Article
Oncology
Chaoran Ma, Yinglu Zhou, Giuseppe Nicolo Fanelli, Konrad H. Stopsack, Michelangelo Fiorentino, Giorgia Zadra, Lorelei A. Mucci, Massimo Loda, Svitlana Tyekucheva, Kathryn L. Penney
Summary: Previous studies mainly focused on prognostic biomarkers in prostate cancer tumors, but it is now recognized that the tumor microenvironment plays a role in cancer progression. This study examined the gene expression in prostate stroma and identified genes and pathways associated with aggressive and lethal prostate cancer, validating previously identified biomarkers.
MOLECULAR CANCER RESEARCH
(2023)
Article
Engineering, Biomedical
Yan Liu, Xiaodi Wu, Feifan Chen, Hao Li, Tao Wang, Ningning Liu, Kang Sun, Guangdong Zhou, Ke Tao
Summary: In this study, we found that nanoparticle-based photodynamic therapy disrupted the tumor-stroma crosstalk in pancreatic tumor models, leading to persistent inhibition of extracellular matrix secretion and enhanced therapeutic effect. By down-regulating TGF beta signaling pathways, this therapy decreased drug resistance, proliferation, and migration of cancer cells. Furthermore, it inactivated pancreatic stellate cells and hindered ECM secretion. The disruption of tumor-stroma crosstalk also improved tumor penetration in stroma-rich pancreatic tumor models, enhancing subsequent therapy outcomes.
Article
Biochemistry & Molecular Biology
Andrea Eigentler, Florian Handle, Silvia Schanung, Antonia Degen, Hubert Hackl, Holger H. H. Erb, Georgios Fotakis, Julia Hoefer, Christian Ploner, Karin Joehrer, Isabel Heidegger, Andreas Pircher, Werner Klotz, Manfred Herold, Georg Schaefer, Zoran Culig, Martin Puhr
Summary: Despite recent advances in the treatment of metastatic prostate cancer, drug resistance remains a major obstacle. Epithelial glucocorticoid receptor signaling and changes in the tumor microenvironment have been found to play important roles in this process. Investigating the impact of glucocorticoids on stromal receptor signaling is crucial due to their use in prostate cancer treatment.
Article
Genetics & Heredity
Kevin S. Guo, Alexander S. Brodsky
Summary: The extracellular matrix (ECM) plays a crucial role in determining the fate of tumors, and is influenced by various cell types. Collagens are the main components of the tumor ECM, but their impact on patient outcomes and potential biomarkers are still poorly understood.
NPJ GENOMIC MEDICINE
(2023)
Article
Medicine, Research & Experimental
Supreet Agarwal, Lei Fang, Kerry Mcgowen, Juanjuan Yin, Joel Bowman, Anson T. Ku, Aian Neil Alilin, Eva Corey, Martine P. Roudier, Lawrence D. True, Ruth Dumpit, Ilsa Coleman, John K. Lee, Peter S. Nelson, Brian J. Capaldo, Aida Mariani, Clare Hoover, Ilya S. Senatorov, Michael Beshiri, Adam G. Sowalsky, Elaine M. Hurt, Kathleen Kelly
Summary: This study provides a comprehensive analysis of a B7H3-ADC therapy in metastatic prostate cancer models. It reveals that B7H3 expression alone is not sufficient for responsiveness, and identifies RB1 deficiency and replication stress as predictors of sensitivity. The findings suggest that biomarker-driven trial designs can maximize clinical benefit of ADC therapies.
JOURNAL OF CLINICAL INVESTIGATION
(2023)
Article
Pathology
Georgi Dzaparidze, Dmitri Kazachonok, Alexander Gvozdkov, Heleri Taelma, Kristi Laht, Ave Minajeva
Summary: The research evaluates the potential of stromal changes as a supplementary tool to predict higher grade carcinomas in the prostate, finding no significant difference in stromal changes between upgraded and non-upgraded cancer cases, but significant differences between cancerous and benign samples.
PATHOLOGY RESEARCH AND PRACTICE
(2021)
Article
Multidisciplinary Sciences
Shefali Chaudhary, Alicia Roy, Christine Summers, Simon Zhornitsky, Tim Ahles, Chiang-Shan R. Li, Herta H. Chao
Summary: This study explores the predictive value of hypothalamic resting state functional connectivity (rsFC) on changes in working memory and quality of life in prostate cancer patients undergoing androgen deprivation therapy (ADT). The results suggest that baseline hypothalamus-frontoparietal and salience network rsFC can predict individual variations in cognitive and quality of life changes following 6 months of ADT.
SCIENTIFIC REPORTS
(2022)
Article
Oncology
Mark P. G. Dings, Paul Manoukian, Cynthia Waasdorp, Judith S. E. Quik, Marin Strijker, Sophie C. Lodestijn, Sanne M. van Neerven, Leandro F. Moreno, Rodrigo Leite de Oliveira, Bert A. Bonsing, Marco J. Bruno, Olivier R. Busch, Michael Doukas, Casper H. van Eijck, Nadia Haj Mohammad, Ignace H. de Hingh, Quintus Molenaar, Marc G. Besselink, Louis Vermeulen, Jan Paul Medema, Hanneke W. M. van Laarhoven, Maarten F. Bijlsma
Summary: This study aims to identify biomarkers for cancer-associated fibroblast (CAF) population in pancreatic cancer and their prognostic value. Through RNA-sequencing analysis and single-cell gene expression analysis, osteoglycin (OGN) was identified as a candidate serum prognostic marker. Higher serum OGN levels are associated with favorable overall survival in resectable pancreatic ductal adenocarcinoma (PDAC) patients.
INTERNATIONAL JOURNAL OF CANCER
(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
Multidisciplinary Sciences
Xin Li, Tuying Yong, Zhaohan Wei, Nana Bie, Xiaoqiong Zhang, Guiting Zhan, Jianye Li, Jiaqi Qin, Jingjing Yu, Bixiang Zhang, Lu Gan, Xiangliang Yang
Summary: The study demonstrates that co-delivery of indocyanine green and calcipotriol using tumor cell-derived microparticles can enhance the efficacy of photothermal therapy by remodeling the tumor extracellular matrix and improving anti-tumor immune responses.
NATURE COMMUNICATIONS
(2022)
Article
Engineering, Biomedical
Nicole L. Habbit, Benjamin Anbiah, Luke Anderson, Joshita Suresh, Iman Hassani, Matthew Eggert, Andrew Brannen, Joshua Davis, Yuan Tian, Balabhaskar Prabhakarpandian, Peter Panizzi, Robert D. Arnold, Elizabeth A. Lipke
Summary: In this study, a three-dimensional in vitro prostate cancer tissue model was established and characterized based on xenograft tumor stiffness. The model can mimic the progression of prostate cancer and provide a foundation for future studies on cancer progression and drug development.
ACTA BIOMATERIALIA
(2022)
Article
Oncology
Jan Matthijs Moll, Wilma J. Teubel, Sigrun E. Erkens, Ashraf Jozefzoon-Agai, Natasja F. Dits, Angelique van Rijswijk, Guido W. Jenster, Wytske M. van Weerden
Summary: The treatment of prostate cancer has changed significantly in the past decade with the introduction of new drugs for hormone-resistant patients. However, preclinical research still relies on cell models that do not express the androgen receptor. This study aimed to create models of prostate cancer that have progressed on hormone therapy and analyze their response to androgen receptor-targeted agents. The study found that different cell models have varying degrees of resistance to these agents, but resistance is consistent within the same model.
FRONTIERS IN ONCOLOGY
(2022)
Article
Cell Biology
Alex P. Shephard, Peter Giles, Mariama Mbengue, Amr Alraies, Lisa K. Spary, Howard Kynaston, Mark J. Gurney, Juan M. Falcon-Perez, Felix Royo, Zsuzsanna Tabi, Dimitris Parthimos, Rachel J. Errington, Aled Clayton, Jason P. Webber
Summary: The study explored the utility of prostate stromal cell-derived vesicles as indicators of an altered tumor environment in prostate cancer patients. By comparing transcripts in different disease states, a set of mRNAs was identified to successfully discriminate clinical courses of prostate cancer, potentially predicting disease outcomes. Machine learning combined with serum EV analysis and PSA showed improved sensitivity and specificity in detecting prostate cancer progression, showcasing the superiority of this liquid biopsy approach compared to needle biopsy.
JOURNAL OF EXTRACELLULAR VESICLES
(2021)
Review
Biochemistry & Molecular Biology
Adriana Buskin, Emma Scott, Ryan Nelson, Luke Gaughan, Craig N. Robson, Rakesh Heer, Anastasia C. Hepburn
Summary: A key challenge in the management of prostate cancer is its heterogeneity, and there is an urgent need for models that can reflect clinical diversity and resistant phenotypes. The three-dimensional organoid model has revolutionized cancer research, providing opportunities for disease modeling, drug screening, and precision medicine. However, there are limitations in emulating the tumor microenvironment and metastasis process, as well as the epigenome profile, which need to be addressed to maximize the translational relevance of organoids.
Review
Oncology
Filippo Pederzoli, Massimiliano Raffo, Hubert Pakula, Francesco Ravera, Pier Vitale Nuzzo, Massimo Loda
Summary: The genomic, epigenetic, and metabolic determinants of prostate cancer have been extensively studied in epithelial cells. However, the importance and dynamic role of stromal cells, including fibroblasts, smooth muscle cells, and vasculature-associated cells, in the tumor microenvironment (TME) have been largely overlooked. This review discusses the role of these mesenchymal cell populations in the transition from healthy prostate epithelium to cancer, highlighting their potential as biomarkers and therapeutic targets for prostate cancer.
BRITISH JOURNAL OF CANCER
(2023)
Article
Virology
Nathaniel C. Esteves, Steffen Porwollik, Michael McClelland, Birgit E. Scharf
Summary: The study identified the impact of different gene deletion regions on the infectivity of flagellotropic phage chi, showing that multi-gene deletions affecting the efflux system reduced infection, deletion of the tig gene reduced infection, and deletion of genes involved in antioxidant synthesis reduced infectivity.
JOURNAL OF VIROLOGY
(2021)
Article
Biochemistry & Molecular Biology
Julius A. Edson, Weiping Chu, Steffen Porwollik, Kaycee Tran, Nathalie Iribe, Michael McClelland, Young Jik Kwon
Summary: This study investigates a novel form of nanomaterial-based antimicrobial agent, ATC, which efficiently treats intracellular Salmonella enterica sv Typhimurium infections, demonstrating effective and safe antimicrobial activity without affecting host cells. The findings show the utility of molecularly engineered nanomaterials as efficient antimicrobial agents against intracellular pathogens.
MACROMOLECULAR BIOSCIENCE
(2021)
Article
Microbiology
Zhiyi Zheng, Patrick J. Gorden, Xiaoqin Xia, Ying Zheng, Ganwu Li
Summary: This study sequenced 180 Klebsiella pneumoniae strains isolated from dairy cattle mastitis milk in 11 U.S. states, revealing the genomic features and diversity of this population. The analysis showed a higher genomic diversity in bovine mastitis strains, with gene units associated with ferric citrate uptake, lactose fermentation, and heavy metal resistance. The findings highlight the potential for developing novel diagnostic tools and preventive strategies for mastitis-causing K. pneumoniae strains.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Microbiology
T. L. Westerman, M. McClelland, J. R. Elfenbein
Summary: Regulation of flagellum biosynthesis is a hierarchical process tightly controlled by the LysR transcriptional regulator YeiE, which promotes virulence by enhancing cell motility. The Delta yeiE mutant lacks motility and shows reduced expression of flagellar class 2 and 3 genes, leading to defective gut colonization. YeiE acts as a control point for flagellar gene expression, adding a new layer to the regulatory cascade for enteric pathogen fitness.
Article
Gastroenterology & Hepatology
Helit Cohen, Boaz Adani, Emiliano Cohen, Bar Piscon, Shalhevet Azriel, Prerak Desai, Heike Bahre, Michael McClelland, Galia Rahav, Ohad Gal-Mor
Summary: This study investigates the changes in the DksA regulon during Salmonella evolution, showing that DksA plays a crucial role in the growth, gene expression, and invasion of Salmonella. It regulates multiple metabolic pathways and virulence genes. The study also reveals the assimilation of horizontally acquired virulence genes under the DksA regulon, providing insights into the evolution of virulence gene regulation in Salmonella species.
Article
Physiology
Ming Li, Xuyang Zhao, Jiayuan Xie, Xinyu Tong, Junwei Shan, Mijuan Shi, Guangxin Wang, Weidong Ye, Yuhang Liu, Bruno Hamish Unger, Yingyin Cheng, Wanting Zhang, Nan Wu, Xiao-Qin Xia
Summary: The use of herbal medicine, such as seabuckthorn, in fish diets has shown potential for preventing and treating foodborne enteritis in aquaculture. A study using a zebrafish model demonstrated that seabuckthorn can reduce intestinal and hepatic inflammation and improve the immune response and gut microbiota composition.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Microbiology
Melina B. Cian, Joshua A. Mettlach, Aaron E. Zahn, Nicole P. Giordano, Keaton E. Minor, Michael McClelland, Zachary D. Dalebroux
Summary: The three cardiolipin (CL) synthase genes of Salmonella enterica serovar Typhimurium work cooperatively to promote intracellular survival and inflammasome activation in macrophages, but do not affect inflammatory cytokine production downstream of Tlr4 or virulence in C57BL/6J mice.
MICROBIOLOGY SPECTRUM
(2022)
Article
Biochemistry & Molecular Biology
You Duan, Qiangxiang Zhang, Yanxin Jiang, Wanting Zhang, Yingyin Cheng, Mijuan Shi, Xiao-Qin Xia
Summary: This article introduces developmental research on grass carp based on a high-quality transcriptome. By collecting and analyzing samples at multiple time points, the study explores the role of lncRNAs and alternative splicing in fish development and identifies a family of short interspersed elements that are preferentially expressed during early zygotic activation and their possible regulatory components. Furthermore, the study investigates the changes in retained intron alternative splicing events during zygotic activation and tissue differentiation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Oncology
Vinay Kumar, Pavneet Randhawa, Robert Bilodeau, Dan Mercola, Michael McClelland, Anshu Agrawal, James Nguyen, Patricia Castro, Michael M. Ittmann, Farah Rahmatpanah
Summary: In prostate cancer, the tumor microenvironment plays a crucial role in the development and progression of the disease. This study utilized Digital Spatial Profiling multiplex technology to assess the expression of proteins and RNA transcripts in challenging samples. The results revealed differences in protein and RNA expression among different cell types and validated the protein expression in a larger cohort of prostate cancer patients. Furthermore, closely examining the tumor microenvironment provides valuable data that can improve prognostication and treatment techniques.
Article
Microbiology
Jennifer E. Kurasz, Madison C. Crawford, Steffen Porwollik, Oliver Gregory, Katerina R. Tadlock, Eve C. Balding, Emily E. Weinert, Michael McClelland, Anna C. Karls
Summary: The adaptation of Salmonella enterica serovar Typhimurium to stress conditions involves the expression of genes regulated by RpoN and activated by RtcR. The activation of RtcR is dependent on a RecA-controlled SOS response pathway and the presence of a specific region within the prophage Gifsy-1. This study highlights the role of prophages in controlling the activity of regulatory proteins and altering bacterial physiological functions.
JOURNAL OF BACTERIOLOGY
(2023)
Article
Environmental Sciences
Wenping He, Mijuan Shi, Xiao-Qin Xia, Wanting Zhang, Weizhi Yao, Tianxiang Gao
Summary: The goldstripe ponyfish has a genomic similarity to the Chinese sillago, particularly in genes related to the immune system and cell cycle. This suggests that they may have adopted similar genetic evolutionary strategies.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Biology
Weidong Ye, Mijuan Shi, Keyi Ren, Yuhang Liu, You Duan, Yingyin Cheng, Wanting Zhang, Xiao-Qin Xia
Summary: This study investigated the spatial expression patterns and ceRNA networks of lncRNA, miRNA, and mRNA associated with the development of intermuscular bones (IBs) using zebrafish as a model. Key genes and pathways involved in the formation and growth of IBs were identified. The findings provide new insights into the molecular mechanisms of IB development and potential strategies for improving IB traits.
Article
Biochemistry & Molecular Biology
Ouyang Gang, Le Yuan, Xiao-Qin Xia, Wanting Zhang, Mijuan Shi
Summary: It has been found that in the early stages of virus infection, fish pattern recognition receptors are the first to identify viruses and initiate innate immune responses. Through infecting larval zebrafish with different viruses and analyzing gene expression profiles, it was discovered that viral infection leads to a large amount of protein synthesis and sterol synthesis, while downregulating immune-related genes and upregulating rare key immune genes IRF3 and IRF7. This study suggests that viral infection can induce stress on the endoplasmic reticulum, suppress the immune system, and trigger the fish's innate immunological response through the activation of IRF3 and IRF7.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Yufang Pan, Wanting Zhang, Xiaofei Wang, Juliette Jouhet, Eric Marechal, Jin Liu, Xiao-Qin Xia, Hanhua Hu
Summary: This study explores the allele-specific expression of PDAT gene in the model diatom Phaeodactylum tricornutum. The results show that one of the alleles, Allele 2, can be specifically induced by decreasing nitrogen concentrations and overexpression of Allele 2 substantially enhances the accumulation of TAG. On the other hand, overexpression of Allele 1 only slightly increases TAG accumulation but leads to more serious growth inhibition. It is also found that the enzymes encoded by the two alleles have different TAG biosynthetic activity, which is mainly affected by amino acid variants in their protein sequences.
Article
Biochemical Research Methods
Heng Li, Mijuan Shi, Keyi Ren, Lei Zhang, Weidong Ye, Wanting Zhang, Yingyin Cheng, Xiao-Qin Xia
Summary: With the continuous development of high-throughput sequencing technology, bioinformatic analysis of omics data plays an increasingly important role in life science research. To address the limitations of current tools, we have developed Visual Omics, an online tool for omics data analysis and scientific chart editing.