Article
Nanoscience & Nanotechnology
Vaishnavi Ravikumar, Ivan Mijakovic, Santosh Pandit
Summary: This study aimed to explore the mode of action of graphene oxide (GO) by conducting an in-depth proteomic analysis. The results revealed that the time-dependent bactericidal effect of GO is attributed to its wrapping/trapping ability, production of reactive oxygen species (ROS), and physical disruption of the cell membrane.
INTERNATIONAL JOURNAL OF NANOMEDICINE
(2022)
Article
Food Science & Technology
Josue Delgado, Ana-Rosa Ballester, Luis Gonzalez-Candelas, Felix Nunez
Summary: The antifungal protein PgAFP may lead to overproduction of the mycotoxin patulin in Penicillium expansum on apples. Proteomic analysis showed an increase in proteins involved in patulin biosynthesis and a decrease in proteins related to pathogenicity and virulence in PgAFP-treated P. expansum. Additionally, proteins associated with oxidative stress were found in higher abundance, indicating a response to oxidative stress elicited by PgAFP.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2022)
Article
Microbiology
Zhixiang Liu, Tingting Huang, Qing Shi, Zixin Deng, Shuangjun Lin
Summary: A series of catecholate siderophores produced by S. varsoviensis were discovered and a scale-up fermentation was performed to purify these compounds for structural elucidation. A biosynthetic route for the catecholate siderophores is also proposed. These new structural features enrich the structural diversity of the enterobactin family compounds. One of the new linear enterobactin congeners shows moderate activity against a food-borne pathogen Listeria monocytogenes. This work demonstrated that changing culture conditions is still a promising approach to explore unexplored chemical diversity. The availability of the biosynthetic machinery will enrich the genetic toolbox of catechol siderophores and facilitate such engineering efforts.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Microbiology
Jinyu Zhang, Peng Zhang, Guohong Zeng, Guangwei Wu, Landa Qi, Guocan Chen, Weiguo Fang, Wen-Bing Yin
Summary: In this study, biosynthesis gene clusters of coprogens and dimerumic acids were identified in Metarhizium robertsii by analyzing transcriptional level differences of related genes under iron deficiency conditions. The genes mrsidA and mrsidD were found to be involved in the biosynthesis of coprogen and dimerumic acid, as genetic deletions of these genes led to decreased production of the compounds. The NRPS gene mrsidD was shown to be responsible for the biosynthesis of both coprogen and dimerumic acid siderophores, suggesting a plausible biosynthetic pathway for these compounds.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yuki Kitamura, Shinji Oikawa, Jie Chang, Yurie Mori, Gaku Ichihara, Sahoko Ichihara
Summary: This study used 2D-Oxyblot and 2D-DIGE techniques to analyze carbonylated proteins induced by oxidative stress in a metabolic syndrome animal model, as well as changes in protein expression levels in adipose tissue at different stages of the syndrome. The results showed that up-regulated proteins at the pre-symptomatic stage were mainly involved in ATP production and redox reactions, while down-regulated proteins at the symptomatic stage were associated with antioxidant activity and the TCA cycle. Increased levels of carbonylated proteins, including gelsolin, may contribute to the oxidative stress state and progression of metabolic syndrome.
Article
Microbiology
Lorenzo Pecoraro, Xiao Wang, Dawood Shah, Xiaoxuan Song, Vishal Kumar, Abdul Shakoor, Keshawanand Tripathi, Pramod W. Ramteke, Rupa Rani
Summary: Iron, the fourth most abundant element on earth, is essential for life. Microorganisms have evolved mechanisms to acquire iron from the environment through the formation of small molecules known as siderophores. These siderophores have diverse applications in various fields.
Article
Microbiology
Azmi Khan, Pratika Singh, Ravinsh Kumar, Sujit Das, Rakesh Kumar Singh, Usha Mina, Ganesh Kumar Agrawal, Randeep Rakwal, Abhijit Sarkar, Amrita Srivastava
Summary: The study assessed the antifungal activity of catecholate siderophore produced by Escherichia coli against Aspergillus nidulans. The findings showed that the siderophore treatment inhibited fungal growth, induced cell death, and affected antioxidative enzyme activity. This suggests a promising antifungal agent in catecholate siderophore and supports the involvement of MirA fungal receptors in xenosiderophore uptake.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Cintia Blanco Nouche, Cedric Paris, Tiphaine Dhalleine, Philippe Oger, Marie-Pierre Turpault, Stephane Uroz
Summary: To understand how heterotrophic bacteria mobilize nutrients from minerals and rocks, this study focuses on identifying the genetic bases of acidolysis and chelation mechanisms used by nutrient-poor bacteria, particularly Caballeronia mineralivorans PML1(12). Through transcriptomics and proteomics analyses, a cluster of genes related to siderophore production was identified. The characterization of one specific gene region led to the identification of rhizobactin siderophore, the first non-ribosomal peptide synthetase-independent siderophore (NIS) containing malic acid. This study provides insights into the molecular and genetic mechanisms of nutrient mobilization by bacteria in nutrient-poor environments.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Review
Cardiac & Cardiovascular Systems
Shin-Haw Lee, Da Hye Kim, Uros Kuzmanov, Anthony O. Gramolini
Summary: Cardiovascular diseases are the fastest rising contributing factor to all-cause mortality globally, with membrane proteins playing a crucial role in maintaining the function of cardiomyocytes. Membrane proteins are excellent pharmaceutical targets due to their unique position within the cell, and changes in cardiac membrane proteins are implicated in the progression and pathogenesis of heart diseases.
AMERICAN JOURNAL OF PHYSIOLOGY-HEART AND CIRCULATORY PHYSIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Xiaoxuan Wang, Muchen Zhang, Belinda Loh, Sebastian Leptihn, Temoor Ahmed, Bin Li
Summary: In an environment with limited iron levels, bacteria secrete diverse siderophores to capture Fe3+ for survival. A novel Nonribosomal Peptide Synthetase (NRPS) cluster in Burkholderia seminalis was found to be involved in the production of a new siderophore and regulation of ornubactin and pyochelin, as well as cell motility and biofilm formation, which are dependent on iron concentration. This newly discovered NRPS cluster is suggested to have been obtained by horizontal gene transfer from algae.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Ecology
Ying-Ning Ho, Sin Yong Hoo, Bo-Wei Wang, Chi-Ting Hsieh, Ching-Chih Lin, Chi-Hui Sun, Chia-Chi Peng, Chih Lin, Yu-Liang Yang
Summary: The interactions between bacteria and fungi are complex, with their secreted metabolites playing important roles in microbial communities. Research has shown that a plant pathogen can modify a siderophore produced by bacteria, leading to a loss of antifungal activity.
Article
Microbiology
Divakara S. S. M. Uppu, Xiaogang Wang, Jean C. C. Lee
Summary: The secretome of Staphylococcus aureus includes soluble molecules and nano-sized extracellular membrane vesicles (MVs). The protein composition of both the secretome and MVs includes cytoplasmic and membrane proteins, as well as exoproteins, some cell wall-associated proteins, and glycopolymers. The microbial secretome modulates how the organism interacts with its environment.
Review
Plant Sciences
Yi-Ming Chiang, Clay C. C. Wang, Tzu-Shyang Lin
Summary: Fungal natural products have a wide range of bioactivities, and the analysis of fungal genomes has shown that there is great potential for the production of undiscovered natural products. To tap into this resource, the use of genetically tractable fungi as hosts for total heterologous biosynthesis has become increasingly popular in recent years. This review summarizes the methods used to accomplish total heterologous biosynthesis of fungal natural products using Aspergillus nidulans as the host.
JOURNAL OF NATURAL PRODUCTS
(2022)
Article
Chemistry, Multidisciplinary
Xue Li, Mingming Zhen, Chen Zhou, Meilan Yu, Lei Liu, Chunying Shu, Chunru Wang
Summary: This study investigates the use of hydroxylated [70] fullerene nanoparticles (HFNPs) as antioxidants to reverse insulin resistance in diabetes. The study shows that HFNPs can alleviate insulin resistance by regulating oxidative stress and endoplasmic reticulum stress, resulting in improved glucose uptake and reduced blood glucose levels. Furthermore, HFNPs inhibit the activation of phosphorylated c-Jun N-terminal kinase (JNK), reactivating the insulin receptor substrate (IRS) signaling pathway and inhibiting gluconeogenesis. Importantly, HFNPs exhibit no severe toxicity to main tissues. This research contributes to the understanding of the role of antioxidants in regulating insulin resistance and provides new perspectives for the treatment of insulin resistance-related diseases.
Article
Chemistry, Multidisciplinary
Kohei Toh, Kosuke Nishio, Reiko Nakagawa, Syusuke Egoshi, Masahiro Abo, Amelie Perron, Shin-ichi Sato, Naoki Okumura, Noriko Koizumi, Kosuke Dodo, Mikiko Sodeoka, Motonari Uesugi
Summary: Research has shown that visible light, especially in the blue region, can cause cell dysfunction and contribute to cellular aging and age-related pathologies by generating singlet oxygen. A chemoproteomic approach has been used to map blue-light-damaged proteins in live mammalian cells, revealing that cell surface proteins are more prone to oxidation compared to other susceptible proteins. The integrin family of cell surface receptors, including ITGB1, was found to be highly impacted, leading to loss of functionality in cell adhesion and proliferation. This study highlights the importance of understanding light-induced protein damages and their effects on cellular functions.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Microbiology
Neha Sahu, Zsolt Merenyi, Balazs Balint, Brigitta Kiss, Gyorgy Sipos, Rebecca A. Owens, Laszlo G. Nagy
Summary: Wood-decaying Basidiomycetes play crucial roles in forest ecosystems, global carbon cycle, and bio-based industries. Recent studies have shown that certain Armillaria species exhibit atypical wood-decay gene combinations, resembling soft-rot fungi, with an enrichment of pectinases and expansins instead of traditional lignin-degrading enzymes. This observation suggests a conservation of ancestral soft-rot decay machinery across asco- and Basidiomycota.
Article
Biochemical Research Methods
Nicola M. Moloney, Annemarie Larkin, Linan Xu, David A. Fitzpatrick, Holly L. Crean, Kieran Walshe, Hubertus Haas, Clemens Decristoforo, Sean Doyle
Summary: This study has developed a recombinant TAFC-specific monoclonal antibody with diagnostic potential for invasive pulmonary aspergillosis (IPA), which is significant for both traditional and emerging patient groups (such as COVID-19).
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Immunology
Shauna D. Drumm, Paul Cormican, Padraig O'Boyle, Rebecca A. Owens, Jennifer Mitchell, Orla M. Keane
Summary: This study aimed to characterize the serum IgG response to extracellular proteins of different lineages of Staphylococcus aureus in cows infected with these strains, as well as to identify antigenic proteins produced by these strains. The results showed that the humoral immune response in infected cows varied depending on the strain, with some generating a response against high molecular weight proteins and others against low molecular weight proteins. Common candidate immunogens, as well as strain-specific candidate immunogens, were identified.
VETERINARY IMMUNOLOGY AND IMMUNOPATHOLOGY
(2022)
Article
Chemistry, Applied
Helen Smith, Sean Doyle, Richard Murphy
Summary: This study examines the effectiveness of using thin layer chromatography (TLC) in combination with bioautography to separate and identify bioactive compounds from filamentous fungi. The results show that this method can successfully isolate active components. Additionally, liquid chromatography mass spectrometry (LC/MS) determines the most abundant fatty acids present. Submerged cultivation of specific filamentous fungi proves to be an effective method for producing natural antimicrobial compounds.
Article
Biochemistry & Molecular Biology
Sean Doyle, Daragh D. Cuskelly, Niall Conlon, David A. Fitzpatrick, Ciara B. Gilmartin, Sophia H. Dix, Gary W. Jones
Summary: This study demonstrates that complete biosynthesis of EGT can be achieved in S. cerevisiae through recombinant expression of the Aspergillus fumigatus egtA gene, providing a convenient approach for biotechnological and biomedical applications.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Niall Conlon, Richard A. Murphy, Aoife Corrigan, Sean Doyle, Rebecca A. Owens, Sheena Fagan
Summary: This study investigated the effects of yeast and its derivatives on broiler chickens using a quantitative proteomic strategy. The results showed that YCW supplementation provided various beneficial effects, including immune stimulation, changes in oxidative status, stimulation of metabolic processes, and hepatoprotective effects. In addition, specific protein detection may serve as biomarkers for evaluating the efficacy of GHP supplementation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Genetics & Heredity
Aimee M. Traynor, Ozlem Sarikaya-Bayram, Ozguer Bayram, Jose Antonio Calera, Sean Doyle
Summary: Gliotoxin (GT) biosynthesis in fungi is regulated by the gli biosynthetic gene cluster. It has been found that the addition of GT induces its own biosynthesis, while Zn2+ inhibits cluster activity. Through experimentation, it was discovered that the zinc-replete environment unexpectedly promotes the functionality of the GliZ transcription factor. The study also revealed the association of the GliT enzyme with GliZ, potentially preventing GliZ inactivation caused by zinc ejection.
FUNGAL GENETICS AND BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Marie Le Berre, Terezia Paulovcakova, Carolina De Marco Verissimo, Sean Doyle, John P. Dalton, Claire Masterson, Eduardo Ribes Martinez, Laura Walsh, Conor Gormley, John G. Laffey, Bairbre McNicholas, Andrew J. Simpkin, Michelle Kilcoyne
Summary: Zoonotic spillover of SARS-CoV-2 to humans in December 2019 caused the COVID-19 pandemic. Serological monitoring is crucial for understanding immune responses and guiding therapeutic and vaccine strategies. Researchers developed a high throughput SARS-CoV-2 antigen microarray for assessing IgG, IgA, and IgM responses, which can be used for expanded humoral immunity studies and monoclonal antibody therapeutic studies.
Article
Microbiology
Katie Dunne, Emma Reece, Siobhan McClean, Sean Doyle, Thomas R. Rogers, Philip Murphy, Julie Renwick
Summary: Aspergillus fumigatus, the most commonly isolated fungus in chronic lung diseases, can disrupt tight junction integrity of human bronchial epithelial cells and cause airway damage.
Article
Multidisciplinary Sciences
Nicola M. Moloney, Konstantin Barylyuk, Eelco Tromer, Oliver M. Crook, Lisa M. Breckels, Kathryn S. Lilley, Ross F. Waller, Paula MacGregor
Summary: This study maps the spatial proteomes of two African trypanosome species, Trypanosoma brucei and Trypanosoma congolense, providing insights into the molecular basis for diversity within and between these pathogen species. Comparative analysis reveals key routes of parasitic adaptation to different biological niches.
NATURE COMMUNICATIONS
(2023)
Article
Parasitology
Jesus Lopez Corrales, Amanda Mcevoy, Richard Lalor, Krystyna Cwiklinski, Sean Doyle, Michael Parkinson, Orla M. Keane, John Pius Dalton, Amber Louise Dorey
Summary: Fasciola hepatica is a parasitic helminth that poses a significant economic threat to the livestock industry worldwide. Early diagnosis and intervention are essential for the control and management of fasciolosis. Traditional fecal egg counts can only detect patent infections from 10 to 12 weeks post infection, while serological assays using FhCL1 can detect infections from 3 to 4 weeks post infection.
VETERINARY PARASITOLOGY- REGIONAL STUDIES AND REPORTS
(2023)
Article
Multidisciplinary Sciences
Shane G. Downes, Rebecca A. Owens, Kieran Walshe, David A. Fitzpatrick, Amber Dorey, Gary W. Jones, Sean Doyle
Summary: Overcoming antimicrobial resistance is a challenging task. Investigating the inhibitory effect of fungal metabolites on bacterial growth may provide new strategies. In this study, it was found that the fungal peptide gliotoxin (GT) can inhibit the growth of both Gram positive and negative bacteria, and this inhibition can be reversed by the addition of zinc or copper. This suggests that GT-mediated growth inhibition may involve intracellular zinc depletion or reduced bioavailability.
SCIENTIFIC REPORTS
(2023)
Article
Public, Environmental & Occupational Health
Carolina De Marco Verissimo, Jesus Lopez Corrales, Amber L. Dorey, Krystyna Cwiklinski, Richard Lalor, Nichola Eliza Davies Calvani, Heather L. Jewhurst, Andrew Flaus, Sean Doyle, John P. Dalton
Summary: This study describes the expression of a highly soluble and functionally active recombinant 3CL-pro and investigates its inhibitory profile and ability to function as a carrier for the receptor binding domain. The findings suggest that chimeric proteins containing 3CL-pro may be a potential approach to developing new COVID-19 vaccines.
EPIDEMIOLOGY AND INFECTION
(2022)
Article
Public, Environmental & Occupational Health
Carolina De Marco Verissimo, Carol O'Brien, Jesus Lopez Corrales, Amber Dorey, Krystyna Cwiklinski, Richard Lalor, Jack M. Doyle, Stephen Field, Claire Masterson, Eduardo Ribes Martinez, Gerry Hughes, Colm Bergin, Kieran Walshe, Bairbre McNicholas, John G. Laffey, John P. Dalton, Colm Kerr, Sean Doyle
Summary: In this study, novel coronavirus proteins were used to develop two quantitative ELISA tests for diagnosing COVID-19 with higher accuracy. Specific antibodies to SARS-CoV-2 proteins tend to decline rapidly in patients, and these tests could play a significant role in controlling the spread of the virus.
EPIDEMIOLOGY AND INFECTION
(2021)