Article
Immunology
Valentina Ceglia, Erin J. Kelley, Annalee S. Boyle, Sandra Zurawski, Heather L. Mead, Caroline E. Harms, Jean-Philippe Blanck, Anne-Laure Flamar, Jung Hwa Kirschman, Paul Ogongo, Joel D. Ernst, Yves Levy, Gerard Zurawski, John A. Altin
Summary: This study demonstrates a method that combines antigen-driven expansion, deep TCR sequencing, and a novel analysis framework to confidently identify homologous 'Clusters of Expanded TCRs (CETs)' without cell isolation and assign them to specific antigens. It shows that clonotypes within each CET respond to the same epitope, and that protein antigens can stimulate multiple CETs reactive to constituent peptides. The method may be used to monitor T cell responses to vaccination and immunotherapy with high fidelity.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Chemistry, Physical
Jingyu Qi, Haibin Zhu, Yijian Li, Xiangyu Guan, Ying He, Guanhua Ren, Qiang Guo, Longqi Liu, Ying Gu, Xuan Dong, Ya Liu
Summary: Cell-cell interaction is an important way for transmitting information and activating the effects of functional cells. Researchers propose a droplet-based microfluidic platform for cell-cell interaction sequencing and screening, which allows for efficient analysis and interpretation of single-cell transcriptomes in cell interactions. This work fills a gap in the current experimental platform for cell-cell interaction research and has significant practical implications in biomedicine.
Review
Oncology
Harriet Roddy, Tim Meyer, Claire Roddie
Summary: Hepatocellular carcinoma (HCC) is a major cause of cancer-related death globally. The current gold-standard management using tyrosine kinase inhibitors or immune checkpoint inhibitors (ICIs) offers limited clinical benefit. Cellular immune therapies, such as CAR-T and TCR-T, are being explored as potential treatment options for HCC. Advanced engineering solutions are also being investigated to enhance the therapeutic approach.
Article
Immunology
Mikiya Tsunoda, Hiroyasu Aoki, Haruka Shimizu, Shigeyuki Shichino, Kouji Matsushima, Satoshi Ueha
Summary: Temporal analysis of T cell receptor (TCR) repertoire is important for monitoring changes in antigen-specific T cells in cancer patients. However, lack of experimental models for temporal analysis within a homogeneous population limits understanding of the relationship between TCR repertoire changes and antitumor responses. Bilateral tumor model showed highly similar T-cell clones in bilateral tumors and different patterns in draining lymph nodes, suggesting independent induction of tumor-reactive T cell clones in each lymph node.
FRONTIERS IN IMMUNOLOGY
(2021)
Review
Biochemical Research Methods
Joy A. Pai, Ansuman T. Satpathy
Summary: This Review discusses methodological advances in high-throughput analysis of the TCR repertoire, particularly at single-cell resolution. Recent studies have developed high-throughput sequencing technologies to identify TCR sequences and analyze their antigen specificities, providing important insights into T cell-mediated immune responses.
Article
Biotechnology & Applied Microbiology
Robert Dixon, Stephen G. Preston, Stefan Dascalu, Patrik G. Flammer, Steven R. Fiddaman, Kirstie McLoughlin, Amy Boyd, Jiri Volf, Ivan Rychlik, Michael B. Bonsall, Bernd Kaspers, Adrian L. Smith
Summary: This study reveals that chicken TCR gamma locus has undergone tandem duplication events that have shaped its evolution. Repertoire sequencing shows large differences in the usage of individual TRGV genes across various tissues, with TRGV3.3 dominating every tissue. The application of repertoire analysis in chickens with a high circulating gamma delta phenotype is important for understanding the functional diversity of these cells and their potential in improving health.
Review
Immunology
Zhuoyan Liu, Xuan Liu, Jiaxin Liang, Yixin Liu, Xiaorui Hou, Meichuan Zhang, Yongyin Li, Xiaotao Jiang
Summary: Hepatocellular carcinoma (HCC) is a common primary liver cancer with poor prognosis. Cancer immunotherapy has provided new opportunities for treating HCC, but faces challenges such as various etiologies and immune evasion.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Oncology
Rui Li, Junxiao Wang, Xiubin Li, Yining Liang, Yiyun Jiang, Yuwei Zhang, Pengfei Xu, Ling Deng, Zhe Wang, Tao Sun, Jian Wu, Hui Xie, Yijin Wang
Summary: This study aimed to investigate the T-cell receptor (TCR) profiles in different stages of hepatocellular carcinoma (HCC). The results showed that there were no significant differences in TCR clonality between different stages of HCC in tumor tissues and adjacent tissues. However, TCR clonality was significantly increased in T cells from peripheral blood in advanced HCC. This can be considered as a characteristic of advanced HCC patients. Furthermore, the study found that clonal expansion of T cells was associated with a lower risk of recurrence in HCC patients.
Article
Immunology
Mohamed S. Hussein, Qi Li, Rui Mao, Yibing Peng, Yukai He
Summary: Overexpression of c-Jun in TCR-engineered T cells can enhance their expansion, function, and persistence in hepatocellular carcinoma, leading to improved anti-tumor efficacy.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Genetics & Heredity
Tina Fuchs, Kerstin Puellmann, Chunlin Wang, Jian Han, Alexander W. Beham, Michael Neumaier, Wolfgang E. Kaminski
Summary: Recent research shows the presence of T cell receptor-based combinatorial immune receptors in neutrophils and monocytes/macrophages. These cells exhibit highly complex TCR beta transcriptomes with unique repertoires, and individual-specific changes are observed during differentiation of monocytes into macrophages. The study reveals the complexity and plasticity of the immune systems based on phagocytes, shedding light on their role in immunity alongside T cells.
GENOMICS PROTEOMICS & BIOINFORMATICS
(2021)
Article
Multidisciplinary Sciences
Pavlo A. Nesterenko, Jami McLaughlin, Donghui Cheng, Nathanael J. Bangayan, Giselle Burton Sojo, Christopher S. Seet, Yu Qin, Zhiyuan Mao, Matthew B. Obusan, John W. Phillips, Owen N. Witte
Summary: This study introduces a method called CLInt-Seq, which utilizes mRNA sequencing to efficiently recover antigen-specific TCRs from cells stained for specific intracellular proteins. This technique enables high-throughput identification and isolation of TCRs with low frequencies, as well as profiling of regulatory T cells and other cell phenotypes based on intracellular markers.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Immunology
Hao Zhou, Jun Li, Dewei Zhou, Yingjie Wu, Xingliang Wang, Jiang Zhou, Qingqing Ma, Xinsheng Yao, Long Ma
Summary: Bats are natural hosts for many viruses and their unique immune system allows them to coexist with these viruses without showing symptoms. However, the lack of a database or tool capable of processing bat T-cell receptor (TCR) sequences limits our understanding of the bat adaptive immune system.
FRONTIERS IN IMMUNOLOGY
(2023)
Letter
Immunology
Linn M. Eggesbo, Louise F. Risnes, Ralf S. Neumann, Knut E. A. Lundin, Asbjorn Christophersen, Ludvig M. Sollid
Summary: The T-cell receptor repertoires of untreated celiac disease patients were shown to be more polyclonal and diverse compared to those of treated patients and healthy subjects.
EUROPEAN JOURNAL OF IMMUNOLOGY
(2021)
Article
Immunology
Jessy John, Samantha M. Y. Chen, Rachel A. A. Woolaver, Huaibin Ge, Monika Vashisht, Ziyu Huang, Zhangguo Chen, Jing H. H. Wang
Summary: Immune checkpoint inhibitors (ICIs) have drastically changed cancer treatment, but there is great variability in individuals' response to ICI treatment and the reasons for this are not well understood. In a mouse squamous cell carcinoma (SCC) model, researchers found that CD8 tumor-infiltrating lymphocytes (TILs) showed evidence of activation regardless of response status. However, the top expanded TCR beta clonotypes between responders (R) and non-responders (NR) were mutually exclusive, suggesting a preferential expansion of distinct TCR beta clonotypes in response to the same SCC tumor in R vs. NR. These findings may explain the variable ICI responses and have implications for personalized cancer immunotherapy strategies.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Tongtong Zhang, Qian Li, Xiaoqing Li, Li Kang, Yunliang Jiang, Yi Sun
Summary: This study provides the first comprehensive characterization of the TCR gamma repertoire in chicken thymus, revealing similar features among the four chickens analyzed. Specific V gamma segments and V gamma-J gamma pairs were preferentially utilized by all individuals, and the CDR3 gamma sequences encoded a wider length distribution with a longer mean length compared to human, mice, and other animal species.
Article
Immunology
Yan-guo Tan, Yu-qi Wang, Ming Zhang, Ying-xin Han, Chun-yang Huang, Hai-ping Zhang, Zhuo-min Li, Xiao-lei Wu, Xiao-feng Wang, Yan Dong, Hong-mei Zhu, Shi-da Zhu, Hong-mei Li, Ning Li, Hui-ping Yan, Zu-hua Gao
JOURNAL OF IMMUNOLOGY
(2016)
Article
Multidisciplinary Sciences
Marc T. J. Johnson, Eric J. Carpenter, Zhijian Tian, Richard Bruskiewich, Jason N. Burris, Charlotte T. Carrigan, Mark W. Chase, Neil D. Clarke, Sarah Covshoff, Claude W. dePamphilis, Patrick P. Edger, Falicia Goh, Sean Graham, Stephan Greiner, Julian M. Hibberd, Ingrid Jordon-Thaden, Toni M. Kutchan, James Leebens-Mack, Michael Melkonian, Nicholas Miles, Henrietta Myburg, Jordan Patterson, J. Chris Pires, Paula Ralph, Megan Rolf, Rowan F. Sage, Douglas Soltis, Pamela Soltis, Dennis Stevenson, C. Neal Stewart, Barbara Surek, Christina J. M. Thomsen, Juan Carlos Villarreal, Xiaolei Wu, Yong Zhang, Michael K. Deyholos, Gane Ka-Shu Wong
Article
Multidisciplinary Sciences
Norman J. Wickett, Siavash Mirarab, Nam Nguyen, Tandy Warnow, Eric Carpenter, Naim Matasci, Saravanaraj Ayyampalayam, Michael S. Barker, J. Gordon Burleigh, Matthew A. Gitzendanner, Brad R. Ruhfel, Eric Wafula, Joshua P. Der, Sean W. Graham, Sarah Mathews, Michael Melkonian, Douglas E. Soltis, Pamela S. Soltis, Nicholas W. Miles, Carl J. Rothfels, Lisa Pokorny, A. Jonathan Shaw, Lisa DeGironimo, Dennis W. Stevenson, Barbara Surek, Juan Carlos Villarreal, Beatrice Roure, Herve Philippe, Claude W. dePamphilis, Tao Chen, Michael K. Deyholos, Regina S. Baucom, Toni M. Kutchan, Megan M. Augustin, Jun Wang, Yong Zhang, Zhijian Tian, Zhixiang Yan, Xiaolei Wu, Xiao Sun, Gane Ka-Shu Wong, James Leebens-Mack
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2014)
Article
Biotechnology & Applied Microbiology
Yuannian Jiao, Jim Leebens-Mack, Saravanaraj Ayyampalayam, John E. Bowers, Michael R. McKain, Joel McNeal, Megan Rolf, Daniel R. Ruzicka, Eric Wafula, Norman J. Wickett, Xiaolei Wu, Yong Zhang, Jun Wang, Yeting Zhang, Eric J. Carpenter, Michael K. Deyholos, Toni M. Kutchan, Andre S. Chanderbali, Pamela S. Soltis, Dennis W. Stevenson, Richard McCombie, J. Chris Pires, Gane Ka-Shu Wong, Douglas E. Soltis, Claude W. dePamphilis
Review
Biology
Naim Matasci, Ling-Hong Hung, Zhixiang Yan, Eric J. Carpenter, Norman J. Wickett, Siavash Mirarab, Nam Nguyen, Tandy Warnow, Saravanaraj Ayyampalayam, Michael Barker, J. Gordon Burleigh, Matthew A. Gitzendanner, Eric Wafula, Joshua P. Der, Claude W. dePamphilis, Beatrice Roure, Herve Philippe, Brad R. Ruhfel, Nicholas W. Miles, Sean W. Graham, Sarah Mathews, Barbara Surek, Michael Melkonian, Douglas E. Soltis, Pamela S. Soltis, Carl Rothfels, Lisa Pokorny, Jonathan A. Shaw, Lisa DeGironimo, Dennis W. Stevenson, Juan Carlos Villarreal, Tao Chen, Toni M. Kutchan, Megan Rolf, Regina S. Baucom, Michael K. Deyholos, Ram Samudrala, Zhijian Tian, Xiaolei Wu, Xiao Sun, Yong Zhang, Jun Wang, Jim Leebens-Mack, Gane Ka-Shu Wong
Article
Immunology
Chen Huang, Xuemei Li, Jinghua Wu, Wei Zhang, Shiren Sun, Liya Lin, Xie Wang, Hongmei Li, Xiaolei Wu, Peng Zhang, Guoshuang Xu, Hanmin Wang, Hongbao Liu, Yuzhen Liu, Dapeng Chen, Li Zhuo, Wenge Li, Huanming Yang, Jian Wang, Ling Wang, Xiao Liu
JOURNAL OF AUTOIMMUNITY
(2019)
Letter
Oncology
Jinqi Huang, Stepanov Alexey, Jian Li, Terri Jones, Geramie Grande, Lacey Douthit, Jun Xie, Danna Chen, Xiaolei Wu, Maschan Michael, Changchun Xiao, Jiangning Zhao, Xuehua Xie, Jia Xie, Xiao Lei Chen, Guo Fu, Gabibov Alexander, Chi-Meng Tzeng