TY  - JOUR
AU  - Baccin, Chiara
AU  - Al-Sabah, Jude
AU  - Velten, Lars
AU  - Helbling, Patrick M
AU  - Grünschläger, Florian
AU  - Hernández-Malmierca, Pablo
AU  - Nombela-Arrieta, César
AU  - Steinmetz, Lars M
AU  - Trumpp, Andreas
AU  - Haas, Simon
TI  - Combined single-cell and spatial transcriptomics reveal the molecular, cellular and spatial bone marrow niche organization.
JO  - Nature cell biology
VL  - 22
IS  - 1
SN  - 1476-4679
CY  - New York, NY
PB  - Nature America
M1  - DKFZ-2020-00020
SP  - 38-48
PY  - 2020
N1  - DKFZ-ZMBH Alliance2020 Jan;22(1):38-48#LA:A010#
AB  - The bone marrow constitutes the primary site for life-long blood production and skeletal regeneration. However, its cellular and spatial organization remains controversial. Here, we combine single-cell and spatially resolved transcriptomics to systematically map the molecular, cellular and spatial composition of distinct bone marrow niches. This allowed us to transcriptionally profile all major bone-marrow-resident cell types, determine their localization and clarify sources of pro-haematopoietic factors. Our data demonstrate that Cxcl12-abundant-reticular (CAR) cell subsets (Adipo-CAR and Osteo-CAR) differentially localize to sinusoidal and arteriolar surfaces, act locally as 'professional cytokine-secreting cells' and thereby establish peri-vascular micro-niches. Importantly, the three-dimensional bone-marrow organization can be accurately inferred from single-cell transcriptome data using the RNA-Magnet algorithm described here. Together, our study reveals the cellular and spatial organization of bone marrow niches and offers a systematic approach to dissect the complex organization of whole organs.
LB  - PUB:(DE-HGF)16
C6  - pmid:31871321
DO  - DOI:10.1038/s41556-019-0439-6
UR  - https://inrepo02.dkfz.de/record/148828
ER  -