Article
Biochemistry & Molecular Biology
Caroline Barbe, Jerome Salles, Christophe Chambon, Christophe Giraudet, Phelipe Sanchez, Veronique Patrac, Philippe Denis, Yves Boirie, Stephane Walrand, Marine Gueugneau
Summary: This study analyzed the proteome of undernourished aged skeletal muscle and found that undernutrition has profound effects on the muscle at a cellular and molecular level, which may vary depending on the muscle type.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biology
Jeffrey Molendijk, Ronnie Blazev, Richard J. Mills, Yaan-Kit Ng, Kevin Watt, Daryn Chau, Paul Gregorevic, Peter J. Crouch, James B. W. Hilton, Leszek Lisowski, Peixiang Zhang, Karen Reue, Aldons J. Lusis, James E. Hudson, David E. James, Marcus M. Seldin, Benjamin L. Parker
Summary: By conducting proteomic analysis and correlation network analysis, multiple regulators of muscle function were identified, providing new insights for improving muscle function.
Article
Chemistry, Multidisciplinary
Serhii Holovach, Kostiantyn P. Melnykov, Illia Poroshyn, Rustam T. Iminov, Dmytro Dudenko, Ivan Kondratov, Mark Levin, Oleksandr O. Grygorenko
Summary: A protocol for parallel C(sp(3))-C(sp(3)) coupling based on a reductive amination-nitrogen deletion reaction sequence has been developed. A compound library of 25 members was prepared with 76% synthetic efficiency after preliminary validation experiments. The proposed approach provides access to a chemical space of nearly 600,000 representatives that are underrepresented in current compound databases.
CHEMISTRY-A EUROPEAN JOURNAL
(2023)
Editorial Material
Chemistry, Multidisciplinary
Serhii Holovach, Kostiantyn P. Melnykov, Illia Poroshyn, Rustam T. Iminov, Dmytro Dudenko, Ivan Kondratov, Mark Levin, Oleksandr O. Grygorenko
Summary: The cover of this issue features Oleksandr Grygorenko and his Ukrainian colleagues from Enamine Ltd., Taras Shevchenko National University of Kyiv, National Academy of Sciences of Ukraine, and ChemSpace, as well as Mark Levin from the University of Chicago. The image shows the application of a nitrogen-deleting anomeric amide to parallel C(sp(3))-C(sp(3)) coupling.
CHEMISTRY-A EUROPEAN JOURNAL
(2023)
Article
Physiology
Abel M. Mengeste, Natasa Nikolic, Andrea Dalmao Fernandez, Yuan Z. Feng, Tuula A. Nyman, Sander Kersten, Fred Haugen, Eili Tranheim Kase, Vigdis Aas, Arild C. Rustan, G. Hege Thoresen
Summary: This study used electrical pulse stimulation to investigate the metabolic effects of exercise in human skeletal muscle cells. The results showed enhanced oxidative metabolism in young male subjects. Analysis of the transcriptome, proteome, and secreted proteins revealed regulatory molecules and signaling pathways associated with glycolytic pathways, fatty acid oxidation, and muscle contraction. These findings provide valuable insights into the molecular mechanisms and beneficial metabolic effects of exercise.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Food Science & Technology
Welder Baldassini, Mohammed Gagaoua, Bismarck Santiago, Leone Rocha, Juliana Torrecilhas, Rodrigo Torres, Rogerio Curi, Otavio Machado Neto, Pedro Padilha, Felipe Santos, Dante Pazzanese Lanna, Luis Artur Chardulo
Summary: This study evaluated the impact of feeding wet distiller grains (WDG) on meat quality and protein expression in beef cattle. The results showed that WDG-fed cattle had larger ribeye area and higher carcass weight compared to the control group, while intramuscular fat content decreased. Proteomic analysis revealed significant changes in protein expression and various biological processes and pathways. However, WDG supplementation did not compromise meat tenderness and fatty acid profile.
Article
Biochemistry & Molecular Biology
Martina Baraldo, Leonardo Nogara, Georgia Ana Dumitras, Achille Homere Tchampda Dondjang, Alessia Geremia, Marco Scalabrin, Clara Turk, Frederik Telkamp, Lorena Zentilin, Mauro Giacca, Marcus Kruger, Bert Blaauw
Summary: Loss of Raptor diminishes muscle hypertrophy and force increase after Akt activation, indicating mTORC1 as the key mediator of Akt-dependent muscle growth regulating the mitochondrial proteome critical for enhancing muscle force.
Article
Biology
Morten Hostrup, Anders Krogh Lemminger, Ben Stocks, Alba Gonzalez-Franquesa, Jeppe Kjaergaard Larsen, Julia Prats Quesada, Martin Thomassen, Brian Tate Weinert, Jens Bangsbo, Atul Shahaji Deshmukh, David E. James
Summary: Exercise is effective in preventing and treating metabolic diseases. High-intensity interval training (HIIT) can induce changes in the proteome and acetylome of human skeletal muscle, leading to metabolic adaptations. Furthermore, HIIT increases the acetylation of mitochondrial proteins.
Article
Chemistry, Multidisciplinary
Ayano Kato, Iori Sakakibara, Taku Fukushima, Kosuke Sugiura, Tomoya Fukawa, Takeshi Nikawa, Takayuki Uchida
Summary: This study analyzed the effect of different glucose concentrations on protein expression in muscle cells and found that low and medium glucose concentrations can enhance glucose utilization and induce myosin expression.
APPLIED SCIENCES-BASEL
(2022)
Article
Biochemistry & Molecular Biology
Macsue Jacques, Shanie Landen, Javier Alvarez Romero, Danielle Hiam, Ralf B. Schittenhelm, Iresha Hanchapola, Anup D. Shah, Sarah Voisin, Nir Eynon
Summary: Exercise has significant effects on both the epigenome and proteome in human muscle. A 12-week high-intensity interval training intervention was conducted on 16 healthy moderately trained males, and muscle biopsies were collected at baseline and after 4, 8, and 12 weeks. The study found significant changes in proteins and DNA methylation levels, with some proteins consistently changed across individuals and the discovery of two novel exercise-related proteins. These findings contribute to a better understanding of the impact of exercise on the human body.
Article
Agriculture, Multidisciplinary
Qi Zheng, Rong-cui Hu, Cui-yun Zhu, Jing Jing, Meng-yu Lou, Si-huan Zhang, Shuang Li, Hong-guo Cao, Xiao-rong Zhang, Ying-hui Ling
Summary: This study characterized the changes in proteomic and transcriptomic expression profiles during the transition from skeletal muscle satellite cells (SSCs) to myotube formation. Potential molecular mechanisms and signaling pathways involved in this transition were identified, and the roles of specific proteins such as SLMAP, STOM, SVIL, AQP1, and SERPINE1 were highlighted. These findings enhance our understanding of myotube formation during early development and repair.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2023)
Article
Cell Biology
Seongkyun Lim, David E. Lee, Francielly Morena da Silva, Pieter J. Koopmans, Ivan J. Vechetti Jr, Ferdinand von Walden, Nicholas P. Greene, Kevin A. Murach
Summary: MicroRNA-16 (miR-16) plays a crucial role in stem cell biology and fate. It is lowly expressed in muscle during developmental hypertrophy and regeneration, and its inhibition enhances myoblast differentiation and myotube formation. Global transcriptomic and proteomic analyses revealed that miR-16 knockdown affects ribosomal protein gene expression, p53 pathway-related gene abundance, and regulation of tricarboxylic acid (TCA) cycle proteins and RNA metabolism-related proteins. miR-16 inhibition also induces specific proteins associated with myogenic differentiation. Overall, miR-16 is involved in myogenic cell differentiation.
AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY
(2023)
Article
Neurosciences
Elisabetta Indelicato, Klaus Faserl, Matthias Amprosi, Wolfgang Nachbauer, Rainer Schneider, Julia Wanschitz, Bettina Sarg, Sylvia Boesch
Summary: This study used proteomics analysis to compare muscle samples from FRDA patients and controls, and found significant differences in mitochondrial protein profiles and metabolic pathways. These findings have important implications for the design of future therapeutic strategies.
FRONTIERS IN NEUROSCIENCE
(2023)
Article
Neurosciences
Kyle J. Burghardt, Griffin Calme, Michael Caruso, Bradley H. Howlett, Elani Sanders, Zaher Msallaty, Abdullah Mallisho, Berhane Seyoum, Yue A. Qi, Xiangmin Zhang, Zhengping Yi
Summary: This study aimed to measure protein abundance in the skeletal muscle of patients on long-term treatment with atypical antipsychotics (AAP) or mood stabilizers. Significant differences in proteomic profiles were identified between the AAP group and the mood stabilizer group, suggesting that proteinomic characteristics may be associated with the metabolic side effects caused by these medications.
Article
Geriatrics & Gerontology
Marta Murgia, Lorenza Brocca, Elena Monti, Martino V. V. Franchi, Maximilian Zwiebel, Sophia Steigerwald, Emiliana Giacomello, Roberta Sartori, Sandra Zampieri, Giovanni Capovilla, Mladen Gasparini, Gianni Biolo, Marco Sandri, Matthias Mann, Marco V. V. Narici
Summary: This study used mass spectrometry-based proteomics to analyze the changes in plasma protein abundance after 10 days of bed rest. The results showed that inactivity affected the concentration of complement cascade proteins, lipid carriers, and proteins derived from tissue leakage. Additionally, the study identified several proteins that could potentially serve as biomarkers to distinguish individuals prone to muscle atrophy from those resistant to it.
JOURNAL OF CACHEXIA SARCOPENIA AND MUSCLE
(2023)
Article
Multidisciplinary Sciences
Reiko Uenoyama, Tamako Miyazaki, Jane L. Hurst, Robert J. Beynon, Masaatsu Adachi, Takanobu Murooka, Ibuki Onoda, Yu Miyazawa, Rieko Katayama, Tetsuro Yamashita, Shuji Kaneko, Toshio Nishikawa, Masao Miyazaki
Summary: Domestic cats and other felids exhibit a characteristic response by rubbing their faces and heads against catnip and silver vine, which is triggered by the iridoid nepetalactol. This behavior transfers nepetalactol onto their faces and heads, repelling mosquitoes, and increasing plasma beta-endorphin levels. Through the mu-opioid system, this self-anointing behavior serves as an important example of chemical pest defense in nonhuman mammals.
Article
Biology
James Johnson, Victoria M. Harman, Catarina Franco, Edward Emmott, Nichola Rockliffe, Yaqi Sun, Lu-Ning Liu, Ayako Takemori, Nobuaki Takemori, Robert J. Beynon
Summary: A new approach to the assembly and construction of QconCATs has been introduced, utilizing synthetic biology precepts of biobricks and loop assembly to create larger entities. This ALACAT strategy allows for customizable design of quantification standards, supporting rapid editing and improvement of QconCATs and enabling peptide substitution.
Article
Veterinary Sciences
Rosemary E. Maher, Merita Maatta, Robert J. Beynon, Henna P. Laurila, Paul S. McNamara, Minna M. Rajamaki
Summary: Label-free proteomics allows discrimination between CIPF and healthy WHWTs, but does not provide clear evidence for gastrointestinal aspiration.
BMC VETERINARY RESEARCH
(2022)
Meeting Abstract
Biochemistry & Molecular Biology
Caroline A. Staunton, Euan D. Owen, Kay Hemmings, Malcolm J. Jackson, Richard Barrett-Jolley, Dean Hammond, Robert J. Beynon, Anne McArdle
Article
Biochemical Research Methods
Dean E. Hammond, Deborah M. Simpson, Catarina Franco, Marina Wright Muelas, John Waters, R. W. Ludwig, Mark C. Prescott, Jane L. Hurst, Robert J. Beynon, Edward Lau
Summary: This study compares the turnover rates of proteins in four mouse tissues using different labeling precursors, and finds that both methods yield similar results for long-lived proteins but require compensation for short-lived proteins. The determination of precursor enrichment kinetics greatly influences the numerical values of the derived protein turnover rates.
MOLECULAR & CELLULAR PROTEOMICS
(2022)
Article
Microbiology
Yaqi Sun, Victoria M. Harman, James R. Johnson, Philip J. Brownridge, Taiyu Chen, Gregory F. Dykes, Yongjun Lin, Robert J. Beynon, Lu-Ning Liu
Summary: Carboxysomes are bacterial microcompartments that play a crucial role in carbon fixation. This study uncovers the composition and structural plasticity of the alpha-carboxysomes using quantitative mass spectrometry. The results provide insight into the assembly of carboxysomes and may aid in the design and reprogramming of carboxysomes for biotechnological applications.
Article
Entomology
Jasmine Morgan, J. Enrique Salcedo-Sora, Iris Wagner, Robert J. Beynon, Omar Triana-Chavez, Clare Strode
Summary: This study aimed to trial the use of rapid evaporative ionization mass spectrometry (REIMS) for identifying insecticide resistance in mosquitoes. The results showed that REIMS had high accuracy in differentiating larvae from different populations, differentiating mosquitoes of field and lab origin, and differentiating susceptible and resistant larvae. Therefore, REIMS may serve as a potential new tool for rapidly identifying resistance in mosquitoes.
JOURNAL OF INSECT SCIENCE
(2022)
Article
Cardiac & Cardiovascular Systems
Rosemary E. Maher, Emma Barrett, Robert J. Beynon, Victoria M. Harman, Andrew M. Jones, Paul S. McNamara, Jaclyn A. Smith, Robert W. Lord
Summary: This study aimed to investigate differences in the CF sputum proteome associated with disease severity and identify potential markers of disease with translational potential. Predictable changes in the CF sputum proteome occurred associated with progressive lung function impairment, which might have value as markers of disease severity.
RESPIRATORY MEDICINE
(2022)
Article
Biology
Iris Wagner, Linda Grigoraki, Peter Enevoldson, Michael Clarkson, Sam Jones, Jane L. L. Hurst, Robert J. J. Beynon, Hilary Ranson
Summary: The rapid evaporative ionisation mass spectrometry (REIMS) method can accurately identify the species and age of mosquitoes, with high accuracy in both laboratory-reared and wild populations.
Article
Biochemical Research Methods
Martin Rusilowicz, David W. Newman, Declan R. Creamer, James Johnson, Kareena Adair, Victoria M. Harman, Chris M. Grant, Robert J. Beynon, Simon J. Hubbard
Summary: Protein quantitation via mass spectrometry requires the use of peptide proxies, and accurate quantitation often relies on the addition of an external standard. AlacatDesigner is a tool that assists in selecting suitable peptide candidates for recombinant protein standards. It considers factors such as target protein, existing databases, literature occurrence, potential post-translational modifications, and ionization potential within the mass spectrometer.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Chemistry, Medicinal
Ines Ventura, Victoria Harman, Robert J. Beynon, Romana Santos
Summary: Biomedical adhesives still struggle with strong adhesion in wet environments. Marine invertebrates' biological adhesives show promising characteristics for underwater biomimetic adhesives. Through analysis of sea urchin Paracentrotus lividus adhesive proteins, researchers identified glycosylated protein candidates. The deeper characterization of these adhesive glycoproteins advances the development of sea urchin-inspired bioadhesives.
Article
Multidisciplinary Sciences
Guadalupe Gomez-Baena, Kieran C. Pounder, Josiah O. Halstead, Sarah A. Roberts, Amanda J. Davidson, Mark Prescott, Robert J. Beynon, Jane L. Hurst
Summary: Chemical communication by females in social species, such as laboratory rats, is important for competition and cooperation between females in determining reproductive success. Female rats target their deployment of scent information differently based on their sexual receptivity and the genetic identity of the individuals in the environment. The scent marks of female rats contain a complex mix of proteins, with clitoral gland secretion being dominant, and play a key role in female communication.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Biochemical Research Methods
Leandro Xavier Neves, R. Alan Wilson, Philip Brownridge, Stephen W. W. Holman, Victoria M. M. Harman, Claire E. E. Eyers, Robert J. J. Beynon, William Castro-Borges
Summary: In this study, a detailed method for preserving the proteome of adult Schistosoma mansoni worms was described in order to enrich the tissues associated with the parasite's alimentary tract. The methodology employed label-free and QconCAT-based absolute quantification to detect S. mansoni oesophageal gland products. By stabilizing the proteome and minimizing sample degradation during dissection, the hidden proteome of target tissues, which are not readily available from total lysates due to their small volumes, could be accessed. This protocol can be used for the discovery of proteins with potential diagnostic and therapeutic utility in other Schistosoma species lacking quantitative proteomics characterization of specialized tissues.
RAPID COMMUNICATIONS IN MASS SPECTROMETRY
(2023)
Article
Biology
Jonathan P. Green, Catarina Franco, Amanda J. Davidson, Vicki Lee, Paula Stockley, Robert J. Beynon, Jane L. Hurst
Summary: Breeding females can cooperatively rear their offspring, but this may lead to risks of exploitation. In lactating mammals, communal rearing is more common among close relatives. This study used a dual isotopic tracer approach to track milk allocation in familiar pairs of sisters and unrelated house mice. The results showed that closely related pairs had lower energy demand and the pups had better access to non-maternal milk. However, there was a greater energetic cost for females when rearing offspring with an unrelated partner.
COMMUNICATIONS BIOLOGY
(2023)
Meeting Abstract
Behavioral Sciences
Reiko Uenoyama, Tamako Miyazaki, Jane L. Hurst, Robert J. Beynon, Masaatsu Adachi, Shuji Kaneko, Toshio Nishikawa, Masao Miyazaki