Literature DB >> 31209336

A cellular census of human lungs identifies novel cell states in health and in asthma.

Felipe A Vieira Braga1,2, Gozde Kar1,2, Marijn Berg3,4, Orestes A Carpaij4,5, Krzysztof Polanski1, Lukas M Simon6, Sharon Brouwer3,4, Tomás Gomes1, Laura Hesse3,4, Jian Jiang3,4, Eirini S Fasouli1,2, Mirjana Efremova1, Roser Vento-Tormo1, Carlos Talavera-López1, Marnix R Jonker3,4, Karen Affleck7, Subarna Palit6,8,9,10, Paulina M Strzelecka1,11,12, Helen V Firth1, Krishnaa T Mahbubani13, Ana Cvejic1,11,12, Kerstin B Meyer1, Kourosh Saeb-Parsy13, Marjan Luinge3,4, Corry-Anke Brandsma3,4, Wim Timens3,4, Ilias Angelidis14, Maximilian Strunz14, Gerard H Koppelman4,15, Antoon J van Oosterhout7, Herbert B Schiller14, Fabian J Theis6,16, Maarten van den Berge4,5, Martijn C Nawijn17,18, Sarah A Teichmann19,20,21.   

Abstract

Human lungs enable efficient gas exchange and form an interface with the environment, which depends on mucosal immunity for protection against infectious agents. Tightly controlled interactions between structural and immune cells are required to maintain lung homeostasis. Here, we use single-cell transcriptomics to chart the cellular landscape of upper and lower airways and lung parenchyma in healthy lungs, and lower airways in asthmatic lungs. We report location-dependent airway epithelial cell states and a novel subset of tissue-resident memory T cells. In the lower airways of patients with asthma, mucous cell hyperplasia is shown to stem from a novel mucous ciliated cell state, as well as goblet cell hyperplasia. We report the presence of pathogenic effector type 2 helper T cells (TH2) in asthmatic lungs and find evidence for type 2 cytokines in maintaining the altered epithelial cell states. Unbiased analysis of cell-cell interactions identifies a shift from airway structural cell communication in healthy lungs to a TH2-dominated interactome in asthmatic lungs.

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Year:  2019        PMID: 31209336     DOI: 10.1038/s41591-019-0468-5

Source DB:  PubMed          Journal:  Nat Med        ISSN: 1078-8956            Impact factor:   53.440


  46 in total

1.  Synaptotagmin-mediated vesicle fusion regulates cell migration.

Authors:  Richard A Colvin; Terry K Means; Thomas J Diefenbach; Luis F Moita; Robert P Friday; Sanja Sever; Gabriele S V Campanella; Tabitha Abrazinski; Lindsay A Manice; Catarina Moita; Norma W Andrews; Dianqing Wu; Nir Hacohen; Andrew D Luster
Journal:  Nat Immunol       Date:  2010-05-16       Impact factor: 25.606

2.  Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.

Authors:  Evan Z Macosko; Anindita Basu; Rahul Satija; James Nemesh; Karthik Shekhar; Melissa Goldman; Itay Tirosh; Allison R Bialas; Nolan Kamitaki; Emily M Martersteck; John J Trombetta; David A Weitz; Joshua R Sanes; Alex K Shalek; Aviv Regev; Steven A McCarroll
Journal:  Cell       Date:  2015-05-21       Impact factor: 41.582

Review 3.  Plasticity in the lung: making and breaking cell identity.

Authors:  Purushothama Rao Tata; Jayaraj Rajagopal
Journal:  Development       Date:  2017-03-01       Impact factor: 6.868

Review 4.  Chemokines and their receptors in the pathogenesis of allergic asthma: progress and perspective.

Authors:  Leslie R Bisset; Peter Schmid-Grendelmeier
Journal:  Curr Opin Pulm Med       Date:  2005-01       Impact factor: 3.155

5.  Alpha-1 Antitrypsin-Deficient Macrophages Have Increased Matriptase-Mediated Proteolytic Activity.

Authors:  Karina Krotova; George W Marek; Rejean L Wang; George Aslanidi; Brad E Hoffman; Nazli Khodayari; Farshid N Rouhani; Mark L Brantly
Journal:  Am J Respir Cell Mol Biol       Date:  2017-08       Impact factor: 6.914

6.  Protein S is protective in pulmonary fibrosis.

Authors:  M Urawa; T Kobayashi; C N D'Alessandro-Gabazza; H Fujimoto; M Toda; Z Roeen; J A Hinneh; T Yasuma; Y Takei; O Taguchi; E C Gabazza
Journal:  J Thromb Haemost       Date:  2016-06-22       Impact factor: 5.824

7.  S100A12 is expressed exclusively by granulocytes and acts independently from MRP8 and MRP14.

Authors:  T Vogl; C Pröpper; M Hartmann; A Strey; K Strupat; C van den Bos; C Sorg; J Roth
Journal:  J Biol Chem       Date:  1999-09-03       Impact factor: 5.157

8.  FXYD1 negatively regulates Na(+)/K(+)-ATPase activity in lung alveolar epithelial cells.

Authors:  Łukasz A Wujak; Anna Blume; Emel Baloğlu; Małgorzata Wygrecka; Jegor Wygowski; Susanne Herold; Konstantin Mayer; István Vadász; Petra Besuch; Heimo Mairbäurl; Werner Seeger; Rory E Morty
Journal:  Respir Physiol Neurobiol       Date:  2015-09-26       Impact factor: 1.931

9.  A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte.

Authors:  Lindsey W Plasschaert; Rapolas Žilionis; Rayman Choo-Wing; Virginia Savova; Judith Knehr; Guglielmo Roma; Allon M Klein; Aron B Jaffe
Journal:  Nature       Date:  2018-08-01       Impact factor: 49.962

10.  A revised airway epithelial hierarchy includes CFTR-expressing ionocytes.

Authors:  Daniel T Montoro; Adam L Haber; Moshe Biton; Vladimir Vinarsky; Brian Lin; Susan E Birket; Feng Yuan; Sijia Chen; Hui Min Leung; Jorge Villoria; Noga Rogel; Grace Burgin; Alexander M Tsankov; Avinash Waghray; Michal Slyper; Julia Waldman; Lan Nguyen; Danielle Dionne; Orit Rozenblatt-Rosen; Purushothama Rao Tata; Hongmei Mou; Manjunatha Shivaraju; Hermann Bihler; Martin Mense; Guillermo J Tearney; Steven M Rowe; John F Engelhardt; Aviv Regev; Jayaraj Rajagopal
Journal:  Nature       Date:  2018-08-01       Impact factor: 49.962

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  214 in total

1.  Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19.

Authors:  Saskia Trump; Soeren Lukassen; Markus S Anker; Robert Lorenz Chua; Johannes Liebig; Loreen Thürmann; Victor Max Corman; Marco Binder; Jennifer Loske; Christina Klasa; Teresa Krieger; Bianca P Hennig; Marey Messingschlager; Fabian Pott; Julia Kazmierski; Sven Twardziok; Jan Philipp Albrecht; Jürgen Eils; Sara Hadzibegovic; Alessia Lena; Bettina Heidecker; Thore Bürgel; Jakob Steinfeldt; Christine Goffinet; Florian Kurth; Martin Witzenrath; Maria Theresa Völker; Sarah Dorothea Müller; Uwe Gerd Liebert; Naveed Ishaque; Lars Kaderali; Leif-Erik Sander; Christian Drosten; Sven Laudi; Roland Eils; Christian Conrad; Ulf Landmesser; Irina Lehmann
Journal:  Nat Biotechnol       Date:  2020-12-24       Impact factor: 54.908

2.  Viral Vectors, Animal Models, and Cellular Targets for Gene Therapy of Cystic Fibrosis Lung Disease.

Authors:  Yinghua Tang; Ziying Yan; John F Engelhardt
Journal:  Hum Gene Ther       Date:  2020-04-15       Impact factor: 5.695

3.  Single-cell transcriptional changes associated with drug tolerance and response to combination therapies in cancer.

Authors:  Alexandre F Aissa; Abul B M M K Islam; Majd M Ariss; Cammille C Go; Alexandra E Rader; Ryan D Conrardy; Alexa M Gajda; Carlota Rubio-Perez; Klara Valyi-Nagy; Mary Pasquinelli; Lawrence E Feldman; Stefan J Green; Nuria Lopez-Bigas; Maxim V Frolov; Elizaveta V Benevolenskaya
Journal:  Nat Commun       Date:  2021-03-12       Impact factor: 14.919

Review 4.  Prioritization of cell types responsive to biological perturbations in single-cell data with Augur.

Authors:  Jordan W Squair; Michael A Skinnider; Matthieu Gautier; Leonard J Foster; Grégoire Courtine
Journal:  Nat Protoc       Date:  2021-06-25       Impact factor: 13.491

Review 5.  Cell-by-Cell Deconstruction of Stem Cell Niches.

Authors:  Anastasia N Tikhonova; Audrey Lasry; Rebecca Austin; Iannis Aifantis
Journal:  Cell Stem Cell       Date:  2020-07-02       Impact factor: 24.633

6.  Chloride channels regulate differentiation and barrier functions of the mammalian airway.

Authors:  Mu He; Bing Wu; Wenlei Ye; Daniel D Le; Adriane W Sinclair; Valeria Padovano; Yuzhang Chen; Ke-Xin Li; Rene Sit; Michelle Tan; Michael J Caplan; Norma Neff; Yuh Nung Jan; Spyros Darmanis; Lily Yeh Jan
Journal:  Elife       Date:  2020-04-14       Impact factor: 8.140

7.  CSEA-DB: an omnibus for human complex trait and cell type associations.

Authors:  Yulin Dai; Ruifeng Hu; Astrid Marilyn Manuel; Andi Liu; Peilin Jia; Zhongming Zhao
Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

8.  Shotgun Transcriptome and Isothermal Profiling of SARS-CoV-2 Infection Reveals Unique Host Responses, Viral Diversification, and Drug Interactions.

Authors:  Daniel J Butler; Christopher Mozsary; Cem Meydan; David Danko; Jonathan Foox; Joel Rosiene; Alon Shaiber; Ebrahim Afshinnekoo; Matthew MacKay; Fritz J Sedlazeck; Nikolay A Ivanov; Maria Sierra; Diana Pohle; Michael Zietz; Undina Gisladottir; Vijendra Ramlall; Craig D Westover; Krista Ryon; Benjamin Young; Chandrima Bhattacharya; Phyllis Ruggiero; Bradley W Langhorst; Nathan Tanner; Justyna Gawrys; Dmitry Meleshko; Dong Xu; Peter A D Steel; Amos J Shemesh; Jenny Xiang; Jean Thierry-Mieg; Danielle Thierry-Mieg; Robert E Schwartz; Angelika Iftner; Daniela Bezdan; John Sipley; Lin Cong; Arryn Craney; Priya Velu; Ari M Melnick; Iman Hajirasouliha; Stacy M Horner; Thomas Iftner; Mirella Salvatore; Massimo Loda; Lars F Westblade; Melissa Cushing; Shawn Levy; Shixiu Wu; Nicholas Tatonetti; Marcin Imielinski; Hanna Rennert; Christopher E Mason
Journal:  bioRxiv       Date:  2020-05-01

Review 9.  Using single-cell technologies to map the human immune system - implications for nephrology.

Authors:  Benjamin J Stewart; John R Ferdinand; Menna R Clatworthy
Journal:  Nat Rev Nephrol       Date:  2019-12-12       Impact factor: 28.314

Review 10.  Origin and ontogeny of lung macrophages: from mice to humans.

Authors:  Elza Evren; Emma Ringqvist; Tim Willinger
Journal:  Immunology       Date:  2019-12-04       Impact factor: 7.397

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