Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.

The intestine is lined with isolated lymphoid follicles (ILFs) that facilitate sampling of luminal antigens to elicit immune responses. Technical challenges related to the scarcity and small sizes of ILFs and their follicle-associated epithelium (FAE) impeded the characterization of their spatial ge...

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Autores principales:	Noam Cohen, Hassan Massalha, Shani Ben-Moshe, Adi Egozi, Milena Rozenberg, Keren Bahar Halpern, Shalev Itzkovitz
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/b9bbf4c2f6db41be9fc3a64ef0c9b256
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spelling	oai:doaj.org-article:b9bbf4c2f6db41be9fc3a64ef0c9b2562021-11-25T05:34:16ZSpatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.1544-91731545-788510.1371/journal.pbio.3001214https://doaj.org/article/b9bbf4c2f6db41be9fc3a64ef0c9b2562021-10-01T00:00:00Zhttps://doi.org/10.1371/journal.pbio.3001214https://doaj.org/toc/1544-9173https://doaj.org/toc/1545-7885The intestine is lined with isolated lymphoid follicles (ILFs) that facilitate sampling of luminal antigens to elicit immune responses. Technical challenges related to the scarcity and small sizes of ILFs and their follicle-associated epithelium (FAE) impeded the characterization of their spatial gene expression programs. Here, we combined RNA sequencing of laser capture microdissected tissues with single-molecule transcript imaging to obtain a spatial gene expression map of the ILF and its associated FAE in the mouse small intestine. We identified zonated expression programs in both follicles and FAEs, with a decrease in enterocyte antimicrobial and absorption programs and a partial induction of expression programs normally observed at the villus tip. We further identified Lepr+ subepithelial telocytes at the FAE top, which are distinct from villus tip Lgr5+ telocytes. Our analysis exposes the epithelial and mesenchymal cell states associated with ILFs.Noam CohenHassan MassalhaShani Ben-MosheAdi EgoziMilena RozenbergKeren Bahar HalpernShalev ItzkovitzPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Biology, Vol 19, Iss 10, p e3001214 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Noam Cohen Hassan Massalha Shani Ben-Moshe Adi Egozi Milena Rozenberg Keren Bahar Halpern Shalev Itzkovitz Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
description	The intestine is lined with isolated lymphoid follicles (ILFs) that facilitate sampling of luminal antigens to elicit immune responses. Technical challenges related to the scarcity and small sizes of ILFs and their follicle-associated epithelium (FAE) impeded the characterization of their spatial gene expression programs. Here, we combined RNA sequencing of laser capture microdissected tissues with single-molecule transcript imaging to obtain a spatial gene expression map of the ILF and its associated FAE in the mouse small intestine. We identified zonated expression programs in both follicles and FAEs, with a decrease in enterocyte antimicrobial and absorption programs and a partial induction of expression programs normally observed at the villus tip. We further identified Lepr+ subepithelial telocytes at the FAE top, which are distinct from villus tip Lgr5+ telocytes. Our analysis exposes the epithelial and mesenchymal cell states associated with ILFs.
format	article
author	Noam Cohen Hassan Massalha Shani Ben-Moshe Adi Egozi Milena Rozenberg Keren Bahar Halpern Shalev Itzkovitz
author_facet	Noam Cohen Hassan Massalha Shani Ben-Moshe Adi Egozi Milena Rozenberg Keren Bahar Halpern Shalev Itzkovitz
author_sort	Noam Cohen
title	Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
title_short	Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
title_full	Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
title_fullStr	Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
title_full_unstemmed	Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
title_sort	spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/b9bbf4c2f6db41be9fc3a64ef0c9b256
work_keys_str_mv	AT noamcohen spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT hassanmassalha spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT shanibenmoshe spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT adiegozi spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT milenarozenberg spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT kerenbaharhalpern spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms AT shalevitzkovitz spatialgeneexpressionmapsoftheintestinallymphoidfollicleandassociatedepitheliumidentifyzonatedexpressionprograms
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Spatial gene expression maps of the intestinal lymphoid follicle and associated epithelium identify zonated expression programs.

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