Review
Chemistry, Analytical
Hugo M. Santos, Luis B. Carvalho, Carlos Lodeiro, Goncalo Martins, Ines L. Gomes, Wilson D. T. Antunes, Vanessa Correia, Maria M. Almeida-Santos, Helena Rebelo-de-Andrade, Antonio P. A. Matos, J. L. Capelo
Summary: This work presents a tutorial on the capabilities of bioanalytical mass spectrometry in detecting and differentiating viruses at the peptide level, as well as providing diagnosis and prognosis for infected patients. It offers insights into the possibilities of current high-resolution mass spectrometry technology and bioinformatics.
MICROCHEMICAL JOURNAL
(2023)
Article
Infectious Diseases
Margarita Estreya Zvezdanova, Manuel J. Arroyo, Gema Mendez, Ana Candela, Luis Mancera, Julio Garcia Rodriguez, Julia Lozano Serra, Rosa Jimenez, Inmaculada Lozano, Carmen Castro, Concepcion Lopez, Patricia Munoz, Jesus Guinea, Pilar Escribano, Belen Rodriguez-Sanchez
Summary: The study demonstrates the use of matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) to accurately detect azole resistance in species of the Aspergillus fumigatus complex. The results show that MALDI-TOF MS combined with peak analysis is a novel tool that allows the differentiation of A. fumigatus from other species within the complex and the detection of azole-resistant A. fumigatus isolates.
CLINICAL MICROBIOLOGY AND INFECTION
(2022)
Article
Microbiology
Aaron Curtis, Michelle Ryan, Kevin Kavanagh
Summary: Aspergillus fumigatus, an opportunistic fungal pathogen, interacts with bacteria such as Pseudomonas aeruginosa and Klebsiella pneumoniae in the lung microbiota. Exposure of A. fumigatus to K. pneumoniae culture filtrate inhibits fungal growth and enhances gliotoxin production. This interaction could worsen infection and affect patient prognosis.
Article
Biology
Marcelo de M. A. Coura, Eder A. Barbosa, Guilherme D. Brand, Carlos Bloch, Joao B. de Sousa
Summary: The incidence of colorectal cancer (CRC) is increasing in Brazil and there is a lack of reliable biomarkers for diagnosis and prognosis. Alterations in N-glycosylation profiles in serum and tissues of colon cancer patients were identified using mass spectrometry technologies. While serum N-glycans were mostly decreased, certain forms were overexpressed in tumor tissues. There was little correlation between tissue and serum N-glycosylation profiles in cancer patients. Total serum N-glycome analysis showed potential in discriminating patients from healthy controls, but compositions in serum did not parallel those found in tumor tissues.
Article
Biochemical Research Methods
Christopher L. Allison, Alex Moskaluk, Sue VandeWoude, Melissa M. Reynolds
Summary: This study developed degradation and detection methods to produce and detect D-glucosamine from Aspergillus niger, offering potential for diagnosis of pulmonary fungal infections in immunocompromised patients. The results showed that GlcN was successfully produced from fungal-derived chitin, providing a promising approach for broad screening methods in fungal detection.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2021)
Article
Agricultural Engineering
Juana Rozalen, M. Mercedes Garcia, Amaya Zalacain, Horacio Lopez-Corcoles, Jorge Hurtado de Mendoza, Katrina Cornish, Manuel Carmona
Summary: Guayule, as a promising renewable source of natural rubber/latex, has resins with various activities potentially related to sesquiterpenes. By exploring different analytical methods, it was found that there may be new members of the guayulins family and the relationship in seasonal changes was identified.
INDUSTRIAL CROPS AND PRODUCTS
(2021)
Article
Chemistry, Analytical
Jia Yi, Yueqing Shen, Yi Yang, Chengpin Shen, Baohong Liu, Liang Qiao, Yan Wang
Summary: By characterizing gingival crevicular fluid (GCF) sediments and identifying potential protein biomarkers using mass spectrometry techniques, this study has contributed to the early diagnosis of periodontitis and understanding of its pathogenesis. The identified biomarkers hold potential value for accurate monitoring and can be utilized by non-specialists for widespread screening.
Article
Biochemistry & Molecular Biology
Pushpanjali Dasauni, Nirpendra Singh, Varun Chhabra, Manoranjan Mahapatra, Renu Saxena, Suman Kundu
Summary: A method using TFE and heat denaturation prior to digestion was developed and optimized for improved sequence coverage and analysis of Hb variants by nano LC-MALDI MS/MS. The TFE method provided the most suitable efficiency for Hb variant identification based on high sequence coverage.
Review
Chemistry, Analytical
Negin Fasih Ramandi, Mohammad Faranoush, Alireza Ghassempour, Hassan Y. Aboul-Enein
Summary: The recent success in studying the proteome as a source of biomarkers has revolutionized our understanding of leukemia. The use of mass spectrometry techniques to identify differentially expressed proteins has led to improved diagnosis, prognosis, and treatment strategies for leukemia. This review focuses on the use of various ionization sources and mass analyzers in monitoring different types of leukemia, with MALDI-TOF MS identified as a quick and reliable method for protein analysis. Additionally, the review classifies over 400 proteins and identifies specific biomarkers for acute myeloid leukemia (AML), acute lymphoblastic leukemia (ALL), and other stages of leukemia for future studies.
CRITICAL REVIEWS IN ANALYTICAL CHEMISTRY
(2022)
Article
Polymer Science
Antia Lestido-Cardama, Patricia Vazquez-Loureiro, Raquel Sendon, Juana Bustos, Ma Isabel Santillana, Perfecto Paseiro Losada, Ana Rodriguez Bernaldo de Quiros
Summary: This study investigated polyester coatings intended for food contact. Various analytical techniques were used to identify the type of coating and investigate potential migrants. The results showed that certain polyester oligomers migrated, and there is currently no toxicological data or migration limits established for them.
Article
Food Science & Technology
Yue Jia, Yu Lu, Xue Wang, Yuerong Yang, Meiyi Zou, Jie Liu, Wanjun Jin, Xiaoqin Wang, Guoliang Pang, Linjuan Huang, Zhongfu Wang
Summary: The study found that with prolonged lactation, the relative content of glycan derivatives of bovine lactoferrin changed, with the highest content observed in colostrum. Additionally, linkage-specific derivatization of sialic acid could distinguish between different sialylated N-glycan isomers.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Food Science & Technology
Nannan Li, Shuqin Li, Qirou Wang, Shuyu Yang, Yinuo Hou, Yan Gao, Xiangyang Zhang, Min Zhang, Haixia Chen
Summary: This study applied MALDI-TOF MSI and QTOF LC-MS/MS techniques to investigate the spatial distribution changes of low molecular weight compounds in garlic tissue during Laba garlic processing. It was found that some bioactive compounds were transformed or leached out during the processing, while new compounds related to pigments emerged. This study provides a basis for understanding the spatial distributions and changes of compounds in garlic tissue during Laba garlic processing, which may affect the bioactivities of garlic.
FOOD RESEARCH INTERNATIONAL
(2023)
Article
Biochemical Research Methods
Runmin Yang, Jingjing Ma, Shu Zhang, Yu Zheng, Lusheng Wang, Daming Zhu
Summary: This study introduces a new storage format called mzMD for MS datasets and presents an algorithm to query this format for summarizing a given data window. Experimental results demonstrate the high speed and stability of mzMD in retrieving high-quality data window summaries.
Article
Food Science & Technology
Xue Li, Xiaorong Deng, Xin Guo, Yabo Wei, Yunfeng Zhao, Xiaobing Guo, Xinrong Zhu, Jian Zhang, Ling Hu
Summary: The present study investigates the freshness indicator protein of Coregonus peled and the effects of oxidation on the quality of fish during 4 degrees C storage. A total of 382 differential proteins were identified, and 20 proteins related to oxidation were found to have the potential as biomarkers for protein oxidative damage. Actin was identified as an indicator for fish softening during postmortem storage. The changes in protein structure and biomarkers were influenced by oxidation. Bioinformatics analysis suggested that differentially expressed proteins participated in the metabolic pathway during 4 degrees C storage.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2022)
Article
Clinical Neurology
Irep Uras, Merve Karayel-Basar, Betul Sahin, Ahmet Tarik Baykal
Summary: Alzheimer's disease (AD) is a debilitating neurodegenerative disorder characterized by memory deficit and dementia. In this study, the spatial proteomic differences in the neonatal 5xFAD brain tissue were investigated using MALDI-MSI coupled to LC-MS/MS, and the differentially expressed proteins (DEPs) associated with AD were identified. The results showed a remarkable resemblance in the protein expression profiles of neonatal 5xFAD brain compared to AD patient specimens or AD mouse models, suggesting that molecular alterations in the AD brain existed even at birth and certain proteins may serve as neurodegenerative presages in neonatal AD brain.
ALZHEIMERS & DEMENTIA
(2023)
Article
Biochemistry & Molecular Biology
Linan Xu, Hong Zhang, Daragh D. Cuskelly, Sean Doyle, Sarah Perrett, Gary W. Jones
Summary: Hsp70 is a conserved chaperone that plays a critical role in maintaining protein homeostasis. Mutations in the SBD disrupt its hydrophobic core, leading to impairment of heat-shock response and prion propagation. The disruption of key residues in the SBD region results in instability and cleavage of Hsp70, impacting its ATPase function and overall stability. This ultimately compromises the stress response and prion propagation abilities of yeast cells.
MOLECULAR MICROBIOLOGY
(2021)
Review
Biochemical Research Methods
Rebecca A. Owens, Sean Doyle
Summary: Fungal proteomics has advanced in the past decade with the availability of more genomic data and improvements in mass spectrometry techniques. This advancement has led to a better understanding of proteomic changes associated with antifungal resistance and the mechanisms of action of different antifungal agents. Gel-based proteomics has paved the way for more powerful gel-free proteomics, which has helped identify key mediators and potential biomarkers of antifungal resistance.
EXPERT REVIEW OF PROTEOMICS
(2021)
Article
Mycology
Eoin O'Connor, Sean Doyle, Anica Amini, Helen Grogan, David A. Fitzpatrick
Summary: Cultivation of Agaricus bisporus is a significant horticultural industry for many countries, however, the MVX complex virus poses a serious threat to its crops. MVX affects the color and quality of fruit bodies significantly, and gene expression varies in different strains and inoculation times.
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
Microbiology
Aimee M. Traynor, Rebecca A. Owens, Claudia M. Coughlin, Maeve C. Holton, Gary W. Jones, Jose A. Calera, Sean Doyle
Summary: The research reveals the connection between zinc and gliotoxin biosynthesis in Aspergillus fumigatus, where zinc addition can alleviate the inhibition of fungal growth caused by GT. In addition, the study also found that exogenous GT and a specific chelator inhibit A. fumigatus growth under zinc limiting conditions, which can be reversed by zinc supplementation.
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
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)
