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  1. Article ; Online: SARS-CoV-2 spike linear epitope scanning via a peptide microarray through sera profiling

    Yang Li / Dan-yun Lai / Sheng-ce Tao

    STAR Protocols, Vol 2, Iss 3, Pp 100707- (2021)

    2021  

    Abstract: Summary: Host humoral immunological response plays an essential role in protection against pathogens. Identification of B-cell epitopes on antigens is required for accurate diagnosis and vaccine development. To map SARS-CoV-2 (severe acute respiratory ... ...

    Abstract Summary: Host humoral immunological response plays an essential role in protection against pathogens. Identification of B-cell epitopes on antigens is required for accurate diagnosis and vaccine development. To map SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) spike linear epitopes, we developed a protocol of profiling sera from patients with COVID-19 (coronavirus disease 2019) via a peptide microarray designed according to spike protein. The protocol is also applicable for other antigens or sample types. This protocol is rapid, high throughput, and the cost is acceptable while it needs specialized microarray facilities.For complete details on the use and execution of this protocol, please refer to Li et al. (2020, 2021a, 2021b).
    Keywords Health Sciences ; High Throughput Screening ; Immunology ; Microbiology ; Antibody ; Science (General) ; Q1-390
    Language English
    Publishing date 2021-09-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: SARS-CoV-2 spike linear epitope scanning via a peptide microarray through sera profiling.

    Li, Yang / Lai, Dan-Yun / Tao, Sheng-Ce

    STAR protocols

    2021  Volume 2, Issue 3, Page(s) 100707

    Abstract: Host humoral immunological response plays an essential role in protection against pathogens. Identification of B-cell epitopes on antigens is required for accurate diagnosis and vaccine development. To map SARS-CoV-2 (severe acute respiratory syndrome ... ...

    Abstract Host humoral immunological response plays an essential role in protection against pathogens. Identification of B-cell epitopes on antigens is required for accurate diagnosis and vaccine development. To map SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) spike linear epitopes, we developed a protocol of profiling sera from patients with COVID-19 (coronavirus disease 2019) via a peptide microarray designed according to spike protein. The protocol is also applicable for other antigens or sample types. This protocol is rapid, high throughput, and the cost is acceptable while it needs specialized microarray facilities. For complete details on the use and execution of this protocol, please refer to Li et al. (2020, 2021a, 2021b).
    MeSH term(s) Antibodies, Viral/blood ; Antibodies, Viral/immunology ; Antigens, Viral/blood ; Antigens, Viral/immunology ; COVID-19/blood ; COVID-19/immunology ; COVID-19/virology ; Epitopes, B-Lymphocyte/immunology ; Humans ; Peptide Fragments/blood ; Peptide Fragments/immunology ; SARS-CoV-2/immunology ; Spike Glycoprotein, Coronavirus/blood ; Spike Glycoprotein, Coronavirus/immunology
    Chemical Substances Antibodies, Viral ; Antigens, Viral ; Epitopes, B-Lymphocyte ; Peptide Fragments ; Spike Glycoprotein, Coronavirus
    Language English
    Publishing date 2021-07-10
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2666-1667
    ISSN (online) 2666-1667
    DOI 10.1016/j.xpro.2021.100707
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: SARS-CoV-2 proteome microarray for COVID-19 patient sera profiling

    Dan-yun Lai / He-wei Jiang / Yang Li / Hai-nan Zhang / Sheng-ce Tao

    STAR Protocols, Vol 3, Iss 2, Pp 101238- (2022)

    2022  

    Abstract: Summary: The immunogenicity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) proteome is largely unknown. Here we describe a protocol for analyzing sera samples with SARS-CoV-2 proteome microarray. The proteins were expressed by either E. ... ...

    Abstract Summary: The immunogenicity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) proteome is largely unknown. Here we describe a protocol for analyzing sera samples with SARS-CoV-2 proteome microarray. The proteins were expressed by either E. coli expression system or eukaryotic cell expression systems and obtained by affinity purification. The protocol includes microarray fabricating and sera profiling, which will be used to build an antibody response landscape for IgG and IgM. The protocol may help to facilitate a deeper understanding of immunity related to SARS-CoV-2.For complete details on the use and execution of this protocol, please refer to Li et al. (2021c).
    Keywords Health Sciences ; Clinical Protocol ; Immunology ; Protein Biochemistry ; Proteomics ; Protein expression and purification ; Science (General) ; Q1-390
    Language English
    Publishing date 2022-06-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: SARS-CoV-2 proteome microarray for COVID-19 patient sera profiling.

    Lai, Dan-Yun / Jiang, He-Wei / Li, Yang / Zhang, Hai-Nan / Tao, Sheng-Ce

    STAR protocols

    2022  Volume 3, Issue 2, Page(s) 101238

    Abstract: The immunogenicity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) proteome is largely unknown. Here we describe a protocol for analyzing sera samples with SARS-CoV-2 proteome microarray. The proteins were expressed by ... ...

    Abstract The immunogenicity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) proteome is largely unknown. Here we describe a protocol for analyzing sera samples with SARS-CoV-2 proteome microarray. The proteins were expressed by either
    MeSH term(s) Antibodies, Viral ; COVID-19 ; Escherichia coli ; Humans ; Proteome ; SARS-CoV-2
    Chemical Substances Antibodies, Viral ; Proteome
    Language English
    Publishing date 2022-02-28
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2666-1667
    ISSN (online) 2666-1667
    DOI 10.1016/j.xpro.2022.101238
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Current advances in antibody-based serum biomarker studies: From protein microarray to phage display.

    Qi, Huan / Xue, Jun-Biao / Lai, Dan-Yun / Li, Ang / Tao, Sheng-Ce

    Proteomics. Clinical applications

    2022  Volume 16, Issue 6, Page(s) e2100098

    Abstract: Purpose: This review aims to summarize the technological advances in the field of antibody-based biomarker studies by proteome microarray and phage display. In addition, the possible development directions of this field are also discussed.: ... ...

    Abstract Purpose: This review aims to summarize the technological advances in the field of antibody-based biomarker studies by proteome microarray and phage display. In addition, the possible development directions of this field are also discussed.
    Experimental design: We have focused on the antibody profiling by proteome microarray and phage display, including the technological advances, the tools/resources constructed, and the characteristics of both platforms.
    Results: With the help of tools/resources and technological advances in proteome microarray and phage display, the efficiency of profiling antibody-based biomarkers in serum samples has been greatly improved.
    Conclusions: In the past few years, proteome microarray and phage display, especially the latter one, have already demonstrated their capacity and efficiency for biomarker identification. In the near future, we believe that more antibody-based biomarkers could be identified, and some of them could eventually be developed into real clinical applications.
    MeSH term(s) Protein Array Analysis ; Proteome ; Antibodies/genetics ; Biomarkers ; Bacteriophages/genetics ; Peptide Library
    Chemical Substances Proteome ; Antibodies ; Biomarkers ; Peptide Library
    Language English
    Publishing date 2022-09-27
    Publishing country Germany
    Document type Journal Article ; Review
    ZDB-ID 2261788-7
    ISSN 1862-8354 ; 1862-8346
    ISSN (online) 1862-8354
    ISSN 1862-8346
    DOI 10.1002/prca.202100098
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    Zs.A 6575: Show issues Location:
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    ab Jg. 2022: Lesesaal (EG)

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  6. Article: Landscape of the RBD-specific IgG, IgM, and IgA responses triggered by the inactivated virus vaccine against the Omicron variant.

    Xue, Jun-Biao / Lai, Dan-Yun / Jiang, He-Wei / Qi, Huan / Guo, Shu-Juan / Zhu, Yuan-Shou / Xu, Hong / Zhou, Jie / Tao, Sheng-Ce

    Cell discovery

    2022  Volume 8, Issue 1, Page(s) 15

    Language English
    Publishing date 2022-02-15
    Publishing country England
    Document type Letter
    ISSN 2056-5968
    ISSN 2056-5968
    DOI 10.1038/s41421-022-00380-8
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Longitudinal neutralization activities on authentic Omicron variant provided by three doses of BBIBP-CorV vaccination during one year.

    Lai, Dan-Yun / Xue, Jun-Biao / He, Ping / Jiang, He-Wei / Li, Yang / Ma, Ming-Liang / Hong, Wei / Yu, Jun-Ping / Wei, Hong-Ping / Tao, Sheng-Ce

    Proteomics

    2022  Volume 23, Issue 2, Page(s) e2200306

    Abstract: The majority of people in China have been immunized with the inactivated viral vaccine BBIBP-CorV. The emergence of the Omicron variant raised the concerns about protection efficacy of the inactivated viral vaccine in China. However, longitudinal ... ...

    Abstract The majority of people in China have been immunized with the inactivated viral vaccine BBIBP-CorV. The emergence of the Omicron variant raised the concerns about protection efficacy of the inactivated viral vaccine in China. However, longitudinal neutralization data describing protection efficacy against Omicron variant is still lacking. Here we present one-year longitudinal neutralization data of BBIBP-CorV on authentic Omicron, Delta, and wild-type strains using 224 sera collected from 14 volunteers who have finished three doses BBIBP-CorV. The sera were also subjected for monitoring the SARS-CoV-2 specific IgG, IgA, and IgM responses on protein and peptide microarrays. The neutralization titers showed different protection efficacies against the three strains. By incorporating IgG and IgA signals of proteins and Spike protein derived peptide on microarray, panels as potential surrogate biomarkers for rapid estimation of neutralization titers were established. These data support the necessity of the 3
    MeSH term(s) Humans ; COVID-19/prevention & control ; SARS-CoV-2 ; COVID-19 Vaccines ; Immunoglobulin G ; Vaccination ; Immunoglobulin A ; Antibodies, Viral
    Chemical Substances BIBP COVID-19 vaccine ; COVID-19 Vaccines ; Immunoglobulin G ; Immunoglobulin A ; Antibodies, Viral
    Language English
    Publishing date 2022-10-17
    Publishing country Germany
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2032093-0
    ISSN 1615-9861 ; 1615-9853
    ISSN (online) 1615-9861
    ISSN 1615-9853
    DOI 10.1002/pmic.202200306
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    Zs.A 5386: Show issues Location:
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    Jg. 1995 - 2021: Lesesall (2.OG)
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    Zs.A 1868: Show issues Location:
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  8. Article ; Online: Antibody Binding Epitope Mapping (AbMap) of Hundred Antibodies in a Single Run.

    Qi, Huan / Ma, Mingliang / Hu, Chuansheng / Xu, Zhao-Wei / Wu, Fan-Lin / Wang, Nan / Lai, Dan-Yun / Li, Yang / Zhang, Hainan / Jiang, He-Wei / Meng, Qing-Feng / Guo, Shujuan / Kang, Yani / Zhao, Xiaodong / Li, Hua / Tao, Sheng-Ce

    Molecular & cellular proteomics : MCP

    2021  Volume 20, Page(s) 100059

    Abstract: Antibodies play essential roles in both diagnostics and therapeutics. Epitope mapping is essential to understand how an antibody works and to protect intellectual property. Given the millions of antibodies for which epitope information is lacking, there ... ...

    Abstract Antibodies play essential roles in both diagnostics and therapeutics. Epitope mapping is essential to understand how an antibody works and to protect intellectual property. Given the millions of antibodies for which epitope information is lacking, there is a need for high-throughput epitope mapping. To address this, we developed a strategy, Antibody binding epitope Mapping (AbMap), by combining a phage displayed peptide library with next-generation sequencing. Using AbMap, profiles of the peptides bound by 202 antibodies were determined in a single test, and linear epitopes were identified for >50% of the antibodies. Using spike protein (S1 and S2)-enriched antibodies from the convalescent serum of one COVID-19 patient as the input, both linear and potentially conformational epitopes of spike protein specific antibodies were identified. We defined peptide-binding profile of an antibody as the binding capacity (BiC). Conceptually, the BiC could serve as a systematic and functional descriptor of any antibody. Requiring at least one order of magnitude less time and money to map linear epitopes than traditional technologies, AbMap allows for high-throughput epitope mapping and creates many possibilities.
    MeSH term(s) Antibodies, Monoclonal/immunology ; Antibodies, Monoclonal/metabolism ; Antibodies, Viral/metabolism ; COVID-19/immunology ; Enzyme-Linked Immunosorbent Assay ; Epitope Mapping/methods ; Epitopes/metabolism ; Escherichia coli Proteins/immunology ; High-Throughput Nucleotide Sequencing ; Humans ; Immune Sera/blood ; Immune Sera/immunology ; Peptide Library ; Spike Glycoprotein, Coronavirus/immunology
    Chemical Substances Antibodies, Monoclonal ; Antibodies, Viral ; Epitopes ; Escherichia coli Proteins ; Immune Sera ; Peptide Library ; Spike Glycoprotein, Coronavirus ; spike protein, SARS-CoV-2
    Keywords covid19
    Language English
    Publishing date 2021-02-11
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2075924-1
    ISSN 1535-9484 ; 1535-9476
    ISSN (online) 1535-9484
    ISSN 1535-9476
    DOI 10.1074/mcp.RA120.002314
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    Zs.A 5599: Show issues Location:
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  9. Article ; Online: Systematic profiling of SARS-CoV-2-specific IgG epitopes at amino acid resolution.

    Qi, Huan / Ma, Ming-Liang / Jiang, He-Wei / Ling, Jian-Ya / Chen, Ling-Yun / Zhang, Hai-Nan / Lai, Dan-Yun / Li, Yang / Guo, Zi-Wen / Hu, Chuan-Sheng / Guo, Shu-Juan / Meng, Qing-Feng / Ren, Yan / Yang, Xiao / Wang, Wei / Zhou, Jie / Zhao, Xiao-Dong / Li, Hua / Tao, Sheng-Ce

    Cellular & molecular immunology

    2021  Volume 18, Issue 4, Page(s) 1067–1069

    MeSH term(s) Amino Acids/chemistry ; Antibodies, Viral/immunology ; COVID-19/immunology ; Epitopes/chemistry ; Epitopes/genetics ; Humans ; Immunoglobulin G/immunology ; Protein Array Analysis ; SARS-CoV-2/immunology ; Spike Glycoprotein, Coronavirus/chemistry ; Spike Glycoprotein, Coronavirus/genetics ; Spike Glycoprotein, Coronavirus/immunology
    Chemical Substances Amino Acids ; Antibodies, Viral ; Epitopes ; Immunoglobulin G ; Spike Glycoprotein, Coronavirus ; spike protein, SARS-CoV-2
    Language English
    Publishing date 2021-03-04
    Publishing country China
    Document type Letter
    ZDB-ID 2435097-7
    ISSN 2042-0226 ; 1672-7681
    ISSN (online) 2042-0226
    ISSN 1672-7681
    DOI 10.1038/s41423-021-00654-3
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    Zs.A 6681: Show issues Location:
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  10. Article ; Online: Salipiger pentaromativorans

    Li, Jiangwei / Lai, Qiliang / Hu, Anyi / Liu, Huijie / Qin, Dan / Yang, Xiaoyong / Tian, Yun / Yu, Chang-Ping

    International journal of systematic and evolutionary microbiology

    2023  Volume 73, Issue 2

    Abstract: Polycyclic aromatic hydrocarbons (PAHs) have been recognized as a potential health risk and are widespread in nature due to their intrinsic chemical stability and high recalcitrance to degradation. A taxonomic study was carried out on strain ... ...

    Abstract Polycyclic aromatic hydrocarbons (PAHs) have been recognized as a potential health risk and are widespread in nature due to their intrinsic chemical stability and high recalcitrance to degradation. A taxonomic study was carried out on strain P9
    MeSH term(s) Fatty Acids/chemistry ; Seawater/microbiology ; Polycyclic Aromatic Hydrocarbons ; Phylogeny ; RNA, Ribosomal, 16S/genetics ; Bacterial Typing Techniques ; DNA, Bacterial/genetics ; Base Composition ; Sequence Analysis, DNA ; Phospholipids/chemistry ; Quinones ; Rhodobacteraceae
    Chemical Substances Fatty Acids ; Polycyclic Aromatic Hydrocarbons ; RNA, Ribosomal, 16S ; DNA, Bacterial ; Phospholipids ; Quinones
    Language English
    Publishing date 2023-02-14
    Publishing country England
    Document type Journal Article
    ZDB-ID 2002336-4
    ISSN 1466-5034 ; 1466-5026
    ISSN (online) 1466-5034
    ISSN 1466-5026
    DOI 10.1099/ijsem.0.005716
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 409: Show issues Location:
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