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Article ; Online: The characteristics of BCR-CDR3 repertoire in COVID-19 patients and SARS-CoV-2 vaccinated volunteers.

Xiao, Jiaping / Luo, Yan / Li, Yangyang / Yao, Xinsheng

2024 Volume 96, Issue 3, Page(s) e29488

Abstract: The global COVID-19 pandemic has caused more than 1 billion infections, and numerous SARS-CoV-2 vaccines developed rapidly have been administered over 10 billion doses. The world is continuously concerned about the cytokine storms induced by the ... ...

Abstract	The global COVID-19 pandemic has caused more than 1 billion infections, and numerous SARS-CoV-2 vaccines developed rapidly have been administered over 10 billion doses. The world is continuously concerned about the cytokine storms induced by the interaction between SARS-CoV-2 and host, long COVID, breakthrough infections postvaccination, and the impact of SARS-CoV-2 variants. BCR-CDR3 repertoire serves as a molecular target for monitoring the antiviral response "trace" of B cells, evaluating the effects, mechanisms, and memory abilities of individual responses to B cells, and has been successfully applied in analyzing the infection mechanisms, vaccine improvement, and neutralizing antibodies preparation of influenza virus, HIV, MERS, and Ebola virus. Based on research on BCR-CDR3 repertoire of COVID-19 patients and volunteers who received different SARS-CoV-2 vaccines in multiple laboratories worldwide, we focus on analyzing the characteristics and changes of BCR-CDR3 repertoire, such as diversity, clonality, V&J genes usage and pairing, SHM, CSR, shared CDR3 clones, as well as the summary on BCR sequences targeting virus-specific epitopes in the preparation and application research of SARS-CoV-2 potential therapeutic monoclonal antibodies. This review provides comparative data and new research schemes for studying the possible mechanisms of differences in B cell response between SARS-CoV-2 infection or vaccination, and supplies a foundation for improving vaccines after SARS-CoV-2 mutations and potential antibody therapy for infected individuals.
MeSH term(s)	Humans ; SARS-CoV-2/genetics ; COVID-19/prevention & control ; COVID-19 Vaccines ; Post-Acute COVID-19 Syndrome ; Pandemics ; Antibodies, Neutralizing ; Antibodies, Viral
Chemical Substances	COVID-19 Vaccines ; Antibodies, Neutralizing ; Antibodies, Viral
Language	English
Publishing date	2024-02-28
Publishing country	United States
Document type	Journal Article ; Review
ZDB-ID	752392-0
ISSN	1096-9071 ; 0146-6615
ISSN (online)	1096-9071
ISSN	0146-6615
DOI	10.1002/jmv.29488
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Zs.A 1320: Show issues

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Article: [Effects of FoxN1, p63 and AIRE on the process of age-related thymus involution: An update].

Wang, Jiayi / Li, Jun / Yao, Xinsheng

Xi bao yu fen zi mian yi xue za zhi = Chinese journal of cellular and molecular immunology

2023 Volume 39, Issue 1, Page(s) 88–94

Abstract: Age-related thymus involution that comes with age, can lead to degenerative diseases, autoimmune diseases, tumors and opportunistic infections. Transcription factors such as forkhead box N1 (FoxN1), p63 and autoimmune regulator (AIRE) that can affect the ...

Abstract	Age-related thymus involution that comes with age, can lead to degenerative diseases, autoimmune diseases, tumors and opportunistic infections. Transcription factors such as forkhead box N1 (FoxN1), p63 and autoimmune regulator (AIRE) that can affect the process of age-related thymus involution and the differentiation, development and output of T cells by regulating the proliferation, development and differentiation of thymic epithelial cells(TECs). Here, we reviewed the mechanism of regulating age-related thymus involution and the research into the new treatment schemes progresses in the upstream and downstream targets of FoxN1, p63 and AIRE, miRNAs and signal pathways that affect their functions.
MeSH term(s)	Humans ; Aging/metabolism ; Aging/pathology ; Cell Differentiation ; Epithelial Cells/metabolism ; Forkhead Transcription Factors/genetics ; Forkhead Transcription Factors/metabolism ; T-Lymphocytes/metabolism ; Thymus Gland/metabolism ; AIRE Protein
Chemical Substances	Forkhead Transcription Factors ; TP63 protein, human
Language	Chinese
Publishing date	2023-01-11
Publishing country	China
Document type	Review ; English Abstract ; Journal Article
ISSN	1007-8738
ISSN	1007-8738
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Article: [Activation-induced cytidine deaminase (AID) involved in the regulation of B cell immune senescence].

Xiao, Jiaping / Li, Jun / Yao, Xinsheng

Xi bao yu fen zi mian yi xue za zhi = Chinese journal of cellular and molecular immunology

2023 Volume 39, Issue 5, Page(s) 474–478

Abstract: The humoral immune response of B cells is the key to the protection of specific immunity, and immune aging reshapes its production and function. The decreased B cell immune function is an indicator of immune senescence. The impaired humoral immune ... ...

Abstract	The humoral immune response of B cells is the key to the protection of specific immunity, and immune aging reshapes its production and function. The decreased B cell immune function is an indicator of immune senescence. The impaired humoral immune function mediated by antibody secreted by B cells leads to a decline in the response of elderly individuals to the vaccine. These people are therefore more susceptible to infection and deterioration, and have a higher incidence of tumors and metabolic diseases. Activation-induced cytidine deaminase (AID) is an enzyme that triggers immunoglobulin class conversion recombination (CSR) and somatic high frequency mutation (SHM). It decreases during immune senescence and is considered to be a biomarker of decreased B cell function in aging mice and humans. Understanding the inherent defects of B-cell immune senescence and the regulation mechanism of AID in the aging process can provide new research ideas for the susceptibility, prevention and treatment of diseases in the elderly.
MeSH term(s)	Animals ; Humans ; Mice ; Aging/metabolism ; B-Lymphocytes/metabolism ; Cytidine Deaminase/genetics ; Cytidine Deaminase/metabolism ; Somatic Hypermutation, Immunoglobulin
Chemical Substances	Cytidine Deaminase (EC 3.5.4.5) ; AICDA (activation-induced cytidine deaminase) (EC 3.5.4.-)
Language	Chinese
Publishing date	2023-05-30
Publishing country	China
Document type	English Abstract ; Journal Article
ISSN	1007-8738
ISSN	1007-8738
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Article ; Online: Severe zoonotic viruses carried by different species of bats and their regional distribution.

Liu, Zegang / Liu, Qinlu / Wang, Huifang / Yao, Xinsheng

Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases

2023 Volume 30, Issue 2, Page(s) 206–210

Abstract: Background: Bats have garnered increased attention in the field of life sciences for their typical biological characteristics of carrying a variety of zoonotic viruses without disease, long lifespans, low tumorigenesis rates, and high metabolism. When ... ...

Abstract	Background: Bats have garnered increased attention in the field of life sciences for their typical biological characteristics of carrying a variety of zoonotic viruses without disease, long lifespans, low tumorigenesis rates, and high metabolism. When it was found that bats can carry the rabies virus, over 60 years of research revealed that bats host over 4100 distinct viruses, including Ebola virus and SARS-CoV. Objectives: This paper primarily reviews the profiles of zoonotic viruses carried by bats across various regions globally. The review aims to provide a foundation and reference for future research on monitoring zoonotic viruses in diverse global regions and bat species, exploring the coevolutionary relationship between bats and viruses, understanding the tolerance mechanisms of bat B cells, prevention, and treatment of zoonotic diseases caused by bats. Sources: The search used 'bat', 'bats', 'rabies virus', 'Dengue virus', 'West Nile virus', 'Zika virus', 'St. Louis encephalitis virus', 'Japanese encephalitis virus', 'Hantavirus', 'Novel hantavirus', 'Rift Valley fever virus', 'Crimean Congo hemorrhagic fever virus', 'Paramyxovirus', 'Nipah virus', 'Hendra virus', 'Menangle virus', 'Tioman virus', 'Marburg Virus', 'Bombali virus', 'Ebola virus', 'Influenza A virus', 'coronavirus', 'Hepatitis B virus', and 'Hepatitis E virus' as text in PubMed. Content: A total of 147 references were obtained. Surveys on severe zoonotic virus carriage have been limited to only 83 bat species belonging to nine families, which are distributed all over the world. We also briefly describe the antibody responses and B-cell molecules in bats. Implications: Several viruses have been found in different species of bats. This suggests that bats may be important hosts for future viral infectious diseases. Particularly in recent years, the close correlation between human infection pandemics caused by coronaviruses and bats highlights the pressing need to comprehend the species, tolerance, and coevolutionary mechanisms of zoonotic viruses carried by different bat species.
MeSH term(s)	Animals ; Humans ; Chiroptera ; Zoonoses/epidemiology ; RNA Viruses/genetics ; Ebolavirus ; Coronavirus/genetics ; Coronavirus Infections ; Zika Virus ; Zika Virus Infection
Language	English
Publishing date	2023-10-05
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	1328418-6
ISSN	1469-0691 ; 1470-9465 ; 1198-743X
ISSN (online)	1469-0691
ISSN	1470-9465 ; 1198-743X
DOI	10.1016/j.cmi.2023.09.025
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Zs.A 4541: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MO 284: Show issues

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Article ; Online: scBCR-seq revealed a special and novel IG H&L V(D)J allelic inclusion rearrangement and the high proportion dual BCR expressing B cells.

Zhu, Lanwei / Peng, Qi / Wu, Yingjie / Yao, Xinsheng

Cellular and molecular life sciences : CMLS

2023 Volume 80, Issue 11, Page(s) 319

Abstract: Since the initial report of V (D) J "allelic exclusion/inclusion" (allelic exclusion rearrangement or allelic inclusion rearrangement) and the concept of the "dual B cell receptor (BCR)" in 1961, despite ongoing discoveries, the precise proportion and ... ...

Abstract	Since the initial report of V (D) J "allelic exclusion/inclusion" (allelic exclusion rearrangement or allelic inclusion rearrangement) and the concept of the "dual B cell receptor (BCR)" in 1961, despite ongoing discoveries, the precise proportion and source mechanism of dual BCR under physiological conditions have been puzzling immuologists. This study takes advantage of the single cell B cell receptor sequencing (scBCR-seq) technology, which can perfectly match the heavy and light chains of BCR at the level of a single B cell, and obtain the full length mRNA sequence of the complementary determining region 3 (CDR3). Through analyzing the pairing of functional IGH (immunoglobulin heavy chain) and IGL (immunoglobulin light chain) in single B cell from both human and mouse bone marrow and peripheral blood, it was observed that dual BCR B cells exhibit stable and high levels of expression. Among them, the human bone marrow and peripheral blood contain about 10% dual (or multiple) BCR B cells, while in mouse peripheral blood and bone marrow memory B cells, this proportion reaches around 20%. At the same time, we innovatively found that in each research sample of humans and mice, there are three (or more) functional rearrangements (mRNA level) of a single chain in a single B cell. By analyzing the position, direction and other compositional characteristics of the V(D)J gene family, we found that at least two (or more) of them are derived from over two (or more) specific allelic inclusion rearrangements of a single chromosome (mRNA molecular level evidence), our findings also highlighted the necessity of classified single cell sequencing data based on single, dual (or multiple) and cannot be assembled into BCR when analyzing the B cell repertoire. The results of this article provides new methods and modeling references for evaluating the proportion and source mechanisms of dual BCR B cells, as well as potential significance of allelic inclusion (exclusion escape) of V(D)J rearrangement.
MeSH term(s)	Mice ; Humans ; Animals ; Receptors, Antigen, B-Cell/genetics ; Receptors, Antigen, B-Cell/metabolism ; B-Lymphocytes/metabolism ; Immunoglobulin Heavy Chains/genetics ; Immunoglobulin Heavy Chains/metabolism ; RNA, Messenger/genetics
Chemical Substances	Receptors, Antigen, B-Cell ; Immunoglobulin Heavy Chains ; RNA, Messenger
Language	English
Publishing date	2023-10-07
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1358415-7
ISSN	1420-9071 ; 1420-682X
ISSN (online)	1420-9071
ISSN	1420-682X
DOI	10.1007/s00018-023-04973-8
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Zs.A 195: Show issues

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Article ; Online: Landscape of IGH germline genes of Chiroptera and the pattern of

Ma, Long / Liu, Longyu / Li, Jun / Zhou, Hao / Xiao, Jiaping / Ma, Qingqing / Yao, Xinsheng

Microbiology spectrum

2024 Volume 12, Issue 4, Page(s) e0376223

Abstract: The emergence and re-emergence of abundant viruses from bats that impact human and animal health have resulted in a resurgence of interest in bat immunology. Characterizing the immune receptor repertoire is critical to understanding how bats coexist with ...

Abstract	The emergence and re-emergence of abundant viruses from bats that impact human and animal health have resulted in a resurgence of interest in bat immunology. Characterizing the immune receptor repertoire is critical to understanding how bats coexist with viruses in the absence of disease and developing new therapeutics to target viruses in humans and susceptible livestock. In this study, IGH germline genes of Chiroptera including
MeSH term(s)	Animals ; Humans ; Dogs ; Mice ; Chiroptera ; Virus Diseases/veterinary ; Viruses ; Adaptive Immunity ; Germ Cells ; Phylogeny
Language	English
Publishing date	2024-03-11
Publishing country	United States
Document type	Journal Article
ZDB-ID	2807133-5
ISSN	2165-0497 ; 2165-0497
ISSN (online)	2165-0497
ISSN	2165-0497
DOI	10.1128/spectrum.03762-23
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Article ; Online: TR Locus Annotation and Characteristics of

Zhou, Hao / Ma, Long / Liu, Longyu / Yao, Xinsheng

Frontiers in immunology

2021 Volume 12, Page(s) 741408

Abstract: T-cell antigen receptors (TRs) in vertebrates can be divided into αβ or γδ, encoded by TRA/D, TRG, or TRB loci. TRs play a central role in mammal cellular immunity, which occurs by rearrangement of V, D, J, and C genes in the loci. The bat is the only ... ...

Abstract	T-cell antigen receptors (TRs) in vertebrates can be divided into αβ or γδ, encoded by TRA/D, TRG, or TRB loci. TRs play a central role in mammal cellular immunity, which occurs by rearrangement of V, D, J, and C genes in the loci. The bat is the only mammal with flying ability and is considered the main host of zoonotic viruses, an important public health concern. However, at present, little is known about the composition of bat TR genes. Based on the whole genome sequence of the greater horseshoe bat (
MeSH term(s)	Animals ; Biological Evolution ; Cats ; Cattle ; Chiroptera ; Computational Biology ; Genetic Loci ; Humans ; Immunogenetics ; Mice ; Molecular Sequence Annotation ; Phylogeny ; Rabbits ; Receptors, Antigen, T-Cell, alpha-beta/genetics ; Receptors, Antigen, T-Cell, gamma-delta/genetics ; Sequence Alignment ; T-Lymphocytes/physiology ; Whole Genome Sequencing
Chemical Substances	Receptors, Antigen, T-Cell, alpha-beta ; Receptors, Antigen, T-Cell, gamma-delta
Language	English
Publishing date	2021-09-30
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2021.741408
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Article: [T cell receptor (TCR) repertoire and common analytical tools for high-throughput sequencing].

Zhang, Minmin / Li, Jun / Shi, Bin / Yao, Xinsheng

Xi bao yu fen zi mian yi xue za zhi = Chinese journal of cellular and molecular immunology

2021 Volume 37, Issue 9, Page(s) 851–857

Abstract: T cell receptor (TCR) is an integral part of T cell recognition antigen, and the sum of TCR of all T cells in an individual is called the TCR repertoire. Understanding the composition and characteristics of the TCR repertoire in healthy and pathological ... ...

Abstract	T cell receptor (TCR) is an integral part of T cell recognition antigen, and the sum of TCR of all T cells in an individual is called the TCR repertoire. Understanding the composition and characteristics of the TCR repertoire in healthy and pathological state helps us to gain an insight into adaptive immunity. At present, many analysis tools for high-throughput data have been developed, including basic composition analysis and downstream function analysis. The database of antigen-specific T cells established by researchers is fundamental to clinical research. The analysis of the functional characteristics of the TCR repertoire is critical to the understanding of TCR repertoire. However, the existing downstream analysis tools still requires further application and verification. This paper reviewed several commonly used TCR repertoire analysis tools, which hopefully can provide a reference for non-bioinformatics researchers in choosing analysis tools.
Language	Chinese
Publishing date	2021-09-17
Publishing country	China
Document type	English Abstract ; Journal Article
ISSN	1007-8738
ISSN	1007-8738
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Article ; Online: Strengthen the research on the medicinal and edible substances to advance the development of the comprehensive healthcare industry of TCMs.

Gao, Hao / Yao, Xin-Sheng

Chinese journal of natural medicines

2019 Volume 17, Issue 1, Page(s) 1–2

MeSH term(s)	Biomedical Research ; Comprehensive Health Care ; Drug Industry ; Drugs, Chinese Herbal/chemistry ; Drugs, Chinese Herbal/pharmacology ; Humans ; Medicine, Chinese Traditional/economics ; Technology, Pharmaceutical
Chemical Substances	Drugs, Chinese Herbal
Language	English
Publishing date	2019-01-31
Publishing country	China
Document type	Editorial ; Introductory Journal Article
ZDB-ID	2192577-X
ISSN	1875-5364 ; 2095-6975 ; 1672-3651
ISSN (online)	1875-5364
ISSN	2095-6975 ; 1672-3651
DOI	10.1016/S1875-5364(19)30002-0
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Zs.A 6113: Show issues

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Article ; Online: Correction:

Zang, Caixia / Liu, Hui / Ju, Cheng / Yuan, Fangyu / Ning, Jingwen / Shang, Meiyu / Bao, Xiuqi / Yu, Yang / Yao, Xinsheng / Zhang, Dan

Food & function

2024 Volume 15, Issue 2, Page(s) 1052

Abstract: Correction for ' ...

Abstract	Correction for '
Language	English
Publishing date	2024-01-22
Publishing country	England
Document type	Published Erratum
ZDB-ID	2612033-1
ISSN	2042-650X ; 2042-6496
ISSN (online)	2042-650X
ISSN	2042-6496
DOI	10.1039/d3fo90113k
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