皮肤科领域单细胞转录组测序研究进展

doi:10.35541/cjd.20190603

Abstract

Abstract: Single-cell RNA sequencing （scRNA-seq） is a technique to analyze the transcriptome sequence at the single cell level. It can be used to discover new cell subtypes, reveal heterogeneity between cells, track the progression of diseases, and eventually improve the understanding of complexity of tissues, organs and organisms. At present, scRNA-seq has been widely applied in the fields of tumor and embryonic development, and its application in dermatology has shown a gradual growth. This review briefly introduces technical procedures of scRNA-seq, and mainly elaborates relevant progress in dermatology.

Key words: Sequence analysis, RNA, Transcriptome, Single-cell analysis, Genetic heterogeneity, Psoriasis, Vitiligo, Melanoma, Lymphoma, T-cell, cutaneous, Neoplasms, squamous cell

Gu Jingjing, Deng Chengcheng, Yang Bin. Single-cell RNA-sequencing in dermatology[J]. Chinese Journal of Dermatology, 2020, 53(12): 1033-1036.doi:10.35541/cjd.20190603

References ［35］

［1］	Wang Z, Gerstein M, Snyder M. RNA⁃Seq: a revolutionary tool for transcriptomics［J］. Nat Rev Genet, 2009,10（1）:57⁃63. doi: 10.1038/nrg2484.
［2］	Papalexi E, Satija R. Single⁃cell RNA sequencing to explore immune cell heterogeneity［J］. Nat Rev Immunol, 2018,18（1）:35⁃45. doi: 10.1038/nri.2017.76.
［3］	Tang F, Barbacioru C, Wang Y, et al. mRNA⁃Seq whole⁃transcriptome analysis of a single cell［J］. Nat Methods, 2009,6（5）:377⁃382. doi: 10.1038/nmeth.1315.
［4］	Baslan T, Hicks J. Unravelling biology and shifting paradigms in cancer with single⁃cell sequencing［J］. Nat Rev Cancer, 2017,17（9）:557⁃569. doi: 10.1038/nrc.2017.58.
［5］	Zhao T, Fu Y, Zhu J, et al. Single⁃cell RNA⁃seq reveals dynamic early embryonic⁃like programs during chemical reprogramming［J］. Cell Stem Cell, 2018,23（1）:31⁃45.e7. doi: 10.1016/j.stem. 2018.05.025.
［6］	Ishii S, Tago K, Senoo K. Single⁃cell analysis and isolation for microbiology and biotechnology: methods and applications［J］. Appl Microbiol Biotechnol, 2010,86（5）:1281⁃1292. doi: 10.1007/ s00253⁃010⁃2524⁃4.
［7］	Lafzi A, Moutinho C, Picelli S, et al. Tutorial: guidelines for the experimental design of single⁃cell RNA sequencing studies［J］. Nat Protoc, 2018,13（12）:2742⁃2757. doi: 10.1038/s41596⁃018⁃0073⁃y.
［8］	Fuchs E. Scratching the surface of skin development［J］. Nature, 2007,445（7130）:834⁃842. doi: 10.1038/nature05659.
［9］	Joost S, Zeisel A, Jacob T, et al. Single⁃cell transcriptomics reveals that differentiation and spatial signatures shape epidermal and hair follicle heterogeneity［J］. Cell Syst, 2016,3（3）:221⁃237.e9. doi: 10.1016/j.cels.2016.08.010.
［10］	Tabib T, Morse C, Wang T, et al. SFRP2/DPP4 and FMO1/LSP1 define major fibroblast populations in human skin［J］. J Invest Dermatol, 2018,138（4）:802⁃810. doi: 10.1016/j.jid.2017.09.045.
［11］	Philippeos C, Telerman SB, Oulès B, et al. Spatial and single⁃cell transcriptional profiling identifies functionally distinct human dermal fibroblast subpopulations［J］. J Invest Dermatol, 2018,138（4）:811⁃825. doi: 10.1016/j.jid.2018.01.016.
［12］	Kolter J, Feuerstein R, Zeis P, et al. A subset of skin macrophages contributes to the surveillance and regeneration of local nerves［J］. Immunity, 2019,50（6）:1482⁃1497.e7. doi: 10. 1016/j.immuni.2019.05.009.
［13］	Madan E, Gogna R, Moreno E. Cell competition in development: information from flies and vertebrates［J］. Curr Opin Cell Biol, 2018,55:150⁃157. doi: 10.1016/j.ceb.2018.08.002.
［14］	Ellis SJ, Gomez NC, Levorse J, et al. Distinct modes of cell competition shape mammalian tissue morphogenesis［J］. Nature, 2019,569（7757）:497⁃502. doi: 10.1038/s41586⁃019⁃1199⁃y.
［15］	Cheng JB, Sedgewick AJ, Finnegan AI, et al. Transcriptional programming of normal and inflamed human epidermis at single⁃cell resolution［J］. Cell Rep, 2018,25（4）:871⁃883. doi: 10.1016/j.celrep.2018.09.006.
［16］	Strassner JP, Gellatly KJ, Rashighi M, et al. Dissecting autoimmune signaling networks in vitiligo using single⁃cell RNA⁃sequencing of cells isolated directly from lesional skin［J］. J Invest Dermatol, 2018,138（5, Suppl）:S18. doi: 10.1016/j.jid.2018.03.107.
［17］	Angiolilli C, Marut W, van der Kroef M, et al. New insights into the genetics and epigenetics of systemic sclerosis［J］. Nat Rev Rheumatol, 2018,14（11）:657⁃673. doi: 10.1038/s41584⁃018⁃0099⁃0.
［18］	Apostolidis SA, Stifano G, Tabib T, et al. Single cell RNA sequencing identifies HSPG2 and APLNR as markers of endothelial cell injury in systemic sclerosis skin［J］. Front Immunol, 2018,9:2191. doi: 10.3389/fimmu.2018.02191.
［19］	Torre LA, Bray F, Siegel RL, et al. Global cancer statistics, 2012［J］. CA Cancer J Clin, 2015,65（2）:87⁃108. doi: 10.3322/caac. 21262.
［20］	Lukowski SW, Tuong ZK, Noske K, et al. Detection of HPV E7 transcription at single⁃cell resolution in epidermis［J］. J Invest Dermatol, 2018,138（12）:2558⁃2567. doi: 10.1016/j.jid.2018.06. 169.
［21］	Salzer MC, Lafzi A, Berenguer⁃Llergo A, et al. Identity noise and adipogenic traits characterize dermal fibroblast aging［J］. Cell, 2018,175（6）:1575⁃1590.e22. doi: 10.1016/j.cell.2018.10.012.
［22］	Gurtner G, Werner S, Barrandon Y, et al. Wound repair and regeneration［J］. Nature, 2008, 453（7193）: 314⁃321. doi: 10.1038/ nature07039.
［23］	Wu X, Yang B, Udo⁃Inyang I, et al. Research techniques made simple: single⁃cell RNA sequencing and its applications in dermatology［J］. J Invest Dermatol, 2018,138（5）:1004⁃1009. doi: 10.1016/j.jid.2018.01.026.
［24］	Joost S, Jacob T, Sun X, et al. Single⁃cell transcriptomics of traced epidermal and hair follicle stem cells reveals rapid adaptations during wound healing［J］. Cell Rep, 2018,25（3）:585⁃597.e7. doi: 10.1016/j.celrep.2018.09.059.
［25］	Guerrero⁃Juarez CF, Dedhia PH, Jin S, et al. Single⁃cell analysis reveals fibroblast heterogeneity and myeloid⁃derived adipocyte progenitors in murine skin wounds［J］. Nat Commun, 2019,10（1）:650. doi: 10.1038/s41467⁃018⁃08247⁃x.
［26］	Kopper O, de Witte CJ, Lõhmussaar K, et al. An organoid platform for ovarian cancer captures intra⁃ and interpatient heterogeneity［J］. Nat Med, 2019,25（5）:838⁃849. doi: 10.1038/s41591⁃019⁃0422⁃6.
［27］	Tirosh I, Izar B, Prakadan SM, et al. Dissecting the multicellular ecosystem of metastatic melanoma by single⁃cell RNA⁃seq［J］. Science, 2016,352（6282）:189⁃196. doi: 10.1126/science.aad0501.
［28］	Puram SV, Tirosh I, Parikh AS, et al. Single⁃cell transcriptomic analysis of primary and metastatic tumor ecosystems in head and neck cancer［J］. Cell, 2017,171（7）:1611⁃1624.e24. doi: 10.1016/ j.cell.2017.10.044.
［29］	Gaydosik AM, Tabib T, Geskin LJ, et al. Single⁃cell lymphocyte heterogeneity in advanced cutaneous T⁃cell lymphoma skin tumors［J］. Clin Cancer Res, 2019,25（14）:4443⁃4454. doi: 10. 1158/1078⁃0432.CCR⁃19⁃0148.
［30］	Borcherding N, Voigt AP, Liu V, et al. Single⁃cell profiling of cutaneous T⁃cell lymphoma reveals underlying heterogeneity associated with disease progression［J］. Clin Cancer Res, 2019,25（10）:2996⁃3005. doi: 10.1158/1078⁃0432.CCR⁃18⁃3309.
［31］	Naidoo J, Dykema A, D′Alessio F. An adapted anti⁃CTLA4 therapeutic aimed at mitigating the toxicities of checkpoint inhibition［J］. J Clin Invest, 2019,129（1）:75⁃77. doi: 10.1172/JCI125800.
［32］	Das R, Bar N, Ferreira M, et al. Early B cell changes predict autoimmunity following combination immune checkpoint blockade［J］. J Clin Invest, 2018,128（2）:715⁃720. doi: 10.1172/JCI96798.
［33］	Rambow F, Rogiers A, Marin⁃Bejar O, et al. Toward minimal residual disease⁃directed therapy in melanoma［J］. Cell, 2018,174（4）:843⁃855.e19. doi: 10.1016/j.cell.2018.06.025.
［34］	Miao Y, Yang H, Levorse J, et al. Adaptive immune resistance emerges from tumor⁃initiating stem cells［J］. Cell, 2019,177（5）:1172⁃1186.e14. doi: 10.1016/j.cell.2019.03.025.
［35］	Wu X, Yang B, Udo⁃Inyang I, et al. Research techniques made simple: single⁃cell RNA sequencing and its applications in dermatology［J］. J Invest Dermatol, 2018,138（5）:1004⁃1009. doi: 10.1016/j.jid.2018.01.026.

[1]	Fu Dandan, Li Jialin, Fu Xiuyu, Zhang Xinyu, Hu Hua, Song Xiangfeng, Tian Zhongwei. S100A10 protein expression in psoriatic lesions and its effect on psoriasis-like skin inflammation in mouse models [J]. Chinese Journal of Dermatology, 2023, 56(9): 839-844.
[2]	Dai Leheng, Hu Wen, Zhang Kunjie, Kang Xiaojing. Protective effects of isorhamnetin against H2O2-induced mitochondrial structural and functional damage in HaCaT cells [J]. Chinese Journal of Dermatology, 2023, 56(9): 857-861.
[3]	Liu Xiaoyang, Zhao Yan, Cai Lin, Zhang Jianzhong. Atopic dermatitis-like lesions appearing after interleukin-17 antagonist therapy in 4 cases of psoriasis: case analysis and literature review [J]. Chinese Journal of Dermatology, 2023, 56(9): 845-848.
[4]	Dong Dong, Liu Tianyi. Cell metabolism and metastasis of cutaneous malignant melanoma [J]. Chinese Journal of Dermatology, 2023, 56(9): 878-881.
[5]	Chen Fangqi, Liang Yan, Wu Ting, Huang Changzheng. Associations between m6A RNA methylation and cutaneous melanoma [J]. Chinese Journal of Dermatology, 2023, 56(9): 889-892.
[6]	Chen Xiaomin, Zhang Jingzhan, Ding Yuan, Kang Xiaojing. Metformin in the treatment of psoriasis [J]. Chinese Journal of Dermatology, 2023, 56(8): 799-802.
[7]	Yuan Xingang, Ni Sili, Zhang Jian, Luo Xiaoyan, Wang Hua. Improving diagnosis and treatment of melanocytic nevi in children: an urgent need [J]. Chinese Journal of Dermatology, 2023, 56(8): 782-786.
[8]	Tang Zhiming, Jing Mengqing, Lu Lu, Shan Xiao, Zhang Cuixia, Zhang Xiaoyu, Meng Sa. Effect of Xidi Liangxue recipe on the proliferation and apoptosis of HaCaT cells through the lncRNA NEAT1/miR-485-5p/STAT3 regulatory network [J]. Chinese Journal of Dermatology, 2023, 56(7): 642-650.
[9]	Committee on Psoriasis, Chinese Society of Dermatology. Guideline for the diagnosis and treatment of psoriasis in China （2023 edition） [J]. Chinese Journal of Dermatology, 2023, 56(7): 573-625.
[10]	Shan Ying, Chang Xiaotong, Zuo Yagang. Epitope spreading in autoimmune bullous diseases [J]. Chinese Journal of Dermatology, 2023, 56(7): 702-705.
[11]	Jiang Xiaoyan, Gao Min, Zhang Xiaoyan, Liu Ningyuan. Interleukin-17 and interleukin-23 inhibitors in the treatment of pustular psoriasis [J]. Chinese Journal of Dermatology, 2023, 56(7): 689-692.
[12]	Jia Weixue, Li Chengrang. Comparison of Chinese and international guidelines and consensus for the diagnosis and treatment of vitiligo [J]. Chinese Journal of Dermatology, 2023, 56(5): 471-475.
[13]	Zhang Congcong, Chen Hao. Spitzoid melanocytic tumors [J]. Chinese Journal of Dermatology, 2023, 56(5): 463-467.
[14]	Li Jiaqi, Ye Feng, Ju Qiang. Symbiotic homeostasis of Staphylococcus epidermidis is associated with common skin disorders [J]. Chinese Journal of Dermatology, 2023, 56(5): 459-462.
[15]	China Dermatologist Association, Chinese Society of Dermatology, Xijing Hospital, Air Force Medical University, Chinese Dietary Guideline for Psoriasis Patients Task Force. Dietary guideline for patients with psoriasis in China （2023） [J]. Chinese Journal of Dermatology, 2023, 56(5): 389-401.

Single-cell RNA-sequencing in dermatology

PDF

PDF (Mobile)

Knowledge

Abstract

Cite this article

share this article

References ［35］

Related Articles 15

Metrics

Comments

Recommended 10