Article
Oncology
Soo Young Jeong, Joon-Yong Chung, Sun-Ju Byeon, Chul Jung Kim, Yoo-Young Lee, Tae-Joong Kim, Jeong-Won Lee, Byoung-Gie Kim, Ye Lin Chae, So Young Oh, Chel Hun Choi
Summary: The study investigated the clinical significance and chemoradioresistance prediction power of BCL-2, HER2, CD133, CAIX, and ERCC1 in early-stage cervical cancer. The findings suggest that HER2, CAIX, and ERCC1 expression can serve as predictive protein markers for clinical outcomes in this patient population. The combined molecular-clinical model using random survival forest method showed improved power in predicting disease-free survival compared to the clinical variable model.
FRONTIERS IN ONCOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yaying Zhai, Fan Xia, Luting Shi, Wenkui Ma, Xiaoyang Lv, Wei Sun, Pengyun Ji, Shuai Gao, Zoltan Machaty, Guoshi Liu, Lu Zhang
Summary: This study explores the differential metabolites and proteins in the serum of pregnant and non-pregnant ewes using proteomics and metabolomics. The levels of SAA and AFM were found to be significantly higher in pregnant ewes and could be potential biomarkers for early pregnancy detection.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Oncology
Juan Bayo Calero, Miguel Angel Castano Lopez, Pedro German Casado Monge, Jacobo Diaz Portillo, Ana Bejarano Garcia, Francisco Navarro Roldan
Summary: The study developed a predictive model for early diagnosis of colorectal cancer (CRC) based on the determination of multiple blood biomarkers. The model showed high efficacy in discriminating CRC patients from others, with a performance of 94%, a sensitivity of 95.6%, and a specificity of 80.6%.
JOURNAL OF GASTROINTESTINAL ONCOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Xiang Chen, Jiayu Sun, Xue Wang, Yumeng Yuan, Leshan Cai, Yanxuan Xie, Zhiqiang Fan, Kaixi Liu, Xiaoyang Jiao
Summary: This study summarized the results of proteomics studies on CRC through meta-analysis, identifying MST1/STK4, S100A9, and TIMP1 as excellent markers for CRC detection. These markers have the potential to improve the survival rate of CRC patients.
CURRENT MEDICINAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Indu Sinha, Rachel L. Fogle, Gizem Gulfidan, Anne E. Stanley, Vonn Walter, Christopher S. Hollenbeak, Kazim Y. Arga, Raghu Sinha
Summary: Breast cancer is a leading cause of death in women in the US, and current diagnostic methods have high false positivity rates. This study aimed to identify protein markers in saliva and serum for early breast cancer detection. Through rigorous analysis using iTRAQ technique, a total of 591 and 371 differentially expressed proteins were identified in saliva and serum samples, respectively. These proteins were mainly related to exocytosis, secretion, immune response, and signaling pathways. A network biology approach was used to evaluate potential biomarkers for breast cancer diagnosis and prognosis. The findings suggest that saliva and serum samples from the same women can provide a feasible platform for studying responsive proteomic profiles in benign and malignant breast disease.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Yuanqi Wu, Na Jiao, Ruixin Zhu, Yida Zhang, Dingfeng Wu, An-Jun Wang, Sa Fang, Liwen Tao, Yichen Li, Sijing Cheng, Xiaosheng He, Ping Lan, Chuan Tian, Ning-Ning Liu, Lixin Zhu
Summary: The study identifies microbial markers associated with adenoma, aiding in early detection of colorectal cancer (CRC) through integrated analysis of public fecal samples. Classification models constructed based on the markers show promising results in discriminating adenoma from control and CRC, with potential clinical implications in multi-population settings.
NATURE COMMUNICATIONS
(2021)
Article
Oncology
Yoshihiro Miyazaki, Nobuhito Mori, Yuka Akagi, Tatsuya Oda, Yasuyuki S. Kida
Summary: This study confirms that the intracellular metabolic pathway of normal tissue fibroblasts transitions from oxidative phosphorylation (OXPHOS) to glycolysis when differentiating into cancer-associated fibroblasts (CAFs). The study also identifies CAF-specific metabolites that could serve as potential biomarkers for pancreatic cancer.
Article
Medicine, General & Internal
Monika Zajkowska, Barbara Mroczko
Summary: Colorectal cancer is a global problem and scientists are trying to expand their knowledge on its early detection and treatment. Chemokines, as protein factors involved in cancer development, are potential biomarkers for colorectal cancer detection.
JOURNAL OF CLINICAL MEDICINE
(2023)
Article
Oncology
Gong Chen, Junjie Peng, Qian Xiao, Hao-Xiang Wu, Xiaojun Wu, Fulong Wang, Liren Li, Peirong Ding, Qi Zhao, Yaqi Li, Da Wang, Yang Shao, Hua Bao, Zhizhong Pan, Ke-Feng Ding, Sanjun Cai, Feng Wang, Rui-Hua Xu
Summary: This study found that postoperative detection of circulating tumor DNA (ctDNA) can predict high relapse risk and identify disease recurrence ahead of radiological imaging in patients with stage II/III colorectal cancer (CRC). ctDNA may be used to guide decision-making in postoperative management.
JOURNAL OF HEMATOLOGY & ONCOLOGY
(2021)
Article
Neurosciences
Maxime Francois, Avinash Karpe, Jian-Wei Liu, David Beale, Maryam Hor, Jane Hecker, Jeff Faunt, John Maddison, Sally Johns, James Doecke, Stephen Rose, Wayne R. Leifert
Summary: This study compared the metabolomic and proteomic signature of saliva from cognitively normal individuals and patients with MCI or AD. Significant alterations in multiple cellular pathways were found, indicating that disease progression impacts various cellular processes at the omics level. The study suggests that integration of multi-omics parameters could be useful in identifying new biomarkers for AD.
JOURNAL OF ALZHEIMERS DISEASE
(2021)
Article
Medicine, Research & Experimental
Huiqiong Bao, Xiaobin Li, Zhixing Cao, Zhihong Huang, Li Chen, Mingbing Wang, Jiali Hu, Wenting Li, Hongwei Sun, Xue Jiang, Ping Mei, Huawen Li, Ligong Lu, Meixiao Zhan
Summary: This study identified COPA as a potential prognostic biomarker for cervical cancer and a promising pharmacological intervention target, demonstrating its role in the progression of the disease.
JOURNAL OF TRANSLATIONAL MEDICINE
(2022)
Article
Oncology
S. M. Adnan Ali, Yumna Adnan, Saleema Mehboob Ali, Zubair Ahmad, Tabish Chawla, Hasnain Ahmed Farooqui
Summary: This report is the first of its kind internationally to assess pancreatic cancer stem cell markers and potential therapeutic targets in a single study. The study revealed significant associations between the expression of these markers and potential therapeutic targets, paving the way for precision medicine in pancreatic cancer patients.
JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY
(2023)
Article
Pathology
Fahimeh Fattahi, Leili Saeednejad Zanjani, Somayeh Vafaei, Zohreh Habibi Shams, Jafar Kiani, Marzieh Naseri, Elmira Gheytanchi, Zahra Madjd
Summary: The study revealed a significant association between higher nuclear TWIST1 expression and distant metastases in CRC patients. Furthermore, increased nuclear TWIST1 expression was correlated with poor prognostic outcomes in terms of disease-specific survival (DSS) and progression-free survival (PFS). Additionally, elevated expression of CD105 in tumoral epithelial cells was linked to more advanced TNM stage in CRC cases.
DIAGNOSTIC PATHOLOGY
(2021)
Article
Geriatrics & Gerontology
Wei Jiang, Wenli Zhan, Luoqi Zhou, Minghao Dong, Liang Liu, Xiangshang Xu, Zhixin Cao
Summary: Druggable plasma proteins, including TNF12 and HGF, have been found to have causal associations with sarcopenia. These proteins are also causally associated with appendicular lean mass and have been evaluated in clinical trials as therapeutic targets.
Article
Oncology
Fanny Boyaval, Hans Dalebout, Rene Van Zeijl, Wenjun Wang, Arantza Farina-Sarasqueta, Guinevere S. M. Lageveen-Kammeijer, Jurjen J. Boonstra, Liam A. McDonnell, Manfred Wuhrer, Hans Morreau, Bram Heijs
Summary: This study investigates the changes in sugar molecules during the progression of colorectal cancer (CRC) and finds that these sugar signatures can clearly differentiate different stages of CRC progression, especially between pre-cancerous and cancerous tissue. The study also observes the spreading of glycosylation signatures into the tumor microenvironment.
Article
Allergy
Joana Costa, Simona Lucia Bavaro, Sara Benede, Araceli Diaz-Perales, Cristina Bueno-Diaz, Eva Gelencser, Julia Klueber, Colette Larre, Daniel Lozano-Ojalvo, Roberta Lupi, Isabel Mafra, Gabriel Mazzucchelli, Elena Molina, Linda Monaci, Laura Martin-Pedraza, Cristian Piras, Pedro M. Rodrigues, Paola Roncada, Denise Schrama, Tanja Cirkovic-Velickovic, Kitty Verhoeckx, Caterina Villa, Annette Kuehn, Karin Hoffmann-Sommergruber, Thomas Holzhauser
Summary: This research searched for evidence on how different physicochemical properties affect the allergenicity of food proteins, and found consistent effects on protein allergenicity within the same protein family. Molecular stability was identified as the most common characteristic promoting plant protein allergenicity. However, there is still a lack of systematic approach to link physicochemical properties with clinical allergenicity.
CLINICAL REVIEWS IN ALLERGY & IMMUNOLOGY
(2022)
Article
Allergy
Joana Costa, Caterina Villa, Kitty Verhoeckx, Tanja Cirkovic-Velickovic, Denise Schrama, Paola Roncada, Pedro M. Rodrigues, Cristian Piras, Laura Martin-Pedraza, Linda Monaci, Elena Molina, Gabriel Mazzucchelli, Isabel Mafra, Roberta Lupi, Daniel Lozano-Ojalvo, Colette Larre, Julia Klueber, Eva Gelencser, Cristina Bueno-Diaz, Araceli Diaz-Perales, Sara Benede, Simona Lucia Bavaro, Annette Kuehn, Karim Hoffmann-Sommergruber, Thomas Holzhauser
Summary: Physicochemical parameters play a crucial role in shaping the allergenicity of animal proteins. However, there are significant knowledge gaps in understanding protein allergenicity from both animal and plant origins, necessitating further comprehensive research and data integration in the future.
CLINICAL REVIEWS IN ALLERGY & IMMUNOLOGY
(2022)
Review
Food Science & Technology
Sara Benede, Daniel Lozano-Ojalvo, Susana Cristobal, Joana Costa, Enza D'Auria, Tanja Cirkovic Velickovic, Maria Garrido-Arandia, Sibel Karakaya, Isabel Mafra, Gabriel Mazzucchelli, Gianluca Picariello, Alejandro Romero-Sahagun, Caterina Villa, Paola Roncada, Elena Molina
Summary: Current methods based on electrophoretic, chromatographic, or immunochemical principles have enabled the study of allergens, but there are still unknown structural features related to the allergenic potential of food proteins. It is also important to evaluate new allergens from novel protein sources that may pose new risks for consumers.
CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
(2022)
Article
Biochemical Research Methods
France Baumans, Emeline Hanozin, Dominique Baiwir, Corentin Decroo, Ruddy Wattiez, Edwin De Pauw, Gauthier Eppe, Gabriel Mazzucchelli
Summary: Researchers investigated the oxidation of methionine-containing peptides during RP chromatographic separation and found that oxidation levels were influenced by the age of the analytical column and gradient length, highlighting the need for a standard method of quality control for methionine-containing peptides.
JOURNAL OF CHROMATOGRAPHY A
(2021)
Article
Biochemistry & Molecular Biology
Margaux Fresnais, Sevin Turcan, Dirk Theile, Johannes Ungermann, Yasmin Abou Zeed, Joshua Raoul Lindner, Marius Breitkopf, Juergen Burhenne, Walter E. Haefeli, Remi Longuespee
Summary: This article summarizes the ADME parameters and modes of action of Temozolomide (TMZ), and provides methodological options to monitor TMZ at its anatomical, cellular, and molecular sites of action (SOAs). The focus is on mass spectrometry-based approaches, with considerations given to avoiding artifacts in the analysis.
Article
Multidisciplinary Sciences
Fanny Lepiemme, Julie Stoufflet, Miriam Javier-Torrent, Gabriel Mazzucchelli, Carla G. Silva, Laurent Nguyen
Summary: During embryogenesis, vOPCs and cortical interneurons interact and occupy mutually exclusive territories in the forebrain. First-wave vOPCs play a crucial role in steering the migration of cortical interneurons away from blood vessels, allowing them to reach their proper cortical territories.
Article
Biochemistry & Molecular Biology
Loic Martinet, Dominique Baiwir, Gabriel Mazzucchelli, Sebastien Rigali
Summary: This study identified 43 novel ferroverdins from the cytosol of two Streptomyces lunaelactis species using high-resolution mass spectrometry. The structure of 13 of these ferroverdins was elucidated and five new alternative chelators for Fe2+-binding were discovered. Additionally, two ferroverdins that do not recruit specific ligands were reported. These findings are significant for the development of new CETP inhibitors or ferroverdins with novel bioactivities.
Article
Chemistry, Medicinal
Margaux Fresnais, Siwen Liang, Marius Breitkopf, Joshua Raoul Lindner, Emmanuelle Claude, Steven Pringle, Pavel A. Levkin, Konstantin Demir, Julia Benzel, Julia Sundheimer, Britta Statz, Kristian W. Pajtler, Stefan M. Pfister, Walter E. Haefeli, Juergen Burhenne, Remi Longuespee
Summary: Desorption/ionization-mass spectrometric methods are advantageous for the analysis of solid biological matrices. The development of drug quantification assays using DESI has been challenging, but new prototype source setups show promise for targeted quantitative analyses.
Article
Cell Biology
Bastien Burat, Audrey Reynaerts, Dominique Baiwir, Maximilien Fleron, Sophie Gohy, Gauthier Eppe, Teresinha Leal, Gabriel Mazzucchelli
Summary: Despite international consensus on diagnosis guidelines and tests, the diagnosis of cystic fibrosis (CF) in clinical routine remains challenging. The classical sweat chloride concentration test may provide normal or equivocal results. Therefore, the search for new CF biomarkers is justified. The discovery of companion biomarkers of CF severity and phenotypic rescue is important for precision medicine.
Review
Oncology
Remi Longuespee, Dirk Theile, Inka Zoernig, Jessica C. Hassel, Joshua Raoul Lindner, Walter E. Haefeli, Margaux Fresnais
Summary: Monoclonal antibodies acting as immune checkpoint inhibitors are widely used in oncology, but precision medicine approaches for personalized treatment are underutilized. Mass spectrometric approaches, coupled with new sample preparation methods, have the potential to stratify patients and detect resistance early on, providing valuable information for precision medicine.
INTERNATIONAL JOURNAL OF CANCER
(2023)
Article
Biochemistry & Molecular Biology
Loic Martinet, Aymeric Naome, Lucas C. D. Rezende, Deborah Tellatin, Bernard Pignon, Jean-Denis Docquier, Filomena Sannio, Dominique Baiwir, Gabriel Mazzucchelli, Michel Frederich, Sebastien Rigali
Summary: Streptomyces lunaelactis strains isolated from moonmilk deposits exhibit significant heterogeneity in the content of biosynthetic gene clusters (BGCs) for specialized metabolite production. Specifically, the cryptic BGC 28a is carried only by a subgroup of S. lunaelactis strains and is predicted to produce nonribosomal peptide antibiotics containing piperazic acid (Piz). Through metabolomics and peptidogenomics analysis, the cyclic hexapeptide lunaemycin A, with a unique amino acid sequence, was identified as the main compound synthesized by BGC 28a. Lunaemycins demonstrated potent bactericidal activity against Gram-positive bacteria, including multi-drug resistant clinical isolates. This study highlights the importance of accurate in silico analysis in elucidating the structure and bioactivity of cryptic BGCs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Andres Ainelo, Julien Caballero-Montes, Ondrej Bulvas, Karin Ernits, Kyo Coppieters't Wallant, Hiraku Takada, Sophie Z. Craig, Gabriel Mazzucchelli, Safia Zedek, Iva Pichova, Gemma C. Atkinson, Ariel Talavera, Chloe Martens, Vasili Hauryliuk, Abel Garcia-Pino
Summary: In this study, the crystal structure of the DarB2:RelNTD2 complex was determined to uncover how DarB interacts with the SYNTH domain of Rel to stimulate (p)ppGpp synthesis directly. Binding to c-di-AMP rigidifies DarB, imposing an entropic penalty that precludes DarB-mediated control of Rel during normal growth. These experiments provide insights into the allosteric regulation mechanism of Rel stringent factors independent of amino acid starvation.
Article
Multidisciplinary Sciences
Nicolas Papadopoulos, Audrey Nedelec, Allison Derenne, Teodor Asvadur Sulea, Christian Pecquet, Ilyas Chachoua, Gaelle Vertenoeil, Thomas Tilmant, Andrei-Jose Petrescu, Gabriel Mazzucchelli, Bogdan I. Iorga, Didier Vertommen, Stefan N. Constantinescu
Summary: In myeloproliferative neoplasms, frameshift mutants of calreticulin turn into rogue cytokines by inducing constitutive activation of the Thrombopoietin Receptor (TpoR). Here, the authors define how mutant calreticulin acquires specificity for TpoR binding and triggers its constitutive activation.
NATURE COMMUNICATIONS
(2023)
Article
Food Science & Technology
Fernanda Gobbi Amorim, Damien Redureau, Thomas Crasset, Lou Freuville, Dominique Baiwir, Gabriel Mazzucchelli, Stefanie K. K. Menzies, Nicholas R. R. Casewell, Loic Quinton
Summary: This study applies a new generation of proteomic methodology, the MELD approach, to deeply characterize complex snake venom protein mixtures. The MELD method improves the sequencing and identification of peptides and proteins, leading to a greater identification of toxins and proteins. These results demonstrate that MELD is a credible methodology for venomic analysis and has the potential to expand global knowledge about venom composition.
Article
Gastroenterology & Hepatology
Nicolas Pierre, Dominique Baiwir, Van Anh Huynh-Thu, Gabriel Mazzucchelli, Nicolas Smargiasso, Edwin De Pauw, Yoram Bouhnik, David Laharie, Jean-Frederic Colombel, Marie-Alice Meuwis, Edouard Louis
Summary: This study identified circulating biomarker candidates associated with the risk of mid/long-term relapse in Crohn's disease (CD) patients stopping infliximab for the first time. The findings also highlighted a sequence of pathophysiological processes leading to relapse, potentially aiding in a better understanding of disease progression. The novel marker combinations showed a high predicting capacity compared to current references in predicting relapse, suggesting potential for improved non-invasive evaluation of relapse risk in CD patients contemplating anti-TNFα withdrawal.
