1.Structural and Spatial Analysis of The Recognition Relationship Between Influenza A Virus Neuraminidase Antigenic Epitopes and Antibodies
Zheng ZHU ; Zheng-Shan CHEN ; Guan-Ying ZHANG ; Ting FANG ; Pu FAN ; Lei BI ; Yue CUI ; Ze-Ya LI ; Chun-Yi SU ; Xiang-Yang CHI ; Chang-Ming YU
Progress in Biochemistry and Biophysics 2025;52(4):957-969
ObjectiveThis study leverages structural data from antigen-antibody complexes of the influenza A virus neuraminidase (NA) protein to investigate the spatial recognition relationship between the antigenic epitopes and antibody paratopes. MethodsStructural data on NA protein antigen-antibody complexes were comprehensively collected from the SAbDab database, and processed to obtain the amino acid sequences and spatial distribution information on antigenic epitopes and corresponding antibody paratopes. Statistical analysis was conducted on the antibody sequences, frequency of use of genes, amino acid preferences, and the lengths of complementarity determining regions (CDR). Epitope hotspots for antibody binding were analyzed, and the spatial structural similarity of antibody paratopes was calculated and subjected to clustering, which allowed for a comprehensively exploration of the spatial recognition relationship between antigenic epitopes and antibodies. The specificity of antibodies targeting different antigenic epitope clusters was further validated through bio-layer interferometry (BLI) experiments. ResultsThe collected data revealed that the antigen-antibody complex structure data of influenza A virus NA protein in SAbDab database were mainly from H3N2, H7N9 and H1N1 subtypes. The hotspot regions of antigen epitopes were primarily located around the catalytic active site. The antibodies used for structural analysis were primarily derived from human and murine sources. Among murine antibodies, the most frequently used V-J gene combination was IGHV1-12*01/IGHJ2*01, while for human antibodies, the most common combination was IGHV1-69*01/IGHJ6*01. There were significant differences in the lengths and usage preferences of heavy chain CDR amino acids between antibodies that bind within the catalytic active site and those that bind to regions outside the catalytic active site. The results revealed that structurally similar antibodies could recognize the same epitopes, indicating a specific spatial recognition between antibody and antigen epitopes. Structural overlap in the binding regions was observed for antibodies with similar paratope structures, and the competitive binding of these antibodies to the epitope was confirmed through BLI experiments. ConclusionThe antigen epitopes of NA protein mainly ditributed around the catalytic active site and its surrounding loops. Spatial complementarity and electrostatic interactions play crucial roles in the recognition and binding of antibodies to antigenic epitopes in the catalytic region. There existed a spatial recognition relationship between antigens and antibodies that was independent of the uniqueness of antibody sequences, which means that antibodies with different sequences could potentially form similar local spatial structures and recognize the same epitopes.
2.Biological and genetic characteristics of three hypervirulent Klebsiella pneumoniae strains causing liver abscess
Yuqi ZHANG ; Juan WANG ; Lei HAN ; Pu LI ; Wentao MA ; Chun ZHANG ; Yali LI ; Jing YUAN ; Jin’e LEI
Journal of Xi'an Jiaotong University(Medical Sciences) 2024;45(6):885-894
[Objective] To understand the resistance mechanisms, virulence characteristics, and pathogenicity of hypervirulent Klebsiella pneumoniae (hvKp), which causes pyogenic liver abscess (PLA), and to provide related data for clinical treatment of infection caused by this type of bacteria. [Methods] We collected three strains of Klebsiella pneumoniae isolated from the liver abscess fluid of patients with liver abscesses in various departments of The First Affiliated Hospital of Xi’an Jiaotong University. The hypervirulent phenotypes were determined by the wire test, and drug sensitivity was assessed using the VITEK 2 compact automatic microbiological analyzer. Molecular characteristics such as podocarp serotypes, multi-locus sequence typing (MLST), virulence genes, and drug resistance genes were identified through whole-genome sequencing. Additionally, a mouse infection model was established to evaluate pathogenicity. [Results] The isolates were sticky, with mucous thread pulling length >5 mm, all of which exhibited high viscosity phenotypes. Except 146007, which is a multidrug-resistant bacterium, the other two strains had higher antibiotic sensitivity. Whole genome sequencing revealed that the isolates were of high-virulence type, carrying the toxin plasmid rmpADC/rmpA2, iron uptake system, bacterial hairs, secretion system, and other virulence factors. All the three isolates tested positive for rmpA/rmpA2 combined with iucA/iutA, indicating they could be classified as hvKp. Multiple resistance genes were detected, such as β-lactamase like bla
3.Association of cumulative resting heart rate exposure with rapid renal function decline: a prospective cohort study with 27,564 older adults.
Xi JIANG ; Xian SHAO ; Xing LI ; Pu-Fei BAI ; Hong-Yan LIU ; Jia-Mian CHEN ; Wei-Xi WU ; Zhuang CUI ; Fang HOU ; Chun-Lan LU ; Sai-Jun ZHOU ; Pei YU
Journal of Geriatric Cardiology 2023;20(9):673-683
OBJECTIVE:
To evaluate the prospective association between cumulative resting heart rate (cumRHR) and rapid renal function decline (RRFD) in a cohort of individuals aged 60 and older.
METHODS:
In the Tianjin Chronic Kidney Disease Cohort Study, the individuals who underwent three consecutive physical examinations between 2014 and 2017, with estimated glomerular filtration rate (eGFR) greater than 60 mL/min per 1.73 m2 and aged 60 years or older were enrolled. A total of 27,564 patients were prospectively followed up from January 1, 2017 to December 31, 2020. The 3-year cumRHR was calculated. The primary outcome was RRFD, defined as an annualized decline in eGFR of 5 mL/min per 1.73 m2 or greater. Logistic and restricted spline regression models and subgroup analysis were used to investigate the association of cumRHR with RRFD after adjusting for all confounders.
RESULTS:
During a median follow-up of 3.2 years, a total of 4,347 (15.77%) subjects developed RRFD. In fully-adjusted models, compared with the lowest quartile of cumRHR, the odds ratio (OR) for the highest was 1.44 (1.28-1.61), P < 0.001. Furthermore, each 1-standard deviation (27.97 beats/min per year) increment in cumRHR was associated with a 17% (P < 0.001) increased risk of RRFD, with a linear positive correlation (P for non-linear = 0.803). Participants with a 3-year cumRHR ≥ 207 (beats/min) * year (equivalent to ≥ 69 beats/min per year in 3 years) were found to be at a higher risk of RRFD.
CONCLUSIONS
The cumRHR is significantly associated with a higher risk of RRFD among older adults. These results might provide an effective goal for managing and delaying the decline of renal function in the older adults.
4.Progress in anatomic research on temporal branches of facial nerve
Qian ZHANG ; Pu CHUN ; Yunfei LI ; Feifei LI
Chinese Journal of Plastic Surgery 2023;39(4):482-489
Our understanding of facial anatomy has changed significantly over the past decade. With the emergence of numerous minimally invasive facial rejuvenation techniques, facial anatomy theory witnesses continuous development. Nowadays, temporal region-related surgeries are developing towards being with less trauma and higher safety, and further in-depth anatomical studies are conducted on the temporal branch of the facial nerve. Familiarity with the course direction, branch distribution, and position of body surface projection of the temporal branch of the facial nerve is of great importance to protect the temporal branch of the facial nerve and its branches from injury. This article summarizes and analyzes the current relevant literature thus provides critical morphological data for head and neck plastic surgery and aesthetic surgery, along with some guidance in clinical application.
5.Anatomic research on temporal branches of facial nerve
Qian ZHANG ; Pu CHUN ; Yunfei LI ; Feifei LI
Chinese Journal of Plastic Surgery 2023;39(8):899-906
Our understanding of facial anatomy has changed significantly over the past decade. With the emergence of numerous minimally invasive facial rejuvenation techniques, facial anatomy theory witnesses continuous development. Nowadays, temporal region-related surgeries are developing with trends of less trauma and higher safety, and further in-depth anatomical studies are conducted on the temporal branch of the facial nerve. Familiarity with the course direction, branch distribution, and position of body surface projection regarding the temporal branch of the facial nerve is crucial to protect these branches from injury. This article summarizes and analyzes the current relevant literatures thus provides critical morphological data for head and neck plastic surgery and aesthetic surgery, along with some guidance in clinical application.
6.Progress in anatomic research on temporal branches of facial nerve
Qian ZHANG ; Pu CHUN ; Yunfei LI ; Feifei LI
Chinese Journal of Plastic Surgery 2023;39(4):482-489
Our understanding of facial anatomy has changed significantly over the past decade. With the emergence of numerous minimally invasive facial rejuvenation techniques, facial anatomy theory witnesses continuous development. Nowadays, temporal region-related surgeries are developing towards being with less trauma and higher safety, and further in-depth anatomical studies are conducted on the temporal branch of the facial nerve. Familiarity with the course direction, branch distribution, and position of body surface projection of the temporal branch of the facial nerve is of great importance to protect the temporal branch of the facial nerve and its branches from injury. This article summarizes and analyzes the current relevant literature thus provides critical morphological data for head and neck plastic surgery and aesthetic surgery, along with some guidance in clinical application.
7.Anatomic research on temporal branches of facial nerve
Qian ZHANG ; Pu CHUN ; Yunfei LI ; Feifei LI
Chinese Journal of Plastic Surgery 2023;39(8):899-906
Our understanding of facial anatomy has changed significantly over the past decade. With the emergence of numerous minimally invasive facial rejuvenation techniques, facial anatomy theory witnesses continuous development. Nowadays, temporal region-related surgeries are developing with trends of less trauma and higher safety, and further in-depth anatomical studies are conducted on the temporal branch of the facial nerve. Familiarity with the course direction, branch distribution, and position of body surface projection regarding the temporal branch of the facial nerve is crucial to protect these branches from injury. This article summarizes and analyzes the current relevant literatures thus provides critical morphological data for head and neck plastic surgery and aesthetic surgery, along with some guidance in clinical application.
8.Effects of chloropicrin fumigation on soil and growth and development of Panax notoginseng.
Long LI ; Rong-Feng PU ; Ming-Hua LI ; Chun-Yan DAI ; Kai ZHENG ; Zheng-Qiang JIN ; Chen-Bing MO ; Xiu-Ming CUI ; Ye YANG
China Journal of Chinese Materia Medica 2022;47(3):635-642
The continuous cropping obstacle of Panax notoginseng is serious, and effective control measures are lacking. Soil disinfection with chloropicrin(CP) has been proven to be effective in reducing the obstacles to continuous cropping of other crops. In order to ascertain the effect of CP in the continuous cropping of P. notoginseng, this paper explored the influences of CP at different treatment concentrations(0,30,40,50 kg/Mu, 1 Mu≈667 m~2) on soil macro-element nutrients, soil enzyme activity, growth and development of P. notoginseng, and the accumulation of medicinal components. The results showed that CP fumigation significantly increased the content of total nitrogen, alkali-hydrolyzable nitrogen, ammonium nitrogen, nitrate nitrogen, and available phosphorus in the soil, but it had no significant effect on potassium content. The soil protease activity showed a trend of first increasing and then decreasing with the prolonging of the treatment time. Both the soil urease and acid phosphatase activities showed a trend of first decreasing and then increasing with the prolonging of the treatment time. The higher the CP treatment concentration was, the lower the urease and acid phosphatase activities would be in the soil. The protease activity was relatively high after CP40 treatment, which was better than CP30 and CP50 treatments in promoting the nitrogen-phosphorus-potassium accumulation in P. notoginseng. The seedling survival rates after CP0, CP30, CP40, and CP50 tratments in October were 0, 65.56%, 89.44%, and 83.33%, respectively. Compared with the CP30 and CP50 treatments, CP40 treatment significantly facilitated the growth and development of P. notoginseng, the increase in fresh and dry weights, and the accumulation of root saponins. In summary, CP40 treatment accelerates the increase in soil nitrogen and phosphorus nutrients and their accumulation in P. notoginseng, elevates the seedling survival rate of P. notoginseng, enhances the growth and development of P. notoginseng, and promotes the accumulation of medicinal components. CP40 treatment is therefore recommended in production.
Fumigation
;
Growth and Development
;
Hydrocarbons, Chlorinated
;
Panax notoginseng
;
Soil
9.Effect of Tetrastigma hemsleyanum on sepsis and mechanism based on network pharmacology and experimental verification.
Jing-Ru ZHENG ; Chun-Lian JI ; Liang-Hui ZHAN ; Jin-Bao PU ; Li YAO
China Journal of Chinese Materia Medica 2022;47(17):4744-4754
Based on network pharmacology and in vivo experiment, this study explored the therapeutic effect of Tetrastigma hemsle-yanum(SYQ) on sepsis and the underlying mechanism. The common targets of SYQ and sepsis were screened out by network pharmacology, and the "SYQ-component-target-sepsis" network was constructed. The protein-protein interaction(PPI) network was established by STRING. Gene Ontology(GO) term enrichment and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway enrichment were performed based on DAVID to predict the anti-sepsis mechanism of SYQ. The prediction results of network pharmacology were verified by animal experiment. The network pharmacology results showed that the key anti-sepsis targets of SYQ were tumor necrosis factor(TNF), interleukin(IL)-6, IL-1β, IL-10, and cysteinyl asparate specific proteinase 3(caspase-3), which were mainly involved in Toll-like receptor 4(TLR4)/myeloid differentiation factor 88(MyD88)/nuclear factor kappaB(NF-κB) signaling pathway. The results of animal experiment showed that SYQ can decrease the content of C-reactive protein(CRP), procalcitonin(PCT), lactate dehydrogenase(LDH), IL-6, TNF-α, and IL-1β, increase the content of IL-10, and down-regulate the protein levels of Bcl-2-associa-ted X(Bax)/B-cell lymphoma 2(Bcl2), cleaved caspase-3, TLR4, MyD88, and p-NF-κB p65/NF-κB p65. In summary, SYQ plays an anti-inflammatory role in the treatment of sepsis by acting on the key genes related to inflammation and apoptosis, such as TNF-α, IL-6, IL-lβ, IL-10, Bax, Bcl2, and cleaved caspase-3. The mechanism is the likelihood that it suppresses the TLR4/MyD88/NF-κB signaling pathway, which verifies relative prediction results of network pharmacology.
Animals
;
Anti-Inflammatory Agents/therapeutic use*
;
C-Reactive Protein
;
Caspase 3/metabolism*
;
Interleukin-10
;
Interleukin-6/metabolism*
;
Lactate Dehydrogenases/metabolism*
;
Myeloblastin/metabolism*
;
Myeloid Differentiation Factor 88/metabolism*
;
NF-kappa B/metabolism*
;
Network Pharmacology
;
Procalcitonin/therapeutic use*
;
Sepsis/genetics*
;
Toll-Like Receptor 4/metabolism*
;
Tumor Necrosis Factor-alpha/metabolism*
;
bcl-2-Associated X Protein/metabolism*
10.Management experience of a designated hospital for children with coronavirus disease 2019.
Jian-Guo ZHOU ; Qiao-Ling FAN ; Chun-Mei LU ; Pu XU ; Gang-Feng YAN ; Ling-Feng CHUNYU ; Ya-Zun LIU ; Yi-Wei CHEN ; Yan-Ming LU ; Ting ZHANG ; Hui YU ; Li-Bo WANG ; Jiang-Jiang XU ; Wen-Hao ZHOU
Chinese Journal of Contemporary Pediatrics 2022;24(8):839-845
The global pandemic of coronavirus disease 2019 (COVID-19) has brought great challenges to the traditional medical model. During the outbreak of COVID-19 in Shanghai, China, from March to May, 2022, there was a significant increase in the number of pediatric cases due to high transmissibility, immune escape, and vaccine breakthrough capacity of Omicron variants. The designated hospitals for children with COVID-19 served as a connecting link between children's specialized hospitals and mobile cabin hospitals. From April 7 to June 2, 2022, a total of 871 children with COVID-19 were admitted to Renji Hospital, Shanghai Jiao Tong University School of Medicine (South Branch), a designated hospital for children with COVID-19. Among these patients, 568 (65.2%) were children under 3 years old, 870 (99.9%) were mild or moderate, and 1 was severe. This article reports the experience in the management of pediatric cases in this designated hospital, which included the following aspects: establishing an optimal case-admission process; strengthening multidisciplinary standardized diagnosis and treatment; optimizing the management, warning, and rescue system for severe COVID-19; implementing family-centered nursing care; formulating an individualized traditional Chinese medicine treatment regimen; optimizing the discharge process and strengthening bed turnover; implementing strict whole-process control to reduce the risk of nosocomial infection; constructing a structured medical record system and using information platforms to adapt to the work mode of large-volume cases; conducting scientific research and sharing the experience in diagnosis and treatment.
COVID-19
;
Child
;
Child, Preschool
;
China
;
Hospitals, Pediatric
;
Humans
;
SARS-CoV-2

Result Analysis
Print
Save
E-mail