Article
Nanoscience & Nanotechnology
Pablo Martin-Baniandres, Wei-Hsuan Lan, Stephanie Board, Mercedes Romero-Ruiz, Sergi Garcia-Manyes, Yujia Qing, Hagan Bayley
Summary: Electro-osmosis in an anion-selective alpha-hemolysin nanopore is utilized for capturing, unfolding, and transporting polypeptides with more than 1,200 residues. By monitoring the ionic current at a single-molecule resolution, this method enables the mapping of post-translational modifications in polypeptide chains. The application of nanopore technology holds potential for identifying full-length proteoforms.
NATURE NANOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Mar Perez-Ruiz, Mar Pulido-Cid, Juan Roman Luque-Ortega, Jose Maria Valpuesta, Ana Cuervo, Jose L. Carrascosa
Summary: The passage of viral DNA in bacteriophage T7 involves the assembly of core proteins gp15 and gp16 into a tube structure within the periplasm, allowing DNA transfer. The interaction between these proteins results in the formation of a channel for DNA translocation and also involves a transglycosylase motif for peptidoglycan layer degradation. This complex matches the structure of the phage tail and proposes a model for the assembly of the core translocation complex, elucidating the molecular mechanism of T7 viral DNA release into the bacterial cytoplasm.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Cell Biology
Ahmed Mohamed, Helena Chan, Johana Luhur, Elda Bauda, Benoit Gallet, Cecile Morlot, Louise Cole, Milena Awad, Simon Crawford, Dena Lyras, David Z. Rudner, Christopher D. A. Rodrigues
Summary: Asymmetric cell division plays a crucial role in bacterial spore development, with research revealing the connection between chromosome translocation and septal peptidoglycan remodeling. Lack of specific factors leads to asymmetric septum retraction, affecting forespore development.
DEVELOPMENTAL CELL
(2021)
Article
Endocrinology & Metabolism
Dekai Zheng, Huimin Liao, Shuze Chen, Xiuying Liu, Chuyin Mao, Cangui Zhang, Min Meng, Zhi Wang, Ying Wang, Qinrui Jiang, Yaoming Xue, Lin Zhou, Ye Chen
Summary: Studies have found that patients with initial GD exhibit a disrupted intestinal barrier, characterized by elevated levels of leaky gut biomarkers. Increased intestinal permeability and bacterial translocation are associated with TRAb levels and hyperthyroidism in GD.
FRONTIERS IN ENDOCRINOLOGY
(2021)
Article
Multidisciplinary Sciences
Han Wang, Guojun Chen, Hongbin Li
Summary: The folding of the RTX block-iv in adenylate cyclase is templated by the folded RTX block-v, which allows rapid folding and significant mutual stabilization. This finding provides insights into the mechanism of transmitting the folding signal within the RTX domain.
NATURE COMMUNICATIONS
(2022)
Review
Biochemistry & Molecular Biology
Kangwen Xu, Long Lin, Danyu Shen, Shan-Ho Chou, Guoliang Qian
Summary: The review summarizes the mechanisms through which Clp, a CRP-like protein, initiates a mobile-attack strategy in Lysobacter enzymogenes against fungal pathogens, including binding to DNA in a unique pattern, interacting directly with small molecules or responding to them, and specific interactions with proteins adopting distinct structures.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Gastroenterology & Hepatology
Benedikt Simbrunner, Esther Caparros, Teresa Neuwirth, Philipp Schwabl, Philipp Koenigshofer, David Bauer, Rodrig Marculescu, Michael Trauner, Bernhard Scheiner, Georg Stary, Mattias Mandorfer, Thomas Reiberger, Ruben Frances
Summary: In patients with advanced chronic liver disease (ACLD), bacterial translocation (BT) leads to systemic inflammation and circulatory dysfunction, but there is no clear correlation between BT markers and portal hypertension and circulatory dysfunction.
HEPATOLOGY INTERNATIONAL
(2023)
Article
Biochemistry & Molecular Biology
Rebecca K. Lau, Eray Enustun, Yajie Gu, Justin Nguyen, Kevin D. Corbett
Summary: Bacteria have evolved diverse immune systems to protect themselves from phage infection. Researchers have discovered a transcriptional regulator module associated with hundreds of CBASS immune systems and demonstrated its role in driving the expression of the CBASS system in response to DNA damage. This finding highlights a mechanism by which bacterial immune systems can sense and respond to cellular stress.
Article
Cell Biology
Songhai Tian, Yang Liu, Evan Appleton, Huan Wang, George M. Church, Min Dong
Summary: In this study, protein-based delivery systems were developed using detoxified single-chain bacterial toxins as carriers. These systems can deliver large protein cargoes into specific cells in a receptor-dependent manner. Delivery of Cas13a, CasRx, Cas9, and Cre recombinase had different effects on gene expression in various cell lines.
Article
Biochemical Research Methods
Leo A. Baumgart, Ji Eun Lee, Asaf Salamov, David J. Dilworth, Hyunsoo Na, Matthew Mingay, Matthew J. Blow, Yu Zhang, Yuko Yoshinaga, Chris G. Daum, Ronan C. O'Malley
Summary: This study presents a high-throughput method for characterizing TF-target gene interactions across species, revealing themes of ancient conservation and rapid evolution of regulatory modules, as well as identifying new TF DNA binding motifs.
Article
Biochemistry & Molecular Biology
Avigail Stokar-Avihail, Taya Fedorenko, Jens Hor, Jeremy Garb, Azita Leavitt, Adi Millman, Gabriela Shulman, Nicole Wojtania, Sarah Melamed, Gil Amitai, Rotem Sorek
Summary: In recent years, various defense systems against phages have been found in bacteria. However, the mechanism of how these systems sense phage infection remains unknown. To address this question, the researchers isolated 177 phage mutants that can evade 15 different defense systems. These mutants were found to have mutations in the gene sensed by the defense system, providing insights into the determinants of phage sensitivity. The study identifies specific determinants of different retron systems and reveals phage-encoded triggers for abortive infection systems, shedding light on how bacterial immune systems sense phage invaders.
Article
Chemistry, Multidisciplinary
Liqun He, Martin Charron, Philipp Mensing, Kyle Briggs, Jonathan Adams, Hendrick de Haan, Vincent Tabard-Cossa
Summary: DNA nanostructures can be characterized by solid-state nanopores, providing information on their geometrical dimensions, mechanical properties, assembly yield, and stability.
Article
Biochemistry & Molecular Biology
Mathew Stracy, Jakob Schweizer, David J. Sherratt, Achillefs N. Kapanidis, Stephan Uphoff, Christian Lesterlin
Summary: Despite diverse biochemical characteristics and functions, all DNA-binding proteins share the ability to accurately locate target sites, with their mobility during the search being dictated by DNA interactions rather than by molecular weights. While the nucleoid does not physically block protein diffusion, it does significantly slow down protein motion through frequent short-lived DNA interactions. Represenative DNA-binding proteins spend majority of search time bound to DNA, potentially due to chromosome crowding impacting their function.
Article
Multidisciplinary Sciences
Vadim Molodtsov, Chengyuan Wang, Emre Firlar, Jason T. T. Kaelber, Richard H. H. Ebright
Summary: This study reports the preparation and cryogenic electron microscopy structures of functional complexes involved in factor-dependent transcription termination from a ring-shaped hexameric ATP-dependent molecular motor called Rho. The structures reveal the mechanism of Rho-mediated transcription termination and its interaction with other factors. This research has significant implications in understanding the function of Rho in transcription and translation coupling.
Article
Microbiology
Wenyue Hu, Yuli Wang, Bingxu Yang, Chen Lin, Hao Yu, Guang Liu, Zixin Deng, Hong-Yu Ou, Xinyi He
Summary: SRAP is an ancient protein superfamily found in various domains of life. YedK has a high affinity to DNA duplex with single strand segments. Mutants of YedK in Escherichia coli do not show differences in response to UV and DNA damaging reagents, indicating its non-essentiality or redundancy in E. coli.
MICROBIOLOGICAL RESEARCH
(2021)
Article
Surgery
N. Lluis, J. Parra, C. Villodre, P. Zapater, A. Jalali, M. Canto, L. Mena, J. M. Ramia, F. Lluis
Summary: In order to predict complicated appendicitis preoperatively, this study proposes a complementary approach by selecting the intraoperative finding of peritoneal soiling as an endpoint. By performing multivariable logistic regression analysis, clinical and laboratory variables associated with peritoneal soiling were identified. Based on these variables, prediction models were developed to predict peritoneal soiling in patients with acute appendicitis.
INTERNATIONAL JOURNAL OF SURGERY
(2022)
Article
Gastroenterology & Hepatology
Marika Rudler, Virginia Hernandez-Gea, Bogdan Dumitru Procopet, Alvaro Giraldez, Lucio Amitrano, Candid Villanueva, Luis Ibanez, Gilberto Silva-Junior, Joan Genesca, Christophe Bureau, Jonel Trebicka, Rafael Banares, Aleksander Krag, Elba Llop, Wim Laleman, Jose Maria Palazon, Jose Castellote, Susana Rodrigues, Lise Lotte Gluud, Carlos Noronha Ferreira, Nouria Canete, Manuel Rodriguez, Arnulf Ferlitsch, Jose Luis Mundi, Henning Gronbaek, Manuel Hernandez-Guerra, Romano Sassatelli, Alessandra Dell'era, Marco Senzolo, Juan G. Abraldes, Manuel Romero-Gomez, Alexander Zipprich, Meritxell Casas, Helena Masnou, Helene Larrue, Massimo Primignani, Frederik Nevens, Jose Luis Calleja, Remy Schwarzer, Christian Jansen, Marie-Angele Robic, Irene Conejo, Javier Martinez Gonzalez, Maria Vega Catalina, Agustin Albillos, Edilmar Alvarado, Maria Anna Guardascione, Maxime Mallet, Simona Tripon, Georgina Casanovas, Jaume Bosch, Juan-Carlos Garcia-Pagan, Dominique Thabut
Summary: pTIPS is more effective in improving survival compared to endoscopic treatment for high-risk patients with cirrhosis and variceal bleeding. HE at admission does not affect the efficacy of pTIPS.
Article
Gastroenterology & Hepatology
Jiri Reinis, Oleksandr Petrenko, Benedikt Simbrunner, Benedikt S. Hofer, Filippo Schepis, Marco Scoppettuolo, Dario Saltini, Federica Indulti, Tomas Guasconi, Agustin Albillos, Luis Tellez, Candid Villanueva, Anna Brujats, Juan Carlos Garcia-Pagan, Valeria Perez-Campuzano, Virginia Hernandez-Gea, Pierre-Emmanuel Rautou, Lucile Moga, Thomas Vanwolleghem, Wihelmus J. Kwanten, Sven Francque, Jonel Trebicka, Wenyi Gu, Philip G. Ferstl, Lise Lotte Gluud, Flemming Bendtsen, Soren Moller, Stefan Kubicek, Mattias Mandorfer, Thomas Reiberger
Summary: Machine learning models based on standard laboratory parameters can predict the severity of portal hypertension in individuals with compensated advanced chronic liver disease (cACLD). The models performed well in the Vienna cohort but had heterogeneous results in external validation.
JOURNAL OF HEPATOLOGY
(2023)
Article
Gastroenterology & Hepatology
Anna Baiges, Bogdan Procopet, Gilberto Silva-Junior, Elba Llop, Luis Tellez, Anna Darnell, Angeles Garcia-Criado, Fanny Turon, Oana Nicoara-Farcau, Carlos Gonzalez-Alayon, Helene Larrue, Marta Magaz, Pol Olivas, Valeria Perez-Campuzano, Jose Luis Calleja, Agustin Albillos, Juan Carlos Reverter, Christophe Bureau, Jaime Bosch, Virginia Hernandez-Gea, Juan Carlos Garcia-Pagan
Summary: The aim of this study was to describe the incidence of recurrent thrombosis (RT) in patients with non-cirrhotic splanchnic vein thrombosis (NC-SVT) and identify its risk factors. The study found that the risk of RT in NC-SVT patients without an indication for long-term anticoagulation is not low. Furthermore, factor VIII level may be a key indicator for predicting RT.
JOURNAL OF HEPATOLOGY
(2023)
Letter
Gastroenterology & Hepatology
Marika Rudler, Virginia Hernandez-Gea, Dominique Thabut, Juan-Carlos Garcia-Pagan
ALIMENTARY PHARMACOLOGY & THERAPEUTICS
(2023)
Article
Oncology
Dongjie Wang, Wen Li, Natalie Albasha, Lindsey Griffin, Han Chang, Lauren Amaya, Sneha Ganguly, Liping Zeng, Bora Keum, Jose M. Gonzalez-Navajas, Matt Levin, Zohreh AkhavanAghdam, Helen Snyder, David Schwartz, Ailin Tao, Laela M. Boosherhri, Hal M. Hoffman, Michael Rose, Monica Valeria Estrada, Nissi Varki, Scott Herdman, Maripat Corr, Nicholas J. G. Webster, Eyal Raz, Samuel Bertin
Summary: Long-term exposure to house dust mites can accelerate lung tumorigenesis in susceptible hosts, such as individuals exposed to lung carcinogens or genetically predisposed to develop lung cancer.
JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH
(2023)
Letter
Gastroenterology & Hepatology
Anna Baiges, Joan Carles Reverter, Joan Carles Garcia Pagan
JOURNAL OF HEPATOLOGY
(2023)
Review
Radiology, Nuclear Medicine & Medical Imaging
Hector Ferral, Filippo Schepis, Ron C. Gaba, Guadalupe Garcia-Tsao, Alberto Zanetto, Valeria Perez-Campuzano, Ziv J. Haskal, Juan Carlos Garcia-Pagan
Summary: The hepatic venous pressure gradient (HVPG) is considered the gold standard for assessing portal hypertension in cirrhosis patients. Accurate and reproducible results are important for risk stratification, treatment allocation, follow-up monitoring, and surgical management decisions. The use of portosystemic pressure gradients in patients undergoing transjugular intrahepatic portosystemic shunts has been extensively studied and influences decisions regarding shunt diameter.
JOURNAL OF VASCULAR AND INTERVENTIONAL RADIOLOGY
(2023)
Article
Gastroenterology & Hepatology
Ian Rowe, Candid E. Villanueva, Jessica Shearer, Ferran Torres, Agustin Albillos, Joan C. Genesca, Joan Garcia-Pagan, Dhiraj C. Tripathi, Peter Hayes, Jaume G. Bosch, Juan Abraldes
Summary: This study conducted a Bayesian reanalysis of PREDESCI and found that beta-blocker treatment is highly likely to prevent decompensation and provides a substantial gain in decompensation-free life years at the population level.
Article
Gastroenterology & Hepatology
Benedikt Simbrunner, Esther Caparros, Teresa Neuwirth, Philipp Schwabl, Philipp Koenigshofer, David Bauer, Rodrig Marculescu, Michael Trauner, Bernhard Scheiner, Georg Stary, Mattias Mandorfer, Thomas Reiberger, Ruben Frances
Summary: In patients with advanced chronic liver disease (ACLD), bacterial translocation (BT) leads to systemic inflammation and circulatory dysfunction, but there is no clear correlation between BT markers and portal hypertension and circulatory dysfunction.
HEPATOLOGY INTERNATIONAL
(2023)
Article
Surgery
Nuria Lluis, Silvia Carbonell, Celia Villodre, Pedro Zapater, Miguel Canto, Luis Mena, Jose M. Ramia, Felix Lluis
Summary: Previous studies have shown that laparoscopic surgery can improve postoperative outcomes in patients with acute appendicitis, acute cholecystitis, perforated gastroduodenal ulcer, or acute diverticulitis. However, there are conflicting results and differences in the magnitude of improvement. This multicentre study using propensity score matching found that laparoscopic surgery can reduce hospital stays and decrease 30-day morbidity and mortality rates in patients with acute appendicitis, acute cholecystitis, and gastrointestinal tract perforation.
INTERNATIONAL JOURNAL OF SURGERY
(2023)
Article
Gastroenterology & Hepatology
Angels Escorsell, Juan C. Garcia-Pagan, Edilmar Alvarado-Tapia, Carles Aracil, Helena Masnou, Candid Villanueva, Jaume Bosch
Summary: This study investigates the efficacy of pre-emptive TIPS (pTIPS) in patients with bleeding from gastric fundal varices. The results show that pTIPS can significantly improve the rebleeding-free survival in these patients compared to standard therapy. Therefore, the use of pTIPS should be considered in patients with Child-Pugh B or C scores bleeding from gastric fundal varices.
Article
Gastroenterology & Hepatology
Genis Camprecios, Aina Anton, Anna Oncins, Carla Montironi, Maria Ruart, Rosa Montanes, Hector Garcia-Caldero, Joan Carles Garcia-Pagan, Virginia Hernandez-Gea
Summary: Liver sinusoidal endothelial cells (LSEC) are key elements in regulating the liver response to injury and regeneration. Endothelial autophagy plays a crucial role in protecting cells from injury-induced oxidative stress and fibrosis. However, this study found that endothelial autophagy is not essential for liver regeneration after partial hepatectomy (PHx).
LIVER INTERNATIONAL
(2023)
Letter
Hematology
Ellen G. Driever, Annabel Blasi, Juan-Carlos Garcia-Pagan, Ton Lisman
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2023)
Meeting Abstract
Gastroenterology & Hepatology
Oana Maria Nicoara-Farcau, Juan Jose Lozano, Julia Sidorova, Candido Villanueva Sanchez, Agustin Albillos, Joan Genesca, Jose Luis Calleja, Carles Aracil, Rafael Banares, Rosa Maria Morillas, Maria Poca Sans, Beatriz Penas, Salvador Augustin, Valeria Perez-Campuzano, Virginia Hernandez-Gea, Juan G. Abraldes, Edilmar Alvarado Tapias, Ferran Torres, Jaime Bosch, Juan Carlos Garcia-Pagan