Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

Alexandra Chloé Villani; Rahul Satija; Gary Reynolds; Siranush Sarkizova; Karthik Shekhar; James Fletcher; Morgane Griesbeck; Andrew Butler; Shiwei Zheng; Suzan Lazo; Laura Jardine; David Dixon; Emily Stephenson; Emil Nilsson; Ida Grundberg; David McDonald; Andrew Filby; Weibo Li; Philip L. De Jager; Orit Rozenblatt-Rosen; Andrew A. Lane; Muzlifah Haniffa; Aviv Regev; Nir Hacohen

doi:10.1126/science.aah4573

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

Alexandra Chloé Villani, Rahul Satija, Gary Reynolds, Siranush Sarkizova, Karthik Shekhar, James Fletcher, Morgane Griesbeck, Andrew Butler, Shiwei Zheng, Suzan Lazo, Laura Jardine, David Dixon, Emily Stephenson, Emil Nilsson, Ida Grundberg, David McDonald, Andrew Filby, Weibo Li, Philip L. De Jager, Orit Rozenblatt-RosenAndrew A. Lane, Muzlifah Haniffa, Aviv Regev, Nir Hacohen

Biology and Genomics

Research output: Contribution to journal › Article › peer-review

Abstract

Dendritic cells (DCs) and monocytes play a central role in pathogen sensing, phagocytosis, and antigen presentation and consist of multiple specialized subtypes. However, their identities and interrelationships are not fully understood. Using unbiased single-cell RNA sequencing (RNA-seq) of ~2400 cells, we identified six human DCs and four monocyte subtypes in human blood. Our study reveals a new DC subset that shares properties with plasmacytoid DCs (pDCs) but potently activates T cells, thus redefining pDCs; a new subdivision within the CD1C+ subset of DCs; the relationship between blastic plasmacytoid DC neoplasia cells and healthy DCs; and circulating progenitor of conventional DCs (cDCs). Our revised taxonomy will enable more accurate functional and developmental analyses as well as immune monitoring in health and disease.

Original language	English (US)
Article number	eaah4573
Journal	Science
Volume	356
Issue number	6335
DOIs	https://doi.org/10.1126/science.aah4573
State	Published - Apr 21 2017

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Villani, A. C., Satija, R., Reynolds, G., Sarkizova, S., Shekhar, K., Fletcher, J., Griesbeck, M., Butler, A., Zheng, S., Lazo, S., Jardine, L., Dixon, D., Stephenson, E., Nilsson, E., Grundberg, I., McDonald, D., Filby, A., Li, W., De Jager, P. L., ... Hacohen, N. (2017). Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors. Science, 356(6335), Article eaah4573. https://doi.org/10.1126/science.aah4573

Villani, AC, Satija, R, Reynolds, G, Sarkizova, S, Shekhar, K, Fletcher, J, Griesbeck, M, Butler, A, Zheng, S, Lazo, S, Jardine, L, Dixon, D, Stephenson, E, Nilsson, E, Grundberg, I, McDonald, D, Filby, A, Li, W, De Jager, PL, Rozenblatt-Rosen, O, Lane, AA, Haniffa, M, Regev, A & Hacohen, N 2017, 'Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors', Science, vol. 356, no. 6335, eaah4573. https://doi.org/10.1126/science.aah4573

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title = "Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors",

abstract = "Dendritic cells (DCs) and monocytes play a central role in pathogen sensing, phagocytosis, and antigen presentation and consist of multiple specialized subtypes. However, their identities and interrelationships are not fully understood. Using unbiased single-cell RNA sequencing (RNA-seq) of ~2400 cells, we identified six human DCs and four monocyte subtypes in human blood. Our study reveals a new DC subset that shares properties with plasmacytoid DCs (pDCs) but potently activates T cells, thus redefining pDCs; a new subdivision within the CD1C+ subset of DCs; the relationship between blastic plasmacytoid DC neoplasia cells and healthy DCs; and circulating progenitor of conventional DCs (cDCs). Our revised taxonomy will enable more accurate functional and developmental analyses as well as immune monitoring in health and disease.",

author = "Villani, {Alexandra Chlo{\'e}} and Rahul Satija and Gary Reynolds and Siranush Sarkizova and Karthik Shekhar and James Fletcher and Morgane Griesbeck and Andrew Butler and Shiwei Zheng and Suzan Lazo and Laura Jardine and David Dixon and Emily Stephenson and Emil Nilsson and Ida Grundberg and David McDonald and Andrew Filby and Weibo Li and {De Jager}, {Philip L.} and Orit Rozenblatt-Rosen and Lane, {Andrew A.} and Muzlifah Haniffa and Aviv Regev and Nir Hacohen",

note = "Funding Information: Harvard University Center for AIDS Research (CFAR), an NIH-funded program (5 P30 AI060354-10)",

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doi = "10.1126/science.aah4573",

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T1 - Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

AU - Villani, Alexandra Chloé

AU - Satija, Rahul

AU - Reynolds, Gary

AU - Sarkizova, Siranush

AU - Shekhar, Karthik

AU - Fletcher, James

AU - Griesbeck, Morgane

AU - Butler, Andrew

AU - Zheng, Shiwei

AU - Lazo, Suzan

AU - Jardine, Laura

AU - Dixon, David

AU - Stephenson, Emily

AU - Nilsson, Emil

AU - Grundberg, Ida

AU - McDonald, David

AU - Filby, Andrew

AU - Li, Weibo

AU - De Jager, Philip L.

AU - Rozenblatt-Rosen, Orit

AU - Lane, Andrew A.

AU - Haniffa, Muzlifah

AU - Regev, Aviv

AU - Hacohen, Nir

N1 - Funding Information: Harvard University Center for AIDS Research (CFAR), an NIH-funded program (5 P30 AI060354-10)

PY - 2017/4/21

Y1 - 2017/4/21

N2 - Dendritic cells (DCs) and monocytes play a central role in pathogen sensing, phagocytosis, and antigen presentation and consist of multiple specialized subtypes. However, their identities and interrelationships are not fully understood. Using unbiased single-cell RNA sequencing (RNA-seq) of ~2400 cells, we identified six human DCs and four monocyte subtypes in human blood. Our study reveals a new DC subset that shares properties with plasmacytoid DCs (pDCs) but potently activates T cells, thus redefining pDCs; a new subdivision within the CD1C+ subset of DCs; the relationship between blastic plasmacytoid DC neoplasia cells and healthy DCs; and circulating progenitor of conventional DCs (cDCs). Our revised taxonomy will enable more accurate functional and developmental analyses as well as immune monitoring in health and disease.

AB - Dendritic cells (DCs) and monocytes play a central role in pathogen sensing, phagocytosis, and antigen presentation and consist of multiple specialized subtypes. However, their identities and interrelationships are not fully understood. Using unbiased single-cell RNA sequencing (RNA-seq) of ~2400 cells, we identified six human DCs and four monocyte subtypes in human blood. Our study reveals a new DC subset that shares properties with plasmacytoid DCs (pDCs) but potently activates T cells, thus redefining pDCs; a new subdivision within the CD1C+ subset of DCs; the relationship between blastic plasmacytoid DC neoplasia cells and healthy DCs; and circulating progenitor of conventional DCs (cDCs). Our revised taxonomy will enable more accurate functional and developmental analyses as well as immune monitoring in health and disease.

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Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

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