Article
Chemistry, Multidisciplinary
Siwen Zhang, Qiyuan Chang, Pingping Li, Xiaoyu Tong, Yi Feng, Xinyao Hao, Xudong Zhang, Zhengwei Yuan, Jichun Tan
Summary: Concentrated MenSC-derived sEVs effectively repaired intrauterine adhesion in rat models, promoting gland and vascular regeneration while reversing endometrial fibrosis. Repeated MenSCs-sEVs transplantations significantly improved endometrial receptivity and pregnancy outcomes without causing hematological or biochemical abnormalities. MenSCs-sEVs safely and effectively enhanced endometrial restoration through inhibition of the TGF beta 1/SMAD3 pathway and upregulation of BMP7 expression.
Article
Clinical Neurology
Yunke Li, Dingke Wen, Wenyao Cui, Yuqi Chen, Fazhen Zhang, Maolin Yuan, Han Xiao, Hao Li, Lu Ma, Xin Hu, Chao You
Summary: The systemic immune-inflammation index (SII) is a novel prognostic index highly associated with 90-day functional outcomes in patients with intracerebral hemorrhage (ICH), with day-1 SII being particularly predictive of poor outcomes.
FRONTIERS IN NEUROLOGY
(2021)
Article
Oncology
Jolene Chisholm, Sandor Haas-Neill, Peter Margetts, Khalid Al-Nedawi
Summary: Prostate cancer (PC) is a major cause of death in men, and current biomarker tests have limitations in accurately diagnosing the disease. This study examined the protein, mRNA, and miRNA content of extracellular vesicles (EVs) collected from PC patients and healthy subjects. The analysis revealed distinct groups of proteins, mRNAs, and miRNAs that differed between healthy subjects and PC patients, as well as between different tumor types. These findings suggest potential molecular markers for diagnosing PC.
FRONTIERS IN ONCOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Sofie Van Dorpe, Lien Lippens, Robin Boiy, Claudio Pinheiro, Glenn Vergauwen, Pekka Rappu, Ilkka Miinalainen, Philippe Tummers, Hannelore Denys, Olivier De Wever, An Hendrix
Summary: In this study, an automated liquid handling workstation was developed for the density-based separation of extracellular vesicles (EV) from human body fluids. The performance of the automated method was compared to manual handling by experienced or inexperienced researchers. The results showed that the automated EV separation method significantly reduced the variability in EV recovery and exhibited high reproducibility, specificity, and reduced hands-on time.
JOURNAL OF NANOBIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Ana Mencher, Miguel Mejias-Ortiz, Pilar Morales, Jordi Tronchoni, Ramon Gonzalez
Summary: Malolactic fermentation is crucial for the quality of red wines. This study reports the production and characterization of extracellular vesicles by Oenococcus oeni, a common bacteria involved in spontaneous malolactic fermentation. The findings contribute to the understanding of microbial interactions during wine fermentation.
Article
Biochemistry & Molecular Biology
Marco Marchisio, Pasquale Simeone, Giuseppina Bologna, Eva Ercolino, Laura Pierdomenico, Damiana Pieragostino, Alessia Ventrella, Francesca Antonini, Genny Del Zotto, Daniele Vergara, Christian Celia, Luisa Di Marzio, Piero Del Boccio, Antonella Fontana, Domenico Bosco, Sebastiano Miscia, Paola Lanuti
Summary: The study optimized a procedure using PFC to identify and separate circulating EVs from different cell origins, with the use of LCD staining being essential for PFC detection and sorting of EVs from fresh body fluids.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemical Research Methods
Rafaela Furioso Ferreira, Thomas Blees, Farhad Shakeri, Andreas Buness, Marc Sylvester, Giovanni Savoini, Alessandro Agazzi, Vladimir Mrljak, Helga Sauerwein
Summary: This study isolated exosomes from porcine milk in different lactation stages and analyzed their content using a TMT-based high-resolution quantitative proteomic approach. Different proteome profiles were revealed for colostrum exosomes and milk exosomes, with functional analysis highlighting pathways related to homeostasis in colostrum exosomes and pathways related to endothelial cell development and lipid metabolism in mature milk exosomes. These findings emphasize the importance of exosomes as active biocomponents of milk and provide insights for future studies on their role in immunity regulation and growth of newborns.
JOURNAL OF PROTEOMICS
(2021)
Article
Behavioral Sciences
Megan E. Huibregtse, Jeffrey J. Bazarian, Sandy R. Shultz, Keisuke Kawata
Summary: Blood biomarkers can provide objective measures in traumatic brain injury (TBI) assessment and predict recovery duration. Proteomic markers, often examined in research, have short half-lives due to degradation, while emerging biomarkers like microRNA and extracellular vesicles can better reflect the genetic and metabolic alterations following TBI.
NEUROSCIENCE AND BIOBEHAVIORAL REVIEWS
(2021)
Article
Biochemistry & Molecular Biology
Amber Rose Hart, Norhayati Liaqat Ali Khan, Keerthie Dissanayake, Kasun Godakumara, Aneta Andronowska, Saji Eapen, Paul R. Heath, Alireza Fazeli
Summary: Successful embryo implantation and endometrial receptivity require communication between the embryo and the maternal endometrium, which is facilitated by extracellular vehicles (EVs). This study investigated the influence of menstrual cycle hormones (estrogen, progesterone, and estrogen plus progesterone) on endometrial-derived EVs. The results showed that hormonal stimulation affected the size and proteome of EVs, with proteins involved in embryo implantation, endometrial receptivity, and embryo development being enhanced in the EVs from the receptive phase (estrogen plus progesterone). This supports the concept of EV-mediated communication between the embryo and the maternal endometrium.
Review
Biochemistry & Molecular Biology
Rui Miguel Marques Bernardino, Ricardo Leao, Rui Henrique, Luis Campos Pinheiro, Prashant Kumar, Prashanth Suravajhala, Hans Christian Beck, Ana Sofia Carvalho, Rune Matthiesen
Summary: The study explores possible strategies for urinary biomarker discovery, especially focused on proteome of urine EVs for PCa. Through reanalysis of proteomics data and network analysis, the findings suggest that urinary EVs may provide potential biomarkers with higher protein coverage compared to other sample sources and may fully characterize the heterogeneity of PCa.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemical Research Methods
Qinming Zhang, Hannah J. Loghry, Jingjing Qian, Michael J. Kimber, Liang Dong, Meng Lu
Summary: This paper introduces a unique exosome assay technology that combines magnetic nanoparticle-based exosome extraction and photonic crystal-based label-free exosome detection in a single vessel within one hour, with improved sensitivity and selectivity. The high specificity is achieved by functionalizing both nanoparticles and photonic crystals with specific antibodies, resulting in a low limit of detection and high enrichment factor for exosomes. The method is validated for analyzing membrane proteins of exosomes with high selectivity and sensitivity, showing great potential for exosome-based disease diagnostics.
Article
Biochemistry & Molecular Biology
Lorena Martin-Jaular, Nathalie Nevo, Julia P. Schessner, Mercedes Tkach, Mabel Jouve, Florent Dingli, Damarys Loew, Kenneth W. Witwer, Matias Ostrowski, Georg H. H. Borner, Clotilde Thery
Summary: This study developed a proteomic profiling approach to study EV subtype composition and identified changes in cellular protein profiles in EVs upon HIV infection. The research also found that SERINC3 plays a role in controlling the surface composition of EVs.
Article
Agriculture, Dairy & Animal Science
Seok Hee Lee, Saul Lira-Albarran, Islam M. Saadeldin
Summary: This study provides a comprehensive proteomic analysis of OC-EVs in dogs, revealing the involvement of these proteins in key cellular metabolic processes related to oocyte maturation and embryonic development. These findings offer valuable insights for understanding canine reproductive physiology and establishing an efficient in vitro embryo production system.
Article
Microbiology
Lei Zhang, Keming Zhang, Hang Li, Carolina Coelho, Diego de Souza Goncalves, Man Shun Fu, Xinhua Li, Ernesto S. Nakayasu, Young-Mo Kim, Wanqing Liao, Weihua Pan, Arturo Casadevall
Summary: The study showed that extracellular vesicles released by Cryptococcus-infected macrophages can reduce fungal burdens but lead to shorter survival in infected mice. These EVs also induce inflammatory responses in naive macrophages and activate immune-related pathways to combat C. neoformans.
Article
Oncology
Wei Dong, Zeyu Xia, Zehua Chai, Zhidong Qiu, Xuehong Wang, Zebin Yang, Junnan Wang, Tingrui Zhang, Qinqin Zhang, Junfei Jin
Summary: This study analyzed the proteomic signatures of small extracellular vesicles (sEVs) from plasma samples of hepatocellular carcinoma (HCC) patients. The complement cascade was found to be significantly involved in HCC progression, and four proteins (C1QB, C1QC, C4BPA, and C4BPB) were identified as potential molecular signatures in the plasma sEVs of HCC patients.
WORLD JOURNAL OF SURGICAL ONCOLOGY
(2022)
Article
Dentistry, Oral Surgery & Medicine
Alejandro Lorenzo-Pouso, Susana B. Bravo, Javier Carballo, Maria del Pilar Chantada-Vazquez, Jose Bagan, Leticia Bagan, Cintia M. Chamorro-Petronacci, Mercedes Conde-Amboage, Rafael Lopez-Lopez, Abel Garcia-Garcia, Mario Perez-Sayans
Summary: This study investigated the salivary proteome in MRONJ patients and identified differentially expressed proteins. Three prioritized proteins were identified, which may serve as a potential biomarker panel for the prediction or diagnosis of MRONJ.
Article
Biochemistry & Molecular Biology
Lucia Trilla-Fuertes, Angelo Gamez-Pozo, Guillermo Prado-Vazquez, Rocio Lopez-Vacas, Andrea Zapater-Moros, Elena Lopez-Camacho, Maria Lumbreras-Herrera, Virtudes Soriano, Fernando Garicano, Ma Jose Lecumberri, Maria Rodriguez de la Borbolla, Margarita Majem, Elisabeth Perez-Ruiz, Maria Gonzalez-Cao, Juana Oramas, Alejandra Magdaleno, Joaquin Fra, Alfonso Martin-Carnicero, Monica Corral, Teresa Puertolas, Ricardo Ramos, Juan Angel Fresno Vara, Enrique Espinosa
Summary: Immunotherapy based on anti-PD1 antibodies has improved outcomes in advanced melanoma, but predicting response to treatment remains a challenge. This study used probabilistic graphical models and classificatory algorithms to classify melanoma samples, and found that gene expression data can be grouped into immune and molecular layers of information. The immune layer classification was able to distinguish responders from non-responders to immunotherapy in a new cohort, indicating its potential as a useful tool for clinicians in identifying patients who will benefit from immunotherapy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Genetics & Heredity
Ahmed Ibrahem Hafez, Beatriz Soriano, Aya Allah Elsayed, Ricardo Futami, Raquel Ceprian, Ricardo Ramos-Ruiz, Genis Martinez, Francisco Jose Roig, Miguel Angel Torres-Font, Fernando Naya-Catala, Josep Alvar Calduch-Giner, Lucia Trilla-Fuertes, Angelo Gamez-Pozo, Vicente Arnau, Jose Maria Sempere-Luna, Jaume Perez-Sanchez, Toni Gabaldon, Carlos Llorens
Summary: The GPRO suite is an ongoing bioinformatic project for the analysis of -omics data. It introduces a client- and server-side solution for comparative transcriptomics and variant analysis. The client-side includes two Java applications, RNASeq and VariantSeq, which manage pipelines and workflows using common command line tools. The server-side, named GPRO Server-Side, hosts all dependencies and requires a Linux operating system, PHP, SQL, Python, bash scripting, and third-party software. The solution offers both desktop and web applications, with step-by-step and pipeline modes for execution. It also features an experimental support system called GENIE, with a chatbot assistant and expert system for troubleshooting and recommendations.
Article
Medicine, General & Internal
Jesus Miranda-Poma, Lucia Trilla-Fuertes, Rocio Lopez-Vacas, Elena Lopez-Camacho, Eugenia Garcia-Fernandez, Ana Pertejo, Maria Lumbreras-Herrera, Andrea Zapater-Moros, Mariana Diaz-Almiron, Antje Dittmann, Juan Angel Fresno Vara, Enrique Espinosa, Pilar Gonzalez-Peramato, Alvaro Pinto-Marin, Angelo Gamez-Pozo
Summary: This study aimed to explore the tumor proteome of patients diagnosed with localized clear cell renal cancer (ccRCC) and treated with surgery. A total of 165 FFPE tumor samples were analyzed, leading to the identification and quantification of 3091 proteins. Two proteomics subtypes of ccRCC (CC1 and CC2) were identified, each characterized by specific protein expression patterns and functional features. The knowledge gained from this study could potentially aid in the development of new drugs targeting subtype-specific deregulated pathways.
JOURNAL OF CLINICAL MEDICINE
(2023)
Article
Biochemistry & Molecular Biology
Eloi Franco-Trepat, Ana Alonso-Perez, Maria Guillan-Fresco, Miriam Lopez-Fagundez, Andres Pazos-Perez, Antia Crespo-Golmar, Susana Belen Bravo, Veronica Lopez-Lopez, Alberto Jorge-Mora, Jose P. Ceron-Carrasco, Ana Lois Iglesias, Rodolfo Gomez
Summary: Osteoarthritis is a progressive rheumatic disease characterized by joint inflammation and degradation. The compound beta boswellic acid (BBA) has shown potential in reducing cartilage loss by inhibiting TLR4 and IL1R signaling in OA joint cells. This study presents solid evidence of BBA's therapeutic properties, suggesting its potential as a treatment for OA after further clinical evaluations.
Article
Biochemistry & Molecular Biology
Victoria Heredia-Soto, Laura Gutierrez-Sainz, Ismael Ghanem, Laura Guerra, Elena Palacios, Marta de Uribe, Lucia Trilla-Fuertes, Maria de Miguel, Paloma Cejas, Laura Medina, Jose Miguel Calderon, David Vinal, Marta Mendiola, Jaime Feliu
Summary: This study aimed to determine the clinical utility of GATA4 and GATA6 expression determined by immunohistochemistry (IHC) in resected pancreatic ductal adenocarcinoma (PDAC) patients. The results showed that the expression of GATA4 and GATA6 was related to clinicopathologic variables and prognosis. GATA6 expression was associated with the classic molecular subtype, while its absence was related to the basal-like molecular subtype. The determination of GATA4 and GATA6 expression by IHC is feasible and can provide complementary clinical and prognostic information to improve the stratification of PDAC patients.
Article
Oncology
Lucia Trilla-Fuertes, Angelo Gamez-Pozo, Miguel Nogue, Isabel Busquier, Fernando Arias, Fernando Lopez-Campos, Ana Fernandez-Montes, Ana Ruiz, Concepcion Velazquez, Celia Martin-Bravo, Elisabeth Perez-Ruiz, Elena Asensio, Xavier Hernandez-Yague, Aline Rodrigues, Ismael Ghanem, Rocio Lopez-Vacas, Ahmed Hafez, Pedro Arias, Irene Dapia, Mario Solis, Antje Dittmann, Ricardo Ramos, Carlos Llorens, Joan Maurel, Angel Campos-Barros, Juan Angel Fresno Vara, Jaime Feliu
Summary: This study aimed to identify biomarkers for personalized treatments and improvement of therapeutic outcomes in anal squamous cell carcinoma (ASCC). The researchers analyzed tumor samples from ASCC patients through whole-exome sequencing and identified genes associated with disease-free survival. The presence of duplications in the CYP2D6 gene was found to be a biomarker of worse disease-free survival. Proteomics analysis also suggested mitochondria and mitochondrial cell-cycle genes as potential therapeutic targets.
Article
Multidisciplinary Sciences
Jorge Ucles, Emilio Cuesta, Ricardo Rigual, Jorge Rodriguez-Pardo, Gerardo Ruiz-Ares, Pedro Navia, Andres Fernandez-Prieto, Alberto Alvarez-Muelas, Maria Alonso de Lecinana, Blanca Fuentes
Summary: This study compared the predictive value of neck CTA source images and conventional chest CT to rule out SARS-CoV-2 lung infection. The results showed that neck CTA accurately identified COVID-19-associated lung abnormalities in acute stroke patients. Mobile applications for CO-RADS evaluations had a predictive value similar to traditional platforms.
Article
Oncology
Elena Lopez-Camacho, Guillermo Prado-Vazquez, Daniel Martinez-Perez, Maria Ferrer-Gomez, Sara Llorente-Armijo, Rocio Lopez-Vacas, Mariana Diaz-Almiron, Angelo Gamez-Pozo, Juan Angel Fresno Vara, Jaime Feliu, Lucia Trilla-Fuertes
Summary: This study aimed to deepen the molecular characterization of colorectal cancer (CRC) using a novel analysis approach. Three layers of information were identified: adhesion, immune, and molecular. The molecular layer divided CRC into stem cell, Wnt, metabolic, and extracellular groups, suggesting possible therapeutic targets. Immune-high patients may benefit from immunotherapy and viral mimicry-related therapies.
Article
Immunology
Gabriel Torres Iglesias, Mireya Fernandez-Fournier, Lucia Botella, Dolores Piniella, Fernando Laso-Garcia, Mari Carmen Gomez-de Frutos, Beatriz Chamorro, Inmaculada Puertas, Antonio Tallon Barranco, Blanca Fuentes, Maria Alonso de Lecinana, Elisa Alonso-Lopez, Susana B. Bravo, Maria Eugenia Miranda-Carus, Ana Montero-Calle, Rodrigo Barderas, Exuperio Diez-Tejedor, Maria Gutierrez-Fernandez, Laura Otero-Ortega
Summary: Blood extracellular vesicles (EVs) derived from T cells and neurons have been identified as specific biomarkers in multiple sclerosis (MS). Proteomic analysis revealed MS-associated proteins in these EVs, which correlated with disease activity.
BRAIN BEHAVIOR AND IMMUNITY
(2023)
Article
Oncology
Lucia Trilla-Fuertes, Angelo Gamez-Pozo, Guillermo Prado-Vazquez, Rocio Lopez-Vacas, Virtudes Soriano, Fernando Garicano, M. Jose Lecumberri, Maria Rodriguez de la Borbolla, Margarita Majem, Elisabeth Perez-Ruiz, Maria Gonzalez-Cao, Juana Oramas, Alejandra Magdaleno, Joaquin Fra, Alfonso Martin-Carnicero, Monica Corral, Teresa Puertolas, Ricardo Ramos-Ruiz, Antje Dittmann, Paolo Nanni, Juan Angel Fresno Vara, Enrique Espinosa
Summary: Immunotherapy has improved survival in advanced melanoma patients, but not all patients respond to this treatment. This study analyzed clinical samples from melanoma patients treated with immunotherapy and identified proteins involved in protein processing, antigen presentation, immune, and inflammatory responses that play a role in the response to immunotherapy. A prognostic signature was also established to predict the response to immunotherapy.
Article
Oncology
Daniel Martinez-Perez, David Vinal, Jesus Pena-Lopez, Diego Jimenez-Bou, Iciar Ruiz-Gutierrez, Sergio Martinez-Recio, Maria Alameda-Guijarro, Antonio Rueda-Lara, Gema Martin-Montalvo, Ismael Ghanem, Ana Belen Custodio, Lucia Trilla-Fuertes, Angelo Gamez-Pozo, Antonio Barbachano, Javier Rodriguez-Cobos, Pilar Bustamante-Madrid, Asuncion Fernandez-Barral, Aurora Burgos, Maria Isabel Prieto-Nieto, Laura Guerra Pastrian, Jose Manuel Gonzalez-Sancho, Alberto Munoz, Jaime Feliu, Nuria Rodriguez-Salas
Summary: The rising incidence of colorectal cancer (CRC) among young patients is alarming. This study included all patients with pathologically confirmed diagnoses of CRC at Hospital Universitario La Paz from October 2016 to December 2021. Among the 1475 CRC patients, 80 (5.4%) had early-onset CRC (EOCRC). EOCRC had more aggressive pathological features and higher prevalence of certain characteristics compared to later-onset CRC. Metastatic EOCRC patients had significantly longer overall survival (OS) than the older cohort. More patients with COVID-19 were diagnosed with metastatic disease after the lockdown.