Review
Cell Biology
Priscilla W. Tang, Leonard Frisbie, Nadine Hempel, Lan Coffman
Summary: This review examines the metabolic characteristics of cellular components in the tumor microenvironment of ovarian cancer, with a focus on the metabolic interactions between stromal cells and tumor cells, as well as the impact of stromal and tumor cell metabolites on intratumoral immune cell metabolism and function. The findings highlight the significant influence of TME metabolism on cancer progression, emphasizing the need for further research and therapeutic development.
AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY
(2023)
Review
Immunology
Laure Guenin-Mace, Piotr Konieczny, Shruti Naik
Summary: The epithelial tissues in our body have remarkable regenerative abilities and repair mechanisms that rely on a dynamic cross talk with immunity. Understanding the immune signals that contribute to epithelial regeneration and repair is crucial for therapeutic innovation in regenerative medicine and epithelial inflammatory diseases.
ANNUAL REVIEW OF IMMUNOLOGY
(2023)
Article
Engineering, Biomedical
Jianan Huang, Tuoying Jiang, Jinying Li, Jiqiao Qie, Xiaoyu Cheng, Yiyao Wang, Tinglian Zhou, Jia Liu, Haijie Han, Ke Yao, Luyang Yu
Summary: In this study, a biomimetic corneal stroma with immunomodulatory properties was bioengineered for scarless corneal defect repair. The researchers established a fully defined serum-free system to derive stromal keratocytes and fabricated a gelatin-based hydrogel as a scaffold. The biomimetic corneal stroma effectively restored corneal structure, promoted transparency, and inhibited inflammation to reduce scar formation and promote wound healing.
ADVANCED HEALTHCARE MATERIALS
(2023)
Review
Cell Biology
Qianyao Tang, Bo Cheng, Rongyang Dai, Ronghao Wang
Summary: Prostate cancer (PCa) is the second most lethal cancer for men in western countries, with androgen receptor (AR) playing a central role in its initiation and progression. The interactions between stromal cells and PCa epithelial cells, mediated by AR signaling, impact the growth and invasiveness of PCa cells. Androgen deprivation therapy (ADT) treatment can enhance the reciprocal interaction between stromal and epithelial cells, promoting cell invasion of PCa cells.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Bekesho Geleta, Kyung Chan Park, Patric J. Jansson, Sumit Sahni, Sanaz Maleki, Zhihong Xu, Takashi Murakami, Marina Pajic, Minoti Apte, Des R. Richardson, Zaklina Kovacevic
Summary: The study reveals that NDRG1 plays an inhibitory role in the interaction between PaCa and PSCs, reducing signaling pathways like HGF and IGF-1 and inhibiting metastasis and cell migration in pancreatic cancer. DpC, a novel anticancer agent, upregulates NDRG1 expression to decrease PaCa cells' sensitivity to ligands secreted by PSCs.
Article
Immunology
Kang I. I. Ko, Brett P. P. DerGarabedian, Zhaoxu Chen, Rahul Debnath, Annette Ko, Brittany N. N. Link, Jonathan M. M. Korostoff, Dana T. T. Graves
Summary: Oral mucosa heals fast with minimal scarring, but the cellular mechanisms are unclear. This study identifies Prx1(+) cells as a critical fibroblast subpopulation that accelerates mucosal healing by facilitating early immune response.
JOURNAL OF EXPERIMENTAL MEDICINE
(2022)
Article
Physiology
Debbie Clements, Suzanne Miller, Roya Babaei-Jadidi, Mike Adam, S. Steven Potter, Simon R. Johnson
Summary: This study found that AT2 cells in LAM exhibit a proliferative and activated phenotype, and the accumulation of LAFs plays a role in altering the behavior of AT2 cells. Fibroblast-derived FGF7 may contribute to the cross talk between LAFs and epithelial tissue.
AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY
(2022)
Article
Gastroenterology & Hepatology
Remi Samain, Alexia Brunel, Thibault Douche, Marjorie Fanjul, Stephanie Cassant-Sourdy, Julia Rochotte, Jerome Cros, Cindy Neuzillet, Jerome Raffenne, Camille Duluc, Aurelie Perraud, Jeremy Nigri, Veronique Gigoux, Ivan Bieche, Matteo Ponzo, Gilles Carpentier, Ilaria Cascone, Richard Tomasini, Herbert A. Schmid, Muriel Mathonnet, Remy Nicolle, Marie-Pierre Bousquet, Yvan Martineau, Stephane Pyronnet, Christine Jean, Corinne Bousquet
Summary: The study suggests that SOM230 has the potential to be an effective anti-metastatic therapy in PDA by regulating stromal activities, reducing inflammatory responses, and improving the immunosuppressive tumor microenvironment. This pharmacotherapy shows promise in reshaping the tumor environment and enhancing treatment outcomes for pancreatic cancer patients.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2021)
Article
Engineering, Biomedical
Huifeng Wang, Chongwen Duan, Rebecca L. Keate, Guillermo A. Ameer
Summary: Impaired wound healing is a common complication for diabetic patients. A novel compound called panthenol citrate (PC) has been developed to address this issue. PC has various properties that promote wound healing and has shown positive effects in diabetic rodent models, improving re-epithelialization, tissue formation, and reducing inflammation and oxidative stress.
ADVANCED HEALTHCARE MATERIALS
(2023)
Article
Ophthalmology
Madeline E. Bhend, Duraisamy Kempuraj, Nishant R. Sinha, Suneel Gupta, Rajiv R. Mohan
Summary: Aquaporins (AQPs) are transmembrane water channel proteins that regulate corneal hydration and transparency. They play a crucial role in keratocyte function, inflammation, edema, angiogenesis, and the wound healing process in the cornea. Deficiency of AQPs can lead to abnormal wound healing and impaired osmolar homeostasis. This review discusses the role of AQPs in corneal homeostasis, wound repair, and their potential as therapeutic targets for corneal injuries.
EXPERIMENTAL EYE RESEARCH
(2023)
Article
Cell Biology
Alison J. May, Aaron J. Mattingly, Eliza A. Gaylord, Nathan Griffin, Sonia Sudiwala, Noel Cruz-Pacheco, Elaine Emmerson, Seayar Mohabbat, Sara Nathan, Hanan Sinada, Isabelle M. A. Lombaert, Sarah M. Knox
Summary: Neuronal-epithelial cross-talk drives acinar specification through NRG1-ERBB3-mTORC2 signaling. NRG1-ERBB3 regulates the cellular programs of lineage progression, secretion, and polarization through the mTORC2 signaling pathway. This mechanism plays a crucial role in the formation of functional acini.
DEVELOPMENTAL CELL
(2022)
Article
Microbiology
Matthew J. Sullivan, Kelvin G. K. Goh, Glen C. Ulett
Summary: This study reveals a new and important mechanism of cross-system complexity driven by CopY in GBS to regulate cellular management of metal stress and survival.
Article
Multidisciplinary Sciences
M. Suzuki, T. Sujino, S. Chiba, Y. Harada, M. Goto, R. Takahashi, M. Mita, K. Hamase, T. Kanai, M. Ito, M. K. Waldor, M. Yasui, J. Sasabe
Summary: The chiral conversion of amino acids between bacteria and mammals modulates the fate of intestinal B cells and the production of immunoglobulin A (IgA). Bacterial D-aa stimulate M1 macrophages and promote the survival of intestinal naive B cells, while mammalian D-aa catabolism limits the number of B cells. Loss of D-aa catabolism results in excessive IgA production and dysbiosis.
Article
Pharmacology & Pharmacy
Micaela A. Reeves, Joshua M. Royal, David A. Morris, Jessica M. Jurkiewicz, Nobuyuki Matoba, Krystal T. Hamorsky
Summary: EPT, a recombinant variant of cholera toxin B subunit, shows promise for ulcerative colitis treatment. A solid oral formulation of EPT has been developed to prevent degradation in gastric acid, demonstrating therapeutic efficacy in mouse colitis models without the need for gastric acid neutralization pretreatment.
Article
Medicine, Research & Experimental
Walaa H. El-Maadawy, Ehab Hafiz, Hend Okasha, Noha A. Osman, Gamila H. Ali, Rehab Ali Hussein
Summary: This study investigated the therapeutic effectiveness of Phycocyanin (PC) against ulcerative colitis (UC) and found that PC acts as a CB2 receptor agonist, exerting anti-inflammatory effects and improving colon pathology as well as intestinal dysbiosis associated with UC.
Article
Biotechnology & Applied Microbiology
Lars E. Borm, Alejandro Mossi Albiach, Camiel C. A. Mannens, Jokubas Janusauskas, Ceren Ozgun, David Fernandez-Garcia, Rebecca Hodge, Francisca Castillo, Charlotte R. H. Hedin, Eduardo J. Villablanca, Per Uhlen, Ed S. Lein, Simone Codeluppi, Sten Linnarsson
Summary: EEL FISH is a method that allows for rapid processing of large tissue samples while maintaining high resolution. By electrophoretically transferring RNA, EEL speeds up data acquisition and preserves single-cell resolution, enabling the study of spatial transcriptomes in the mouse brain and the human visual cortex.
NATURE BIOTECHNOLOGY
(2023)
Article
Immunology
Felix Bayerl, David A. Bejarano, Giulia Bertacchi, Anne-Claire Doffin, Elisa Gobbini, Margaux Hubert, Lijian Li, Philippa Meiser, Anna-Marie Pedde, Wilfried Posch, Luise Rupp, Andreas Schlitzer, Marc Schmitz, Barbara U. Schraml, Stefan Uderhardt, Jenny Valladeau-Guilemond, Doris Wilflingseder, Viktoria Zaderer, Jan P. Boettcher
Summary: This article is part of a series providing advanced protocols for the study of dendritic cells (DC). It includes procedures for analyzing DC phenotypes, generating DC from various tissues, and studying DC functions using fluorescence microscopy. The protocols cover various methods such as intravital microscopy, multiparameter fluorescence microscopy, and 3D cell culture models. The article has been peer-reviewed by experts and is considered an essential resource for basic and clinical DC immunologists.
EUROPEAN JOURNAL OF IMMUNOLOGY
(2023)
Correction
Immunology
Natalie Katzmarski, Jorge Dominguez-Andres, Branko Cirovic, Georgios Renieris, Eleonora Ciarlo, Didier Le Roy, Konstantin Lepikhov, Kathrin Kattler, Gilles Gasparoni, Kristian Haendler, Heidi Theis, Marc Beyer, Jos W. M. van der Meer, Leo A. B. Joosten, Joern Walter, Joachim L. Schultze, Thierry Roger, Evangelos J. Giamarellos-Bourboulis, Andreas Schlitzer, Mihai G. Netea
Editorial Material
Biochemistry & Molecular Biology
Maria Polychronidou, Jingyi Hou, M. Madan Babu, Prisca Liberali, Ido Amit, Bart Deplancke, Galit Lahav, Shalev Itzkovitz, Matthias Mann, Julio Saez-Rodriguez, Fabian Theis, Roland Eils
Summary: In this Editorial, our Chief Editor and members of our Advisory Editorial Board discuss the recent breakthroughs, current challenges, and emerging opportunities in single-cell biology, and share their vision for the future of the field.
MOLECULAR SYSTEMS BIOLOGY
(2023)
Letter
Biotechnology & Applied Microbiology
Sebastian Lobentanzer, Patrick Aloy, Jan Baumbach, Balazs Bohar, Vincent J. Carey, Pornpimol Charoentong, Katharina Danhauser, Tunca Dogan, Johann Dreo, Ian Dunham, Elias Farr, Adria Fernandez-Torras, Benjamin M. Gyori, Michael Hartung, Charles Tapley Hoyt, Christoph Klein, Tamas Korcsmaros, Andreas Maier, Matthias Mann, David Ochoa, Elena Pareja-Lorente, Ferdinand Popp, Martin Preusse, Niklas Probul, Benno Schwikowski, Buenyamin Sen, Maximilian T. Strauss, Denes Turei, Erva Ulusoy, Dagmar Waltemath, Judith A. H. Wodke, Julio Saez-Rodriguez
NATURE BIOTECHNOLOGY
(2023)
Review
Genetics & Heredity
Lukas Heumos, Anna C. Schaar, Christopher Lance, Anastasia Litinetskaya, Felix Drost, Luke Zappia, Malte Luecken, Daniel Strobl, Juan Henao, Fabiola B. Curion, Herbert Schiller, Fabian Theis
Summary: Recent advances in single-cell technologies have allowed for high-throughput molecular profiling of cells across different modalities and locations. This article presents a summary of benchmarking studies and provides comprehensive best-practice workflows for single-cell (multi-)omic analysis. The article serves as a guide for both novice and advanced users in the field.
NATURE REVIEWS GENETICS
(2023)
Article
Medicine, Research & Experimental
Chiara Sorini, Kumar P. Tripathi, Shengru Wu, Shawn M. Higdon, Jing Wang, Liqin Cheng, Sanghita Banerjee, Annika Reinhardt, Taras Kreslavsky, Anders Thorell, Lars Engstrand, Juan Du, Eduardo J. Villablanca
Summary: Helicobacter pylori colonization in asymptomatic individuals leads to significant changes in the composition of the gastric microbiome and immune cells. Metabolic and immune response pathways are altered. B cells are activated and progress into a highly proliferating stage, correlating with the presence of tertiary lymphoid structures. Our study provides a comprehensive atlas of the gastric mucosa-associated microbiome and immune cell landscape in asymptomatic H. pylori-infected individuals.
Article
Medicine, General & Internal
Jan D. Lanzer, Alberto Valdeolivas, Mark Pepin, Hauke Hund, Johannes Backs, Norbert Frey, Hans-Christoph Friederich, Jobst-Hendrik Schultz, Julio Saez-Rodriguez, Rebecca T. Levinson
Summary: Using systems medicine approaches, we analyzed comorbidity profiles of heart failure patients and identified distinct profiles for HFpEF and HFrEF. This can improve diagnosis and treatment for HFpEF patients.
Article
Urology & Nephrology
Masaomi Nangaku, A. Richard Kitching, Peter Boor, Alessia Fornoni, Jurgen Floege, P. Toby Coates, Jonathan Himmelfarb, Rachel Lennon, Hans-Joachim Anders, Benjamin D. Humphreys, Fergus J. Caskey, Agnes B. Fogo
Summary: The International Society of Nephrology organized the TRANSFORM meeting to provide guidance on translational animal studies for new drug development in kidney disease. The meeting covered various themes such as disease model selection, pharmacokinetics, interventions, choice of animal, statistical power, organoids and organ-on-a-chip models, and reporting of results. These recommendations aim to accelerate the development of new drugs for efficacious diseases.
KIDNEY INTERNATIONAL
(2023)
Review
Biochemistry & Molecular Biology
Theodore Alexandrov, Julio Saez-Rodriguez, Sinem K. Saka
Summary: Spatial omics is a rapidly growing field that integrates imaging and omics to obtain spatially resolved information. It has opened up new opportunities and challenges for method developers and provides a new window into spatial biology.
MOLECULAR SYSTEMS BIOLOGY
(2023)
Review
Genetics & Heredity
Pau Badia-i-Mompel, Lorna Wessels, Sophia Mueller-Dott, Remi Trimbour, Ricardo Ramirez O. Flores, Ricard Argelaguet, Julio Saez-Rodriguez
Summary: Gene regulatory networks (GRNs) are complex regulatory circuits involving chromatin, transcription factors, and genes. Studying GRNs helps understand the establishment, maintenance, and disruption of cellular identity in disease. GRNs can be inferred from experimental or literature data, and the latest computational methods utilize single-cell multi-omics data to achieve unprecedented resolution in GRN inference.
NATURE REVIEWS GENETICS
(2023)
Article
Biochemistry & Molecular Biology
Sophia Mueller-Dott, Eirini Tsirvouli, Miguel Vazquez, Ricardo O. Ramirez Flores, Pau Badia-i-Mompel, Robin Fallegger, Denes Tuerei, Astrid Laegreid, Julio Saez-Rodriguez
Summary: Gene regulation plays a crucial role in cellular processes related to human health and disease. This study presents and evaluates a collection of reliable and comprehensive TF regulons created using the CollecTRI meta-resource. These regulons accurately estimate TF activities and help interpret transcriptomics data.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Immunology
Patricia Sole, Jun Yamanouchi, Josep Garnica, Muhammad Myn Uddin, Robert Clarke, Joel Moro, Nahir Garabatos, Shari Thiessen, Mireia Ortega, Santiswarup Singha, Debajyoti Mondal, Cesar Fandos, Julio Saez-Rodriguez, Yang Yang, Pau Serra, Pere Santamaria
Summary: Chronic antigenic stimulation can induce the differentiation of CD4(+) T cells into T regulatory type 1 (TR1) cells, which produce interleukin-10 and do not express FOXP3. The progenitors and transcriptional regulators of this T-cell subset are still unknown.
CELLULAR & MOLECULAR IMMUNOLOGY
(2023)
Review
Immunology
Elvira Mass, Falk Nimmerjahn, Katrin Kierdorf, Andreas Schlitzer
Summary: Macrophages play important roles in host immunity, waste clearance, metabolism regulation, and neuronal functions. They form a 3D network in tissues and phagocytose dying cells, immune complexes, bacteria, and waste products, while also producing growth factors and signaling molecules. Macrophages are involved in physiological processes such as blood vessel formation, adipogenesis, metabolism, and neuronal function. Different tissue-specific macrophage populations have distinct developmental trajectories, transcriptional programs, and life cycles.
NATURE REVIEWS IMMUNOLOGY
(2023)