Article
Chemistry, Analytical
Li Luo, Jiewei Yang, Zhi Li, Hua Xu, Lei Guo, Lili Wang, Yuxia Wang, Longlong Luo, Jing Wang, Pingping Zhang, Ruifu Yang, Weijun Kang, Jianwei Xie
Summary: A novel label-free immunosensor method was developed in this study for differentiation and quantification of ricin and abrin, showing rapid and accurate measurement in various complex matrices. The results demonstrate the potential practical application value of this method.
Review
Chemistry, Analytical
Meral Yuce, Fatma Sert, Milad Torabfam, Ayhan Parlar, Busra Gurel, Nilufer Cakir, Duygu E. Daglikoca, Mansoor A. Khan, Yilmaz capan
Summary: This article rigorously assesses the similarity between originator and biosimilar monoclonal antibodies, emphasizing the importance of charge variant analysis and its necessity for biotherapeutics. Comparative structural and functional analysis, along with techniques such as liquid chromatography-mass spectrometry and surface plasmon resonance, can effectively evaluate and validate the charge variants of monoclonal antibodies.
ANALYTICA CHIMICA ACTA
(2021)
Article
Biochemistry & Molecular Biology
John P. Giddens, John E. Schiel
Summary: This study describes the development and application of a strategy to generate functionally relevant analytical challenge materials with unique site-specific attributes. By using a ligand bound to the antibody during oxidative stress, unique oxidation patterns with site-specific modifications were generated. The study demonstrates rapid detection of antibody oxidation using surface plasmon resonance assay and qualitative thermal melting.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Guillaume Fouet, Isabelle Bally, Luca Signor, Katharina Haussermann, Nicole M. Thielens, Veronique Rossi, Christine Gaboriaud
Summary: C1q is a recognition protein of the classical complement pathway that can interact with multiple targets and initiate the complement cascade. This study reports the generation of the first recombinant form of human C1q without its recognition globular heads, retaining functional properties. By controlling the correct registering of collagen triple helices, the protein was correctly assembled and folded.
Article
Chemistry, Analytical
Edwin J. Ortiz-Riano, Diana L. Mancera-Zapata, Martha Ulloa-Ramirez, Fernando Arce-Vega, Eden Morales-Narvaez
Summary: Macromolecular association is important in biomedical sciences. This study presents a real-time biosensing platform using graphene oxide-modified microwell plates and fluorophore-labeled proteins to determine protein-binding constants. The platform proves to be comparable and consistent with existing methods in determining protein kinetics constants.
ANALYTICAL CHEMISTRY
(2022)
Review
Biochemistry & Molecular Biology
Meletia Kallianta, Eftychia Pappa, Heleni Vastardis, Christos Rahiotis
Summary: Mass Spectrometry (MS) is a highly sensitive and universal analytical technique that has rapidly developed in recent decades. It has various applications in dentistry, including research on dental materials and agents, laboratory analysis of biospecimens, and real-time diagnostics in oral surgery and pathology. MS can provide valuable insights into the clinical behavior, toxicity, antimicrobial properties, and biomarkers of dental materials and agents. It is also effective in detecting biomarkers in saliva and providing a comprehensive understanding of cellular functions through metabolite analysis. Additionally, MS shows promising potential for surgical approaches to oral malignant disorders. Overall, MS has revolutionized dental research and has the potential to advance personalized dentistry.
Article
Chemistry, Analytical
Pengfei Zhang, Rui Wang, Zijian Wan, Xinyu Zhou, Guangzhong Ma, Jayeeta Kolay, Jiapei Jiang, Shaopeng Wang
Summary: The article introduces a total internal reflection-based evanescent scattering microscopy technique that can detect single proteins without labeling and provides a high-precision measurement method for protein binding kinetics.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
L. Fiengo, G. Lauro, M. L. Bellone, G. Bifulco, F. Dal Piaz, N. De Tommasi
Summary: Hsp70 is over-expressed in cancer cells and plays crucial roles in cell proliferation and protection. Epoxysiderol is identified as a potential inhibitor that interacts with Hsp70, affecting its ATPase activity and reducing the translocation of the chaperone to the cell membrane, potentially serving as an anti-metastasis agent.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Optics
Yong Wei, Chen Shi, Chunlan Liu, Chunbiao Liu, Xingkai Wang, Yixiong Tang, Rui Wang, Zhihai Liu
Summary: In this paper, a 3D displacement sensor based on fiber SPR is proposed to measure micro displacement in X, Y and Z axes.
Article
Optics
Shu-cheng Lo, Chia-wei Lee, Ruey-lin Chern, Pei-kuen Wei
Summary: In this work, high-performance surface plasmonic sensors using gold nanostructures and Bragg photonic structures are presented. The hybrid Tamm-plasmon mode, resulting from the Fano coupling between higher order Tatum plasmon states and Bloch-wave surface plasmon polariton on the gold nanoslit array, demonstrates high surface sensitivity and resonant quality. The experimental results show that the hybrid mode has significantly higher sensitivity and better signal-to-noise ratios in biomolecular interaction measurement.
Article
Chemistry, Multidisciplinary
Chun-Yuan Wang, Yungang Sang, Xinyue Yang, Soniya S. Raja, Chang-Wei Cheng, Haozhi Li, Yufeng Ding, Shuoyan Sun, Hyeyoung Ahn, Chih-Kang Shih, Shangjr Gwo, Jinwei Shi
Summary: This study demonstrates a strong coupling system achieved by coupling localized surface plasmon modes. Under specific conditions, a root N scaling of Rabi splitting energy is observed, along with a confirmed giant Rabi splitting in the visible spectral range. Additionally, the coupling strength reaches the ultrastrong coupling regime in some cases, representing about 10% of the mode energy.
Article
Biochemistry & Molecular Biology
Sumaiya Nazli, Kip D. Zimmerman, Angelica M. Riojas, Laura A. Cox, Michael Olivier
Summary: The proteomic analysis of plasma has great potential for precision medicine and biomarker identification. However, detecting and quantifying low abundance proteins in plasma is challenging. This study developed a mass spectrometry approach using tandem mass tags (TMT) and a tissue reference sample, which successfully identified and quantified numerous proteins in nonhuman primate plasma samples. The methodology promises to increase the number of putative disease biomarkers by efficiently quantifying plasma proteins released from specific tissues.
Review
Biochemistry & Molecular Biology
Ekaterina Mikhailovna Stakhneva, Evgeniia Vitalievna Striukova, Yulia Igorevna Ragino
Summary: Proteomic studies play a crucial role in investigating atherosclerotic cardiovascular diseases, identifying potential biomarkers, and offering novel diagnostic approaches.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Chemistry, Analytical
Smriti Kumar, Yun Zhu, Lauren Stover, Arthur Laganowsky
Summary: This study used native mass spectrometry and trimethylamine N-oxide (TMAO) as a charge-reducing agent to characterize lipid binding events to the bacterial ammonia channel (AmtB). The results showed that the addition of TMAO decreased the average charge state and increased the spacing between nearby charge states, allowing for the observation of more lipid binding events and determination of binding constants. The binding constants for higher lipid binding events converged to a similar value, suggesting a transition from nonannular to annular lipid binding to AmtB.
ANALYTICAL CHEMISTRY
(2022)
Article
Immunology
Larissa van der Maas, Maarten Danial, Gideon F. A. Kersten, Bernard Metz, Hugo D. Meiring
Summary: A mass spectrometric method was developed to identify and quantify antigens in DTaP vaccines. The method can be used for both final batch release and in-process control monitoring, potentially reducing the need for animal testing.
Article
Biochemical Research Methods
Soumya Mukherjee, Andris Jankevics, Florian Busch, Markus Lubeck, Yang Zou, Gary Kruppa, Albert J. R. Heck, Richard A. Scheltema, Karli R. Reiding
Summary: Ion mobility enables spatial separation of ions in the gas phase, providing information about their size. The timsTOF Pro device can physically separate N-glycopeptides from nonmodified peptides and produce high-quality fragmentation spectra. This method allows for the effective selection of analytes of interest based on the clear cluster in the mobiologram formed by the glycan moieties enlarging the size of glycopeptides.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Biochemical Research Methods
Wouter van Bergen, Johannes F. Hevler, Wei Wu, Marc P. Baggelaar, Albert J. R. Heck
Summary: Most drugs target proteins, and determining the exact drug binding sites on proteins is crucial for understanding their effects. A strategy called PhosID-ABPP was developed to identify drug binding sites using immobilized metal-affinity chromatography and phosphonate affinity tags. This method successfully identified over 500 unique binding sites of the drug PF-06672131. PhosID-ABPP also revealed differences in binding sites between intact cells and cell lysates, and captured a previously elusive binding site on the epidermal growth factor receptor.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Review
Chemistry, Multidisciplinary
Evolene Desligniere, Amber Rolland, Eduard H. T. M. Ebberink, Victor Yin, Albert J. R. Heck
Summary: Native mass spectrometry is widely used for determining the mass of intact proteins and their biomolecular assemblies. However, it can be challenging for heterogeneous protein complexes. In 2012, an Orbitrap-based mass analyzer with extended mass range was introduced, enabling high-resolution mass spectra of large protein assemblies and single ion measurements. This led to the development of single-molecule Orbitrap-based charge detection mass spectrometry in 2020, which has opened doors for innovative research in various systems.
ACCOUNTS OF CHEMICAL RESEARCH
(2023)
Article
Cardiac & Cardiovascular Systems
Gunasekaran Subramaniam, Katharina Schleicher, Duangnapa Kovanich, Anna Zerio, Milda Folkmanaite, Ying-Chi Chao, Nicoletta C. Surdo, Andreas Koschinski, Jianshu Hu, Arjen Scholten, Albert J. R. Heck, Maria Ercu, Anastasiia Sholokh, Kyung Chan Park, Enno Klussmann, Viviana Meraviglia, Milena Bellin, Sara Zanivan, Svenja Hester, Shabaz Mohammed, Manuela Zaccolo
Summary: In this study, previously unrecognized cAMP nanodomains associated with beta-adrenergic stimulation were identified using an integrated phosphoproteomics approach and network analysis. The composition and function of one of these nanodomains were validated. The findings reveal a mechanism that explains the negative long-term clinical outcome observed in patients with heart failure treated with PDE3 inhibitors.
CIRCULATION RESEARCH
(2023)
Article
Medicine, Research & Experimental
Dario A. T. Cramer, Vojtech Franc, Anna-Katharina Heidenreich, Michaela Hook, Mahdi Adibzadeh, Dietmar Reusch, Albert J. R. Heck, Markus Haberger
Summary: This article focuses on the characterization of high molecular weight species (HMWs) in complex antibody formats, such as bispecifics, and their impact on activity. The study presents a multi-method approach for the identification, analysis, and understanding of HMW by-products, which is important for the development and evaluation of therapeutic bispecific antibodies.
Article
Biochemistry & Molecular Biology
Johannes F. Hevler, Pascal Albanese, Alfredo Cabrera-Orefice, Alisa Potter, Andris Jankevics, Jelena Misic, Richard A. Scheltema, Ulrich Brandt, Susanne Arnold, Albert J. R. Heck
Summary: The tricarboxylic acid cycle is a central pathway for energy production in eukaryotic cells and plays a key role in aerobic respiration across all life kingdoms. The 2-oxoglutarate dehydrogenase complex (OGDHC) is a crucial enzyme in this cycle, generating NADH by oxidatively decarboxylating 2-oxoglutarate to succinyl-CoA. We provide evidence that MRPS36 is an important component of eukaryotic OGDHC, supported by cross-linking mass spectrometry data and phylogenetic analyses. We propose that MRPS36 evolved as an E3 adaptor protein, functionally replacing the peripheral subunit-binding domain (PSBD) in eukaryotic E2o.
Article
Andrology
Min Zhang, Riccardo Zenezini Chiozzi, Elizabeth G. Bromfield, Albert J. R. Heck, J. Bernd Helms, Bart M. Gadella
Summary: This study aimed to identify the interacting partners of CRISP2. The interactions of these binding partners were investigated under different conditions. The results suggest that CRISP2 may act as a scaffold for protein complex formation and dissociation to ensure the correct positioning of proteins required for the acrosome reaction and zona pellucida penetration.
Article
Biology
Leire Aguinagalde Salazar, Maurits A. den Boer, Suzanne M. Castenmiller, Seline A. Zwarthoff, Carla de Haas, Piet C. Aerts, Frank J. Beurskens, Janine Schuurman, Albert J. R. Heck, Kok van Kessel, Suzan H. M. Rooijakkers
Summary: In this study, it is found that by modifying the structure of monoclonal antibodies (mAbs), the immune protection and bactericidal effect against Streptococcus pneumoniae can be improved. The modified mAbs effectively activate the complement system and recruit complement component C1 for bacterial clearance, enhancing the antibacterial activity against various serotypes of pneumococci. This study provides an important proof of concept for the future development of antibody therapies against encapsulated bacteria.
Article
Biotechnology & Applied Microbiology
Yen-Hsi Chen, Weihua Tian, Makiko Yasuda, Zilu Ye, Ming Song, Ulla Mandel, Claus Kristensen, Lorenzo Povolo, Andre R. A. Marques, Tomislav Caval, Albert J. R. Heck, Julio Lopes Sampaio, Ludger Johannes, Takahiro Tsukimura, Robert Desnick, Sergey Y. Y. Vakhrushev, Zhang Yang, Henrik Clausen
Summary: Currently available enzyme replacement therapies for lysosomal storage diseases are limited in their effectiveness due to short circulation times and suboptimal biodistribution of the therapeutic enzymes. Researchers have engineered Chinese hamster ovary (CHO) cells to produce glycoengineered enzymes, which have improved circulation time and biodistribution. This glycoengineering approach, known as Long-Acting-GlycoDesign (LAGD), may be widely applicable to lysosomal replacement enzymes to improve their circulatory stability and therapeutic efficacy.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Oncology
Beiping Miao, Zhaoqing Hu, Riccardo Mezzadra, Lotte Hoeijmakers, Astrid Fauster, Shangce Du, Zhi Yang, Melanie Sator-Schmitt, Helena Engel, Xueshen Li, Caroline Broderick, Guangzhi Jin, Raquel Gomez-Eerland, Lisette Rozeman, Xin Lei, Hitoshi Matsuo, Chen Yang, Ingrid Hofland, Dennis Peters, Annegien Broeks, Elke Laport, Annika Fitz, Xiyue Zhao, Mohamed A. A. Mahmoud, Xiujian Ma, Sandrine Sander, Hai-kun Liu, Guoliang Cui, Yu Gan, Wei Wu, Yanling Xiao, Albert J. R. Heck, Wenxian Guan, Scott W. Lowe, Hugo M. Horlings, Cun Wang, Thijn R. Brummelkamp, Christian U. Blank, Ton N. M. Schumacher, Chong Sun
Summary: The dysregulation of immune checkpoint molecules allows cancer cells to escape immune destruction. CD58, an important costimulatory ligand, is found to be positively regulated by CMTM6, which also interacts with PD-L1. The presence of CMTM6 and CD58 on tumor cells significantly affects T cell-tumor interactions and the response to PD-L1-PD-1 blockade.
Article
Cell Biology
Dusanka Milenkovic, Jelena Misic, Johannes F. Hevler, Thibaut Molinie, Injae Chung, Ilian Atanassov, Xinping Li, Roberta Filograna, Andrea Mesaros, Arnaud Mourier, Albert J. R. Heck, Judy Hirst, Nils-Goran Larsson
Summary: The mammalian respiratory chain complexes CI, CIII2, and CIV form a stable assembly called the respirasome, which is critical for cellular bioenergetics. By studying knockin mice with decreased levels of respirasomes, researchers found that high levels of respirasomes are dispensable for maintaining bioenergetics and physiology in mice. However, the alternate functions of respirasomes, such as regulating protein stability and preventing age-associated protein aggregation, need further investigation.
Article
Biochemical Research Methods
Johannes F. Hevler, Albert J. R. Heck
Summary: Mitochondria, packed with proteins, play important roles in various cellular processes. While many mitochondrial protein complexes have been identified, some protein-protein interactions remain elusive. Cross-linking mass spectrometry (XL-MS) has proven to be a valuable tool for the in-depth characterization of these interactions. In this article, experimental strategies for the analysis of proteome-wide protein-protein interactions in mitochondria using XL-MS are highlighted, along with recent technological advances that can further enhance the in situ characterization of these interactions.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Oncology
Marjolein C. Stip, Mitchell Evers, Maaike Nederend, Chilam Chan, Karli R. Reiding, Mirjam J. Damen, Albert J. R. Heck, Sofia Koustoulidou, Ruud Ramakers, Gerard C. Krijger, Remmert de Roos, Edouard Souteyrand, Annelisa M. Cornel, Miranda P. Dierselhuis, Marco Jansen, Mark de Boer, Thomas Valerius, Geert van Tetering, Jeanette H. W. Leusen, Friederike Meyer-Wentrup
Summary: Researchers engineered an antibody called IgA3.0 ch14.18, which shows promise as a new therapy for neuroblastoma. The antibody has a longer half-life, increased protein stability, and potent tumor-killing abilities.
JOURNAL FOR IMMUNOTHERAPY OF CANCER
(2023)
Article
Biochemistry & Molecular Biology
Inge Gazi, Karli R. Reiding, Andre Groeneveld, Jan Bastiaans, Thom Huppertz, Albert J. R. Heck
Summary: We monitored the changes in bovine milk IgG over a 28-day period after calving, finding that IgG accounts for over 50% of protein content in colostrum but less than 3% in mature milk. The N-glycosylation profile of bovine milk IgG was found to be highly heterogeneous with over 40 glycoforms, and this profile changed significantly during lactation. We also identified the presence of IgG3 subtype in bovine milk, alongside IgG1 and IgG2. These findings are important for understanding calf's immune development and the nutritional value of bovine milk.
Article
Immunology
Kelly A. Dingess, Max Hoek, Danique M. H. van Rijswijk, Sem Tamara, Maurits A. den Boer, Tim Veth, Mirjam J. A. Damen, Arjan Barendregt, Michelle Romijn, Hannah G. Juncker, Britt J. van Keulen, Gestur Vidarsson, Johannes B. van Goudoever, Albert Bondt, Albert J. R. Heck
Summary: The most abundant immunoglobulin in the human body is IgA and it is found in high concentrations in mucosal lining and biofluids like milk. The structure and clonal repertoire of IgA1-containing molecular assemblies were analyzed using mass spectrometry-based approach in serum and milk from three donors. The results showed that serum IgA1 consists of two distinct structural populations, monomeric IgA1 and dimeric J-chain coupled IgA1, while IgA1 in milk is present only as secretory IgA (SIgA) with various assemblies. The IgA1-Fab repertoires in serum and milk were also found to be different.
CELLULAR & MOLECULAR IMMUNOLOGY
(2023)