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Hashimoto K, Yonezawa S, Haruki T, Koizumi K, Oshima Y, Kitajima I, Sato H, Saito S. Identifying the crucial tipping point in the maturation process of cultured neurons using Raman spectroscopy and a dynamic network biomarker (DNB) analysis. Biochem Biophys Res Commun 2025; 743:151167. [PMID: 39681053 DOI: 10.1016/j.bbrc.2024.151167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2024] [Accepted: 12/10/2024] [Indexed: 12/18/2024]
Abstract
The present study aimed to identify crucial tipping points during neuronal development in a post-mitotic state using Raman spectroscopy and a dynamic network biomarker (DNB) analysis. A DNB analysis is a promising method to detect early signal during state transition. We previously developed an in vitro model that mimics neuronal development. The neurodevelopmental model was generated from a principal component analysis (PCA) with a Raman spectral dataset obtained from rat hippocampal neurons cultured for 120 days. In the present study, a DNB analysis was employed to identify the tipping point during the maturation of neurons. We reused the Raman spectral dataset obtained in our previous study. Based on our previous PCA findings, the dataset obtained from neurons after 8 days of culture was used in the DNB analysis. Raman spectral fluctuations were observed after 15 days of culturing. The Raman band of lactate (1048 cm-1) was identified as a DNB Raman band. These results suggest that lactate acts as an energy source and a factor affecting neuronal development. The present study also indicates that PCA effectively established the control group for a DNB analysis.
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Affiliation(s)
- Kosuke Hashimoto
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan; School of Environmental Bioscience, Kwansei Gakuin University, Hyogo, 669-1330, Japan.
| | - Shota Yonezawa
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan; Graduate School of Science and Engineering, University of Toyama, Toyama, 930-8555, Japan
| | - Takayuki Haruki
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan; Faculty of Sustainable Design, University of Toyama, Toyama, 930-8555, Japan
| | - Keiichi Koizumi
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan; Division of Presymptomatic Disease, Institute of Natural Medicine, University of Toyama, Toyama, 930-0194, Japan.
| | - Yusuke Oshima
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan; Faculty of Engineering, University of Toyama, Toyama, 930-8555, Japan
| | - Isao Kitajima
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan
| | - Hidetoshi Sato
- School of Environmental Bioscience, Kwansei Gakuin University, Hyogo, 669-1330, Japan
| | - Shigeru Saito
- Research Center for Pre-Disease Science, University of Toyama, Toyama, 930-8555, Japan
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Allakhverdiev ES, Kossalbayev BD, Sadvakasova AK, Bauenova MO, Belkozhayev AM, Rodnenkov OV, Martynyuk TV, Maksimov GV, Allakhverdiev SI. Spectral insights: Navigating the frontiers of biomedical and microbiological exploration with Raman spectroscopy. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY. B, BIOLOGY 2024; 252:112870. [PMID: 38368635 DOI: 10.1016/j.jphotobiol.2024.112870] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2023] [Revised: 01/04/2024] [Accepted: 02/14/2024] [Indexed: 02/20/2024]
Abstract
Raman spectroscopy (RS), a powerful analytical technique, has gained increasing recognition and utility in the fields of biomedical and biological research. Raman spectroscopic analyses find extensive application in the field of medicine and are employed for intricate research endeavors and diagnostic purposes. Consequently, it enjoys broad utilization within the realm of biological research, facilitating the identification of cellular classifications, metabolite profiling within the cellular milieu, and the assessment of pigment constituents within microalgae. This article also explores the multifaceted role of RS in these domains, highlighting its distinct advantages, acknowledging its limitations, and proposing strategies for enhancement.
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Affiliation(s)
- Elvin S Allakhverdiev
- National Medical Research Center of Cardiology named after academician E.I. Chazov, Academician Chazov 15А St., Moscow 121552, Russia; Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Leninskie Gory 1/12, Moscow 119991, Russia.
| | - Bekzhan D Kossalbayev
- Ecology Research Institute, Khoja Akhmet Yassawi International Kazakh-Turkish University, Turkistan, Kazakhstan; Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, No. 32, West 7th Road, Tianjin Airport Economic Area, 300308 Tianjin, China; Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty 050038, Kazakhstan; Department of Chemical and Biochemical Engineering, Institute of Geology and Oil-Gas Business Institute Named after K. Turyssov, Satbayev University, Almaty 050043, Kazakhstan
| | - Asemgul K Sadvakasova
- Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty 050038, Kazakhstan
| | - Meruyert O Bauenova
- Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty 050038, Kazakhstan
| | - Ayaz M Belkozhayev
- Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty 050038, Kazakhstan; Department of Chemical and Biochemical Engineering, Institute of Geology and Oil-Gas Business Institute Named after K. Turyssov, Satbayev University, Almaty 050043, Kazakhstan; M.A. Aitkhozhin Institute of Molecular Biology and Biochemistry, Almaty 050012, Kazakhstan
| | - Oleg V Rodnenkov
- National Medical Research Center of Cardiology named after academician E.I. Chazov, Academician Chazov 15А St., Moscow 121552, Russia
| | - Tamila V Martynyuk
- National Medical Research Center of Cardiology named after academician E.I. Chazov, Academician Chazov 15А St., Moscow 121552, Russia
| | - Georgy V Maksimov
- Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Leninskie Gory 1/12, Moscow 119991, Russia
| | - Suleyman I Allakhverdiev
- K.A. Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, Botanicheskaya Street 35, Moscow 127276, Russia; Institute of Basic Biological Problems, FRC PSCBR Russian Academy of Sciences, Pushchino 142290, Russia; Faculty of Engineering and Natural Sciences, Bahcesehir University, Istanbul, Turkey.
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Wang X, Hua F, Xie X, Wu Y, Sun W, Jiang Z, Zhang J, Luo X. Infrared Raman spectroscopy enables noninvasive biochemical assessment of skin tissue and the thermal stability. Heliyon 2023; 9:e21974. [PMID: 38034814 PMCID: PMC10684364 DOI: 10.1016/j.heliyon.2023.e21974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 10/31/2023] [Accepted: 11/01/2023] [Indexed: 12/02/2023] Open
Abstract
Raman-active modes of human skin and pork belly have been studied systematically by a near-infrared Raman spectrometer with an exciting laser of 1064 nm. The main components and quantitative determination of pork belly are extracted by fitting the Raman spectra with the normalized Raman spectra of biochemical reagents such as collagen, elastin, triolein, fibronectin, fibrin, and hyaluronic acid. It demonstrates that the main components and quantity are various at different locations of pork belly, while the main components of human skin are similar to those of pig skin. In a further step, the evolution of the heating time-dependent Raman modes of isolated pig skin has been investigated for the mechanism of burnt skin. One can find that the spatial structure and main components of skin have an excellent thermal stability in the temperature range from -120 to 200 ∘C, which is confirmed by the temperature dependent Raman spectra of isolated pig skin, microporous acellular dermal matrix (MADM) as well as their corresponding biochemical reagents (collagen, elastin, triolein, etc.). These results help understand the mechanism of the living skin burnt by fire or hot water, and supplies an alternative technology for surgeons to diagnose the depth of a burn injury in time.
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Affiliation(s)
- Xiaoyi Wang
- Traditional Chinese Medicine (TCM) Orthopedics & Traumatology, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
| | - Fangqi Hua
- Department of Wound Repair, the Quzhou Affiliated Hospital of Wenzhou Medical University, Quzhou People's Hospital, Quzhou 324000, China
| | - Xianhai Xie
- Department of the Trauma, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
| | - Yungang Wu
- Traditional Chinese Medicine (TCM) Orthopedics & Traumatology, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
| | - Wenxue Sun
- Hemodialysis Room, Department of Nephrology, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
| | - Zipei Jiang
- Department of Ophthalmology, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
| | - Jinzhong Zhang
- Department of Wound Repair, the Quzhou Affiliated Hospital of Wenzhou Medical University, Quzhou People's Hospital, Quzhou 324000, China
| | - Xu Luo
- National Key Clinical Specialty (Wound Healing), Department of Wounds and Burns, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, Zhejiang, China
- Key Laboratory of Intelligent Treatment and Life Support for Critical Diseases of Zhejiang Province, the First Affiliated Hospital of Wenzhou Medical University, Wenzhou 325000, China
- Zhejiang Engineering Research Center for Hospital Emergency and Process Digitization, Wenzhou 325000, Zhejiang, China
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Akagi K, Koizumi K, Kadowaki M, Kitajima I, Saito S. New Possibilities for Evaluating the Development of Age-Related Pathologies Using the Dynamical Network Biomarkers Theory. Cells 2023; 12:2297. [PMID: 37759519 PMCID: PMC10528308 DOI: 10.3390/cells12182297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Revised: 09/12/2023] [Accepted: 09/15/2023] [Indexed: 09/29/2023] Open
Abstract
Aging is the slowest process in a living organism. During this process, mortality rate increases exponentially due to the accumulation of damage at the cellular level. Cellular senescence is a well-established hallmark of aging, as well as a promising target for preventing aging and age-related diseases. However, mapping the senescent cells in tissues is extremely challenging, as their low abundance, lack of specific markers, and variability arise from heterogeneity. Hence, methodologies for identifying or predicting the development of senescent cells are necessary for achieving healthy aging. A new wave of bioinformatic methodologies based on mathematics/physics theories have been proposed to be applied to aging biology, which is altering the way we approach our understand of aging. Here, we discuss the dynamical network biomarkers (DNB) theory, which allows for the prediction of state transition in complex systems such as living organisms, as well as usage of Raman spectroscopy that offers a non-invasive and label-free imaging, and provide a perspective on potential applications for the study of aging.
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Affiliation(s)
- Kazutaka Akagi
- Research Center for Pre-Disease Science, University of Toyama, Toyama 930-8555, Japan
| | - Keiichi Koizumi
- Research Center for Pre-Disease Science, University of Toyama, Toyama 930-8555, Japan
- Division of Presymptomatic Disease, Institute of Natural Medicine, University of Toyama, Toyama 930-0194, Japan
| | - Makoto Kadowaki
- Research Center for Pre-Disease Science, University of Toyama, Toyama 930-8555, Japan
| | - Isao Kitajima
- Research Center for Pre-Disease Science, University of Toyama, Toyama 930-8555, Japan
| | - Shigeru Saito
- Research Center for Pre-Disease Science, University of Toyama, Toyama 930-8555, Japan
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