and gene gun techniques, and discuss the current challenges in the transformation process, such as low transformation efficiency, strong genotype dependence, and insufficient regeneration capacity. We then provide a detailed discussion of several key developmental regulatory factors and their recent applications in improving transformation efficiency, overcoming genotype dependence, and enhancing regeneration capacity. Additionally, we explore the future prospects of DRs, highlighting their significant potential applications in precision gene editing, functional genomics, synthetic biology, and crop genetic improvement. Through in-depth research on DRs, the bottlenecks in crop genetic transformation are expected to be effectively overcome, thus advancing the further development of crop science and agricultural biotechnology.</p>","PeriodicalId":35536,"journal":{"name":"遗传","volume":"47 9","pages":"992-1006"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145081891","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}
引用次数: 0
A prognostic risk model construction for endometrial cancer based on inflammation-related genes. 基于炎症相关基因的子宫内膜癌预后风险模型构建。
遗传 Pub Date : 2025-09-01 DOI: 10.16288/j.yczz.24-376
Jian-Yao Liu, Yue Li, Huan-Huan Hu, Shu-Yue Xiao, Xin-Yi Xie, Shan-Liang Zhong, Zhen Gong, Chen-Jing Zhu, Han-Zi Xu
{"title":"A prognostic risk model construction for endometrial cancer based on inflammation-related genes.","authors":"Jian-Yao Liu, Yue Li, Huan-Huan Hu, Shu-Yue Xiao, Xin-Yi Xie, Shan-Liang Zhong, Zhen Gong, Chen-Jing Zhu, Han-Zi Xu","doi":"10.16288/j.yczz.24-376","DOIUrl":"https://doi.org/10.16288/j.yczz.24-376","url":null,"abstract":"<p><p>Inflammatory responses have been identified as a critical factor in the development and progression of various types of tumors. These responses influence the tumor microenvironment, promoting tumor cell invasion and migration while concomitantly reducing the efficacy of tumor therapy. Inflammation is widely regarded as a significant risk factor for the development of endometrial cancer (EC). However, the precise mechanisms through which it influences the development of EC remain to be elucidated. In this study, we obtain RNA expression profiles of EC patients and related clinical information from The Cancer Genome Atlas (TCGA) database. We then screen key inflammation-related genes using survival analysis and the least absolute value shrinkage and selection operator (LASSO) algorithms. Based on this, we finally construct a prognostic risk scoring model containing nine non-zero coefficient IRGs and an alignment diagram prediction model. Survival analysis demonstrates that patients in the low-risk group exhibit a higher survival rate and more favorable prognosis. The predictive performance of both models was confirmed through the analysis of test sets and calibration curves. Subsequently, we obtain EC-related datasets from the Gene Expression Omnibus (GEO) database to serve as an external validation, thereby further substantiating the reliability of the models. Subsequent immune infiltration analysis revealed significant disparities among nine immune cell types between the high- and low-risk groups, with multiple immune cells correlating with tumor progression and prognosis. Concurrently, we perform drug sensitivity analysis, it reveals a significant correlation between one representative EC drug, tamoxifen, and one of the aforementioned IRGs. In summary, our study successfully constructs a risk score model and a column-line graph prediction model for EC. It is expected that these models will better predict the overall survival and provide new therapeutic targets for EC patients.</p>","PeriodicalId":35536,"journal":{"name":"遗传","volume":"47 9","pages":"1007-1022"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145081937","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}
引用次数: 0
The molecular mechanism of limb regeneration of Hynobius yiwuensis. 义乌海参肢体再生的分子机制。
遗传 Pub Date : 2025-09-01 DOI: 10.16288/j.yczz.24-326
Hao Chen, Rui Dong, Yan-Feng Wang, Jing-Bei Xie, Zhao-Xu Zhang, Rong-Quan Zheng
{"title":"The molecular mechanism of limb regeneration of <i>Hynobius yiwuensis</i>.","authors":"Hao Chen, Rui Dong, Yan-Feng Wang, Jing-Bei Xie, Zhao-Xu Zhang, Rong-Quan Zheng","doi":"10.16288/j.yczz.24-326","DOIUrl":"https://doi.org/10.16288/j.yczz.24-326","url":null,"abstract":"<p><p><i>Hynobius yiwuensis</i> is a vulnerable species endemic to China, restricted to specific hilly regions in Zhejiang Province. This study employed stereomicroscopy to examine the limb regeneration process in <i>H. yiwuensis</i> and utilized transcriptome sequencing to analyze differentially expressed genes. The results indicate that <i>H. yiwuensis</i> possesses strong regenerative capabilities, with the regeneration process comprising four stages: wound healing, tissue dissolution and dedifferentiation, blastema formation, and morphogenesis followed by redifferentiation. Transcriptome analysis identified numerous differentially expressed genes during limb regeneration, exhibiting distinct expression patterns at various time points post-amputation. Key differentially expressed genes were identified, including <i>IL10</i>, associated with cellular immunity and inflammation; <i>TGFβ3</i>, involved in early muscle tissue regeneration; and MMPs, implicated in tissue remodeling. qRT-PCR validation of selected differentially expressed genes confirmed the reliability of the transcriptome sequencing data. Preliminary findings suggest that <i>H. yiwuensis</i> regulates limb regeneration and promotes scar-free tissue repair through signaling pathways such as Wnt/β-catenin, TGFβ, and BMP.</p>","PeriodicalId":35536,"journal":{"name":"遗传","volume":"47 9","pages":"1032-1041"},"PeriodicalIF":0.0,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145081954","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}
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