The neutrotime transcriptional signature defines a single continuum of neutrophils across biological compartments

Grieshaber-Bouyer R, Radtke FA, Cunin P, Stifano G, Levescot A, Nelson-Maney N, Blaustein RB, Monach PA, Nigrovic PA, Aguilar O, Allan R, Astarita J, Austen KF, Barrett N, Baysoy A, Benoist C, Brown BD, Buechler M, Buenrostro J, Casanova MA, Chowdhary K, Colonna M, Crowl T, Deng T, Desland F, Dhainaut M, Ding J, Dominguez C, Dwyer D, Frascoli M, Gal-Oz S, Goldrath A, Johanson T, Jordan S, Kang J, Kapoor V, Kenigsberg E, Kim J, Kim Kw, Kiner E, Kronenberg M, Lanier L, Laplace C, Lareau C, Leader A, Lee J, Magen A, Maier B, Maslova A, Mathis D, McFarland A, Merad M, Meunier E, Mostafavi S, Muller S, Muus C, Ner-Gaon H, Nguyen Q, Novakovsky G, Nutt S, Omilusik K, Ortiz-Lopez A, Paynich M, Peng V, Potempa M, Pradhan R, Quon S, Ramirez R, Ramanan D, Randolph G, Regev A, Rose SA, Seddu K, Shay T, Shemesh A, Shyer J, Smilie C, Spidale N, Subramanian A, Sylvia K, Tellier J, Turley S, Vijaykumar B, Wagers A, Wang C, Wang PL, Wroblewska A, Yang L, Yim A, Yoshida H (2021)

Publication Type: Journal article

Publication year: 2021

Journal

Nature Communications Nature Publishing Group: Nature Communications

Book Volume: 12

Article Number: 2856

Journal Issue: 1

DOI: 10.1038/s41467-021-22973-9

Abstract

Neutrophils are implicated in multiple homeostatic and pathological processes, but whether functional diversity requires discrete neutrophil subsets is not known. Here, we apply single-cell RNA sequencing to neutrophils from normal and inflamed mouse tissues. Whereas conventional clustering yields multiple alternative organizational structures, diffusion mapping plus RNA velocity discloses a single developmental spectrum, ordered chronologically. Termed here neutrotime, this spectrum extends from immature pre-neutrophils, largely in bone marrow, to mature neutrophils predominantly in blood and spleen. The sharpest increments in neutrotime occur during the transitions from pre-neutrophils to immature neutrophils and from mature marrow neutrophils to those in blood. Human neutrophils exhibit a similar transcriptomic pattern. Neutrophils migrating into inflamed mouse lung, peritoneum and joint maintain the core mature neutrotime signature together with new transcriptional activity that varies with site and stimulus. Together, these data identify a single developmental spectrum as the dominant organizational theme of neutrophil heterogeneity.

Authors with CRIS profile

Ricardo Grieshaber Bouyer

Involved external institutions

Veterans Affairs Healthcare System Boston and Harvard Medical School US United States (USA) (US) University of California San Francisco (UCSF) US United States (USA) (US) Genentech Inc. US United States (USA) (US) Icahn School of Medicine at Mount Sinai US United States (USA) (US) University of Massachusetts Medical School US United States (USA) (US) Harvard University US United States (USA) (US) Ben-Gurion University of the Negev (BGU) / אוניברסיטת בן-גוריון בנגב IL Israel (IL) Massachusetts Institute of Technology (MIT) US United States (USA) (US) University of British Columbia CA Canada (CA) Walter and Eliza Hall Institute of Medical Research (WEHI) AU Australia (AU) La Jolla Institute for Immunology US United States (USA) (US) Washington University in St. Louis US United States (USA) (US) IMS RIKEN Center for Integrative Medical Sciences JP Japan (JP)

How to cite

APA:

Grieshaber-Bouyer, R., Radtke, F.A., Cunin, P., Stifano, G., Levescot, A., Nelson-Maney, N.,... Yoshida, H. (2021). The neutrotime transcriptional signature defines a single continuum of neutrophils across biological compartments. Nature Communications, 12(1). https://doi.org/10.1038/s41467-021-22973-9

MLA:

Grieshaber-Bouyer, Ricardo, et al. "The neutrotime transcriptional signature defines a single continuum of neutrophils across biological compartments." Nature Communications 12.1 (2021).

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