Acta biochimica et biophysica Sinica最新文献_第3页

D-CAPS: an efficient CRISPR-Cas9-based phage defense system for E. coli. D-CAPS：高效的基于crispr - cas9的大肠杆菌噬菌体防御系统

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-28 DOI: 10.3724/abbs.2024208

Mingjun Sun, Jie Gao, Hongjie Tang, Hengyi Wang, Liyan Zhou, Chuan Song, Yongqiang Tian, Qi Li

{"title":"D-CAPS: an efficient CRISPR-Cas9-based phage defense system for E. coli.","authors":"Mingjun Sun, Jie Gao, Hongjie Tang, Hengyi Wang, Liyan Zhou, Chuan Song, Yongqiang Tian, Qi Li","doi":"10.3724/abbs.2024208","DOIUrl":"https://doi.org/10.3724/abbs.2024208","url":null,"abstract":"Escherichia coli is widely used in industrial chemical synthesis but faces significant challenges due to bacteriophage contamination, which reduces product quality and yield. Therefore, developing an efficient antiphage system is essential. In this study, we develop a CRISPR-Cas9-based antiphage system (CAPS) targeting essential genes of the T7 phage (gene 5 and gene 19) with single gRNAs transformed into MG1655 strains expressing Cas9. While CAPS provides limited resistance, with plating efficiencies ranging from 10 -5 to 10 -1, further optimization is needed. To enhance efficacy, we design a double-site-targeting CRISPR-Cas9-based antiphage system (D-CAPS). D-CAPS demonstrates complete resistance, with no plaques observed even at a high multiplicity of infection (MOI of 2), and growth curve analysis reveals that antiphage E. coli strains grow normally, similar to the wild-type strain, even at a high multiplicity of infection. Furthermore, D-CAPS is effective against BL21(DE3) strains, showing strong resistance and demonstrating its versatility across different E . coli strains. Protein expression analysis via green fluorescent protein confirms that E. coli carrying D-CAPS could maintain normal protein expression levels even in the presence of phages, comparable to wild-type strains. Overall, D-CAPS offers a robust and versatile approach to enhancing E. coli resistance to phages, providing a practical solution for protecting industrial E. coli strains and improving fermentation processes.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143959625","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

GWAS study of myelosuppression among NSCLC patients receiving platinum-based combination chemotherapy. 接受铂类联合化疗的NSCLC患者骨髓抑制的GWAS研究。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-28 DOI: 10.3724/abbs.2025013

Hanxue Huang, Junyan Liu, Qi Xiao, Chenxue Mao, Lei She, Lulu Yu, Bing Yu, Mengrong Lei, Ying Gao, Baimei He, Pinhua Pan, Xi Li, Jiye Yin, Zhaoqian Liu

{"title":"GWAS study of myelosuppression among NSCLC patients receiving platinum-based combination chemotherapy.","authors":"Hanxue Huang, Junyan Liu, Qi Xiao, Chenxue Mao, Lei She, Lulu Yu, Bing Yu, Mengrong Lei, Ying Gao, Baimei He, Pinhua Pan, Xi Li, Jiye Yin, Zhaoqian Liu","doi":"10.3724/abbs.2025013","DOIUrl":"https://doi.org/10.3724/abbs.2025013","url":null,"abstract":"Platinum-based chemotherapy remains the mainstay for non-small cell lung cancer (NSCLC), but it frequently causes dose-limiting myelosuppression, with significant individual variability in susceptibility. However, the genetic basis of myelosuppression side effects remains elusive, greatly hindering personalized therapeutic approaches. In this study, we perform a comprehensive genome-wide association analysis on 491 NSCLC patients receiving platinum-based chemotherapy, examining 4,690,998 single-nucleotide polymorphisms (SNPs) to identify relevant genetic variants. LDBlockShow, FUMA, and MAGMA are utilized to explore linkage disequilibrium, expression quantitative trait loci (eQTLs), chromatin interaction, and conduct gene-based and gene set-based analysis of candidate SNPs. The GWAS results reveal that rs6856089 and its linked SNPs are significantly associated with platinum-based chemotherapy-induced myelosuppression. Specifically, patients with the A allele of rs6856089 have a significantly lower risk of myelosuppression (odds ratio (OR) = 0.1300, P = 7.59 × 10 -8). Furthermore, gene-based analysis reveals that EMCN ( P = 2.47 × 10 -5), which encodes endomucin, a marker for hematopoietic stem cells, might mediate myelosuppression. This study provides a scientific basis for the individual differences in platinum-based chemotherapy-induced myelosuppression.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143952384","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Cx58 is associated with the metastasis of non-small cell lung cancer via MEF2B/Cx58 axis. Cx58通过MEF2B/Cx58轴与非小细胞肺癌的转移相关。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-25 DOI: 10.3724/abbs.2025049

Fen Tan, Juan Chen, Lunquan Sun, Lu Zhang, Rui Zhou

引用次数: 0

Corrigendum to: Melatonin protects TEGDMA-induced preodontoblast mitochondrial apoptosis via the JNK/MAPK signaling pathway. 褪黑素通过JNK/MAPK信号通路保护tegdma诱导的成牙前细胞线粒体凋亡。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-25 DOI: 10.3724/abbs.2025031

Qihao Yu, Ruize Hua, Bingyang Zhao, Dongchao Qiu, Chengfei Zhang, Shengbin Huang, Yihuai Pan

引用次数: 0

CRISPR-based shuttle cloning of 1,397 human genes into UAS vectors. 基于crispr的1397个人类基因穿梭克隆入UAS载体。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-25 DOI: 10.3724/abbs.2025050

Xuelian Liu, Hanqing Xi, Miao Dai, Xiaoxue Li, Wen Xue, Guang Chen, Jialong Yan, Si Xu, Guifang Ou, Si Luo, Yonghong Tang, Ping Wei, Jiwu Wang

引用次数: 0

Single-cell transcriptomic data reveal the cellular heterogeneity of glutamine metabolism in gastric premalignant lesions and early gastric cancer. 单细胞转录组学数据揭示了谷氨酰胺代谢在胃癌前病变和早期胃癌中的细胞异质性。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-23 DOI: 10.3724/abbs.2025061

Qingfeng Ni, Jiawei Yu, Yuanjie Niu, Zhenwei Han, Boyang Hu, Yang Wang, Jianwei Zhu

{"title":"Single-cell transcriptomic data reveal the cellular heterogeneity of glutamine metabolism in gastric premalignant lesions and early gastric cancer.","authors":"Qingfeng Ni, Jiawei Yu, Yuanjie Niu, Zhenwei Han, Boyang Hu, Yang Wang, Jianwei Zhu","doi":"10.3724/abbs.2025061","DOIUrl":"https://doi.org/10.3724/abbs.2025061","url":null,"abstract":"Glutamine metabolism is a hallmark of cancer metabolism. This study aims to perform a comprehensive and systematic single-cell profile of glutamine metabolism in premalignant and malignant gastric lesions. We use single-cell transcriptomics data from chronic atrophic gastritis (CAG) and early gastric cancer (EGC) lesions and investigate glutamine metabolism features at the single-cell level. Experiments are implemented to validate the expression and biological role of ERO1LB in gastric cancer (GC). A single-cell atlas based on 22511 cells from premalignant and early-malignant gastric lesions is established. Among these cells, epithelial cells constitute the dominant cell population in both CAG and EGC lesions. The activity of glutamine metabolism is higher in epithelial cells from EGC lesions than in those from CAG lesions. Among the epithelial cell subpopulations, glutamine metabolism is more active in the epithelial cell subpopulation cluster_4 in EGCs than in CAG lesions. As a key marker gene of this subpopulation, ERO1LB is experimentally proven to be overexpressed in human GC tissue lesions. In both in vitro and in vivo experiments, overexpression of ERO1LB in GC cells increases glutamine metabolism, facilitates cell growth and migration and prevents cell apoptosis, and vice versa. This study provides insight into the cellular heterogeneityof glutamine metabolism within the gastric mucosa in premalignant and malignant gastric lesions and identifies ERO1LB as a key orchestrator of glutamine metabolism, which may help to identify markers for GC prevention and contribute to our understanding of GC pathogenesis.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143956808","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Long noncoding RNA UCA1 knockdown inhibits cisplatin-resistant cervical cancer tumorigenesis via the miR-195-5p/IKBKB axis. 长链非编码RNA UCA1敲低通过miR-195-5p/IKBKB轴抑制顺铂耐药宫颈癌的发生。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-22 DOI: 10.3724/abbs.2025032

Bi Wang, Ling Li, Zhengyu Wu, Xuanzhen Qian, Wenfeng Yu, Zhi Huang

{"title":"Long noncoding RNA UCA1 knockdown inhibits cisplatin-resistant cervical cancer tumorigenesis via the miR-195-5p/IKBKB axis.","authors":"Bi Wang, Ling Li, Zhengyu Wu, Xuanzhen Qian, Wenfeng Yu, Zhi Huang","doi":"10.3724/abbs.2025032","DOIUrl":"https://doi.org/10.3724/abbs.2025032","url":null,"abstract":"Cisplatin resistance is a major cause of poor prognosis in patients with cervical cancer. Dysregulation of long noncoding RNAs (lncRNAs) plays a key role in chemoresistance. Our results reveal that the lncRNA UCA1 is upregulated in cisplatin (DDP)-resistant cervical cancer tissues and HeLa cells. Mechanistically, the lncRNA UCA1 acts as a sponge for miR-195-5p, targeting IKBKB. UCA1 enhances proliferation, migration, and invasion while reducing apoptosis in DDP-resistant HeLa cells via the miR-195-5p/IKBKB axis. Additionally, UCA1 upregulates BNIP3Δex2 and p-p65 expressions and downregulates BNIP3 expression in DDP-resistant HeLa cells. Abnormal expressions of BNIP3Δex2 and BNIP3 significantly alter the malignant progression of HeLa/DPP cells. In vivo, UCA1 silencing inhibits growth, enhances apoptosis, and upregulates IKBKB, BNIP3Δex2, and p-p65 expressions while downregulating BNIP3 expression in subcutaneous xenografts in nude mice by targeting miR-195-5p. Overall, this study highlights a novel promising target for the treatment of DDP-resistant cervical cancer.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143957407","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

D-mannose suppresses the angiogenesis and progression of colorectal cancer. d -甘露糖抑制结直肠癌的血管生成和进展。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-21 DOI: 10.3724/abbs.2025043

Yu Du, Xinchao Zhang, Yixin Xu, Yuefan Zhou, Yanping Xu

引用次数: 0

Integrated quantitative proteomics and phosphoproteomics analysis reveals USP46-POU4F1-HPSE signaling axis in the pathogenesis of Hirschsprung disease. 综合定量蛋白质组学和磷酸化蛋白质组学分析揭示了USP46-POU4F1-HPSE信号轴在巨结肠病发病机制中的作用。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-18 DOI: 10.3724/abbs.2025064

Guowei Li, Fengyin Sun, Jiawei Chen, Qiongqian Xu, Xintao Zhang, Luqiu Chen, Peimin Hou, Aiwu Li

{"title":"Integrated quantitative proteomics and phosphoproteomics analysis reveals USP46-POU4F1-HPSE signaling axis in the pathogenesis of Hirschsprung disease.","authors":"Guowei Li, Fengyin Sun, Jiawei Chen, Qiongqian Xu, Xintao Zhang, Luqiu Chen, Peimin Hou, Aiwu Li","doi":"10.3724/abbs.2025064","DOIUrl":"https://doi.org/10.3724/abbs.2025064","url":null,"abstract":"Hirschsprung's disease (HSCR) is a congenital disorder characterized by the absence of enteric ganglion cells in the distal colon, resulting in functional intestinal obstruction. While genetic mutations and microenvironmental imbalances have been implicated in HSCR, the underlying molecular mechanisms are not fully understood. This study uses integrated quantitative proteomics and phosphoproteomics analyses to characterize the differential protein profiles and phosphorylation modifications associated with HSCR. These findings reveal significant dysregulation of the extracellular matrix (ECM) remodelling pathway, suggesting its potential involvement in HSCR pathogenesis. Notably, the deubiquitinating enzyme USP46 is found to be significantly reduced in the aganglionic segments of HSCR patients. Through IP-MS, GST pull-down, and co-immunoprecipitation assays, it is demonstrated that USP46 interacts with the transcription factor POU4F1. Mechanistically, USP46 stabilizes POU4F1 via deubiquitination, increasing its binding to the heparanase (HPSE) promoter and increasing HPSE expression, which in turn promotes ECM remodelling and neural cell migration. The role of the USP46-POU4F1-HPSE signaling axis in HSCR pathogenesis is confirmed via chromatin immunoprecipitation-qPCR, luciferase reporter assays, and transwell migration assays. This study elucidates a novel regulatory mechanism linking USP46-mediated protein stabilization to ECM dynamics and neural cell migration, offering new insights into HSCR pathogenesis and potential therapeutic targets.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143957917","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Inhibition of HMOX1 alleviates diabetic cardiomyopathy by targeting ferroptosis. 抑制HMOX1通过靶向铁下垂缓解糖尿病性心肌病。

IF 3.3 2区生物学

Acta biochimica et biophysica Sinica Pub Date : 2025-04-16 DOI: 10.3724/abbs.2024232

Huiping Yang, Gongyi Xiao, Dinghui Wang, Tianhua Xiong, Jing Wang, Xiaodong Jing, Bingquan Xiong, Junmei Xie, Bin Liu, Qiang She

{"title":"Inhibition of HMOX1 alleviates diabetic cardiomyopathy by targeting ferroptosis.","authors":"Huiping Yang, Gongyi Xiao, Dinghui Wang, Tianhua Xiong, Jing Wang, Xiaodong Jing, Bingquan Xiong, Junmei Xie, Bin Liu, Qiang She","doi":"10.3724/abbs.2024232","DOIUrl":"https://doi.org/10.3724/abbs.2024232","url":null,"abstract":"Diabetic cardiomyopathy (DCM) is an important complication of chronic diabetes mellitus. However, its pathologic process and pathogenesis have not been fully elucidated. This study aims to investigate the role of ferroptosis in DCM and clarify the effect of heme oxygenase-1 (HMOX1) on DCM by targeting ferroptosis. In vivo, an animal model of DCM is established by subjecting mice to a high-fat diet (HFD) combined with low-dose streptozotocin (STZ) injection. We induce an in vitro DCM model by exposing H9C2 cells to high glucose and palmitic acid. Transcriptome sequencing reveals that the differentially expressed genes (DEGs) are enriched primarily in fatty acid metabolism and mitochondrial fatty acid β-oxidation, which are closely related to ferroptosis. The experimental results show that the diabetic microenvironment induces ferroptosis both in vivo and in vitro. Western blot analysis reveals the decreased expressions of the antioxidant proteins GPX4, SLC7A11 and ferritin in the DCM group. However, qPCR demonstrates the elevated expressions of the ferroptosis markers PTGS2 and ACSL4. Biochemical indicators further support the occurrence of ferroptosis, with increased levels of malondialdehyde (MDA) and lactate dehydrogenase (LDH), along with decreased level of glutathione (GSH). In vitro, intervention with high glucose and palmitic acid in H9C2 cells results in ferroptosis, which is reversed by ferrostatin-1 (Fer-1). Results show the elevated expression of HMOX1 in DCM. Moreover, knockdown of HMOX1 ameliorates ferroptosis, thereby alleviating diabetic cardiomyopathy by reducing cardiac fibrosis and improving cardiac function. Our study elucidates the role of HMXO1 in DCM pathogenesis and provides a potential therapeutic strategy for clinical treatment.","PeriodicalId":6978,"journal":{"name":"Acta biochimica et biophysica Sinica","volume":" ","pages":""},"PeriodicalIF":3.3,"publicationDate":"2025-04-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143968559","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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