Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution

The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses rev...

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Published inNature communications Vol. 12; no. 1; pp. 741 - 18
Main Authors Liu, Yang, He, Shuai, Wang, Xi-Liang, Peng, Wan, Chen, Qiu-Yan, Chi, Dong-Mei, Chen, Jie-Rong, Han, Bo-Wei, Lin, Guo-Wang, Li, Yi-Qi, Wang, Qian-Yu, Peng, Rou-Jun, Wei, Pan-Pan, Guo, Xiang, Li, Bo, Xia, Xiaojun, Mai, Hai-Qiang, Hu, Xue-Da, Zhang, Zemin, Zeng, Yi-Xin, Bei, Jin-Xin
Format Journal Article
LanguageEnglish
Published London Nature Publishing Group UK 02.02.2021
Nature Publishing Group
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Abstract The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8 + T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8 + T and immune-suppressive TNFRSF4 + Treg cells in tumours might derive from peripheral CX3CR1 + CD8 + T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3 + DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3 + DCs, Treg, exhausted CD8 + T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC. Nasopharyngeal carcinoma is a diverse cancer characterised by a heterogeneous microenvironment. Here, the authors use single cell sequencing to analyse the tumour microenvironment in 10 nasopharyngeal carcinoma tumours and identify different cell types including immune-suppressive T regulatory, tolerogenic dendritic, and exhausted CD8 T cells.
AbstractList Nasopharyngeal carcinoma is a diverse cancer characterised by a heterogeneous microenvironment. Here, the authors use single cell sequencing to analyse the tumour microenvironment in 10 nasopharyngeal carcinoma tumours and identify different cell types including immune-suppressive T regulatory, tolerogenic dendritic, and exhausted CD8 T cells.
The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8 + T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8 + T and immune-suppressive TNFRSF4 + Treg cells in tumours might derive from peripheral CX3CR1 + CD8 + T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3 + DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3 + DCs, Treg, exhausted CD8 + T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC. Nasopharyngeal carcinoma is a diverse cancer characterised by a heterogeneous microenvironment. Here, the authors use single cell sequencing to analyse the tumour microenvironment in 10 nasopharyngeal carcinoma tumours and identify different cell types including immune-suppressive T regulatory, tolerogenic dendritic, and exhausted CD8 T cells.
The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8 T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8 T and immune-suppressive TNFRSF4 Treg cells in tumours might derive from peripheral CX3CR1 CD8 T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3 DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3 DCs, Treg, exhausted CD8 T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC.
The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8+ T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8+ T and immune-suppressive TNFRSF4+ Treg cells in tumours might derive from peripheral CX3CR1+CD8+ T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3+ DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3+ DCs, Treg, exhausted CD8+ T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC.Nasopharyngeal carcinoma is a diverse cancer characterised by a heterogeneous microenvironment. Here, the authors use single cell sequencing to analyse the tumour microenvironment in 10 nasopharyngeal carcinoma tumours and identify different cell types including immune-suppressive T regulatory, tolerogenic dendritic, and exhausted CD8 T cells.
The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8+ T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8+ T and immune-suppressive TNFRSF4+ Treg cells in tumours might derive from peripheral CX3CR1+CD8+ T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3+ DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3+ DCs, Treg, exhausted CD8+ T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC.The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8+ T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8+ T and immune-suppressive TNFRSF4+ Treg cells in tumours might derive from peripheral CX3CR1+CD8+ T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3+ DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3+ DCs, Treg, exhausted CD8+ T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC.
The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we profile 176,447 cells from 10 NPC tumour-blood pairs, using single-cell transcriptome coupled with T cell receptor sequencing. Our analyses reveal 53 cell subtypes, including tumour-infiltrating CD8 + T, regulatory T (Treg), and dendritic cells (DCs), as well as malignant cells with different Epstein-Barr virus infection status. Trajectory analyses reveal exhausted CD8 + T and immune-suppressive TNFRSF4 + Treg cells in tumours might derive from peripheral CX3CR1 + CD8 + T and naïve Treg cells, respectively. Moreover, we identify immune-regulatory and tolerogenic LAMP3 + DCs. Noteworthily, we observe intensive inter-cell interactions among LAMP3 + DCs, Treg, exhausted CD8 + T, and malignant cells, suggesting potential cross-talks to foster an immune-suppressive niche for the TME. Collectively, our study uncovers the heterogeneity and interacting molecules of the TME in NPC at single-cell resolution, which provide insights into the mechanisms underlying NPC progression and the development of precise therapies for NPC.
ArticleNumber 741
Author Wei, Pan-Pan
Zhang, Zemin
Zeng, Yi-Xin
Peng, Wan
Chen, Qiu-Yan
Bei, Jin-Xin
Liu, Yang
Chi, Dong-Mei
Guo, Xiang
Wang, Qian-Yu
Hu, Xue-Da
Chen, Jie-Rong
He, Shuai
Li, Bo
Wang, Xi-Liang
Li, Yi-Qi
Xia, Xiaojun
Mai, Hai-Qiang
Lin, Guo-Wang
Peng, Rou-Jun
Han, Bo-Wei
Author_xml – sequence: 1
  givenname: Yang
  surname: Liu
  fullname: Liu, Yang
  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
– sequence: 2
  givenname: Shuai
  orcidid: 0000-0001-6619-1039
  surname: He
  fullname: He, Shuai
  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, The Eighth Affiliated Hospital, Sun Yat-sen University, Center for Precision Medicine, Sun Yat-sen University
– sequence: 3
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  surname: Wang
  fullname: Wang, Xi-Liang
  organization: BIOPIC, Beijing Advanced Innovation Center for Genomics, School of Life Sciences, Peking University
– sequence: 4
  givenname: Wan
  surname: Peng
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  fullname: Chen, Qiu-Yan
  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  givenname: Dong-Mei
  surname: Chi
  fullname: Chi, Dong-Mei
  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Department of Anesthesiology, Sun Yat-sen University Cancer Center
– sequence: 7
  givenname: Jie-Rong
  surname: Chen
  fullname: Chen, Jie-Rong
  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangdong General Hospital, Guangdong Academy of Medical Sciences
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  givenname: Bo-Wei
  surname: Han
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  givenname: Guo-Wang
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  fullname: Lin, Guo-Wang
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  givenname: Yi-Qi
  surname: Li
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  givenname: Qian-Yu
  orcidid: 0000-0002-3902-4339
  surname: Wang
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  givenname: Rou-Jun
  surname: Peng
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  givenname: Xiang
  surname: Guo
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  givenname: Bo
  orcidid: 0000-0002-7979-8339
  surname: Li
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  organization: Department of Biochemistry and Molecular Biology, Zhongshan School of Medicine, Sun Yat-sen University, RNA Biomedical Institute, Sun Yat-sen Memorial Hospital, Sun Yat-sen University
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  givenname: Xiaojun
  orcidid: 0000-0003-4444-7472
  surname: Xia
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy
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  organization: Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, The Eighth Affiliated Hospital, Sun Yat-sen University, Center for Precision Medicine, Sun Yat-sen University
BackLink https://www.ncbi.nlm.nih.gov/pubmed/33531485$$D View this record in MEDLINE/PubMed
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Snippet The heterogeneous nature of tumour microenvironment (TME) underlying diverse treatment responses remains unclear in nasopharyngeal carcinoma (NPC). Here, we...
Nasopharyngeal carcinoma is a diverse cancer characterised by a heterogeneous microenvironment. Here, the authors use single cell sequencing to analyse the...
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StartPage 741
SubjectTerms 38/39
631/250/580
631/67/1536
631/67/2329
631/67/327
82/51
96/31
Cancer
CD8 antigen
CD8-Positive T-Lymphocytes - enzymology
CD8-Positive T-Lymphocytes - metabolism
Cell interactions
Cells, Cultured
CX3CR1 protein
Dendritic cells
Dendritic Cells - immunology
Dendritic Cells - metabolism
Epstein-Barr virus
Gene expression
Head and Neck Neoplasms - immunology
Head and Neck Neoplasms - metabolism
Heterogeneity
High-Throughput Nucleotide Sequencing
Humanities and Social Sciences
Humans
Lymphocytes
Lymphocytes T
Male
Microenvironments
multidisciplinary
Nasopharyngeal carcinoma
Nasopharyngeal Carcinoma - immunology
Nasopharyngeal Carcinoma - metabolism
Science
Science (multidisciplinary)
T cell receptors
T-Lymphocytes, Regulatory - immunology
T-Lymphocytes, Regulatory - metabolism
Throat cancer
Trajectory analysis
Transcriptomes
Tumor microenvironment
Tumor Microenvironment - immunology
Tumor Microenvironment - physiology
Tumors
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Title Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution
URI https://link.springer.com/article/10.1038/s41467-021-21043-4
https://www.ncbi.nlm.nih.gov/pubmed/33531485
https://www.proquest.com/docview/2485325094
https://www.proquest.com/docview/2486140749
https://pubmed.ncbi.nlm.nih.gov/PMC7854640
https://doaj.org/article/f1978be2a763451db9da5aca4be70f2e
Volume 12
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