Biochemistry and Cell Biology最新文献_第9页

The pseudogene RPS27AP5 expresses ubiquitin and ribosomal protein variants with potential roles in ribosome function. 伪基因RPS27AP5表达泛素和核糖体蛋白变体，并在核糖体功能中发挥潜在作用。

IF 2.1 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 DOI: 10.1139/bcb-2025-0228

Anna Meller, Jennifer Raisch, Dominique Lévesque, Etienne Fafard-Couture, Michelle Scott, Xavier Roucou, Francois-Michel Boisvert

{"title":"The pseudogene RPS27AP5 expresses ubiquitin and ribosomal protein variants with potential roles in ribosome function.","authors":"Anna Meller, Jennifer Raisch, Dominique Lévesque, Etienne Fafard-Couture, Michelle Scott, Xavier Roucou, Francois-Michel Boisvert","doi":"10.1139/bcb-2025-0228","DOIUrl":"10.1139/bcb-2025-0228","url":null,"abstract":"Pseudogenes, traditionally considered non-functional gene copies, have garnered attention due to emerging evidence of their transcription and translation. Ubiquitin is canonically expressed from UBA52 and RPS27A genes as fusion proteins, with additional polyubiquitin precursors encoded by UBB and UBC. Several pseudogenes of these loci are annotated as non-functional. Here, we report that the RPS27A pseudogene, RPS27AP5, expresses two proteins: a ubiquitin variant (UbP5) and a ribosomal protein variant (S27aP5). These proteins mature through cleavage and exhibit localization and biochemical characteristics similar to their parental counterparts. S27aP5 integrates into ribosomes, and its overexpression leads to an increased 80S monosome fraction. Using affinity purification and polysome profiling, we show that S27aP5-containing ribosomes exhibit altered mRNA associations. The findings suggest that RPS27A, a processed pseudogene, can give rise to a ribosomal protein variant capable of integrating into monosomes and influencing mRNA association aligns with growing evidence that ribosomes may exhibit functional diversity.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-18"},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145130050","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

Artificial intelligence in academia: opportunities, challenges, and ethical considerations. 学术界的人工智能：机遇、挑战和伦理考虑。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 Epub Date: 2024-11-29 DOI: 10.1139/bcb-2024-0216

Joshua Molligan, Edel Pérez-López

引用次数: 0

TMCO1 regulates energy metabolism and mitochondrial function of hepatocellular carcinoma cells through TOMM20, affecting the growth of subcutaneous graft tumors and infiltration of CAFs. TMCO1通过TOMM20调节肝癌细胞的能量代谢和线粒体功能，影响皮下移植瘤的生长和CAFs的浸润。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 Epub Date: 2024-11-20 DOI: 10.1139/bcb-2024-0091

Genwang Wang, Di Liu, Junzhi Leng, Dong Jin, Qi Wang, Hao Wang, Yang Bu, Feng Wang, Yongfeng Hui

{"title":"TMCO1 regulates energy metabolism and mitochondrial function of hepatocellular carcinoma cells through TOMM20, affecting the growth of subcutaneous graft tumors and infiltration of CAFs.","authors":"Genwang Wang, Di Liu, Junzhi Leng, Dong Jin, Qi Wang, Hao Wang, Yang Bu, Feng Wang, Yongfeng Hui","doi":"10.1139/bcb-2024-0091","DOIUrl":"10.1139/bcb-2024-0091","url":null,"abstract":"This study mainly shows the role of endoplasmic reticulum transmembrane and coiled coil domains 1 (TMCO1) in the regulatory mechanism of hepatocellular carcinoma (HCC). Invasion and migration capacity were detected by Transwell and wound healing after TMCO1 and TOMM20 overexpression and knockdown, and mitochondrial function was detected through reactive oxygen species (ROS), mitochondrial permeability transition pore (mPTP), mitochondrial membrane potential (MMP), and ATP production. A model of subcutaneous tumor formation in nude mice was established to detect the effect of TMCO1 on tumor formation. The results showed that overexpression of TMCO1 significantly promoted HCC cell metastasis, promoted cell proliferation and ATP production, inhibited cell apoptosis, mPTP opening and ROS production, mediated the increase of MMP level and cytoskeletal remodeling. However, knocking down TMCO1 can have the opposite effect. More importantly, knocking down TOMM20 can block the regulation effect of TMCO1, and TOMM20 overexpression can alleviate the inhibitory effect of knocking down TMCO1 on the development of liver cancer cells. In animal models, knockdown of TMCO1 expression significantly inhibited the growth of subcutaneous implant tumors. This suggests that TMCO1 may be a potential and valuable therapeutic target for liver cancer.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-15"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142680701","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

Neuroprotective effects of whey and buttermilk-based formulas on a DSS-induced colitis murine model. 乳清和酪乳配方奶粉对 DSS 诱导的小鼠结肠炎模型的神经保护作用。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 Epub Date: 2024-10-01 DOI: 10.1139/bcb-2024-0153

Berta Buey, Eva Latorre, Marta Castro, Marta Sofía Valero, Miguel Ángel Plaza, María Pilar Arruebo, Inés Abad, Ana Rodríguez-Largo, Lourdes Sánchez, José Emilio Mesonero

{"title":"Neuroprotective effects of whey and buttermilk-based formulas on a DSS-induced colitis murine model.","authors":"Berta Buey, Eva Latorre, Marta Castro, Marta Sofía Valero, Miguel Ángel Plaza, María Pilar Arruebo, Inés Abad, Ana Rodríguez-Largo, Lourdes Sánchez, José Emilio Mesonero","doi":"10.1139/bcb-2024-0153","DOIUrl":"10.1139/bcb-2024-0153","url":null,"abstract":"Inflammatory bowel disease is a gut-brain axis disorder that comprises chronic inflammatory conditions affecting the gastrointestinal tract, where alterations in the mood of patients are common. Gut-brain axis is a bidirectional communication that link gut and brain. The close association between inflammatory bowel disease and neuroinflammation has far-reaching implications, as is increasingly recognized as a contributing factor to neuropsychiatric and neurodegenerative diseases. The increasing prevalence and high economic cost, together with the loss of life quality of people suffering from these diseases, point to the need to find alternatives to alleviate them. Exploring new therapeutic avenues prompts us to consider the potential benefits of milk fractions, taking advantage of the use of dairy by-products, such as whey and buttermilk. This study examines the impact of cow's whey- and buttermilk-based formulas supplemented with bovine lactoferrin and milk fat globule membrane on the expression of cytokines, as well as on the components of immune and serotonergic system of the brain in a murine model of dextran sodium sulfate-induced colitis. Our results show the potential of these dairy by-products, especially whey, as functional foods in ameliorating neuroinflammation and safeguarding the central nervous system function amid the neurological complications induced or concomitant with intestinal inflammatory processes.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-11"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142364213","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

Early pigment spot segmentation and classification from iris cellular image analysis with explainable deep learning and multiclass support vector machine. 利用可解释的深度学习和多类支持向量机从虹膜细胞图像分析中进行早期色素斑点分割和分类。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 Epub Date: 2023-10-31 DOI: 10.1139/bcb-2023-0183

Amjad R Khan, Rabia Javed, Tariq Sadad, Saeed Ali Bahaj, Gabriel Avelino Sampedro, Mideth Abisado

{"title":"Early pigment spot segmentation and classification from iris cellular image analysis with explainable deep learning and multiclass support vector machine.","authors":"Amjad R Khan, Rabia Javed, Tariq Sadad, Saeed Ali Bahaj, Gabriel Avelino Sampedro, Mideth Abisado","doi":"10.1139/bcb-2023-0183","DOIUrl":"10.1139/bcb-2023-0183","url":null,"abstract":"Globally, retinal disorders impact thousands of individuals. Early diagnosis and treatment of these anomalies might halt their development and prevent many people from developing preventable blindness. Iris spot segmentation is critical due to acquiring iris cellular images that suffer from the off-angle iris, noise, and specular reflection. Most currently used iris segmentation techniques are based on edge data and noncellular images. The size of the pigment patches on the surface of the iris increases with eye syndrome. In addition, iris images taken in uncooperative settings frequently have negative noise, making it difficult to segment them precisely. The traditional diagnosis processes are costly and time consuming since they require highly qualified personnel and have strict environments. This paper presents an explainable deep learning model integrated with a multiclass support vector machine to analyze iris cellular images for early pigment spot segmentation and classification. Three benchmark datasets MILE, UPOL, and Eyes SUB were used in the experiments to test the proposed methodology. The experimental results are compared on standard metrics, demonstrating that the proposed model outperformed the methods reported in the literature regarding classification errors. Additionally, it is observed that the proposed parameters are highly effective in locating the micro pigment spots on the iris surfaces.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-10"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71420299","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 role of the polybromo-associated BAF complex in development. 多溴相关 BAF 复合物在发育过程中的作用。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 Epub Date: 2024-11-14 DOI: 10.1139/bcb-2024-0224

JinYoung Park, Jacob G Kirkland

{"title":"The role of the polybromo-associated BAF complex in development.","authors":"JinYoung Park, Jacob G Kirkland","doi":"10.1139/bcb-2024-0224","DOIUrl":"10.1139/bcb-2024-0224","url":null,"abstract":"Chromatin is dynamically regulated during development, where structural changes affect the transcription of genes required to promote different cell types. One of the chromatin regulatory factors responsible for transcriptional regulation during development is the SWItch/Sucrose Non-Fermentable (SWI/SNF) complex, an ATP-dependent chromatin remodeling factor conserved throughout eukaryotes. The catalytic subunit of this complex, BRG1, is shared in all three SWI/SNF complexes subfamilies and is essential for developing most cell lineages. Interestingly, many human developmental diseases have correlative or causative mutations in different SWI/SNF subunits. Many polybromo-associated BAF (pBAF) complex-specific subunit genetic alterations result in developmental failures in tissue-specific ways. This observation suggests that the pBAF complex plays a vital role in development and differentiation, and studying the pBAF complex may provide an opportunity to better understand gene regulation during development. In this mini-view, we will focus on the functions of pBAF-specific subunits and their influence on the development of various cell and tissue types by regulating developmental gene expression.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-8"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11752563/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142614211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A novel mouse model of pulmonary fibrosis: twice-repeated oropharyngeal bleomycin administration mimicking human pathology. 一种新的小鼠肺纤维化模型：两次重复的口咽博来霉素给药模拟人类病理。

IF 2.4 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 DOI: 10.1139/bcb-2024-0221

Jingyu Wang, Fengqing Zhu, Yuxuan Liu, Renru Luo, Zixuan Fan, Wanqin Dai, Shuquan Wei, Chuwen Lin

{"title":"A novel mouse model of pulmonary fibrosis: twice-repeated oropharyngeal bleomycin administration mimicking human pathology.","authors":"Jingyu Wang, Fengqing Zhu, Yuxuan Liu, Renru Luo, Zixuan Fan, Wanqin Dai, Shuquan Wei, Chuwen Lin","doi":"10.1139/bcb-2024-0221","DOIUrl":"10.1139/bcb-2024-0221","url":null,"abstract":"Idiopathic pulmonary fibrosis (IPF) is a progressive and irreversible lung disease with high mortality and limited treatment options. While single-dose bleomycin-induced models are commonly used to investigate the pathogenesis of IPF, they fail to adequately replicate the complex pathological features in human patients, thereby hindering comprehensive investigations. Previous studies utilizing repetitive bleomycin injections have demonstrated a closer resemblance to human IPF pathology; however, the time- and resource-intensive nature of this approach presents significant drawbacks. Here, we propose a novel methodology involving twice-repeated oropharyngeal administration of bleomycin in mice, which closely mirrors the pathological manifestations observed in IPF patients. This model exhibited the honeycomb-like cyst formation, fibroblastic foci, bronchiolization of alveolar epithelium, emergence of metaplastic alveolar KRT5+ basal cells, and sustainability of these fibrotic phenotypes, thereby providing a robust model for IPF. Our findings establish a more efficient and translatable preclinical platform for investigating IPF pathogenesis and exploring potential therapeutic strategies.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":"103 ","pages":"1-7"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143057889","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

Study on the mechanism of USP7 promoting endometriosis by regulating DNMT1 deubiquitination level. USP7通过调节DNMT1去泛素化水平促进子宫内膜异位症的机制研究。

IF 2.1 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 DOI: 10.1139/bcb-2024-0301

Xiangming Gao, Li Liu, Xueqin Liu, Yanru Shen, Yang Fan

{"title":"Study on the mechanism of USP7 promoting endometriosis by regulating DNMT1 deubiquitination level.","authors":"Xiangming Gao, Li Liu, Xueqin Liu, Yanru Shen, Yang Fan","doi":"10.1139/bcb-2024-0301","DOIUrl":"10.1139/bcb-2024-0301","url":null,"abstract":"Endometriosis is characterized by aberrant epigenetic regulation, and our study reveals that both Ubiquitin Specific Protease 7 (USP7) and DNA methyltransferase 1 (DNMT1) are significantly overexpressed in endometriosis tissues. Functional analyses in ectopic endometrial stromal cells (EESCs) indicate that elevated USP7 levels markedly enhance cellular proliferation, migration, and invasion, whereas silencing DNMT1 mitigates these oncogenic properties. Notably, USP7 and DNMT1 co-localize within the nucleus and interact directly, with USP7 modulating DNMT1 stability by attenuating its ubiquitination. The reduction in DNMT1 protein levels following USP7 silencing was reversed by proteasome inhibition, underscoring the pivotal role of USP7-mediated deubiquitination in maintaining DNMT1 stability. Furthermore, treatment with the USP7 inhibitor FT-671 significantly reduced DNMT1 protein expression while leaving its mRNA levels unaffected, and FT-671 effectively suppressed EESCs proliferation, migration, and invasion. Collectively, these findings suggest that USP7 contributes to the pathogenesis of endometriosis by sustaining DNMT1 expression and promoting aberrant cellular behaviors, thereby representing a promising therapeutic target for this disease.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":" ","pages":"1-14"},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144109562","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

TRIM46 promotes chemoresistance of ovarian cancer via activating PHLPP2/PI3K/AKT pathway. TRIM46通过激活PHLPP2/PI3K/AKT通路促进卵巢癌化疗耐药。

IF 2.1 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 DOI: 10.1139/bcb-2025-0034

Liang Peng, Limei Liu, Ling Xu, Jie Chen, Xiaohui Wang, Meihua Zhang, Yilong Ge

引用次数: 0

Microgravity-induced immune dysregulation: phase-specific profiles of differential gene expression. 微重力诱导的免疫失调：差异基因表达的阶段特异性谱。

IF 2.1 3区生物学

Biochemistry and Cell Biology Pub Date : 2025-01-01 DOI: 10.1139/bcb-2025-0136

Martin Pelchat, Guy Trudel, Lynda Rocheleau, Daniel Stratis, Odette Laneuville

{"title":"Microgravity-induced immune dysregulation: phase-specific profiles of differential gene expression.","authors":"Martin Pelchat, Guy Trudel, Lynda Rocheleau, Daniel Stratis, Odette Laneuville","doi":"10.1139/bcb-2025-0136","DOIUrl":"10.1139/bcb-2025-0136","url":null,"abstract":"Astronauts experience the reactivation of latent viruses in spaceflight, an indicator of reduced immunity. It is unclear how the immune system responds to pathogens in a microgravity environment. A longitudinal profile of leukocytes' transcriptome changes from participants to an Earth model of microgravity and from astronauts sojourning aboard the International Space Station revealed a reduced expression of immune-related genes while in microgravity. In the current study, we identified transcriptomic changes specific to the transition to and from bed/space, as well as the adaptation, and the recovery from microgravity/space exposure. The expression of immune-related gene shifted in opposite direction at phase transition compared to within the bed rest and reambulation phases. Differential expression of cytokine genes supported a reduced immune-response during the head down tilt bed rest phase and return to baseline levels at reambulation. Immunoglobulin gene expression increased after participants left the facility. The enrichment analysis of the differentially expressed genes identified the gene ontology terms virus/viral and genes previously involved in the modulation of the response to latent reactivation, including IFNL1, TNFSF14, IL10, and ISG15. Leukocytes' transcriptomic analysis revealed dynamic changes of immune-related gene expression timed with phases of spaceflight. The current analysis combined with previous evidence of herpesvirus reactivation during space mission represent a valuable model for the study of viral latency in vivo.","PeriodicalId":8775,"journal":{"name":"Biochemistry and Cell Biology","volume":"103 ","pages":"1-12"},"PeriodicalIF":2.1,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237838","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