Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

Sonya A. MacParland; Jeff C. Liu; Xue Zhong Ma; Brendan T. Innes; Agata M. Bartczak; Blair K. Gage; Justin Manuel; Nicholas Khuu; Juan Echeverri; Ivan Linares; Rahul Gupta; Michael L. Cheng; Lewis Y. Liu; Damra Camat; Sai W. Chung; Rebecca K. Seliga; Zigong Shao; Elizabeth Lee; Shinichiro Ogawa; Mina Ogawa; Michael D. Wilson; Jason E. Fish; Markus Selzner; Anand Ghanekar; David Grant; Paul Greig; Gonzalo Sapisochin; Nazia Selzner; Neil Winegarden; Oyedele Adeyi; Gordon Keller; Gary D. Bader; Ian D. McGilvray

doi:10.1038/s41467-018-06318-7

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

Sonya A. MacParland, Jeff C. Liu, Xue Zhong Ma, Brendan T. Innes, Agata M. Bartczak, Blair K. Gage, Justin Manuel, Nicholas Khuu, Juan Echeverri, Ivan Linares, Rahul Gupta, Michael L. Cheng, Lewis Y. Liu, Damra Camat, Sai W. Chung, Rebecca K. Seliga, Zigong Shao, Elizabeth Lee, Shinichiro Ogawa, Mina OgawaMichael D. Wilson, Jason E. Fish, Markus Selzner, Anand Ghanekar, David Grant, Paul Greig, Gonzalo Sapisochin, Nazia Selzner, Neil Winegarden, Oyedele Adeyi, Gordon Keller, Gary D. Bader, Ian D. McGilvray

University of Minnesota

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772 Scopus citations

Abstract

The liver is the largest solid organ in the body and is critical for metabolic and immune functions. However, little is known about the cells that make up the human liver and its immune microenvironment. Here we report a map of the cellular landscape of the human liver using single-cell RNA sequencing. We provide the transcriptional profiles of 8444 parenchymal and non-parenchymal cells obtained from the fractionation of fresh hepatic tissue from five human livers. Using gene expression patterns, flow cytometry, and immunohistochemical examinations, we identify 20 discrete cell populations of hepatocytes, endothelial cells, cholangiocytes, hepatic stellate cells, B cells, conventional and non-conventional T cells, NK-like cells, and distinct intrahepatic monocyte/macrophage populations. Together, our study presents a comprehensive view of the human liver at single-cell resolution that outlines the characteristics of resident cells in the liver, and in particular provides a map of the human hepatic immune microenvironment.

Original language	English (US)
Article number	4383
Journal	Nature communications
Volume	9
Issue number	1
DOIs	https://doi.org/10.1038/s41467-018-06318-7
State	Published - Dec 1 2018

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Publisher Copyright:
© 2018, The Author(s).

PubMed: MeSH publication types

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Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

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MacParland, S. A., Liu, J. C., Ma, X. Z., Innes, B. T., Bartczak, A. M., Gage, B. K., Manuel, J., Khuu, N., Echeverri, J., Linares, I., Gupta, R., Cheng, M. L., Liu, L. Y., Camat, D., Chung, S. W., Seliga, R. K., Shao, Z., Lee, E., Ogawa, S., ... McGilvray, I. D. (2018). Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations. Nature communications, 9(1), Article 4383. https://doi.org/10.1038/s41467-018-06318-7

MacParland, SA, Liu, JC, Ma, XZ, Innes, BT, Bartczak, AM, Gage, BK, Manuel, J, Khuu, N, Echeverri, J, Linares, I, Gupta, R, Cheng, ML, Liu, LY, Camat, D, Chung, SW, Seliga, RK, Shao, Z, Lee, E, Ogawa, S, Ogawa, M, Wilson, MD, Fish, JE, Selzner, M, Ghanekar, A, Grant, D, Greig, P, Sapisochin, G, Selzner, N, Winegarden, N, Adeyi, O, Keller, G, Bader, GD & McGilvray, ID 2018, 'Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations', Nature communications, vol. 9, no. 1, 4383. https://doi.org/10.1038/s41467-018-06318-7

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abstract = "The liver is the largest solid organ in the body and is critical for metabolic and immune functions. However, little is known about the cells that make up the human liver and its immune microenvironment. Here we report a map of the cellular landscape of the human liver using single-cell RNA sequencing. We provide the transcriptional profiles of 8444 parenchymal and non-parenchymal cells obtained from the fractionation of fresh hepatic tissue from five human livers. Using gene expression patterns, flow cytometry, and immunohistochemical examinations, we identify 20 discrete cell populations of hepatocytes, endothelial cells, cholangiocytes, hepatic stellate cells, B cells, conventional and non-conventional T cells, NK-like cells, and distinct intrahepatic monocyte/macrophage populations. Together, our study presents a comprehensive view of the human liver at single-cell resolution that outlines the characteristics of resident cells in the liver, and in particular provides a map of the human hepatic immune microenvironment.",

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AU - Grant, David

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AU - Sapisochin, Gonzalo

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Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

Abstract

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