Article
Biochemistry & Molecular Biology
Michael C. Yoon, Janneca Ames, Charles Mosier, Zhenze Jiang, Sonia Podvin, Anthony J. O'Donoghue, Vivian Hook
Summary: This study analyzed the proteases involved in neuropeptide processing using peptide profiling, and found that cathepsin L and cathepsin V cleave at the N-terminal side and between dibasic residues, while PC1/3 and PC2 cleave at the C-terminal side of a few peptide substrates. Cathepsin L showed the highest specific activity.
ACS CHEMICAL NEUROSCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Nhu Q. Vu, Kellen DeLaney, Lingjun Li
Summary: Neuropeptides are important endogenous peptides in the nervous system regulating physiological functions, and investigating their dysregulation is crucial for understanding their role in diseases. Mass spectrometry, especially mass spectrometry imaging (MSI), is a powerful tool for global profiling multiple neuropeptides simultaneously. Recent advancements in MSI sample preparation and instrumentation have shown improvements in neuropeptide detection, signal to noise ratio, and spatial resolution, indicating potential for clinical applications.
CURRENT PROTEIN & PEPTIDE SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Claudia Neves Correa, Louise Oliveira Fiametti, Gabriel Marques de Barros, Leandro Mantovani de Castro
Summary: This study identified 1080 peptides in the gills of the seahorse H. reidi using fast heat inactivation of proteases and liquid chromatography coupled to mass spectrometry. Among these peptides, 1013 were present in all samples and 67 were identified in an additional LC-MS/MS run from an alkylated and reduced pool of samples. The majority of the identified peptides were fragments of the internal region of precursor proteins, including ribosomal proteins, histones, and hemoglobin, and some fragments from moronecidin-like protein with antimicrobial activity were also found.
Article
Biochemical Research Methods
Nhu Q. Vu, Hsu-Ching Yen, Lauren Fields, Weifeng Cao, Lingjun Li
Summary: Neuropeptides play important regulatory roles in biochemical, physiological, and behavioral processes. This study introduces HyPep, a novel database searching tool that utilizes sequence homology searching for neuropeptide identification. The performance of HyPep was optimized and compared with a commercial database searching software, PEAKS DB, using LC-MS/MS measurements. HyPep identified more neuropeptides than PEAKS DB at a 1% false discovery rate and both programs had a false match rate of 2%. The report also highlights how HyPep can aid in the discovery of novel neuropeptides.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Biochemical Research Methods
Kellen DeLaney, Mengzhou Hu, Wenxin Wu, Michael P. Nusbaum, Lingjun Li
Summary: The study utilized DIA mass spectrometry to improve the detection of neuropeptides in the crustacean stomatogastric ganglion, revealing differences in the presence and relative abundance of neuropeptides at different stages of the feeding process. Additionally, 96 putative neuropeptide sequences were identified through de novo sequencing, indicating the potential existence of more key modulators within this system.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Heather G. Marco, Simone Koenig, Gerd Gade
Summary: The importance of insects in ecosystems is undeniable, but the misuse of insecticides has led to a decline in insect biomass. Researchers have identified a prominent neuropeptide hormone called AKH in insects and created a database of bioactive peptides for future study. By using high-resolution mass spectrometry and liquid chromatography, they have identified and confirmed AKH sequences in five insect species, including novel sequences.
Review
Biochemical Research Methods
Rachel E. Foreman, Amy L. George, Frank Reimann, Fiona M. Gribble, Richard G. Kay
Summary: Improvements in LC and MS instrumentation have enhanced proteomic and metabolomic analysis, but there has been less focus on detecting and quantifying small bioactive peptides. It is important to preserve the structure of processed peptide products to prevent misidentification and consider the stability of peptides in biological matrices when developing methods to study them. Bioinformatic analysis of peptidomics data sets should include specific post-translational modifications critical for the function of bioactive peptides.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Food Science & Technology
Xin Wang, Yuning Chen, Yue Liu, Lei Ouyang, Ruonan Yao, Zhihui Wang, Yanping Kang, Liying Yan, Dongxin Huai, Huifang Jiang, Yong Lei, Boshou Liao
Summary: The spatial distribution of lipids and other key components in three peanut cultivars was investigated using the MALDI-MSI technique. The study revealed a non-homogeneous spatial distribution of metabolites, which is related to the different functions of particular tissue regions. These findings have implications for the development of oil crops with higher oil yields and improvement of food processing.
Review
Biochemistry & Molecular Biology
Besnik Muqaku, Patrick Oeckl
Summary: Mass spectrometry is an important technique for analyzing biomolecules, especially in the field of neurodegenerative diseases where peptidomics analysis of cerebrospinal fluid samples has played a crucial role.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Cardiac & Cardiovascular Systems
Shenglong Zhao, Chenghong Yin, Yanhong Zhai, Zhaoxia Jia, Shaofei Su, Yifan Lu, Lanlan Meng, Chunbo Li, Xiang Liu, Yuting Cong, Youran Li, Ying Liu, Lu Chen, Jing Wang, Zhengwen Xu, Yuanyuan Zheng, Zhi Sun, Ruben Y. Luo, Xiaobo Yu, He S. Yang, Xiaowei Liu, Zhen Zhao, Zheng Cao
Summary: The study identified and validated a novel three-peptide biomarker panel predictive for preeclampsia in pregnant women using peptidomics. The levels of three peptides (FGA-1033.4, ITIH4-2026.9, ITIH4-2051.1) showed significant differences between PE-positive and PE-negative groups, with an AUC of 0.985 and 0.923 in the discovery and validation cohorts respectively.
FRONTIERS IN CARDIOVASCULAR MEDICINE
(2022)
Article
Biochemical Research Methods
Pawel Marciniak, Joanna Pacholska-Bogalska, Lapo Ragionieri
Summary: This study analyzed the neuropeptidomes of two closely related tenebrionid beetles, Tenebrio molitor and Zophobas atratus, providing a basis for further functional studies and the design of environmentally friendly peptidomimetics. The identification of numerous neuropeptides and protein hormones precursors in these beetles will be useful for optimizing production programs and could potentially lead to the development of new biopesticides.
JOURNAL OF PROTEOME RESEARCH
(2022)
Review
Biochemical Research Methods
Shuting Xu, Huwei Liu, Yu Bai
Summary: Immunoassay is a crucial clinical technique for disease diagnosis. Mass spectrometry immunoassays (MSIAs) have become popular due to their powerful readout capabilities and improved sensitivity through the development of mass labels. MSIAs have expanded from element-based methods to laser-based and ambient MS, offering high potential for clinical applications such as biomarker screening and single-cell analysis.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Immunology
Chun-Xue Zhou, Min Gao, Bing Han, Hua Cong, Xing-Quan Zhu, Huai-Yu Zhou
Summary: Our study utilized a label-free peptidomics approach to identify over 2,700 endogenous peptides in the brains of hosts infected with Toxoplasma gondii. Quantitative analysis revealed hundreds of differentially expressed peptides during acute and chronic infection stages. Functional analysis suggested these peptides play roles in cellular processes and come from cell parts.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Chemistry, Applied
Olivia Ogilvie, Sarah Roberts, Kevin Sutton, Nigel Larsen, Juliet Gerrard, Laura Domigan
Summary: The study investigated the impact of adding different concentrations of mTG to bread on gluten structure, digestibility, and immunogenic peptides. The results showed that the addition of mTG did not affect the deamidation state and digestibility of immunogenic peptides, indicating that mTG addition does not produce activated gluten peptides.
Editorial Material
Biochemistry & Molecular Biology
James W. Checco
Summary: Peptidomics is an underutilized method that uses mass spectrometry to identify and measure endogenous peptides, which play crucial biological roles and have potential as biomarkers. This article serves as a brief introduction to peptidomics, aiming to raise awareness and encourage its application among researchers interested in studying endogenous peptides.
ACS CHEMICAL NEUROSCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Trang Van Tran, Hoa Nguyen, Luyen Vu, ChangWoo Lee
Summary: Glutaredoxin 3 (Grx3) is a redox protein that maintains structural integrity and glutathione (GSH) binding capabilities across different temperatures. This study investigates the roles of specific bonds in Grx3's structure and function, and how psychrophilic Grx3 variants adapt to cold environments. The highly conserved Arg51-Asp69 salt bridge and Gln56-His63 hydrogen bond are crucial for stabilizing the structure and catalytic activity of Grx3. Psychrophilic variants of Grx3 have adapted to cold environments by reducing GSH binding and increasing structural flexibility.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Amanda Lais de Souza Coto, Arthur Alexandre Pereira, Sabrina Dorta Oliveira, Milene Nobrega de Oliveira Moritz, Arthur Moraes Franco da Rocha, Paulo Roberto Dores-Silva, Noeli Soares Melo da Silva, Ana Rita de Araujo Nogueira, Lisandra Marques Gava, Thiago Vagas Seraphim, Julio Cesar Borges
Summary: J-domain proteins form a large molecular chaperone family involved in proteostasis processes, with hDjC20 playing a vital role in mitochondria and being heavily influenced by the presence of Zn+2.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Meiling Zhang, Jiaxiang Zhang, Yan Liang, Shicheng Tian, Shuyang Xie, Tong Zhou, Qin Wang
Summary: This study determined the crystal structures of RGLG2 VWA domain in Arabidopsis thaliana, revealing that Ca2+ ions act as regulators and affect the conformational change of RGLG2-VWA domain.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Alexandra Bork, Sander H. J. Smits, Lutz Schmitt
Summary: This study reveals the structure and calcium ion binding properties of CBL1 protein, and proposes a binding model of CBL1 for Ca2+. Additionally, it provides preliminary insights into the formation of the dimer interface of CBL1.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Evgeniia V. Leisi, Andrey V. Moiseenko, Sofia S. Kudryavtseva, Denis V. Pozdyshev, Vladimir I. Muronetz, Lidia P. Kurochkina
Summary: The pathogenesis of prion diseases involves the transformation of prion protein into an insoluble form. This study found that two phage chaperonins can promote the fibrillation of prion protein in an ATP-dependent manner, resulting in the formation of less toxic large clusters. These fibrils differ in morphology and properties from those formed spontaneously in acidic pH with denaturants.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Gaurab Chowdhury, Saroj Biswas, Yuthika Dholey, Puja Panja, Sumit Das, Subrata Adak
Summary: Magnesium is an important divalent cation for regulating enzyme activity. The binding of Mg2+ through the PAS domain inhibits phosphoglycerate kinase (PGK) activity in LmPAS-PGK at neutral pH, but PGK activity is derepressed at acidic pH. Mutation studies revealed that the Asp-4 residue is crucial for Mg2+ binding at neutral pH.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Shima Ghaedizadeh, Majid Zeinali, Bahareh Dabirmanesh, Behnam Rasekh, Khosrow Khajeh, Ali Mohammad Banaei-Moghaddam
Summary: Implementing hyperthermostable carbonic anhydrases into CO2 capture and storage technologies can increase the rate of CO2 absorption from industrial flue gases. This study successfully improved the thermostability of a known hyperthermostable carbonic anhydrase through rational engineering of a single-point mutation.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
Article
Biochemistry & Molecular Biology
Khaled A. Elnahriry, Dorothy C. C. Wai, Lauren M. Ashwood, Muhammad Umair Naseem, Tibor G. Szanto, Shaodong Guo, Gyorgy Panyi, Peter J. Prentis, Raymond S. Norton
Summary: Sea anemone venom contains a peptide called Tst2, which shows sequence similarity to peptides that interact with various ion channels. Recombinant Tst2 was successfully produced and its structure and function were studied. The results showed that Tst2 is an inhibitor of the TRPV1 channel.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2024)
