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    Glycobiology Special Issue
  • LI Jing
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 407-408. https://doi.org/10.13865/j.cnki.cjbmb.2024.04.0102
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  • GONG Jin-Yuan, SHANG Shi-Ying, TAN Zhong-Ping
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 409-423. https://doi.org/10.13865/j.cnki.cjbmb.2024.01.1390
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    Covalent attachment of glycans to the side chains of protein amino acids can form glycosylation. Glycosylation, in many cases, significantly increases the diversity of protein structure, properties, and functions. Specific glycosylation patterns can confer specific effects on proteins and enzymes, while aberrant glycosylation patterns may lead to diseases. Therefore, a comprehensive understanding of the role of protein glycosylation is of great significance, both for basic and applied research. However, progress in this area has been exceptionally slow due to the difficulty in obtaining suitable samples for study. In recent years, researchers have gradually begun to explore the use of a library-based strategy to change this situation. This strategy involves the synthetic preparation and characterization of a series of homogeneously glycosylated protein isoforms (glycoforms) with high purity and systematic variations in structures. Through the following comparative analysis, the effects and functioning mechanisms of protein glycosylation can be relatively quickly and accurately obtained. This, in turn, enhances the application of glycosylation in improving the performance of proteins and enzymes. This review aims to summarize, outline, and briefly discuss the progress in the O-glycosylation research direction. It presents research methods and achievements of a few existing examples in chronological order, with the aim of helping researchers gain a clearer understanding of the current development and shortcomings of this strategy. This review is expected to assist researchers in better utilizing this strategy for protein glycosylation research and applications, ultimately improving the depth and breadth of this research.
  • SHA Yu-Tong, LI Jing-Chao, YI Wen
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 424-432. https://doi.org/10.13865/j.cnki.cjbmb.2023.09.1280
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    Cell-cell interactions (CCIs) can occur through the formation of intercellular synapses mediated by cell surface proteins, glycans, lipids, to maintain body homeostasis and regulate physiological functions.These CCIs are complex, involving the participation of many different cell surface and intracellular molecules. Therefore it is key to accurately identify, characterize and quantify cell-cell interactions. In recent years, the technical means of researching CCIs have been continuously introduced, among which proximity labeling is a promising chemical biology method for studying cell-cell interactions.Currently, there are mainly two types of labeling strategies. One is to rely on the direct binding between enzymes expressed on the surface of “bait” cells by genetic engineering and receptor substrates on adjacent cells to achieve intercellular proximity labeling. The other is to use enzymes or organocatalysts (such as photocatalysts) that are recombinantly expressed by genetic engineering or coupled to the surface of “bait” cells by chemical (chemoenzymatic) methods, and following appropriate stimulation or activation, targeted delivery of labeling molecules are carried out. Between them, the enzyme-mediated proximity cell labeling methods have promising application value in the detection and characterization of CCIs.This review defines methods involving enzymes during the labeling process as enzyme-mediatedproximity cell labeling methods. A remarkable advantage of this approach is the small labeling radius that can be achieved due to direct physical contacts between the enzymes and receptor substrates or enzyme-catalyzed generation of highly reactive labeling molecules.We summarize the principles, advantages and disadvantages,and existing applications of the enzyme-mediated proximity cell labeling methods developed in recent years.
  • ZHANG En-Hua, QIU Hong
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 433-452. https://doi.org/10.13865/j.cnki.cjbmb.2024.03.1081
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    The elucidation of gene functions is a fundamental task in modern biological research, the precisive, efficient, and targeted editing of genes is an indispensable tool for their functional dissection. Over the past 30 years, gene editing has experienced the transformation from homologous recombination repair-based technology to programable nuclease-based method, such as zinc-finger nucleases, transcription activator-like effector nucleases, and CRISPR-associated nucleases. The development of these technologies has greatly advanced the investigation of gene functions and led to the emergence of disruptive technologies for disease treatment. In this manuscript, we first introduced the classification, composition, and working principle of CRISPR-Cas for the immune defense in bacteria. We subsequently focus on the state-of-the-art gene editing tools based on the CRISPR-Cas system including the CRISPRi/CRISPRa, base editors, precursor editors, and the RNA-targeted RCas editing system. We then review the strategies for the delivery of gene editors to the desired target cells/organs, we mainly discuss the pros and cons of adeno-associated viruses, lipid nanoparticles, and extracellular vesicles. Finally, we review the applications of gene editing technologies in glycobiology research, including the function, biosynthesis, and underlying mechanism for the carbohydrates, glycoproteomic analysis, the construction and application of cellular glycan array, and the protein glycoengineering. In conclusion, the development of the precise gene editing technology has significantly promoted the research on the biosynthesis, structure, and function of carbohydrates, which has also advanced the translational aspect of glycoscience research.
  • PAN Ya-Wen, WANG Zhen-Chao, SHEN Da-Cheng
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 453-462. https://doi.org/10.13865/j.cnki.cjbmb.2024.02.1430
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    O-linked-N-acetylglucosaminylation (O-GlcNAcylation) is a type of glycosylation that widely present in eukaryotic cytoplasmic proteins or mitochondria. It affects protein properties, cell functions, disease states and so on, hence it is import to identify the roles that O-GlcNAcylations play on target proteins in living cells. The new technologies for manipulating O-GlcNAcylations on target proteins will greatly accelerate the understanding of O-GlcNAc’s functions. This article briefly introduces some recent research progress of chemical biology techniques for targeted protein O-GlcNAcylation, and also analyzes the advantages and limitations of these strategies, and their future development prospects. These technologies build a powerful chemical biology toolbox, which may contribute to the diagnoses and treatments related to O-GlcNAcylation.
  • MENG Ling-Hang, ZHANG Wei, WANG Jia-Jia
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 463-473. https://doi.org/10.13865/j.cnki.cjbmb.2024.01.1325
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    O-linked-N-acetylglucosamine (O-GlcNAc) glycosylation is an abundant and unique post- translational modification by adding N-acetylglucosamine to serine and threonine residues of nuclear and cytoplasmic proteins, which is closely related to various diseases such as cancer, neurodegeneration and diabetes. Identification of the O-GlcNAc modification sites is a prerequisite for exploring their potential regulatory mechanisms in related diseases, as well as a key to clinical diagnosis and targeted intervention. In this paper, we summarize the progresses of diseases associated with aberrant O-GlcNAc modification in recent years, as well as the methods for identifying the relevant modification sites, including antibodies, lectins, chemoenzymatic assays, hydrophilic interaction liquid chromatography, and unnatural carbohydrate metabolism labeling, etc. Furthermore, the strategies of "bump and hole theory" and "spatial activation" have been attracted much attentions recently to targeted label proteins in expected tissues. In addition, multifunctional enzymes theory of "one stone, many birds" and the methods of simultaneous analysis of multiple glycan structures in “one pot” will greatly promote the development of glycoproteomics identification. In conclusion, the development of more effective and specific enrichment approaches for O-GlcNAcylated proteins will be of great significance to elucidate the regulatory mechanism of aberrant glycosylation modifications in related diseases.
  • XUE Jun-Jie, SUN Hui
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 474-483. https://doi.org/10.13865/j.cnki.cjbmb.2024.03.1078
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    O-linked β-N-acetylglucosamine (O-GlcNAc) modification is a widespread post-translational modification of intracellular proteins. Unlike common types of protein glycosylation, O-GlcNAc transferase (OGT) adds a single GlcNAc unit to serine or threonine residue of proteins. Since its discovery, a large number of studies have shown that O-GlcNAcylation is widely involved in many fundamental physiological processes such as cell growth and development, gene transcription, immune response and stress response. In the immune system, O-GlcNAcylation regulates the activation, differentiation and function of immune cells through various ways. The differentiation and phenotypic maintenance of macrophages are dependent on O-GlcNAcylation, the fluctuation of glucose metabolism levels or the loss of OGT will lead to the transformation of macrophage polarization. In addition, O-GlcNAcylation regulates cytokines transcription by altering the activity of transcription factors such as NF-κB to maintain macrophage inflammation, and also affects MAVS (mitochondrial antiviral signaling) protein ubiquitination in response to pathogen infection. In other innate immune cells, the reduction of O-GlcNAcylation will affect cellular immune function to varying degrees. O-GlcNAc regulates transcription factors such as NF-κB, NFAT (nuclear factor of activated T cells) and c-Myc in T cells and B cells, affects the expression of cytokines and metabolism-related genes, and meet cell activation and proliferation by a higher level of glucose intake. The abnormal changes of O-GlcNAcylation in the immune system are closely related to the occurrence and development of chronic inflammation, tumor and other related diseases, or become a means of tumor immune escape. An in-depth understanding of the role of O-GlcNAc modification in the immune system will help to reveal the molecular mechanism of immune regulation and provide a theoretical basis for the development of novel immunotherapy strategies.
  • FANG Dan, ZHANG Xiao-Lian
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 484-492. https://doi.org/10.13865/j.cnki.cjbmb.2024.03.1463
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    Protein glycosylation, one of the most common post translational modifications (PTMs) of proteins, is widely present in living organisms. In eukaryotic cells, glycosylation modifications have a significant impact on protein folding, conformation, distribution, stability and activity. The glycosylation of glycoproteins is crucial for maintaining the order of interactions between all differentiated cells in multicellular organisms. The dysfunction of protein glycosylation may lead to the occurrence of diseases and development of infectious diseases. So far, changes in protein N/O-glycan have been identified as biomarkers for the development of tumors and certain infectious diseases. Therefore, this article reviews the glycosylation of major immune molecules such as B-cell receptor (BCR), T-cell receptor (TCR), cytokines (CK), complement and immunoglobulin (Ig), as well as the relationship between these glycosylation and infectious diseases. The aim is to understand the association between glycosylation of immune molecules and infectious diseases, and to provide new ideas and strategies for the treatment of infectious diseases.
  • SHEN Chang, YIN Qiu-Yuan, MENG Ming-Yao, SUN Jian-Wei
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 493-503. https://doi.org/10.13865/j.cnki.cjbmb.2024.01.1402
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    Lysosomal storage diseases (LSD) are a category of genetic metabolic disorders, originating from genetic mutations in lysosomal acid hydrolases, leading to enzymatic deficiencies. Consequently, this triggers an abnormal accumulation of biological macromolecules within lysosomes, subsequently causes significant damage to cellular, tissue, and organ functions. Mutations or deficiencies in β-galactocerebrosidase (GALC) result in the accumulation of psychosine, causing progressive demyelination and triggering Krabbe Disease, a form of neurodegenerative lysosomal storage disease. The specific mechanisms involved in disease regulation are not yet fully elucidated. Increasing reports of pathogenic mutations in the GALC gene, coupled with analyses of GALC protein structure, have gradually enhanced the understanding of how GALC mutations contribute to Krabbe Disease. This knowledge offers robust evidence for the development of potential therapeutic drugs. Furthermore, GALC plays a dual role in various tumor processes, acting as a tumor suppressor in some cancers while acting as a carcinogen in others. However, a comprehensive analysis of GALC’s impact on cancer requires further in-depth research, offering insight into GALC as a potential target for tumor promotion or suppression. GALC is also associated with various neurodegenerative diseases, including Alzheimer’s disease, Parkinson’s disease, and multiple sclerosis. Due to the complexity of GALC’s mechanisms, current treatments for Krabbe Disease caused by GALC deficiency primarily involve single-modality and multi-modality therapies. Nevertheless, developing truly effective treatments necessitates deeper research into the pathogenic mechanisms arising from GALC gene defects. This review summarizes the structural and functional characteristics of GALC, and discusses its roles in the development of the nervous system and tumorigenesis, as well as the latest advances in related research. The aim is to lay the theoretical foundation and provide references for exploring GALC’s regulatory mechanisms and developing innovative drugs for treating associated diseases in the future.
  • XUE Hao-Yu, JIN Hong-Zhen, ZHAO Wei
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 504-512. https://doi.org/10.13865/j.cnki.cjbmb.2024.01.1001
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    Carbohydrates play a crucial role in various life processes such as cell recognition, bacterial infection, signal transduction, and immune response. Due to their associated biological effects, the naturally existing carbohydrates and their derivatives have been extensively studied. Carbohydrates are also important lead for drug development, carbohydrate-based drugs exhibit excellent therapeutic efficacy in the treatment of various diseases such as infection, cancer, and cardiovascular disease. Ribose and deoxyribose are the primary scaffolds for nucleoside drugs, which can inhibit viral replication and serve as treatments for viral infections. Carbohydrates-containing macrolide and aminoglycoside antibiotics target the 50S subunit and 30S subunit of bacterial ribosomes respectively, to hinder protein synthesis and eliminate bacteria. Heparin, a highly sulfated glycosaminoglycan, acts as an anticoagulant by binding to antithrombin III and inactivating thrombin. Pseudo-saccharide can bind to glycosidase to prevent oligosaccharide hydrolysis, thereby controlling blood sugar levels. Additionally, sugar vaccines are crucial in cancer treatment, highlighting the broad applications of sugar drugs across various diseases. Furthermore, the rapid development of glycochemistry has deepened scientists’ understanding of carbohydrates, and medicinal chemists increasingly apply this knowledge to the design of new drugs. This review provides a brief overview of the application of carbohydrate-containing drugs in various disease.
  • LI Xian-Gan, YANG Ming, LU Ying, LI Ling, MA Qian, LI Jing, ZHANG Lian-Wen
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 513-519. https://doi.org/10.13865/j.cnki.cjbmb.2024.03.1045
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    Oxygen-linked β-N-acetylglucosamine (O-GlcNAc) modification is a dynamic, reversible post-translational modification that occurs on the hydroxyl group of protein serine and threonine residues and plays important roles in many key cellular processes. Antibodies are commonly used in the detection of protein O-GlcNAcylation, but their specificity against O-GlcNAcylation or the molecular weight range of detected proteins remains to be improved. The Clostridium perfringens OGA mutant (CpOGAD298N) has been applied in the detection of O-GlcNAcylation in a far-Western blot (Far-WB), due to its advantage in the binding with O-GlcNAc. In this study, CpOGAD298N was fused with a core streptavidin Stv13. Based on the specific binding property between biotin and streptavidin, we established a fast O-GlcNAc Far-WB assay method, which is verified using short OGT (sOGT), de-O-GlcNAc sOGT, cell lysates and HNF1A proteins. Taken together, our work provides a specific and time-saving Far-WB method (5-7 hours), which can be effectively used in the detection of protein O-GlcNAcylation.
  • Special Comment
  • YANG Ke-Gong
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 520-525. https://doi.org/10.13865/j.cnki.cjbmb.2024.03.1360
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    The central dogma of molecular biology explains the direction of genetic information flow within organisms, and is one of the most important classical theories in molecular biology. There are two versions of the central dogma. In 1957, F. Crick first proposed the central dogma, which was published in 1958 and revised in 1970. Crick’s central dogma divides genetic information transfer modes into three groups: (l) three types of general transfer that occur normally in cells, including DNA→DNA, DNA→RNA, and RNA→protein; (2) three types of special transfer refer to RNA→RNA and RNA→DNA in certain viruses, as well as in vitro DNA→protein; (3) three types of undetected transfer are information transmissions that have not yet been discovered or may not exist, i.e. protein→protein, protein→DNA, and protein→RNA. In 1965, J. Watson proposed another version, using the protein biosynthesis pathway as the central dogma, which divided the process of genetic information transfer into two steps:transcription and translation, usually simplified as DNA→RNA→protein, and later supplemented with “RNA replication” and “reverse transcription”. The limitations of Watson’s version have been questioned.
  • Reviews
  • GUO Da-Jin, TAN Yuan-Yuan, JIN Yan-Hua
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 526-533. https://doi.org/10.13865/j.cnki.cjbmb.2023.12.1373
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    As an essential member of the protein arginine methyltransferase (PRMT) family, PRMT1 has been implicated in catalyzing the monomethylation and asymmetric dimethylarginine of the arginine residue by transferring methyl groups from S-adenosine-L-methionine to a terminal guanidinyl nitrogen atom. Studies have found that PRMT1 is located in the nucleus and cytoplasm, and participates in transcription, signal transduction, and DNA damage repair in mammals. Additionally, PRMT1 has a substantial impact on proliferation, apoptosis, metastasis, and drug resistance in tumors through a variety of ways, which plays a very important role in tumorigenesis. Moreover, PRMT1 could be used as a biomarker to predict poor prognosis in many tumors, and its inhibitors can suppress the growth of some tumors. PRMT1 closely regulates the biological characteristics of tumors, affecting the prognosis of cancer patients. Herein we review the different targets and signaling pathways of PRMT1 in malignant tumors of the digestive system, and summarize the combination therapy using PRMT1 inhibitors, aiming to provide new ideas for clinical diagnosis and prognosis of digestive system tumors.
  • Research Papers
  • SUN Kui, CHEN Pan, LIU Yong-Xuan, KANG Yong-An, WU Xiao-Shuang, CHENG Yue-Yue, CHENG Hao-Dong, LIU Qi-Wei, GAO She-Gan, QI Yi-Jun
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 534-543. https://doi.org/10.13865/j.cnki.cjbmb.2024.02.1465
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    Abnormal expression of PSME2 (proteasome activator complex subunit 2, PSME2) is closely correlated with the occurrence and development of various tumors, but its biological function and clinical significance in esophageal squamous cell carcinoma (ESCC) are still unclear. In this study, we analyzed the transcriptome data of ESCC from the TCGA-ESCC and GSE53625 databases and found that high expression of PSME2 in ESCC patients was associated with poor prognosis. Additionally, the protein expression level of PSME2 in ESCC tissues was higher than that in adjacent non-cancerous tissues. Silencing of PSME2 in KYSE30 cells and NE6-T cells resulted in significant decreases in proliferation, invasion, migration, and clonogenicity of ESCC cells. Moreover, this was accompanied by a significant increase in the expression of LC3-II/LC3-I protein ratio and a decrease in p62 protein expression as well as activation of autophagy. GSEA enrichment analysis indicated that the IL-6/STAT3 signaling pathway was activated in the PSME2 low-expression group. Silencing of PSME2 in KYSE30 cells and NE6-T cells led to increased secretion of IL-6 and elevated p-STAT3 protein levels. The molecular changes induced by PSME2 silencing were abrogated by treatments with LMT28 or WP1066. The combination of PSME2 silencing and WP1066 treatment significantly increased the LDH content in the supernatant of KYSE30 and NE6-T cell cultures. Calcein/PI staining revealed a cell death rate of 36.69% and 32.55%, respectively, which was significantly higher than that of the PSME2 silencing group (6.78% and 6.74%) or the WP1066 treatment group alone (18.34% and 9.70%). This study demonstrates that PSME2 promotes the malignant progression of ESCC and that PSME2 silencing compensates for this by activating autophagy through the IL-6/STAT3 signaling pathway. Furthermore, the combined inhibition of PSME2 and STAT3 induces synthetic lethal effects and leads to cell death in esophageal squamous carcinoma cells, suggesting that PSME2 is a potential molecular therapeutic target and that the combined inhibition of PSME2 and STAT3 represents a new treatment option for ESCC.
  • LI Yi, WEN Yi-Hong, WU Hua-Yan, JIANG Jia-Xue, OU Tao, CHEN Kai-Yin, LIU Yu-Peng, SHAN Zhi-Xin
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 544-553. https://doi.org/10.13865/j.cnki.cjbmb.2024.02.1002
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    The increasing evidence suggests that long noncoding RNAs play an important role in regulating biological functions. Comparing with the healthy organ donors (n=23), the results of real-time quantitative polymerase chain reaction (RT-qPCR) assay showed that long noncoding RNA RP11-879F14.2 was significantly increased in the myocardium of patients with heart failure (HF) (n=21), however, the role and mechanism of RP11-879F14.2 in cardiac hypertrophy remains unclear. The effect of adenovirus-mediated overexpression of RP11-879F14.2 on the expression of hypertrophy-related genes, including myosin heavy chain 7 (MYH7),skeletal muscle actin alpha 1 (ACTA1) and natriuretic peptide type A (NPPA), was evaluated, and the RT-qPCR results revealed that overexpression of RP11-879F14.2 could markedly inhibit the expression of cardiac hypertrophy-related genes in neonatal mouse ventricular cardiomyocytes (NMVCs) and neonatal rat ventricular cardiomyocytes (NRVCs). The results of RT-qPCR and Western blotting showed that RP11-879F14.2 could efficiently enhance the expression of pyruvate kinase M2 (PKM2) in NMVCs. Overexpression of PKM2 and RP11-879F14.2 could consistently attenuate the hypertrophy-related genes expression in NMVCs and NRVCs, and inhibited the increase of cell size of phenylephrine (PE)-induced NRVCs. Moreover, knock-down of PKM2 could reverse the inhibitory effect of RP11-879F14.2 on the cardiac hypertrophy-related genes expression in NMVCs. The glucose metabolic alterations were accessed by using Seahorse XF96 extracellular flux analyzer. Overexpression of RP11-879F14.2 and PKM2 could consistently enhance glucose metabolism in NMVCs, but knock-down of PKM2 could inhibit some RP11-879F14.2-promoted glycolysis-related genes, TCA cycle-related genes and mitochondrial ETC-related genes expression in NMVCs. Therefore, RP11-879F14.2 inhibits cardiomyocyte hypertrophy via upregulating PKM2 expression.
  • LI Xin, GAO Chi, GU Li-Xing, ZENG Yi, YAO Di, HE Hong-Peng, ZHANG Tong-Cun
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 554-564. https://doi.org/10.13865/j.cnki.cjbmb.2024.02.1441
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    With the rapid development of cell therapy, large-scale lentiviral production has become a bottleneck in the process chain; thus, optimizing the production process of CAR lentiviral vectors with high titer and high purity of 293T becomes crucial. This study aimed to optimize the packaging of lentiviral 293T adherent cells to achieve time-saving, cost-saving, and improved lentiviral packaging. At the same time, the optimization of lentiviral vectors was carried out to explore the factors affecting the growth of suspension cell clusters. The 293T adherent cells were domesticated into suspension culture by fast and slow domestication. Their cell morphology, cell density, cell viability, lentiviral packaging ability, and stable consistency after cryopreservation and resuscitation were compared to screen out the optimal suspension domestication conditions. Comparative cell clumping growth was studied by adjusting Ca2+ concentration and EDTA addition. The findings showed that the serum-free medium OPM-293 CD05 Medium could be quickly domesticated into 293T suspension cells from 293T adherent cells, and that these suspension cells could be produced with lentiviral titers that were better than the adherent cells’ packaging titers (*P<0.05). Ca2+ concentration affects the size of cell clusters. The addition of EDTA effectively separates and disperses unnecessary cell clusters. In summary, the experiment’s findings demonstrated that serum-free OPM-293 CD05 Medium could quickly domesticate conventional 293T adherent cells into suspension cells. Within a certain range, the higher the concentration of Ca2+, the larger the agglomerates and particle size, and the higher the addition of EDTA, the smaller the agglomerates and particle size.This provides a theoretical framework for the optimization of suspension culture conditions and the lentiviral vector packaging process. It also establishes a theoretical framework for the scale-up and manufacturing of in vitro cell culture, which has some practical applications.
  • WAN Jie, WU Zi-Hui, PENG Yu-Xuan, LI Ling, LI Zi-Zheng, DING Yan-Rui
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 565-572. https://doi.org/10.13865/j.cnki.cjbmb.2024.02.1406
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    Identifying essential proteins plays a significant role in fields such as disease treatment and drug design. In this paper, we initially employed five node importance ranking algorithms to identify essential proteins in four yeast protein-protein interaction (PPI) networks. By analyzing the common essential proteins among different networks, we constructed a subnetwork of essential proteins. Subsequently, using the Jaccard index, we filtered out pairs of essential proteins within the subnetwork that exhibited similar topological characteristics. This analysis revealed the presence of six core protein groups, namely Gavin-EPG 1, Gavin-EPG 2, Babu-EPG 1, Babu-EPG 2, LCMS-EPG, and MALDI-EPG, across the four networks. Although they are predominantly ribosomal proteins, the composition of proteins within the core protein groups varies significantly among the different yeast PPI networks. The essential proteins and core protein groups identified in this paper provide important theoretical references for further research on how protein interactions on the ribosome affect peptide chain synthesis and folding.
  • Cover image introduction
  • Cover picture designer LI Jing, YIN Qiu-Yuan
    Chinese Journal of Biochemistry and Molecular Biology. 2024, 40(4): 574-574.
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