Article
Chemistry, Analytical
Yu Wang, Bing Xia, Shunyan Deng, Ye Ye, Yan Zhou
Summary: The study introduces a new mass spectrometry imaging method that involves imprinting chemicals on a two-dimensional string plane for large sample analysis, demonstrating the ability to reconstruct 2D MSI images through data processing.
ANALYTICAL CHEMISTRY
(2022)
Article
Food Science & Technology
Lhiri Hanna De Lucca Caetano, Milton Yutaka Nishiyama-Jr, Bianca de Carvalho Lins Fernandes Tavora, Ursula Castro de Oliveira, Inacio de Loiola Meirelles Junqueira-de-Azevedo, Eliana L. Faquim-Mauro, Geraldo Santana Magalhaes
Summary: Research on the venom of Cryptops iheringi centipede involved transcriptomic characterization and proteomic analysis, revealing a novel potential toxin called Cryptoxin-1. The study linked this toxin to symptoms of envenomation and suggested the potential for exploring other proteins in the venom.
Article
Chemistry, Multidisciplinary
Huaxin Gong, Diego Uruchurtu Patino, Jan Ilavsky, Ivan Kuzmenko, Amnahir Estefania Pena-Alcantara, Chenhui Zhu, Aidan H. Coffey, Lukas Michalek, Ahmed Elabd, Xin Gao, Shucheng Chen, Chengyi Xu, Hongping Yan, Yuanwen Jiang, Weichen Wang, Yucan Peng, Yitian Zeng, Hao Lyu, Hanul Moon, Zhenan Bao
Summary: A versatile method for synthesizing nanostructured carbon materials based on flower-like PAN chemistry is reported. The resulting PAN superstructures can be easily converted to carbon superstructures. Surface modification of the nanostructured films resulted in high surface roughness and a contact angle of approximately 180 degrees. This study offers a strategy for the synthesis of nanostructured carbon materials for various applications.
Article
Biochemical Research Methods
Susmita Thakur, Avni Blotra, Karthikeyan Vasudevan, Anita Malhotra, Hmar Tlawmte Lalremsanga, Vishal Santra, Robin Doley
Summary: Green pit vipers, particularly Trimeresurus erythrurus, are the most prominent venomous snakes in tropical and subtropical Asia, causing the majority of snakebite cases in the region. This study conducted proteomic analysis of T. erythrurus venom and identified 53 different proteins/peptides belonging to various snake venom protein families. Enzymatic families, such as phospholipase A2 and snake venom serine proteases, along with nonenzymatic family Snaclec, were found to be responsible for consumptive coagulopathy in victims. Other proteins, including snake venom metalloproteases, L-amino acid oxidases, disintegrins, and cysteine-rich secretory proteins, were associated with painful edema, tissue necrosis, blistering, and defibrination. Additionally, trace proteins C-type lectins, C-type natriuretic peptides, and glutaminyl-peptide cyclotransfreases were observed. Platelet aggregation was also observed in the crude venom. This study provides valuable insights into the pathophysiological effects of T. erythrurus venom on bitten individuals.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Chemistry, Inorganic & Nuclear
Xu Zhang, Zhiqing Liu, Xingchen Jin, Fengrui Liu, Xinlei Ma, Ning Qu, Wang Lu, Yuhan Tian, Qiang Zhang
Summary: Controllable modulation strategies for metal-organic frameworks (MOFs) with one-dimensional (1D) and two-dimensional (2D) structures are reported. The ratio of Ni2+ and pyromellitic acid linker can be adjusted to facilely prepare 1D, 1D/2D, and 2D Ni-MOFs. Low-dimensional structures can shorten transmission distance, while high Ni2+ content in MOFs provides abundant active sites for oxidation-reduction reactions. The optimized Ni2+/pyromellitic acid ratio in the 2D structure Ni-MOF shows a good performance of 1036 F g-1 at a current density of 1 A g-1 and a comparable rate performance of 62% at 20 A g-1. This study offers a facile design to control the structure of MOFs for electrochemical energy storage.
INORGANIC CHEMISTRY
(2023)
Article
Oncology
Lazaro Hiram Betancourt, Jeovanis Gil, Aniel Sanchez, Viktoria Doma, Magdalena Kuras, Jimmy Rodriguez Murillo, Erika Velasquez, Ugur Cakir, Yonghyo Kim, Yutaka Sugihara, Indira Pla Parada, Beata Szeitz, Roger Appelqvist, Elisabet Wieslander, Charlotte Welinder, Natalia Pinto de Almeida, Nicole Woldmar, Matilda Marko-Varga, Jonatan Eriksson, Krzysztof Pawlowski, Bo Baldetorp, Christian Ingvar, Hakan Olsson, Lotta Lundgren, Henrik Lindberg, Henriett Oskolas, Boram Lee, Ethan Berge, Marie Sjogren, Carina Eriksson, Dasol Kim, Ho Jeong Kwon, Beatrice Knudsen, Melinda Rezeli, Johan Malm, Runyu Hong, Peter Horvath, A. Marcell Szasz, Jozsef Timar, Sarolta Karpati, Peter Horvatovich, Tasso Miliotis, Toshihide Nishimura, Harubumi Kato, Erik Steinfelder, Madalina Oppermann, Ken Miller, Francesco Florindi, Quimin Zhou, Gilberto B. Domont, Luciana Pizzatti, Fabio C. S. Nogueira, Leticia Szadai, Istvan Balazs Nemeth, Henrik Ekedahl, David Fenyo, Gyorgy Marko-Varga
Summary: The MM500 meta-study aims to establish a knowledge basis of the tumor proteome as a complement to genome and transcriptome studies. By analyzing 505 well-annotated melanoma tumor samples, the study defined the melanoma proteome landscape, including thousands of proteins and mutated proteoforms. The study found a high degree of correlation between the melanoma transcriptome and proteome, increasing understanding of melanoma disease.
CLINICAL AND TRANSLATIONAL MEDICINE
(2021)
Article
Chemistry, Multidisciplinary
Fan Wu, Ignacio Gutierrez-Lezama, Sara A. Lopez-Paz, Marco Gibertini, Kenji Watanabe, Takashi Taniguchi, Fabian O. von Rohr, Nicolas Ubrig, Alberto F. Morpurgo
Summary: Investigation on electronic transport through exfoliated multilayers of CrSBr, a 2D semiconductor, revealed a pronounced anisotropy along the crystallographic directions. The observed phenomenology and the detection of a 1D van Hove singularity in energy-resolved photocurrent measurements suggest that CrSBr exhibits quasi-1D electronic transport properties, unlike conventional 2D doped semiconductors.
ADVANCED MATERIALS
(2022)
Article
Multidisciplinary Sciences
Tattym E. Shaiken, Sandra L. Grimm, Mohamad Siam, Amanda Williams, Abdol-Hossein Rezaeian, Daniel Kraushaar, Emily Ricco, Matthew J. Robertson, Cristian Coarfa, Antrix Jain, Anna Malovannaya, Fabio Stossi, Antone R. Opekun, Alyssa P. Price, Julien Dubrulle
Summary: Despite the unclear structural organization within the cytoplasm, recent models propose the existence of viscous fluid and solid elastic phases called cytosol and cytomatrix. The cytomatrix contains structural proteins, ribosomes, and metabolome enzymes, and it exhibits unique biosynthetic pathways. The cytosol and cytomatrix form an interconnected network that affects protein translation and promotes cellular flexibility, potentially contributing to the survival of malignant cells.
Review
Materials Science, Multidisciplinary
Volodymyr Dudko, Olena Khoruzhenko, Sebastian Weiss, Matthias Daab, Patrick Loch, Wilhelm Schwieger, Josef Breu
Summary: This review highlights the alternative method of 1D dissolution for producing high-quality and high-yield 2D nanosheets, which overcomes the limitations of current methods. The theory behind this process is discussed, as well as its advantages and applications.
ADVANCED MATERIALS TECHNOLOGIES
(2023)
Article
Multidisciplinary Sciences
Florian Dirnberger, Jonas D. Ziegler, Paulo E. Faria, Rezlind Bushati, Takashi Taniguchi, Kenji Watanabe, Jaroslav Fabian, Dominique Bougeard, Alexey Chernikov, Vinod M. Menon
Summary: Strain engineering is used for designing high-temperature excitonic quantum devices by manipulating the electronic bandstructure and many-particle interactions of 2D TMDCs. The research demonstrates a deterministic way to confine and enhance the mobility of excitons, leading to highly directional exciton flow with significant anisotropy. This fundamental modification in the transport properties of excitons in deterministically strained 2D materials has broad implications for both solid-state science and emerging technologies.
Article
Chemistry, Physical
Jinping Zhang, Yingxue Li, Chunyan Xu, Jing Li, Liying Yang, Shougen Yin
Summary: This study reports an efficient and stable electrocatalyst for hydrogen production. The electrocatalyst has a unique structure and exhibits excellent catalytic performance. The uniform growth of MoS2 nanosheets and the reduction of aggregation are attributed to the inherent anchoring sites of TiVCTx. The multiwalled carbon nanotubes enhance the conductivity and electron transfer of the electrocatalyst. The electrocatalyst shows low overpotential, small Tafel slope, and high electrochemical durability.
ACS APPLIED ENERGY MATERIALS
(2022)
Article
Ecology
Tuany Siqueira-Silva, Luiz Antonio Gonzaga de Lima, Jonatas Chaves-Silveira, Talita Ferreira Amado, Julian Naipauer, Pablo Riul, Pablo Ariel Martinez
Summary: The study found that environments with higher productivity contribute to more complex snake venom with higher toxin proportions, while snake species living on islands with lower resource variability tend to have less complex venom dominated by fewer toxins. The extent of isolation of an island seems to play a role in the faster fixation of specific venom compositions.
GLOBAL ECOLOGY AND BIOGEOGRAPHY
(2021)
Article
Engineering, Civil
Tsang-Jung Chang, Hsiang-Lin Yu, Chia-Ho Wang, Albert S. Chen
Summary: A new approach for urban inundation modeling integrating 2D and 1D models with a cellular automata framework has been proposed in this study. It showed improved accuracy and computational efficiency compared to traditional approaches, making it a useful tool for real-time urban inundation modeling.
JOURNAL OF HYDROLOGY
(2021)
Article
Chemistry, Physical
Xuefei Li, Zhenfei Jiang, Feiyue Ge, Chen-Lei Tao, Wenjie Gu, Dan Xu, Feifan Chen, Zhuoyi Xie, Fang Cheng, Xue-Jun Wu
Summary: 1D/2D heterostructures allow for the combination of different dimensionalities into one system, but effective strategies for integrating these components are lacking. This study presents a general seeded growth method for constructing epitaxial 1D/2D heterostructures with various compositional combinations, expanding the variety and architecture of available heterostructures and providing a toolbox for exploring their promising applications.
CHEMISTRY OF MATERIALS
(2022)
Article
Computer Science, Interdisciplinary Applications
Daniel Rabinovich, Dan Givoli
Summary: The study discusses the coupling of 2D and 1D models to form a hybrid mixed-dimensional model for elastic wave propagation, utilizing the Dirichlet-to-Neumann (DtN) method. The continuity of the DtN map is enforced on the 2D-1D interface to ensure the continuity of wave propagation. The proposed approach is compared to the Panasenko semi-weak approach, showing advantages in handling transverse waves.
JOURNAL OF COMPUTATIONAL PHYSICS
(2022)
Article
Parasitology
Berilin Duong, Scott C. Cutmore, Thomas H. Cribb, Kylie A. Pitt, Nicholas Q-X Wee, Rodney A. Bray
Summary: A new species of lepocreadiid, Opechonoides opisthoporusn. sp., is described infecting 12 pomacentrid fish species from the Great Barrier Reef, Australia. This taxon differs from the only other known member of the genus, Opechonoides gure Yamaguti, 1940, in several characteristics. The study also provides insights into the host specificity, life cycle, and molecular data of this new species.
SYSTEMATIC PARASITOLOGY
(2022)
Article
Parasitology
Richard D. Corner, Rosemary J. Booth, Scott C. Cutmore
Summary: Plesiochorus Looss, 1901 is a genus of Gorgoderidae that infects the urinary bladders of marine turtles worldwide. Currently, only two morphologically similar species are recognized, namely Plesiochorus cymbiformis and Plesiochorus elongatus. This study describes a new species, Plesiochorus irwinorumn. sp., which primarily distinguishes itself from the other two species based on ITS2, cox1, and 28S sequence data. Little is known about the host specificity and geographical distribution of these three Plesiochorus species.
SYSTEMATIC PARASITOLOGY
(2022)
Article
Ecology
Christina Karagiorgis, Richard J. Ploeg, Abdul Ghafar, Charles G. Gauci, Tanapan Sukee, Scott C. Cutmore, Jorja Claybrook, Neil R. Loneragan, Nicholas Q-X Wee, Amber K. Gillett, Ian Beveridge, Abdul Jabbar
Summary: This study genetically characterised larval and adult specimens of Echinocephalus species collected from various hosts in Australian waters. The findings revealed morphological differences and genetic similarities between different specimens, and expanded the known intermediate host range of Echinocephalus to include a sea snake. These results highlight the importance of genetic characterisation for resolving the taxonomy of this genus.
INTERNATIONAL JOURNAL FOR PARASITOLOGY-PARASITES AND WILDLIFE
(2022)
Article
Food Science & Technology
Jaffer Alsolaiss, Nessrin Alomran, Laura Hawkins, Nicholas R. Casewell
Summary: Snakebite envenoming is a life threatening disease that is a major public health concern in the tropics. Bothrops snakes in Latin America are important for causing severe systemic and local tissue effects. This study investigated the effectiveness of three antivenoms against various Bothrops venoms. The antivenoms showed broad recognition and inhibition of venom toxins, suggesting potential expansion of their clinical use.
Article
Chemistry, Multidisciplinary
Yan Zhou, Peta J. Harvey, Johannes Koehbach, Lai Yue Chan, Alun Jones, Asa Andersson, Irina Vetter, Thomas Durek, David J. Craik
Summary: In this study, a novel method using asparaginyl endopeptidase (AEP)-mediated cyclization was successfully employed to generate backbone cyclic analogues of MVIIA. These cyclic analogues showed improved pharmaceutical properties, including enhanced stability and inhibition of calcium channels. This study highlights the potential of AEP transpeptidases in cyclizing complex peptides and improving the therapeutic value of conotoxins.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Biochemical Research Methods
Poanna Tran, Hue N. T. Tran, Kirsten L. McMahon, Jennifer R. Deuis, Lotten Ragnarsson, Alexander Norman, Simon J. Sharpe, Richard J. Payne, Irina Vetter, Christina I. Schroeder
Summary: This study aimed to design new bivalent inhibitors of Na(V)1.7 by combining the pore blocking activity of conotoxins with the gating modifier activity of spider toxins. The potency and selectivity of the resulting bivalent toxins were evaluated by ligating a conotoxin to a spider toxin. The bivalent peptide Pro[LPATG(6)]Sx, resulting from the ligation of ProTx-II and SxIIIC, showed the best combination with conserved potency at hNa(V)1.7.
BIOCONJUGATE CHEMISTRY
(2023)
Article
Chemistry, Organic
Hue N. T. Tran, Elena Budusan, Natalie J. Saez, Alexander Norman, Isaac J. Tucker, Glenn F. King, Richard J. Payne, Lachlan D. Rash, Irina Vetter, Christina I. Schroeder
Summary: Hi1a is a naturally occurring bivalent spider-venom peptide that shows promise for limiting ischemic damage. However, challenges in synthesizing and producing the peptide in large quantities have hindered progress in this area. Access to synthetic Hi1a is crucial for its development as a pharmacological tool and potential therapeutic.
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
Food Science & Technology
Eric Wachtel, Matyas A. Bittenbinder, Bas van de Velde, Julien Slagboom, Axel de Monts de Savasse, Luis L. Alonso, Nicholas R. Casewell, Freek J. Vonk, Jeroen Kool
Summary: The cytotoxicity caused by snake venoms is a serious medical problem. Snake venoms target a range of molecular structures to induce cytotoxic effects. A high-throughput assay using fluorescent ECM substrates was developed to monitor ECM degradation by snake venom toxins. Viperid venoms showed higher proteolytic degradation compared to elapid venoms. The assay allows the study of proteolytic activity towards the ECM in vitro for crude and fractionated venoms.
Article
Food Science & Technology
Luis L. L. Alonso, Julien Slagboom, Nicholas R. R. Casewell, Saer Samanipour, Jeroen Kool
Summary: This study focused on examining the variability found in the venom's small molecules between two main families of venomous snakes, and developed a model that can classify unknown samples by specific features extracted from their LC-MS data. The model also provides insight into the composition of snake venom by clustering similarly composed venoms. The support vector machine model used 20 features merged into 10 principal components, and correctly classified all samples from the validation data subsets. The study also presents relevant biological hypotheses regarding the identified metabolite variations.
Article
Biology
Matyas A. Bittenbinder, Nick D. Bergkamp, Julien Slagboom, Jan Paul M. Bebelman, Nicholas R. Casewell, Marco H. Siderius, Martine J. Smit, Jeroen Kool, Freek J. Vonk
Summary: Snakebite envenoming is a significant public health concern with high mortality rates. Snake venoms can have various harmful effects on the body, including tissue damage. This study presents a workflow using fluorescently labeled ECM components to investigate the degradation of ECM caused by snake venom. This approach provides valuable insights into the mechanisms of proteolytic venom components and could aid in the development of effective snakebite treatments.
Article
Pharmacology & Pharmacy
Rohit N. Patel, Rachel H. Clare, Line Ledsgaard, Mieke Nys, Jeroen Kool, Andreas H. Laustsen, Chris Ulens, Nicholas R. Casewell
Summary: Snakebite envenoming is a neglected tropical disease that causes over 100,000 deaths annually. Traditional treatments are difficult to access and not always effective, so researchers are seeking new therapeutic approaches. This study develops a screening assay to validate and identify substances that activate or inhibit the neurotoxicity caused by snakebite.
BIOCHEMICAL PHARMACOLOGY
(2023)
Article
Food Science & Technology
Sedef Terzioglu, Matyas A. Bittenbinder, Julien Slagboom, Bas van de Velde, Nicholas R. Casewell, Jeroen Kool
Summary: Modern analytical size exclusion chromatography (SEC) is a suitable technique for separating venom toxin families based on their size characteristics. In this study, a method was developed using volatile, non-salt-containing solvents for analytical SEC, which allowed for the separation of intact venom toxins from Bungarus multicinctus and Daboia russelii venoms. This method was effective for post-column mass spectrometry, coagulation bioassaying, and high-throughput venomics. The results showed the presence of both procoagulant and anticoagulant toxins in Bungarus multicinctus venom, and identified a 90 kDa mass toxin as the Factor X-activating procoagulant heterotrimeric glycoprotein named RVV-X in Daboia russelii venom.
Article
Food Science & Technology
Jamila Ahmed, Andrew A. Walker, Hugo D. Perdomo, Shaodong Guo, Samantha A. Nixon, Irina Vetter, Hilary I. Okoh, Dalhatu M. Shehu, Mohammed N. Shuaibu, Iliya S. Ndams, Glenn F. King, Volker Herzig
Summary: The control of diseases transmitted by Aedes aegypti mainly relies on chemical insecticides, but insecticide resistance in A. aegypti hampers the effectiveness of current control measures. To address this issue, researchers screened spider and scorpion venoms for mosquitocidal toxins, and identified two peptides from the venom of Lasiodora klugi tarantula with activity against adult A. aegypti. These peptides, named U-TRTX-Lk1a and U-TRTX-Lk2a, have the potential to serve as novel control agents for A. aegypti.
Article
Chemistry, Multidisciplinary
Poanna Tran, Theo Crawford, Lotten Ragnarsson, Jennifer R. Deuis, Mehdi Mobli, Simon J. Sharpe, Christina I. Schroeder, Irina Vetter
Summary: Multiple spider venom-derived gating modifier toxins exhibit conformational heterogeneity during purification by RP-HPLC. This phenomenon, often attributed to proline cis/trans isomerization, has also been observed in peptides without a proline residue. Pn3a is one such peptide forming two distinguishable peaks that readily interconvert. In this study, an N-terminal modification of Pn3a allowed the isolation of the conformers and revealed that the earlier-eluting conformer is inactive and disordered, while the later-eluting conformer is active with a rigid structure corresponding to the published structure of Pn3a. The exchange is pH-dependent and may be caused by reversible disruption and formation of intramolecular salt bridges.
Article
Biochemical Research Methods
Tanushree Halder, Elke Stroeher, Hui Liu, Yinglong Chen, Guijun Yan, Kadambot H. M. Siddique
Summary: Improving the root system of wheat is crucial for enhancing grain yield and climate resilience. This study identified proteins associated with root length and root mass in wheat using label-free quantitative proteomics. The findings revealed potential biomarkers that could be used for improving the root system of wheat.
JOURNAL OF PROTEOMICS
(2024)
Article
Biochemical Research Methods
Yinhua Pan, Quanqing Zou, Wu Yin, Zhen Huang, Yingzhu Zhao, Zongming Mo, Lihui Li, Jianrong Yang
Summary: A prognostic model of BC based on LNM-related genes was established in this study, providing guidance for prognosis evaluation and precise treatment of BC. The genes related to lymph node metastasis in BC are largely unknown and need further exploration. Searching for potential lymph node metastasis-related genes of BC will provide meaningful biomarkers for BC treatment. Our model, based on TCGA-BRCA data, effectively predicted patient outcomes and classified BC patients. The identified feature genes might have a predictive function in immunotherapy. The results of this study provide a new reference for the prognosis and treatment of BC patients with lymph node metastasis.
JOURNAL OF PROTEOMICS
(2024)
Article
Biochemical Research Methods
Qiushi Liang, Joon M. Pijnenburg, Erikjan Rijkers, Arnold G. Vulto, Ans T. van der Ploeg, Niek P. van Til, Eva C. Vlaar, Jeroen A. A. Demmers, W. W. M. Pim Pijnappel
Summary: Pompe disease is a lysosomal storage disorder characterized by glycogen accumulation in skeletal muscle, leading to profound pathology. This study showed that lentiviral gene therapy with LV-IGF2.GAAco can nearly completely correct disease-associated proteomic changes, supporting its future clinical development as a new treatment option for Pompe disease.
JOURNAL OF PROTEOMICS
(2024)
Article
Biochemical Research Methods
Chuang Liu, Wenjing Zhang, Qianli Dong, Haipeng Liu
Summary: This study fills the knowledge gap about the matrix proteins involved in the formation of mineralized exoskeletons in decapod crustaceans. By comparing with well-studied molluscan biomineralization proteins, it is proposed that decapod crustaceans evolved novel proteins while sharing some proteins with molluscs. This study provides insights into the evolution and adaptation of crustaceans and molluscs in forming their exoskeletons.
JOURNAL OF PROTEOMICS
(2024)
Article
Biochemical Research Methods
Rania D. Baka, Josipa Kules, Angelo Beletic, Vladimir Farkas, Dina Resetar Maslov, Blanka Beer Ljubic, Ivana Rubic, Vladimir Mrljak, Mark McLaughlin, David Eckersall, Zoe Polizopoulou
Summary: This study analyzed serum samples from dogs with epilepsy and identified potential markers of epilepsy, proteins involved in nerve tissue regeneration, and proteins altered by antiepileptic medication. The findings provide insight into the pathogenesis of epilepsy and the effects of medication on extracellular matrix proteins.
JOURNAL OF PROTEOMICS
(2024)
Article
Biochemical Research Methods
Viviane M. Codognoto, Fabiana F. de Souza, Thais R. Cataldi, Carlos A. Labate, Laiza S. de Camargo, Pedro H. Esteves Trindade, Roberto R. da Rosa Filho, Diego J. B. de Oliveira, Eunice Oba
Summary: This study aimed to compare urine proteomics from non- and pregnant buffaloes to identify potential biomarkers of early pregnancy. A total of 798 proteins were reported in the urine considering all groups, and the differential proteins play essential roles during pregnancy.
JOURNAL OF PROTEOMICS
(2024)
