Article
Cell Biology
Na Yuan, Wen Wei, Li Ji, Jiawei Qian, Zhicong Jin, Hong Liu, Li Xu, Lei Li, Chen Zhao, Xueqin Gao, Yulong He, Mingyuan Wang, Longhai Tang, Yixuan Fang, Jianrong Wang
Summary: The bone marrow niche, responsible for maintaining hematopoietic stem cell homeostasis, declines in function with aging and hematological malignancies. This study reveals that disrupting autophagy in HSCs accelerates niche aging, while transplantation of young donor HSCs repairs the niche environment. Further investigation shows that HSCs transdifferentiate into functional niche cells, including mesenchymal stromal cells and endothelial cells, in an autophagy-dependent manner. These findings provide a clinical solution to rejuvenate an aged or damaged bone marrow hematopoietic niche.
Article
Cell & Tissue Engineering
Wei Shan, Qin Yu, Yan Long, Qian Luo, Honghu Li, Yingli Han, Yulin Xu, Shan Fu, Xiangjun Zeng, Cong Wei, Yang Gao, Xiaoqing Li, Xia Li, Lifei Zhang, Lizhen Liu, Ming Chen, Pengxu Qian, He Huang
Summary: This study established an in vitro differentiation system that successfully generated hematopoietic cells with in vivo hematopoietic reconstitution potential from mouse PSCs. The combination of 3D induction system and OP9 stromal cell coculture yielded c-kit(+) cells with superior repopulating activity.
STEM CELL RESEARCH & THERAPY
(2021)
Review
Biochemistry & Molecular Biology
Laurence Calzone, Vincent Noel, Emmanuel Barillot, Guido Kroemer, Gautier Stoll
Summary: Due to experimental technologies and data accumulation, biological and molecular processes can be described as complex networks of signaling pathways. Mathematical models, such as MaBoSS, help to interpret experimental observations and anticipate responses to external interventions. This review presents different frameworks for modeling signaling pathways and introduces MaBoSS and its extensions for modeling cell populations and spatial distributions. Practical applications to cancer biology and immune response studies are also discussed.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Review
Biochemistry & Molecular Biology
Masayuki Yamashita, Atsushi Iwama
Summary: This review summarizes the changes in hematopoietic stem cells (HSCs) during aging and how different clones of HSCs can be expanded. Research shows that in mice and humans, the clonal behavior of HSCs is closely related to the risk of hematological malignancies and cardiovascular diseases. Therefore, understanding the impact of aging on the hematopoietic system is critical to prevent or overcome age-related changes in the blood.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Hematology
Aitzkoa Lopez de lapuente Portilla, Ludvig Ekdahl, Caterina Cafaro, Zain Ali, Natsumi Miharada, Gudmar Thorleifsson, Kristijonas Zemaitis, Antton Lamarca Arrizabalaga, Malte Thodberg, Maroulio Pertesi, Parashar Dhapola, Erik Bao, Abhishek Niroula, Divya Bali, Gudmundur Norddahl, Nerea Ugidos Damboriena, Vijay G. Sankaran, Goran Karlsson, Unnur Thorsteinsdottir, Jonas Larsson, Kari Stefansson, Bjorn Nilsson
Summary: This study provides the first large-scale analysis of the genetic architecture of blood CD341 cell levels, identifying several associated loci including PPM1H and CXCR4. Functional fine-mapping suggests that the downregulation of PPM1H may be mediated through the regulation of MYB transcription factor binding site. These results warrant further investigation of PPM1H as a potential inhibition target for stem cell mobilization.
Article
Biochemistry & Molecular Biology
Zeba Sultana, Mathurin Dorel, Bertram Klinger, Anja Sieber, Ilona Dunkel, Nils Bluethgen, Edda G. Schulz
Summary: By combining systematic perturbation experiments with mathematical modeling, it was found that the number of active X chromosomes in mouse embryonic stem cells affects cell signaling and differentiation propensity. The presence of a single active X chromosome makes cells more sensitive to differentiation-promoting pathways and leads to a stronger negative feedback in the MAPK pathway. This may explain the delayed differentiation observed in female mouse embryonic stem cells.
MOLECULAR SYSTEMS BIOLOGY
(2023)
Article
Physics, Multidisciplinary
Rui Fu, Qingyun Wang
Summary: Stochastic thermodynamics provides a framework for understanding the behavior of small systems far from equilibrium but still interacting with a heat bath. This study focuses on the optimal performance of a thermodynamic heat engine with a periodically changing temperature, controlled by a time-dependent harmonic potential. The achievable upper bound for maximal power, optimal control protocol, and corresponding efficiency at maximal power are derived based on reasonable assumptions on the control actuation.
Article
Genetics & Heredity
Gladys Poon, Caroline J. Watson, Daniel S. Fisher, Jamie R. Blundell
Summary: The study uses synonymous passenger mutations in healthy blood and esophagus to quantify missing positive selection, finding higher positive selection mutations in blood and little positive selection elsewhere in the esophagus.
Article
Biochemistry & Molecular Biology
Imtiaz Iftakhar-e-Khuda, Alberto Pessia, Shuyu Zheng, Matti Kankainen, Mika Kontro, Marika Karikoski, Juha Laurila, Heidi Gerke, Sina Tadayon, Maija Hollmen, Jing Tang, Beat A. Imhof, Marko Salmi, Sirpa Jalkanen
Summary: This study demonstrates that Vascular Adhesion Protein-1 (VAP-1) is expressed on a subset of human hematopoietic stem cells (HSC) and bone marrow vasculature, playing a role in regulating HSC proliferation through the p53 signaling pathway. Inhibition of VAP-1 enhances HSC expansion and differentiation, suggesting its potential as a target for HSC manipulation and therapy.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2021)
Article
Genetics & Heredity
Takahiro Sano, Koki Ueda, Keiji Minakawa, Tsutomu Mori, Yuko Hashimoto, Haruhiko Koseki, Yasuchika Takeishi, Kazuhiko Ikeda, Takayuki Ikezoe
Summary: This study generated Uhrf2(-/-) mice to investigate the role of UHRF2 deletion in hematopoiesis. The results showed that the absence of UHRF2 did not affect blood counts, bone marrow findings, and spleen weights. However, the proportions of Uhrf2(-/-) cells were decreased compared to Uhrf2(+/+) cells in competitive repopulation assays, indicating a potential regulatory role of UHRF2 in hematopoiesis.
Article
Cell & Tissue Engineering
Kenji Kitajima, Minako Shingai, Hikaru Ando, Mako Hamasaki, Takahiko Hara
Summary: Researchers developed a novel method for hematopoietic differentiation of human-induced pluripotent stem cells to address the issue of low production of CD38(+) hematopoietic progenitor cells. They found that the lack of FLT3 expression was responsible for this problem and solved it by adding interferon-gamma.
Article
Biochemistry & Molecular Biology
Diego A. Lopez, Kelly S. Otsuka, April C. Apostol, Jasmine Posada, Juan C. Sanchez-Arcila, Kirk D. C. Jensen, Anna E. Beaudin
Summary: This study investigates the fetal hematopoietic response to maternal infection with Toxoplasma gondii. The results show that fetal HSCs respond to infection with changes in proliferation, self-renewal potential, and lineage output. Maternal IFN gamma crosses the fetal-maternal interface and is perceived by fetal HSCs.
Article
Cell Biology
Sara Menegatti, Bethany Potts, Eva Garcia-Alegria, Roberto Paredes, Michael Lie-A-Ling, Georges Lacaud, Valerie Kouskoff
Summary: The study reveals the sequential expression of the two RUNX1 isoforms during human blood specification, with RUNX1b marking endothelial cells with hemogenic potential and determining hemogenic competency in a dose-dependent manner. The findings establish RUNX1b isoform as the earliest known marker for hemogenic competency.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Cell Biology
Taiki Satoh, Marcelo A. S. Toledo, Janik Boehnke, Kathrin Olschok, Niclas Flosdorf, Katrin Goetz, Caroline Kuestermann, Stephanie Sontag, Kristin Sere, Steffen Koschmieder, Tim H. Bruemmendorf, Nicolas Chatain, Yoh-ichi Tagawa, Martin Zenke
Summary: Dendritic cells (DC) are professional antigen-presenting cells that can be divided into different subsets, with the DC3 subset having proinflammatory properties. Human iPS cell-derived DC3 exhibit similar characteristics to blood DC3 in vitro. The JAK2 V617F mutation enhances DC3 production and biases towards erythrocytes and megakaryocytes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Developmental Biology
Andrea L. Bredemeyer, Junedh M. Amrute, Andrew L. Koenig, Rachel A. Idol, Li He, Stephanie A. Luff, Carissa Dege, Jamison M. Leid, Joel D. Schilling, J. Travis Hinson, Mary C. Dinauer, Christopher M. Sturgeon, Kory J. Lavine
Summary: Tissue-resident macrophages play a crucial role in organ homeostasis, tissue repair, remodeling, and regeneration. Researchers have developed a system to generate macrophages that resemble tissue-resident or monocyte-derived subsets, allowing for the study of their function and potential applications in tissue engineering and regenerative medicine.
Article
Environmental Sciences
Phillip M. Hannam, Vitor V. Vasconcelos, Simon A. Levin, Jorge M. Pacheco
Article
Multidisciplinary Sciences
Fernando P. Santos, Francisco C. Santos, Jorge M. Pacheco
Article
Economics
Sara Encarnacao, Fernando P. Santos, Francisco C. Santos, Vered Blass, Jorge M. Pacheco, Juval Portugali
TRANSPORTATION RESEARCH PART B-METHODOLOGICAL
(2018)
Article
Biochemical Research Methods
Nathaniel Mon Pere, Tom Lenaerts, Jorge M. Pacheco, David Dingli
PLOS COMPUTATIONAL BIOLOGY
(2018)
Article
Multidisciplinary Sciences
Ana Sofia Ribeiro, Flavio L. Pinheiro, Francisco C. Santos, Amelia Polonia, Jorge M. Pacheco
ROYAL SOCIETY OPEN SCIENCE
(2018)
Article
Multidisciplinary Sciences
Antonio R. Gois, Fernando P. Santos, Jorge M. Pacheco, Francisco C. Santos
SCIENTIFIC REPORTS
(2019)
Article
Biology
Marta C. Couto, Jorge M. Pacheco, Francisco C. Santos
JOURNAL OF THEORETICAL BIOLOGY
(2020)
Article
Green & Sustainable Science & Technology
Fernando P. Santos, Jorge M. Pacheco, Francisco C. Santos, Simon A. Levin
Summary: Collective index insurance combined with informal within-group transfers can help low-income farmers alleviate poverty exacerbated by extreme weather.
NATURE SUSTAINABILITY
(2021)
Article
Multidisciplinary Sciences
Flavio L. Pinheiro, Jorge M. Pacheco, Francisco C. Santos
Summary: The study found that a decline in overall levels of cooperation is observed when the population transitions from strong to weak exploration rates. However, if the decay rate of highly connected individuals is lower than that of less connected individuals, the population is able to achieve higher levels of cooperation. Minor differences in selection intensities and individual exploration rates can result in major differences in the observed collective dynamics.
ROYAL SOCIETY OPEN SCIENCE
(2021)
Article
Multidisciplinary Sciences
Nathaniel Vincent Mon Pere, Tom Lenaerts, Jorge Manuel dos Santos Pacheco, David Dingli
Summary: Human hematopoiesis shows resilience to disruptions, but certain disorders can push the system beyond its natural adaptability, resulting in abnormal blood circulation. Studies have found that a stable response to perturbations requires simultaneous adaptation of cell differentiation and self-renewal rates, and under conditions of continuous disruption, compartment cell numbers evolve to new stable states.
Review
Biology
Fernando P. Santos, Jorge M. Pacheco, Francisco C. Santos
Summary: Indirect reciprocity is a key mechanism in understanding cooperation among individuals, where reputations and empathy play important roles. Research suggests that costly reputation spread, interaction observability, and empathy are determinants of cooperation under IR, affecting the level of complexity and information requirements for cooperation.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2021)
Proceedings Paper
Computer Science, Artificial Intelligence
Fernando P. Santos, Jorge M. Pacheco, Ana Paiva, Francisco C. Santos
THIRTY-THIRD AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTY-FIRST INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / NINTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE
(2019)
Proceedings Paper
Computer Science, Artificial Intelligence
Fernando P. Santos, Jorge M. Pacheco, Francisco C. Santos
THIRTY-SECOND AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTIETH INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / EIGHTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE
(2018)
Proceedings Paper
Computer Science, Artificial Intelligence
Fernando P. Santos, Jorge M. Pacheco, Francisco C. Santos
THIRTY-SECOND AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTIETH INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / EIGHTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE
(2018)
Proceedings Paper
Computer Science, Artificial Intelligence
Fernando P. Santos, Jorge M. Pacheco, Ana Paiva, Francisco C. Santos
CONFLICT RESOLUTION IN DECISION MAKING, COREDEMA 2016
(2017)