Article
Biology
Kelvin W. Pond, Julia M. Morris, Olga Alkhimenok, Reeba P. Varghese, Carly R. Cabel, Nathan A. Ellis, Jayati Chakrabarti, Yana Zavros, Juanita L. Merchant, Curtis A. Thorne, Andrew L. Paek
Summary: The establishment and maintenance of different cellular compartments in tissues is crucial for all metazoans, especially in the human colon. This study reveals the critical role of wave-like ERK signaling induced by apoptotic cells in maintaining tissue patterning and homeostasis.
Article
Biotechnology & Applied Microbiology
Shou-Wen Wang, Michael J. Herriges, Kilian Hurley, Darrell N. Kotton, Allon M. Klein
Summary: The goal of single-cell genome-wide profiling is to reconstruct dynamic transitions during cell differentiation, disease onset, and drug response. In this study, a robust computational approach called CoSpar was developed to infer cell dynamics from single-cell transcriptomics integrated with lineage tracing. CoSpar identified previously undiscovered early fate biases and predicted key factors involved in fate choice.
NATURE BIOTECHNOLOGY
(2022)
Article
Cell & Tissue Engineering
Yuan Liu, Meimei Huang, Xiaodan Wang, Zinan Liu, Siqi Li, Ye-Guang Chen
Summary: This study reveals the critical role of methyltransferase-like 3 (Mettl3) in maintaining intestinal stem cell (ISC) stemness through N6-methyladenosine (m6A) methylation, independent of cell proliferation. The researchers identified four m6A-modified transcription factors that can restore stemness gene expression in Mettl3-deficient organoids, and also discerned 23 genes unrelated to cell proliferation. These findings demonstrate the importance of m6A modification in sustaining ISC stemness and its uncoupling from cell proliferation.
Article
Cell & Tissue Engineering
Neena Lala-Tabbert, Hamood AlSudais, Francois Marchildon, Dechen Fu, Nadine Wiper-Bergeron
Summary: The study shows that the transcription factor C/EBP beta is necessary to maintain quiescence of satellite cells in uninjured muscle. Loss of C/EBP beta in satellite cells promotes premature exit from quiescence, while forced expression of C/EBP beta inhibits proliferation by upregulating quiescence-associated genes. Additionally, caveolin-1 is identified as a direct transcriptional target of C/EBP beta required for cell cycle exit in muscle satellite cells expressing C/EBP beta.
Article
Multidisciplinary Sciences
Daniel Kowatschew, Shahrzad Bozorg Nia, Shahzaib Hassan, Jana Ustinova, Franco Weth, Sigrun Korsching
Summary: The study found that zebrafish olfactory organ has a cup-shaped structure and a small, highly conserved receptor family. By analyzing the expression patterns of the entire family, it was discovered that different genes have different distribution patterns in different dimensions.
SCIENTIFIC REPORTS
(2022)
Review
Microbiology
Caroline D. Keroack, Manoj T. Duraisingh
Summary: Quiescence is a reversible nonproliferative cellular state that has significant clinical impact in parasitic infections. It is governed by multiple mechanisms, including signaling, transcriptional and translational changes, epigenetic mechanisms, metabolic switches, and changes in cellular architecture. Conserved mechanisms of quiescence have been identified in apicomplexan parasites, and understanding these mechanisms can help in preventing transmission and curing infections.
CURRENT OPINION IN MICROBIOLOGY
(2022)
Review
Cell Biology
Bai Ling, Yunyang Xu, Siyuan Qian, Ze Xiang, Shihai Xuan, Jian Wu
Summary: Hematopoietic stem cells (HSCs) play a crucial role in the hematopoietic system as they can self-renew and differentiate into various blood cells. The mTOR signaling pathway is an important regulator of HSCs' differentiation, self-renewal, and quiescence, and several molecules can modulate these potentials by influencing this pathway. This review discusses the regulation of HSCs' three potentials by the mTOR signaling pathway and highlights potential regulators. Additionally, the clinical significance of studying this regulation and future predictions are also outlined.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Immunology
Baochao Fan, Jinzhu Zhou, Yongxiang Zhao, Xuejiao Zhu, Mingjun Zhu, Qi Peng, Jizong Li, Xinjian Chang, Danyi Shi, Jie Yin, Rongli Guo, Yunchuan Li, Kongwang He, Huiying Fan, Bin Li
Summary: This study used single-cell RNA sequencing to investigate the response of different cell types in the jejunum of piglets after infection with porcine epidemic diarrhea virus (PEDV). The study found that goblet cells and tuft cells are susceptible to PEDV, and enterocyte cells express almost all coronavirus entry factors. Additionally, the antimicrobial peptide REG3G was upregulated through the IL33-STAT3 signaling pathway, inhibiting PEDV replication.
JOURNAL OF IMMUNOLOGY
(2023)
Article
Gastroenterology & Hepatology
Cora Olpe, Doran Khamis, Maria Chukanova, Nefeli Skoufou-Papoutsaki, Richard Kemp, Kate Marks, Cerys Tatton, Cecilia Lindskog, Anna Nicholson, Roxanne Brunton-Sim, Shalini Malhotra, Rogier ten Hoopen, Rachael Stanley, Douglas J. Winton, Edward Morrissey
Summary: Advantaged gene mutations in KDM6A expand significantly through crypt fission rather than fusion in the human colon, offering insights into the initiation of colorectal cancer. Mathematical modeling shows that the crypt diffusion process can accommodate additional crypts up to a threshold value, beyond which polyp growth may occur. The fission rate associated with KRAS mutations provides a potential explanation for KRAS-initiated polyps.
Review
Immunology
Yaroslav Kaminskiy, Varvara Kuznetsova, Anna Kudriaeva, Ekaterina Zmievskaya, Emil Bulatov
Summary: This review focuses on the role of FOXP1 in T-cells and reveals its crucial involvement in maintaining T-cell quiescence, CD4+ subset differentiation, as well as memory potential and exhaustion of T-cells.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Oncology
Ansam Sinjab, Guangchun Han, Warapen Treekitkarnmongkol, Kieko Hara, Patrick M. Brennan, Minghao Dang, Dapeng Hao, Ruiping Wang, Enyu Dai, Hitoshi Dejima, Jiexin Zhang, Elena Bogatenkova, Beatriz Sanchez-Espiridion, Kyle Chang, Danielle R. Little, Samer Bazzi, Linh M. Tran, Kostyantyn Krysan, Carmen Behrens, Dzifa Y. Duose, Edwin R. Parra, Maria Gabriela Raso, Luisa M. Solis, Junya Fukuoka, Jianjun Zhang, Boris Sepesi, Tina Cascone, Lauren Averett Byers, Don L. Gibbons, Jichao Chen, Seyed Javad Moghaddam, Edwin J. Ostrin, Daniel Rosen, John Heymach, Paul Scheet, Steven M. Dubinett, Junya Fujimoto, Ignacio I. Wistuba, Christopher S. Stevenson, Avrum Spira, Linghua Wang, Humam Kadara
Summary: The study reveals the geospatial evolution of cell populations, states, and transcriptomic features in lung adenocarcinoma (LUAD) from normal regions to tumors. LUAD shows significant intratumor cell heterogeneity and transcriptional lineage-plasticity programs. T regulatory cell phenotypes increase near LUAD, while cytotoxic CD8(+) T cells and other cell types decrease in normal tissues.
Article
Cell Biology
Deepika Puri, Ch V. B. Swamy, Jyotsna Dhawan, Rakesh K. Mishra
Summary: The nuclear matrix serves as the structural framework for nuclear architecture, with a core set of proteins playing stable, conserved roles in functions such as RNA splicing and cytoskeletal organization. The remaining proteins show cell-state specificity and potentially regulatory functions, with different enrichments in cell cycle, muscle differentiation, and metabolic processes.
CELL BIOLOGY INTERNATIONAL
(2021)
Article
Multidisciplinary Sciences
N. Gjorevski, M. Nikolaev, T. E. Brown, O. Mitrofanova, N. Brandenberg, F. W. DelRio, F. M. Yavitt, P. Liberali, K. S. Anseth, M. P. Lutolf
Summary: This study describes a method for controlling the formation of epithelial organoids, making the stochastic process more deterministic by spatial and temporal control. By using bioengineering techniques, researchers successfully controlled the formation and patterning of intestinal organoids, and identified the underlying mechanisms of epithelial patterning.
Article
Multidisciplinary Sciences
Natalia Jaeger, Ramya Gamini, Marina Cella, Jorge L. Schettini, Mattia Bugatti, Shanrong Zhao, Charles V. Rosadini, Ekaterina Esaulova, Blanda Di Luccia, Baylee Kinnett, William Vermi, Maxim N. Artyomov, Thomas A. Wynn, Ramnik J. Xavier, Scott A. Jelinsky, Marco Colonna
Summary: Crohn's disease is a chronic transmural inflammation in the gut caused by dysregulated interaction between microbiome and gut immune system. Studies have shown that T cells from intestinal epithelium and lamina propria in CD patients exhibit unique subsets and altered phenotypes during inflammation.
NATURE COMMUNICATIONS
(2021)
Article
Hematology
Arafat Aljoufi, Chi Zhang, James Ropa, Wennan Chang, Lakshmi Reddy Palam, Scott Cooper, Baskar Ramdas, Maegan L. Capitano, Hal E. Broxmeyer, Reuben Kapur
Summary: Hematopoietic stem cells (HSCs) show impaired recovery and self-renewal, as well as increased differentiation, when exposed to ambient air. The mechanism behind this distinction involves upregulation of HSC self-renewal genes, downregulation of genes involved in inflammatory pathways and HSC differentiation, and downregulation of the epigenetic modifier Tet2.
Article
Engineering, Biomedical
Hanseul Park, Hongwon Kim, Junsang Yoo, Jaekwang Lee, Hwan Choi, Soonbong Baek, C. Justin Lee, Janghwan Kim, Christopher J. Lengner, Jung-Suk Sung, Jongpil Kim
Correction
Cell & Tissue Engineering
Jacob Hanna, Styliani Markoulaki, Maisam Mitalipova, Albert W. Cheng, John P. Cassady, Judith Staerk, Bryce W. Carey, Christopher J. Lengner, Ruth Foreman, Jennifer Love, Qing Gao, Jongpil Kim, Rudolf Jaenisch
Article
Cell & Tissue Engineering
Dong-Hun Woo, Qijun Chen, Ting-Lin B. Yang, M. Rebecca Glineburg, Carla Hoge, Nicolae A. Leu, F. Brad Johnson, Christopher J. Lengner
Article
Anatomy & Morphology
Ning Li, Maryam Yousefi, Angela Nakauka-Ddamba, John W. Tobias, Shane T. Jensen, Edward E. Morrisey, Christopher J. Lengner
DEVELOPMENTAL DYNAMICS
(2016)
Article
Biochemistry & Molecular Biology
Yue Zhang, Fengyin Li, Yongli Song, Xiaole Sheng, Fazheng Ren, Kai Xiong, Lei Chen, Hongquan Zhang, Dequan Liu, Christopher J. Lengner, Lixiang Xue, Zhengquan Yu
Article
Cell Biology
Maryam Yousefi, Ning Li, Angela Nakauka-Ddamba, Shan Wang, Kimberly Davidow, Jenna Schoenberger, Zhengquan Yu, Shane T. Jensen, Michael G. Kharas, Christopher J. Lengner
JOURNAL OF CELL BIOLOGY
(2016)
Article
Biochemistry & Molecular Biology
Yuliya V. Katlinskaya, Kanstantsin V. Katlinski, Audrey Lasri, Ning Li, Daniel P. Beiting, Amy C. Durham, Ting Yang, Eli Pikarsky, Christopher J. Lengner, F. Brad Johnson, Yinon Ben-Neriah, Serge Y. Fuchs
MOLECULAR AND CELLULAR BIOLOGY
(2016)
Article
Multidisciplinary Sciences
James Taggart, Tzu-Chieh Ho, Elianna Amin, Haiming Xu, Trevor S. Barlowe, Alexendar R. Perez, Benjamin H. Durham, Patrick Tivnan, Rachel Okabe, Arthur Chow, Ly Vu, Sun Mi Park, Camila Prieto, Christopher Famulare, Minal Patel, Christopher J. Lengner, Amit Verma, Gail Roboz, Monica Guzman, Virginia M. Klimek, Omar Abdel-Wahab, Christina Leslie, Stephen D. Nimer, Michael G. Kharas
NATURE COMMUNICATIONS
(2016)
Article
Cell Biology
Benjamin Cieply, Juw Won Park, Angela Nakauka-Ddamba, Thomas W. Bebee, Yang Guo, Xuequn Shang, Christopher J. Lengner, Yi Xing, Russ P. Carstens
Article
Cell Biology
Nadia Efimova, Changsong Yang, Jonathan X. Chia, Ning Li, Christopher J. Lengner, Kristi L. Neufeld, Tatyana M. Svitkina
JOURNAL OF CELL BIOLOGY
(2020)
Article
Oncology
Priyanka Sehgal, Claudia Lanauze, Xin Wang, Katharina E. Hayer, Manuel Torres-Diz, N. Adrian Leu, Yogev Sela, Ben Z. Stanger, Christopher J. Lengner, Andrei Thomas-Tikhonenko
Summary: Activation of Wnt signaling through mutations in CTNNB1 or APC is important in colon cancer development. However, additional regulatory events, such as mutations in Wnt receptor complex components and the suppression of DKK3 by MYC, also play a significant role in promoting tumor progression, migration, and metastasis in colon cancer cells.
MOLECULAR CANCER RESEARCH
(2021)
Article
Oncology
Ajeya Nandi, Rahul Debnath, Anupma Nayak, Tsun Ki Jerrick To, Gatha Thacker, Megan Reilly, Sanjeev Gumber, Ilias Karagounis, Ning Li, Christopher J. Lengner, Malay Haldar, Alana L. Welm, Andres M. Blanco, Christoforos Thomas, Rumela Chakrabarti
Summary: This study reveals the cross-talk between Dll1(+) cancer cells and cancer-associated fibroblasts (CAF), which promotes metastasis and radioresistance. It opens up new therapeutic avenues for breast cancer patients.
Editorial Material
Cell Biology
Louis R. Parham, Nicolette M. Johnson, Christopher J. Lengner, Kathryn E. Hamilton
Summary: Understanding how macroautophagy/autophagy contributes to tissue homeostasis is crucial for understanding organismal health. The intestinal epithelium, with its well-defined populations of intestinal stem cells, serves as an excellent model for studying tissue homeostasis regulation. Autophagy is identified as a lineage-agnostic marker of facultative intestinal stem cell (f-ISC) capacity in the mammalian intestine, enabling the prospective identification of f-ISCs within multiple lineages.
Article
Medicine, Research & Experimental
Kensuke Sugiura, Yasunori Masuike, Kensuke Suzuki, Alice E. Shin, Nozomu Sakai, Hisahiro Matsubara, Masayuki Otsuka, Peter A. Sims, Christopher J. Lengner, Anil K. Rustgi
Summary: The RNA-binding protein LIN28B is overexpressed in a significant portion of patients with colorectal cancer (CRC) and is associated with poor prognosis. This study uncovered a potentially novel mechanism by which LIN28B regulates colonic epithelial cell-cell junctions and CRC metastasis. LIN28B directly binds to and posttranscriptionally regulates CLDN7 mRNA, leading to enhanced invasion, cell migration, and metastatic liver tumor formation. NOTCH3 was identified as a downstream effector of the LIN28B/CLDN1 axis and necessary for invasion and metastatic liver tumor formation. This discovery provides a promising new therapeutic option for metastatic CRC to the liver.