Article
Cell Biology
Geremy Sannier, Mathieu Dube, Caroline Dufour, Corentin Richard, Nathalie Brassard, Gloria-Gabrielle Delgado, Amelie Pagliuzza, Amy E. Baxter, Julia Niessl, Elsa Brunet-Ratnasingham, Roxanne Charlebois, Bertrand Routy, Jean-Pierre Routy, Remi Fromentin, Nicolas Chomont, Daniel E. Kaufmann
Summary: Understanding the diversity of HIV-1 reservoirs is crucial for a cure, but studying them at the single-cell level in primary samples is challenging. Different viral gene expression and translation patterns are observed in viremic and ART-suppressed individuals, with most reactivated proviruses found to be defective. LRAs induce a wide variety of viral gene transcription and translation patterns, with different effects on various memory cell subsets.
Article
Medicine, General & Internal
Bo Hong, Tian Xia, Chun-Jing Ye, Yong Zhan, Ran Yang, Jia Liu, Yi Li, Zhi-Xue Chen, Wei Yao, Kai Li, Jia Wang, Kui-Ran Dong, Rui Dong
Summary: By analyzing embryonal rhabdomyosarcoma using single-cell RNA sequencing, different functional subgroups of tumor cells were identified, shedding light on the pathogenesis and confirming the origin of the tumor cells from skeletal muscle progenitor cells.
Article
Immunology
Jie Xu, Chanjuan Shen, Wei Lin, Ting Meng, Joshua D. Ooi, Peter J. Eggenhuizen, Rong Tang, Gong Xiao, Peng Jin, Xiang Ding, Yangshuo Tang, Weisheng Peng, Wannian Nie, Xiang Ao, Xiangcheng Xiao, Yong Zhong, Qiaoling Zhou
Summary: Utilizing single-cell RNA sequencing, this study analyzed kidney samples from IMN patients and healthy controls, identifying different cell types, differentially expressed genes, and intercellular interactions. Genes involved in inflammation and immune response regulation were enriched in most kidney parenchymal cells. The extensive communication of mesangial cells in IMN was highlighted as being of great importance.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Oncology
Bo Hong, Yi Li, Ran Yang, ShuYang Dai, Yong Zhan, Wen-Bo Zhang, Rui Dong
Summary: This study reveals that Ewing sarcoma (EwS) originates from neural crest cell lineage and the developmental trajectories of tumor cells vary. The interferon signaling pathway plays a crucial role in the tumorigenesis and tumor progression of EwS. JAK1 gene is a potential therapeutic target for EwS.
JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY
(2022)
Article
Multidisciplinary Sciences
Quanlei Wang, Jinlu Li, Shengpeng Wang, Qiuting Deng, Yanru An, Yanan Xing, Xi Dai, Zelong Li, Qiwang Ma, Kuixing Wang, Chuanyu Liu, Yue Yuan, Guoyi Dong, Tao Zhang, Huanming Yang, Yutao Du, Yong Hou, Weilin Ke, Zhouchun Shang
Summary: This study surveyed the single-cell transcriptomic landscape of human full-term placenta, revealing the heterogeneity of cytotrophoblast cell and stromal cell, and identified a subpopulation of CTB called trophoblast progenitor-like cells. Furthermore, a key transcription factor that may promote enEVT cell differentiation was identified.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Dingyi Yuan, Yuxin Zhang, Wanmei Liu, Xiaoyu He, Wenting Chen, Liu Liu, Lu Yang, Yixin Wang, Yinhao Wu, Jun Liu
Summary: In this study, the potential mechanisms by which VISTA affects T-cell activation and the potential interacting proteins were explored. The results showed that VISTA inhibits T-cell activation by suppressing pathways related to T-cell differentiation, T-cell receptor signaling, and T-cell migration; by influencing cholesterol biosynthesis; and by regulating inflammatory response. The study also identified HHLA2 and CTH as direct interacting partners of VISTA, and an indirect interaction between VISTA and PSGL-1.
MOLECULAR IMMUNOLOGY
(2023)
Article
Immunology
Yi Cai, Yejun Wang, Chenyan Shi, Youchao Dai, Fuxiang Li, Yuzhong Xu, Peize Zhang, Fanhui Kong, Guofang Deng, Zhihua Wen, Qi Zhou, Boxi Chris Kang, Amit Singhal, Qianting Yang, Carl G. Feng, Xinchun Chen
Summary: The study reveals the landscape of local T cell immunity in tuberculosis and provides insights into the involvement of specific T cell populations in the pathogenesis of tuberculous pleural effusion (TPE). The findings suggest a link between clonal expansion of Granzyme K-expressing CD8 T cells and TPE.
JOURNAL OF EXPERIMENTAL MEDICINE
(2022)
Article
Microbiology
Joshua M. Wang, Andrew L. Woodruff, Matthew J. Dunn, Robert J. Fillinger, Richard J. Bennett, Matthew Z. Anderson
Summary: The research on 21 clinical isolates of Candida albicans showed extensive genetic and phenotypic variation, with strain-specific gene expression patterns and linkages between gene expression and phenotypic traits. The study highlights the importance of transcriptional profiling in understanding the genetic basis for phenotypic diversity and identifies new genes and pathways associated with pathogenic processes. These findings underscore the need for personalized treatment strategies based on individual strains of infectious fungi.
Article
Engineering, Environmental
Jing Shen, Haochun Shi, Yanbin Zhao, Karl Fent, Kun Zhang
Summary: There are significant differences in responses among cell lines, including sensitivity and heterogeneity to different compounds, and temporal variations also occur with exposure. There are specific interactions between cells and chemicals, such as lung carcinoma cells being best suited for glucocorticoid receptor agonist identification, while histone deacetylase inhibitors and ATPase inhibitors exhibit universal high sensitivity and heterogenic features.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2021)
Article
Multidisciplinary Sciences
Caitriona M. McEvoy, Julia M. Murphy, Lin Zhang, Sergi Clotet-Freixas, Jessica A. Mathews, James An, Mehran Karimzadeh, Delaram Pouyabahar, Shenghui Su, Olga Zaslaver, Hannes Roest, Rangi Arambewela, Lewis Y. Liu, Sally Zhang, Keith A. Lawson, Antonio Finelli, Bo Wang, Sonya A. MacParland, Gary D. Bader, Ana Konvalinka, Sarah Q. Crome
Summary: This study presents a detailed cellular map of healthy human kidney and explores the complexity of kidney-resident immune cells using single cell RNA sequencing. Sex-based differences in gene expression of kidney parenchymal cells were observed.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Ruirui Ding, Xingkai Che, Zhen Shen, Yuanhu Zhang
Summary: The study found that the composition and contents of anthocyanins in green apple greatly increased under UV-B treatment, and the differences in anthocyanin biosynthesis in green apple were revealed through transcriptomic and metabolic analysis.
Article
Genetics & Heredity
Xianxi Huang, Wenjun Shen, Stefan Veizades, Grace Liang, Nazish Sayed, Patricia K. Nguyen
Summary: This study found differential gene expression in endothelial cells between male and female mice at 3 and 18 months, with older mice showing increased expression of genes related to inflammation. The findings suggest that age plays a role in the development of chronic diseases in endothelial cells.
FRONTIERS IN GENETICS
(2021)
Article
Biochemistry & Molecular Biology
Yetao Wang, Lawrence Lifshitz, Noah J. Silverstein, Esther Mintzer, Kevin Luk, Pamela StLouis, Michael A. Brehm, Scot A. Wolfe, Steven G. Deeks, Jeremy Luban
Summary: Innate lymphoid cells (ILCs) are a diverse population of cells that include NK cells and play important roles in tissue homeostasis and repair, inflammation, and protection from infection. This study used transcriptional and chromatin profiling to investigate the interplay between human blood ILCs and their responses to HIV-1 infection. The findings reveal the existence of four main ILC subsets in human blood and provide insights into how HIV-1 infection disrupts NK cells and their homeostatic function.
Article
Biology
Nan Wang, Jing He, Xiaoyu Feng, Shengyou Liao, Yi Zhao, Fuchou Tang, Kehkooi Kee
Summary: Non-coding RNAs, including long non-coding RNAs (lncRNAs), have important functions in shaping and directing the fate of germ cells during human gonadal development. Through comprehensive bioinformatic analysis and experimental verification, the presence and regulatory roles of lncRNAs, such as LNC1845, have been identified in female and male germ cells. These lncRNAs modulate the levels of histone modifications and have been shown to function as cis regulators of important transcription factors involved in ovarian follicle development.
Article
Immunology
Bavithra Vijayakumar, Karim Boustani, Patricia P. Ogger, Artemis Papadaki, James Tonkin, Christopher M. Orton, Poonam Ghai, Kornelija Suveizdyte, Richard J. Hewitt, Sujal R. Desai, Anand Devaraj, Robert J. Snelgrove, Philip L. Molyneaux, Justin L. Garner, James E. Peters, Pallav L. Shah, Clare M. Lloyd, James A. Harker
Summary: Patients with persistent lung disease after COVID-19 discharge exhibit abnormal immune-proteomic profiles in the airways, characterized by elevated levels of proteins associated with cell death, tissue repair, and epithelial injury. The severity of airway dysfunction correlates with increased cytotoxic lymphocyte counts, while more extensive lung abnormalities are associated with elevated B cell numbers and altered monocyte subsets. Long-term follow-up indicates that these abnormalities resolve over time.
Article
Plant Sciences
Jeroen D. M. Schreel, Craig Brodersen, Thomas De Schryver, Manuel Dierick, Adriana Rubinstein, Koen Dewettinck, Matthieu N. Boone, Luc van Hoorebeke, Kathy Steppe
Summary: Our study provides evidence of a hydraulic pathway from the leaf surface to the stem xylem following a water potential gradient, but this pathway only exists in functional vessels and does not contribute to embolism repair in beech.
Article
Plant Sciences
Aleca M. Borsuk, Adam B. Roddy, Guillaume Theroux-Rancourt, Craig R. Brodersen
Summary: The structure of the spongy mesophyll, a type of photosynthetic tissue in plant leaves, has been examined in 40 species using imaging techniques. It was found that the structure of the spongy mesophyll is associated with factors such as cell size, cell density, and the surface-area-to-volume ratio of leaves.
Article
Plant Sciences
Santiago Trueba, Guillaume Theroux-Rancourt, J. Mason Earles, Thomas N. Buckley, David Love, Daniel M. Johnson, Craig Brodersen
Summary: The study identified leaf vein volume as a crucial factor influencing water use efficiency in coniferous plants. Needle-like leaves of Pinus exhibited lower mesophyll porosity, leading to increased ratios of stomatal pore number per mesophyll or intercellular airspace volume, which effectively predicted stomatal conductance and water use efficiency.
Article
Plant Sciences
Mina Momayyezi, Aleca M. Borsuk, Craig R. Brodersen, Matthew E. Gilbert, Guillaume Theroux-Rancourt, Daniel A. Kluepfel, Andrew J. McElrone
Summary: Contrasting leaf anatomy of walnut species can provide insights into the links between structure and function. The experiment with two walnut species under stressed and drought conditions showed that leaf structure affects gas exchange, light absorption, and photosynthetic capacity, and drought-induced changes in leaf structure impact performance.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Plant Sciences
Carola Pritzkow, Matilda J. M. Brown, Madeline R. Carins-Murphy, Ibrahim Bourbia, Patrick J. Mitchell, Craig Brodersen, Brendan Choat, Timothy J. Brodribb
Summary: This study found that embolism under natural drought conditions is likely propagated by air spreading in a circumferential pattern from embolized conduits to neighboring conduits in field-grown trees. This pattern offers the possibility to understand the temporal aspects of embolism occurrence by examining stem cross-sections.
Article
Plant Sciences
Ana Clara Fanton, Morgan E. Furze, Craig R. Brodersen
Summary: Xylella fastidiosa (Xf) is a bacterial pathogen that causes Pierce's Disease (PD) in grapevines and other diseases in important agricultural and ecological species. This study investigates the underlying mechanisms of Xf-induced mortality in grapevines and finds that susceptible genotypes show a coordinated decline in photosynthesis, starch storage, and stem hydraulics, while resistant genotypes do not show changes in starch and stem hydraulics. The results support the theory that hydraulic failure and carbon starvation are responsible for plant mortality resulting from PD.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Entomology
Nabil Killiny, Craig R. Brodersen
Summary: This study presents a non-destructive method using high-resolution micro-computed X-ray tomography (microCT) to investigate the structure of the anterior gut of the glassy-winged sharpshooter (GWSS). This method eliminates the need for destructive dissection and allows for three-dimensional visualization.
Review
Plant Sciences
Frederic Lens, Sean M. Gleason, Giovanni Bortolami, Craig Brodersen, Sylvain Delzon, Steven Jansen
Summary: Studying hydraulic failure in plants is crucial for understanding reduced productivity and mortality. There is a need to reevaluate the relationship between vessel diameter and vulnerability caused by drought-induced embolism. Nanoscale biophysical processes play a key role in determining the formation and spread of embolism.
Correction
Genetics & Heredity
Bjorn C. Willige, Mark Zander, Chan Yul Yoo, Amy Phan, Renee M. M. Garza, Shelly A. A. Wanamaker, Yupeng He, Joseph R. R. Nery, Huaming Chen, Meng Chen, Joseph R. R. Ecker, Joanne Chory
Article
Biochemistry & Molecular Biology
Carl Procko, Wen Mai Wong, Janki Patel, Seyed Ali Reza Mousavi, Tsegaye Dabi, Marc Duque, Lisa Baird, Sreekanth H. Chalasani, Joanne Chory
Summary: The evolution of the Venus flytrap's ability to sense, capture, and digest animal prey has long been a mystery in the scientific community. Recent genome and transcriptome sequencing studies have provided some insight into the genes involved in these tasks, but proving a direct link has been challenging. In this study, researchers used CRISPR-Cas9 methods to modify the Venus flytrap genome and found that mutations in two mechanosensitive ion channel genes led to a reduced response in leaf-closing behavior. The findings suggest that multiple redundant ion channels play a role in the plant's sensory system for prey detection.
Article
Plant Sciences
Adi Yaaran, Eyal Erez, Carl Procko, Menachem Moshelion
Summary: Genetic modifications of leaf cells' sensitivity to abscisic acid reveal their roles in leaf hydraulic regulation. Transgenic Arabidopsis plants insensitive to ABA in their bundle sheath and mesophyll cells showed increased leaf hydraulic conductance and transpiration under optimal conditions. Tissue-specific regulation of water permeability by ABA may be influenced by whole-leaf hydraulics and transpiration.
Review
Biochemistry & Molecular Biology
Paul E. Verslues, Julia Bailey-Serres, Craig Brodersen, Thomas N. Buckley, Lucio Conti, Alexander Christmann, Jose R. Dinneny, Erwin Grill, Scott Hayes, Robert W. Heckman, Po-Kai Hsu, Thomas E. Juenger, Paloma Mas, Teun Munnik, Hilde Nelissen, Lawren Sack, Julian Schroeder, Christa Testerink, Stephen D. Tyerman, Taishi Umezawa, Philip A. Wigge
Summary: This article presents unresolved questions in plant abiotic stress biology from 15 research groups. These questions include understanding how plants detect water availability, temperature, salinity, and rising CO2 levels, as well as the interaction between environmental and endogenous signaling and development, and the control of downstream responses. Adaptation to changing environments involves tradeoffs that limit ecological distribution and crop resilience. Exploring plant diversity can help identify fundamental limits and new trait combinations.
Article
Multidisciplinary Sciences
John D. Treado, Adam B. Roddy, Guillaume Theroux-Rancourt, Liyong Zhang, Chris Ambrose, Craig R. Brodersen, Mark D. Shattuck, Corey S. O'Hern
Summary: The spongy mesophyll is a complex and porous tissue found in plant leaves that plays a role in carbon capture and mechanical stability. Researchers have developed a mechanical model using computer simulations to explain the development of this tissue. They found that the generation of pore space in the spongy mesophyll requires a balance of cell growth, adhesion, stiffness, and tissue pressure to maintain mechanical stability.
JOURNAL OF THE ROYAL SOCIETY INTERFACE
(2022)