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    Microbial mediated anaerobic ammonia oxidation coupled with different electron acceptors
    WANG Furong, WEI Manman
    Journal of Biology    2025, 42 (2): 91-.   DOI: 10.3969/j.issn.2095-1736.2025.02.091
    Abstract54)      PDF      
    Anaerobic ammonia oxidation coupled with different electron acceptors is a series of novel biological denitrification approaches reported in recent years, which has not only attracted much attention in the field of wastewater biological treatment, but also played a crucial role in geochemical cycles of nitrogen, sulfur, iron, and manganese. This paper focused on four anaerobic ammonia oxidation processes coupled with different electron acceptors, including nitrite-dependent anaerobic ammonia oxidation, sulfate type anaerobic ammonia oxidation (Sulfammox), anaerobic ammonium oxidation coupled to Fe(Ⅲ) reduction (Feammox) and anaerobic ammonium oxidation mediated by MnO2(Mnammox). The reaction mechanisms and reaction equations were summarized and the phylogenetic diversity and metabolic characteristics of different anaerobic ammonia oxidizing bacteria were reviewed. The research progress and functional microorganisms of anaerobic ammonia oxidation processes coupled with different electron acceptors were elucidated. Finally, the application bottlenecks and the future development were discussed. The aim was to provide theoretical support for further in-depth research, and to provide a new perspective for promoting the development of anaerobic ammonia oxidation technology with different electron acceptors and the application in the field of wastewater denitrification.
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    Research progress of UDP-sugar biosynthesis
    CHEN Guihang, LI Chun, FENG Xudong
    Journal of Biology    2023, 40 (2): 95-.   DOI: 10.3969/j.issn.2095-1736.2023.02.095
    Abstract2464)      PDF      
    Uridine diphosphate(UDP)-sugar is an important type of sugar donors for glycosylation modification. The in vivo synthesis of UDP-sugar was summarized from three aspects: synthase pathway, phosphorylase pathway and kinase pathway. Due to the lack of key enzymes, only UDP-glucose (UDP-Glc) could be quickly obtained from the above three pathways. At the same time, with UDP-glucose as the starting material and UDP-glucuronic acid (UDP GlcA) as the intermediate, the rapid interconversions between UDP-sugars could be realized by specific functional enzymes. The latest progress in UDP-sugar synthesis catalyzed by specific functional enzymes was reviewed, and the important roles of dehydrogenase, decarboxylase, isomerase and reductase in UDP-sugar interconversions were discussed. The existing problems of UDP-sugar synthesis were analyzed and the future research direction of UDP-sugar synthesis was prospected, aiming at providing new ideas for tapping the potential of UDP-sugar donors and realizing glycosylation modification with efficiency and low cost.
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    Green separation and purification of high purity vitamin K2
    MA Guoliang, ZHENG Zhiming, WANG Peng, WANG Li, ZHAO Genhai, WANG Han
    Journal of Biology    2023, 40 (3): 107-.   DOI: 10.3969/j.issn.2095-1736.2023.03.107
    Abstract351)      PDF      
    In order to overcome the shortcomings of high purity Vitamin K2 extraction process, such as large amount of toxic solvent, serious pollution and toxic substance residues, a green separation and purification process of high purity Vitamin K2 was established. Natural oil, methanol, ethanol and other organic reagents were used to extract VK2 from Bacillus natto. The results showed that medium chain triglyceride had the best extraction effect, and the maximum extraction amount was 2.7 mg/g. Seven types of macroporous resins were used to separate VK2 from medium chain triglyceride solvent phase, and the optimal macroporous resin HC-200S was selected by static adsorption and desorption experiments. The dynamic adsorption and desorption process of macroporous resin was optimized, and the dynamic desorption curve of macroporous resin was drawn. The results showed that when the adsorption flow rate of sample solution was 2.0 mL/min, the desorption agent was anhydrous ethanol/butyl acetate mixture solution (1∶2, volume ratio) and the flow rate of desorption agent was 1.0 mL/min, the adsorption and desorption effect of HC-200S macroporous resin on VK2 was the best. At this time, the purity of vitamin K2 was 4 times higher than that of the before purification, reaching 87.8%, and the recovery rate reached 93.1%. VK2 desorption solutions obtained by resin separation and purification were frozen crystallization and solvent volatilization crystallization, respectively, to obtain VK2 crystals with purity of 96.7% and 97.1%. This study provided a method basis for the industrial production and green separation and purification of VK2.
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    Molecular mechanisms of plant in response to abiotic stress
    CHEN Keqi, DENG Xingguang, LIN Honghui
    Journal of Biology    2021, 38 (6): 1-.   DOI: 10.3969/j.issn.2095-1736.2021.06.001
    Abstract3922)      PDF      
    In this review, the molecular mechanisms by which plants respond to extreme temperature, drought, flooding and salt stress, through an overview of existing studies were summarized. Combining the effects of various stress on plant growth and development, the signal perception mode and signal transduction pathways were introduced. Meanwhile, the regulatory mechanisms of critical transcription factors in regulating gene expression and important secondary metabolites in coordinating stress tolerance were outlined. Finally, an outlook on future research was prospected focusing on the regulatory mechanism of mult-signaling network modules and sustainable development of agriculture.
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    Predictive study on the potential molecular mechanism of SARS-CoV-2 spike protein RBD mutation to enhance its infectivity
    LIU Juzhao, YANG Yuping, XU Jianbo, LYU Hongchang, CHEN Junyu, ZHANG Chunchun, CUI Qi
    Journal of Biology    2022, 39 (6): 35-.   DOI: 10.3969/j.issn.2095-1736.2022.06.035
    Abstract484)      PDF      
    After the outbreak of SARS-CoV-2, more and more mutants with stronger infectivity appeared. The most representative strains were B.1.351 and B.1.617, which had a common feature of amino acid mutation at spike protein 484 site. Site 484 is a site where interacts with residue K31 on hACE2. From the perspective of molecular dynamics and protein docking, E484K and E484Q mutations of SARS-CoV-2 were investigated, and it was found that the hydrogen bonds between amino acid residues (A475 and N489) that directly interact with hACE2 were shortened due to 484 mutations. Kinetic results also showed that amino acid sequence 475-489 was highly active and should not be neglected as drug design targets. It can provide a new target for the development of SARS-CoV-2 inhibitors, predict the future evolutionary direction of SARS-CoV-2 to a certain extent, and also provide a new idea for the mutation research of similar coronavirus.
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    Application and prospect of neutralizing antibodies in the treatment of viral infectious diseases
    HU Jing, DENG Shasha, WANG Meihua, LIU Mengyao, JIN Tengchuan
    Journal of Biology    2025, 42 (1): 1-.   DOI: 10.3969/j.issn.2095-1736.2025.01.001
    Abstract204)      PDF      
    Infectious diseases are a kind of transmitted diseases caused by pathogenic microorganisms, which can affect human and animal health and even produce great social economic burden. Compared with vaccination, antiviral drugs and other control methods, antibody has gradually become an important strategy for the treatment of infectious diseases because of its small side effects and strong timeliness. Neutralizing antibody is a kind of antibody that can specifically bind to the surface antigen of infectious particles, thereby blocking its interaction with the host cells and preventing cells from being invaded. A variety of neutralizing antibodies against viral infection have been developed. In this paper, the research progress of four typical virus therapeutic antibodies for SARS-CoV-2, Ebola, HIV and RSV was reviewed, including representative antibodies targeting the SARS-CoV-2 S protein, ebola GP protein, HIV gp160 protein and RSV F protein. The selection of neutralizing antibody target and its future development and application were discussed.
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    Advances of benzimidazole derivatives on the function of antitumors and the mechanism 
    DING Ru-ru, TENG Meng-ting, HU Jia-ying, ZHANG Peng
    Journal of Biology    2019, 36 (6): 74-.   DOI: 10.3969/j.issn.2095-1736.2019.06.074
    Abstract508)      PDF      

    Benzimidazole plays an important role in biomedicine because of its excellent heterocyclic system. Many researchers all over the world have synthesized many substituted benzimidazoles with multiple biological activities. In this paper, we collected the literatures on the synthesis of benzimidazole derivatives with antitumor activity in recent years. The main anti-tumor targets such as topoisomerase, PARP, tubulin, G-quadruplex DNA and CK2 protein kinase were introduced. Additionally, the structure-activity relationship of benzimidazole derivatives under different targets was carried out. For example, the methyl substituent at benzimidazole ring increased lipophilicity of the studied compounds and enhanced ability of those compounds to intracellular penetration bringing about higher antitumor. Electron withdrawing groups (F, Cl) on the phenyl ring also enhanced antitumor effect. Our aim is to provide a theoretical basis for the synthesis of novel low toxicity benzimidazole antitumor drugs.


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    Analysis of the development trend of synthetic biology industry under the background of “14th Five-Year Plan”
    WANG Haoqi, GAO Hao, XIN Fengxue
    Journal of Biology    2023, 40 (3): 1-.   DOI: 10.3969/j.issn.2095-1736.2023.03.001
    Abstract804)      PDF      
    Synthetic biology is revolutionizing the biotechnology industry, which is increasingly applied in natural products, medicine, energy, industry, et al. With the promulgation of the “14th Five-Year Plan” for the development of biological economy, the heat of synthetic biology, known as the “third biotechnology revolution”, is rising. Synthetic biology is poised to disrupt many traditional industries with more economical and environmentally friendly features. The industry policies of synthetic biology and the domestic synthetic biology industries in China were reviewed. The synthetic biology focused on the fields of biochemicals, biopharmaceuticals, agriculture, food, medical beauty and cosmetics, and its future development was also prospected.
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    The phenomenon of animal segmentation
    LI Haiyun, LI Ying
    Journal of Biology    2023, 40 (6): 94-.   DOI: 10.3969/j.issn.2095-1736.2023.06.094
    Abstract243)      PDF      
    The definition of animal segmentation phenomenon, from its phenomenon and word disorder status at home and abroad, its origin, type and its evolutionary significance were summarized. The basic situation and the existing confusion of the concept of animal segmentation phenomenon were introduced, and the definition of animal segmentation phenomenon was adjusted to increase the universal nature of animal segmentation. The origin of segmentation phenomena was summarized as the origin of the posterior growth zone, origin of the anterior growth zone and axial simultaneous origin three types. The definition and the examples of traditional homonomous segmentation and heteronomous segmentation were introduced in the more common words. It was clear that the homonomous segmentation and heteronomous segmentation generally existed in the animal kingdom rather than limited to annelids, arthropods and chordates or vertebrates. The serial repetition was added to traditional homonomous segmentation and heteronomous segmentation. The aim was to make readers have a comprehensive understanding of the phenomenon of animal segmentation and provide useful reference for zoology teaching.
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    Inhibition of non-enzymatic glycosylation by exopolysaccharides of Bifidobacterium longum
    XIA Junying, YU Haixia, QI Shimei, ZHANG Funa, WU Jing, XIAO Weihua
    Journal of Biology    2024, 41 (5): 6-.   DOI: 10.3969/j.issn.2095-1736.2024.05.006
    Abstract190)      PDF      
    The extracellular polysaccharide extract (ZJ1-EPS) ofBifidobacterium longumZJ1 strain isolated from the feces of centenarians was used to explore the effect and mechanism of ZJ1-EPS inhibition of AGEs by pyruvaldehyde (MGO)-induced bovine serum albumin (BSA) and non-enzymatic glycosylation (AGEs) in human skin cells and glucose-induced zebrafish AGEs, respectively. The results showed that ZJ1-EPS had a significant inhibitory effect on the formation of products in the middle and late stages of protein non-enzymatic glycosylation. This study revealed that the exopolysaccharide extract ofBifidobacteriumhas the effect of inhibiting the production of AGEs, suggesting its mechanism of action and application potential for skin anti-aging.
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    γH2AX, 53BP1 and RAD51 foci analysis for monitoring DNA double-strand breaks
    WANG Yi-zhao, FAN Li, WANG Hong-xia, YANG Si-lu, CUI Ya-ni, Duan Yi-jun, Duan Jing-jing, REN Lai-feng, SU Wen
    Journal of Biology    2020, 37 (1): 16-.   DOI: 10.3969/j.issn.2095-1736.2020.01.016
    Abstract6277)      PDF      
    γH2AX, 53BP1 and RAD51 foci are the evaluation markers of DNA double strand breaks (DSBs). Above all, γH2AX foci analysis is the most widely used, but recent studies have found that it is not completely consistent with DSBs damage. This study systematically analyzed the dynamic changes of γH2AX, 53BP1 and RAD51 foci during DNA damage and their reasonable application in DSBs damage assessment. According to the results, γH2AX and 53BP1 foci were highly consistent after cells exposed to ionizing radiation treatment, they both could reflect accurately the dynamic changes of DSBs damages and repairs; while RAD51 foci only appeared in part of damaged cells, which was consistent with its role mainly involved in homologous recombination process. Upon treatment with Camptothecin (CPT), γH2AX presented two types of staining (bright and discrete foci and pan-nuclear phosphorylation), while 53BP1 foci only appeared in cells with bright and discrete γH2AX foci and were highly consistent with γH2AX foci. These results revealed that positive staining of γH2AX alone cannot accurately represent DSBs damage, and the extent of DSBs damage should be comprehensively analyzed by combining with staining of 53BP1. The RAD51 foci analysis only reflect the DSBs damage repair of part cells, mainly homologous recombination repair. 
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    Stability of episomal plasmids containing ARS/CEN  elements in Pichia pastoris
    LIU Guo-qiang, SUN Wen-hao, ZHANG Qing-ye, ZHOU Jin-kai, BAI Zhong-hu, LIU Xiu-xia, YANG Yan-kun
    Journal of Biology    2020, 37 (2): 10-.   DOI: 10.3969/j.issn.2095-1736.2020.02.010
    Abstract1350)      PDF      
    Pichia pastoris (P. pastoris) is one of the most widely used heterologous protein expression systems. The most widely used heterologous protein expression strategy is the integrated plasmids; the episomal plasmids are greatly limited in Pichia pastoris due to their high instability. In this research, ARS/CEN and other components were ligated into pPIC9K vector to construct autonomously replicating episomal plasmid pPIC9K-ARS/CEN. The way of subculturing to detect plasmid loss was used to investigate the stability of episomal plasmid in Pichia pastoris during cell subculture. In the absence of selective pressure, the episomal plasmid containing the ARS/CEN element had extremely high stability before cell culture for ten generations, and then the episomal plasmid began to be lost, and the loss rate to the 20th generation plasmid was as high as 92.94%. The results of this study provided not only a good support for the construction of a stable episomal plasmid Pichia pastoris expression system, but also a practical plasmid elimination method.
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    Transcriptome analysis of the drought response in hulless barley
    CHEN Shuaihao, NIU Liping, BO La, QIN Zhongmengyi, Dawa Dondup, Lhundrup Namgyal, HOU Xin
    Journal of Biology    2025, 42 (1): 9-.   DOI: 10.3969/j.issn.2095-1736.2025.01.009
    Abstract135)      PDF      
    Hulless barley is an important crop with high economic and ecological value on the Tibetan Plateau. It is highly resistant to drought stress. To study the molecular mechanism of drought resistance, two hulless barley varieties with different drought resistance were subjected to simulated drought and transcriptome analysis. After 24 h of drought treatment, 85 DEGs (differentially expressed genes) were screened from the drought-sensitive variety YC85, and 186 DEGs were screened from the drought-resistant variety ZY1100. GO enrichment analysis of the DEGs revealed that water response and ion transport were mainly enriched in YC85, and acid metabolism and amino acid biosynthesis were mainly enriched in ZY1100. KEGG enrichment analysis revealed that in YC85, MAPK signaling pathway-plant, alanine, aspartate and glutamate metabolism, etc., were enriched, and in ZY1100, phytohormone signaling, amino acid biosynthesis, etc., were the main enriched pathways. By analyzing the common and specific DEGs of the two hulless barley varieties, as well as the enrichment of GO functions and KEGG pathways, 59 genes involved in the drought response were identified. The results of this study provide valuable information and resources for understanding the regulatory mechanism of gene expression and the discovery of drought resistance genes in hulless barley, as well as providing an important basis for subsequent gene function research and breeding.
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    Study on the mechanism of dopamine regulating forgetting in Caenorhabditis elegans
    ZHU Man, LI Ruobing
    Journal of Biology    2025, 42 (1): 83-.   DOI: 10.3969/j.issn.2095-1736.2025.01.083
    Abstract93)      PDF      
    To investigate the role and molecular regulation mechanism of dopamine signaling pathway in forgetting, the key components of this pathway were screened using theCaenorhabditis elegansfood-butanone positive associative learning model, including tyrosine hydroxylase (CAT-2), dopamine transporter (DAT-1), dopamine receptor (DOP-1/2/3/4), G protein, cAMP and PLC pathways. The results showed that mutations incat-2or treatment with 6-OHDA disrupted normal dopamine signal transmission, leading to a notable decline in the worm’s learning and memory retention abilities. Mutations indat-1impeded dopamine reuptake, resulting in accelerated forgetting.dop-1mutant animals exhibited memory retention deficits, whiledop-2,dop-3, anddop-4mutants showed no significant difference from the control group. Among the screened G proteins (GSA-1, GOA-1, EGL-30), onlygsa-1mutation accelerated forgetting. Additionally, key members of the cAMP and PLC pathways were examined, revealing that mutations inkin-2(PKA) within the cAMP pathway expedited forgetting. The findings suggested that dopamine played a role in the regulation of forgetting inC. elegans, potentially acting through the DOP-1/GSA-1/PKA pathway. This study provided a theoretical foundation for understanding the role of dopamine in forgetting and offers insights into the comparison of dopamine systems across species evolution.
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    The evaluation of virus enrichment methods for norovirus diversity in oysters
    GUO Ping, PAN Ying-jie, YU Yong-xin
       DOI: 10.3969/j.issn.2095-1736.2019.03.104
    Constructing microbial cell factory with thermo-tolerant yeast Kluyveromyces marxianus
    WANG Dong-mei, HONG Jiong
    Journal of Biology    2020, 37 (1): 1-.   DOI: 10.3969/j.issn.2095-1736.2020.01.001
    Abstract744)      PDF      
    Kluyveromyces marxianus is a thermo-tolerant yeast with the fastest growth rate in eukaryote and with a wide carbon spectrum. It is an excellent host for microbial cell factory construction. There were some achievements in the production of inulinase, ethanol, 2-phenylethanol, ethyl acetate etc. by the wild type K. marxianus. The genetic modification system including host strains, gene overexpression and gene deletion methods was constructed to improve the efficiency of microbial cell factories. The genetic engineered K. marxianus can efficiently produce heterogenous protein, ethanol, xylitol, lactic acid, astaxanthin etc. However, the ability of multiple carbon source co-utilization, inhibitor tolerance, high concentration substrate and product tolerance needs to be improved further.
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    Synthetic biology and research progress
    YAN Wei, XIN Feng-xue, DONG Wei-liang, ZHOU Jie, ZHANG Wen-ming, JIANG Min
    Journal of Biology    2020, 37 (5): 1-.   DOI: 10.3969/j.issn.2095-1736.2020.05.001
    Abstract1473)      PDF      
    Synthetic biology is one of the most potential fields of modern biology, which integrates many disciplines such as life science, engineering and information science. Based on the concept of engineering design, it constructs standardized components and modules, integrates the principles of engineering science, and adopts a bottom-up strategy to synthesize and improve the existing systems or systems, so as to reveal the law of life and build a new generation of bioengineering system. It creates a new research mode of "building knowledge" for life science. After the discovery of DNA double helix and the human genome sequencing project, synthetic biology is starting a new biotechnology revolution. As a new "convergence" discipline, with the progress of DNA synthesis technology and the deepening of the concept of synthetic biology, synthetic biology has made great progress in many research directions. This paper mainly introduces the concept of synthetic biology, summarizes the basic research content of synthetic biology and the research progress in natural products, medicine, energy and industry, and looks forward to the development prospect of synthetic biology.
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    Development, application and research expectationof human growth hormone
    LU Chen, NI Xiao-yan, QIN Jian-dong, WANG Bing, SONG Li-hua
    Journal of Biology    2020, 37 (5): 103-.   DOI: 10.3969/j.issn.2095-1736.2020.05.103
    Abstract899)      PDF      
    Human growth hormone(hGH)is a peptide hormone secreted by the anterior pituitary gland, which plays an important role in regulating the human metabolism and growth via the GH-IGF-1 axis. In 1958, Raben was one of earliest on using pituitary-derived growth hormone(pit-hGH)to treat children with hypopituitarism and got good effect. With the rapid development of molecular biology techniques, Goeddel and Seeburg have developed a lower cost and safer recombinant human growth hormone(rhGH)using gene recombinant expression technology in 1979. In 1985, the FDA approved rhGH for GHD patients. Today, the clinical application of rhGH is not confined to treat children with short statues. It is also widely used in severe burn, adult growth hormone deficiency(AGHD), chronic renal insufficiency, assisted reproductive, congenital hypoplasia of ovary, respiratory failure, severe infection and anti-aging fields. With the improvement of manufacturing processes and dosage form and the further elucidated of metabolic mechanisms, the rhGH is expected to bring more benefits to humankind.
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