Article
Biochemical Research Methods
Chang Wang, Chaoying Zhang, Xinchang Gao, Jin-Ming Lin
Summary: Protein glycosylation, an important post-translational modification, plays a vital role in physiological processes. N-glycans exhibit structural diversity in linkages and branching styles and structure-specific glycan profiling can provide more potential biological information. In this study, N-glycans released from human serum samples were profiled using nanoLC-ESI-MS with PGC as a stationary phase. Alpha 2-3 neuraminidase was applied for distinguishing sialic acid linkage types. Significant differences in abundance were observed for 20 isomeric N-glycans between multiple myeloma cases and healthy controls. ROC analysis showed high diagnostic accuracy for MM, with 6 AUCs exceeding 0.80. PCA was used to establish differences among sample sets. Furthermore, these specific isomers have important clinical application value for early detection of multiple myeloma.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Agriculture, Multidisciplinary
Haiyan Wang, Ximei Zhang, Peng Kang, Xiuxiu Cui, Guo Hao, Zhongfu Wang, Bei Han, Xin Lv, Jing Zhang, Wupeng Ge
Summary: Oligosaccharides and N/O-glycans are abundant in human milk, with variations observed during lactation. Colostrum has the highest levels of oligosaccharides, which decrease as lactation progresses. Sialylated oligosaccharides and N/O-glycans are highly abundant in colostrum.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Plant Sciences
Konstantinos Koudounas, Gregory Guirimand, Luisa Fernanda Rojas Hoyos, Ines Carqueijeiro, Pamela Lemos Cruz, Emily Stander, Natalja Kulagina, Jennifer Perrin, Audrey Oudin, Sebastien Besseau, Arnaud Lanoue, Lucia Atehortua, Benoit St-Pierre, Nathalie Giglioli-Guivarc'h, Nicolas Papon, Sarah E. O'Connor, Vincent Courdavault
Summary: Many plant species from the Apocynaceae, Loganiaceae and Rubiaceae families produce a variety of monoterpene indole alkaloids (MIAs) which have pharmacological properties. The subcellular localization of N-methyltransferases (NMTs) in MIA-producing plants adds a new layer of complexity to the biosynthetic pathway.
PLANT AND CELL PHYSIOLOGY
(2022)
Article
Chemistry, Analytical
Xiaowei Lu, Colin T. McDowell, Calvin R. K. Blaschke, Liping Liu, Grace Grimsley, Luke Wisniewski, ChongFeng Gao, Anand S. Mehta, Brian B. Haab, Peggi M. Angel, Richard R. Drake
Summary: Sialic acid isomers attached to glycan termini in different linkages have distinct properties, but cannot be distinguished by mass differences. Various derivatization strategies have been developed to analyze sialic acid isomers using liquid chromatography, electrophoresis, and mass spectrometry. The introduction of alkyne or azide groups into alpha 2,3- and alpha 2,8-linked sialic acids allows for their detection and visualization in tissues and cells. These chemical modifications provide new tools for the detection, labeling, visualization, and enrichment of sialic acid-containing glycans and glycoproteins.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemical Research Methods
Chiharu Yamamoto, Mikako Ogura, Ryota Uemura, Maeda Megumi, Hiroyuki Kajiura, Ryo Misaki, Kazuhito Fujiyama, Yoshinobu Kimura
Summary: The study improved a method for detecting aPNGase activity in plants, simplifying the procedure and increasing accuracy.
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Chie Morikawa, Kanako Sugiura, Keina Kondo, Yurie Yamamoto, Yuma Kojima, Yurika Ozawa, Hiroki Yoshioka, Nobuaki Miura, Jinhua Piao, Kazue Okada, Hisatoshi Hanamatsu, Masumi Tsuda, Shinya Tanaka, Jun-ichi Furukawa, Yasuro Shinohara
Summary: In this study, the alterations in N and free N-glycomic upon addition of SWA to HepG2 cells were analyzed. The results showed specific glycomic alterations induced by SWA, including unique fucosylated hybrid-type and fucosylated M5 (M5F) N-glycans, and a remarkable increase in all classes of Gn1 FNGs. The dynamic nature of glycomic alterations and the accumulation of free N-glycans occurring earlier than that of hybrid-type N-glycans were also observed.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2022)
Article
Biochemistry & Molecular Biology
Sung-jun Jung, Ji Eun Hani Kim, Tina Junne, Martin Spiess, Hyun Kim
Summary: This study investigated the targeting and topogenesis of the signal-anchored protein Spc3, finding that it reaches its final topology in two steps: partially dependent on SRP and then mediated by the Sec62/Sec63 complex.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Kanako Sugiura, Yuho Kawai, Arisa Yamamoto, Hiroki Yoshioka, Yuika Kiyohara, Ayaka Iida, Yurika Ozawa, Mai Nishikawa, Nobuaki Miura, Hisatoshi Hanamatsu, Jun-ichi Furukawa, Yasuro Shinohara
Summary: This study investigates the effect of brefeldin A (BFA) on the glycomic profile of HepG2 cells, revealing altered glycan expression patterns and providing insight into intracellular vesicle formation and protein transport. The analysis shows the presence of unusual hybrid, monoantennary, and complex-type free N-glycans (FNGs) in response to BFA treatment. Time course analysis suggests that sialylated hybrid and complex-type Gn2-type FNGs are generated later than asialo-Gn2-type FNGs. Subcellular analysis shows most FNGs are detected in cytoplasmic extracts, indicating their cleavage from glycoproteins in the cytosol.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2023)
Review
Plant Sciences
Yanbo Mao, Shutang Tan
Summary: Phosphatidylinositol is a crucial phospholipid that can be phosphorylated into phosphoinositides to regulate cellular functions. Recent studies have highlighted the importance of the SAC family of phosphoinositide phosphatases in growth and development processes in plants.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Spectroscopy
Alba Hykollari, Katharina Paschinger, Iain B. H. Wilson
Summary: In the past 20 years, the approaches for N-glycan analysis have undergone significant changes, with mass spectrometry emerging as the predominant method in modern glycomics. Improved resolution and detection using MALDI-TOF MS have greatly contributed to the discovery of a wide range of N-glycan structures, aiding in distinguishing glycan variations.
MASS SPECTROMETRY REVIEWS
(2022)
Article
Chemistry, Applied
Rodolphe Dumontier, Corinne Loutelier-Bourhis, Marie-Laure Walet-Balieu, Carole Burel, Alain Mareck, Carlos Afonso, Patrice Lerouge, Muriel Bardor
Summary: Microalgae, such as diatoms, are emerging as production systems for recombinant proteins like monoclonal antibodies. Efficient analytical methodologies are required to characterize the N-glycosylation machinery of the host cell and the glycoprotein-based bio-pharmaceuticals produced by microalgae. This study found that the diatom Phaeodactylum tricornutum can synthesize human-like oligomannosides, making it an environmentally friendly and advantageous expression system for producing biopharmaceuticals.
CARBOHYDRATE POLYMERS
(2021)
Article
Chemistry, Physical
Ana Garcia-Garcia, Sonia Serna, Zhang Yang, Ignacio Delso, Victor Taleb, Thomas Hicks, Raik Artschwager, Sergey Y. Vakhrushev, Henrik Clausen, Jesus Angulo, Francisco Corzana, Niels C. Reichardt, Ramon Hurtado-Guerrero
Summary: Core fucosylation by FUT8 is affected by the underlying peptide sequence for paucimannose and high-mannose N-glycans, but not for complex-type N-glycans. FUT8 recognizes all sugar units and most amino acid residues of the G0 N-glycan, with optimal recognition requiring prior binding to GDP-Fuc. Genetic engineering in CHO cells demonstrated that core fucosylation mainly occurs on complex-type N-glycans, but certain glycosites can acquire Fuc on high-mannose N-glycans.
Article
Chemistry, Analytical
Shen Wang, Yingyong Ni, Junjun Wang, Yingcui Bu, Yuxin Yang, Xianshun Sun, Xiaojiao Zhu, Lin Kong, Sen Wang, Hongping Zhou
Summary: In this study, a reactive oxygen species (ROS) -generating system was constructed by designing a photosensitizer TT2CN with suitable lipophilicity and excellent light stability. The results showed that TT2CN selectively accumulated into lipid droplets (LDs) and formed a subcellular photo-inducible ROS-generating system. By using confocal fluorescence imaging, it was observed that the photo-produced ROS induced damages to multiple organelles. Flow cytometry, AM/PI staining, and 3D multicellular tumor spheres (3D MCTs) experiments further confirmed its potential for biological applications.
SENSORS AND ACTUATORS B-CHEMICAL
(2023)
Review
Biochemical Research Methods
Elli Makrydaki, Pavlos Kotidis, Karen M. Polizzi, Cleo Kontoravdi
Summary: N-glycosylation is crucial for understanding human disease mechanisms and ensuring the safety and efficacy of biotherapeutics. Capillary electrophoresis is emerging as a versatile and adaptable method for glycan analysis due to its speed, sensitivity, and complementarity with standard techniques, making it increasingly used in academia and industry for glycomics and glycoproteomics.
CURRENT OPINION IN BIOTECHNOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Kohtaro Hirao, Immacolata Speciale, Anna Notaro, Yoshiyuki Manabe, Yoshiaki Teramoto, Takaaki Sato, Haruyuki Atomi, Antonio Molinaro, Yoshihiro Ueda, Cristina De Castro, Koichi Fukase
Summary: This study describes the isolation, structural determination, and chemical synthesis of the N-glycan from the hyperthermophilic archaeon Thermococcus kodakarensis, revealing a unique structure including myo-inositol not found in previously characterized N-glycans. The synthesis of this glycan was successfully achieved through diastereoselective phosphorylation and phosphodiester construction by S(N)2 coupling. This research is expected to provide insights into the primitive function of glycan modification at the molecular level by considering the early divergence of hyperthermophilic organisms in evolution.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Plant Sciences
Akihito Fukudome, Jared S. Goldman, Scott A. Finlayson, Hisashi Koiwa
Article
Plant Sciences
In Sil Jeong, Sangmin Lee, Florian Bonkhofer, Jordan Tolley, Akihito Fukudome, Yukihiro Nagashima, Kimberly May, Stephan Rips, Sang Y. Lee, Patrick Gallois, William K. Russell, Hyun Suk Jung, Antje von Schaewen, Hisashi Koiwa
Review
Biochemistry & Molecular Biology
Yukihiro Nagashima, Antje von Schaewen, Hisashi Koiwa
Article
Plant Sciences
Suzhen Niu, Qinfei Song, Hisashi Koiwa, Dahe Qiao, Degang Zhao, Zhengwu Chen, Xia Liu, Xiaopeng Wen
Article
Virology
Toshiyuki Fukuhara, Midori Tabara, Hisashi Koiwa, Hideki Takahashi
ARCHIVES OF VIROLOGY
(2020)
Article
Biochemistry & Molecular Biology
Yukihiro Nagashima, Zeyang Ma, Xueting Liu, Xiaoning Qian, Xiuren Zhang, Antje von Schaewen, Hisashi Koiwa
Article
Plant Sciences
Kazunori Kuriyama, Midori Tabara, Hiromitsu Moriyama, Akira Kanazawa, Hisashi Koiwa, Hideki Takahashi, Toshiyuki Fukuhara
Article
Multidisciplinary Sciences
Suzhen Niu, Hisashi Koiwa, Qinfei Song, Dahe Qiao, Juan Chen, Degang Zhao, Zhengwu Chen, Ying Wang, Tianyuan Zhang
Article
Biochemistry & Molecular Biology
Yukihiro Nagashima, Kai He, Jashbir Singh, Rita Metrani, Kevin M. Crosby, John Jifon, G. K. Jayaprakasha, Bhimanagouda Patil, Xiaoning Qian, Hisashi Koiwa
Summary: Melon is an important diploid crop with diverse flavors due to its distinct volatile organic compounds. Metabolomic and transcriptomic analysis of two cantaloupe varieties revealed a shift in VOC profiles during fruit development from C5-C8 lipid-derived VOCs in early fruits to C9 lipid-derived VOCs, apocarotenoids, and esters in late fruits. This shift was accompanied by specific isoforms of lipid and carotenoid metabolizing enzymes and transcription factors related to fruit ripening and hormone signaling.
Article
Plant Sciences
Jordan P. Tolley, Zachary Gorman, Jiaxin Lei, In-Cheol Yeo, Yukihiro Nagashima, Vijay Joshi, Keyan Zhu-Salzman, Michael Kolomiets, Hisashi Koiwa
Summary: Overexpression of ZmLOX6 in Arabidopsis reveals its role in producing pentyl leaf volatiles (PLVs) and their effects on hormone content, plant growth, and interaction with aphids. ZmLOX6 is an unusual plant 13-lipoxygenase that functions as a hydroperoxide lyase and is involved in the synthesis of PLVs. Overexpression of ZmLOX6 leads to a chlorotic phenotype and induces similar phenotypes in nearby unaffected plants, suggesting airborne PLVs as the responsible signals.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Biochemistry & Molecular Biology
Junjun Wei, Wei Sun, Xinhang Zheng, Shanshan Qiu, Shuangyu Jiao, Kevin Babilonia, Hisashi Koiwa, Ping He, Libo Shan, Wenxian Sun, Fuhao Cui
Summary: CPL1 functions as a negative regulator in plant defense, suppressing MAMP-induced MAPK cascade activation and immunity against bacterial pathogens.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Yukihiro Nagashima, Zeyang Ma, Xiuren Zhang, Antje von Schaewen, Hisashi Koiwa
PLANT SIGNALING & BEHAVIOR
(2020)
Article
Biochemistry & Molecular Biology
Akihito Fukudome, Hisashi Koiwa
PLANT SIGNALING & BEHAVIOR
(2018)
Article
Biochemistry & Molecular Biology
A. von Schaewen, I. S. Jeong, S. Rips, A. Fukudome, J. Tolley, Y. Nagashima, K. Fischer, H. Kaulfuerst-Soboll, H. Koiwa
PLANT SIGNALING & BEHAVIOR
(2018)
Article
Biochemistry & Molecular Biology
Hisashi Koiwa, Akihito Fukudome
PLANT SIGNALING & BEHAVIOR
(2017)