Naoya Sawamura
Current Organizations / Institutes
The organizations/institutes from the scholar's latest article
Previous Organizations / Institutes
The organizations / institutes from the scholar's other articles in the past ten years
Research Subjects
Naoya Sawamura has a total of 163 co-authors. Here are the top co-authors by number of shared publications:
Toru Asahi
Faculty of Science and Engineering, Waseda University, TWIns, 2-2 Wakamatsu, Shinjuku, Tokyo 162-8480, Japan
19 shared publicationsKatsuhiko Yanagisawa
8 shared publicationsAkira Tamaoka
Department of Neurology, Institute of Clinical Medicine, University of Tsukuba, 1-1-1 Tennoudai, Tsukuba, Ibaraki 305, Japan
6 shared publicationsKun Zou
6 shared publicationsWataru Onodera
Faculty of Science and Engineering, Waseda University, TWIns, 2-2 Wakamatsu, Shinjuku, Tokyo 162-8480, Japan
6 shared publicationsJian‐Sheng Gong
Organization for Pharmaceutical Safety and Research of Japan, Tokyo
5 shared publications
Latest Publications
- Open Access
- 13 February 2023
- Published by Elsevier in Data in Brief
- Vol. 47, 108970
Data on the solution and processing time reached when constructing a phylogenetic tree using a quantum-inspired computer
- 13 February 2023
- Published by Elsevier in Data in Brief
- Vol. 47, 108970
Open AccessData on the solution and processing time reached when constructing a phylogenetic tree using a quantum-inspired computer
- 5 October 2022
- Published by Elsevier in Molecular Phylogenetics and Evolution
- Vol. 178, 107636
Phylogenetic tree reconstruction via graph cut presented using a quantum-inspired computer
- 5 October 2022
- Published by Elsevier in Molecular Phylogenetics and Evolution
- Vol. 178, 107636
Phylogenetic tree reconstruction via graph cut presented using a quantum-inspired computer
- 24 January 2022
- Published by Wiley in Biotechnology Progress
- Vol. 38 (3) , e3239
Proliferation and differentiation of primary bovine myoblasts using Chlorella vulgaris extract for sustainable production of cultured meat
Recently, cultured meat obtained from livestock‐derived cells is being considered as a sustainable food source that reduces the use of natural resources. This study aimed to show that nutrients extracted from Chlorella vulgaris were beneficial in the culture of primary bovine myoblasts (PBMs), a major cell source for cultured meat production. Nutrients (glucose, amino acids, and vitamins) present in the animal‐cell culture media were effectively recovered from C. vulgaris using acid hydrolysis treatment. On culture in nutrient‐free inorganic salt solution, cell death was induced in most PBMs after 6 days of cultivation. However, the addition of C. vulgaris extract (CVE) significantly improved PBM viability, which was comparable to the viability in conventional culture medium (Dulbecco's modified Eagle's medium). Furthermore, by adding horse serum to induce differentiation, the formation of myotubes was confirmed when CVE were used. Together, the results showed that CVE could be used as an alternative to the conventional culture medium for PBMs. These findings will not only lower the environmental risks associated with the establishment of this eco‐friendly cell culture system, but also highlight microalgae as a potent nutrient source that can replace conventional grain‐dependent nutrient sources.
- 24 January 2022
- Published by Wiley in Biotechnology Progress
- Vol. 38 (3) , e3239
Proliferation and differentiation of primary bovine myoblasts using Chlorella vulgaris extract for sustainable production of cultured meat
Recently, cultured meat obtained from livestock‐derived cells is being considered as a sustainable food source that reduces the use of natural resources. This study aimed to show that nutrients extracted from Chlorella vulgaris were beneficial in the culture of primary bovine myoblasts (PBMs), a major cell source for cultured meat production. Nutrients (glucose, amino acids, and vitamins) present in the animal‐cell culture media were effectively recovered from C. vulgaris using acid hydrolysis treatment. On culture in nutrient‐free inorganic salt solution, cell death was induced in most PBMs after 6 days of cultivation. However, the addition of C. vulgaris extract (CVE) significantly improved PBM viability, which was comparable to the viability in conventional culture medium (Dulbecco's modified Eagle's medium). Furthermore, by adding horse serum to induce differentiation, the formation of myotubes was confirmed when CVE were used. Together, the results showed that CVE could be used as an alternative to the conventional culture medium for PBMs. These findings will not only lower the environmental risks associated with the establishment of this eco‐friendly cell culture system, but also highlight microalgae as a potent nutrient source that can replace conventional grain‐dependent nutrient sources.
- Open Access
- 28 May 2021
- Published by Springer Nature in Scientific Reports
- Vol. 11 (1) , 1-13
Rapid evolution of mammalian APLP1 as a synaptic adhesion molecule
Amyloid precursor protein (APP) family members are involved in essential neuronal development including neurite outgrowth, neuronal migration and maturation of synapse and neuromuscular junction. Among the APP gene family members, amyloid precursor-like protein 1 (APLP1) is selectively expressed in neurons and has specialized functions during synaptogenesis. Although a potential role for APLP1 in neuronal evolution has been indicated, its precise evolutionary and functional contributions are unknown. This study shows the molecular evolution of the vertebrate APP family based on phylogenetic analysis, while contrasting the evolutionary differences within the APP family. Phylogenetic analysis showed 15 times higher substitution rate that is driven by positive selection at the stem branch of the mammalian APLP1, resulting in dissimilar protein sequences compared to APP/APLP2. Docking simulation identified one positively selected site in APLP1 that alters the heparin-binding site, which could affect its function, and dimerization rate. Furthermore, the evolutionary rate covariation between the mammalian APP family and synaptic adhesion molecules (SAMs) was confirmed, indicating that only APLP1 has evolved to gain synaptic adhesion property. Overall, our results suggest that the enhanced synaptogenesis property of APLP1 as one of the SAMs may have played a role in mammalian brain evolution.
- 28 May 2021
- Published by Springer Nature in Scientific Reports
- Vol. 11 (1) , 1-13
Open AccessRapid evolution of mammalian APLP1 as a synaptic adhesion molecule
Amyloid precursor protein (APP) family members are involved in essential neuronal development including neurite outgrowth, neuronal migration and maturation of synapse and neuromuscular junction. Among the APP gene family members, amyloid precursor-like protein 1 (APLP1) is selectively expressed in neurons and has specialized functions during synaptogenesis. Although a potential role for APLP1 in neuronal evolution has been indicated, its precise evolutionary and functional contributions are unknown. This study shows the molecular evolution of the vertebrate APP family based on phylogenetic analysis, while contrasting the evolutionary differences within the APP family. Phylogenetic analysis showed 15 times higher substitution rate that is driven by positive selection at the stem branch of the mammalian APLP1, resulting in dissimilar protein sequences compared to APP/APLP2. Docking simulation identified one positively selected site in APLP1 that alters the heparin-binding site, which could affect its function, and dimerization rate. Furthermore, the evolutionary rate covariation between the mammalian APP family and synaptic adhesion molecules (SAMs) was confirmed, indicating that only APLP1 has evolved to gain synaptic adhesion property. Overall, our results suggest that the enhanced synaptogenesis property of APLP1 as one of the SAMs may have played a role in mammalian brain evolution.
- Open Access
- 5 March 2021
- Published by Springer Nature in Research Square
Molecular Evolution of APP family proteins: Rapid Evolution of the Mammalian APLP1 as a Synaptic Adhesion Molecule
Amyloid precursor protein (APP) family members are involved in essential neuronal activities, and dysfunction of APP family members leads to neurodegenerative diseases such as Alzheimer’s disease. Among the APP gene family members, amyloid precursor-like protein 1 (APLP1) is selectively expressed in neurons and has specialized functions during synaptogenesis. Although a potential role for APLP1 in neuronal evolution has been indicated, its precise evolutionary and functional contributions are unknown. This study shows the molecular evolution of the vertebrate APP family based on phylogenetic analysis, while contrasting the evolutionary differences within the APP family. Phylogenetic analysis showed 15 times higher substitution rate that is driven by positive selection at the stem branch of the mammalian APLP1, resulting in dissimilar protein sequences compared to APP/APLP2. Docking simulation identified one positively selected site in APLP1 that alters the heparin-binding site, which could affect its function, and dimerization rate. Furthermore, the evolutionary rate covariation between the mammalian APP family and synaptic adhesion molecules (SAMs) was confirmed, indicating that only APLP1 has evolved to gain synaptic adhesion property. Overall, our results suggest that the enhanced synaptogenesis property of APLP1 as one of the SAMs may have played a role in mammalian brain evolution.
- 5 March 2021
- Published by Springer Nature in Research Square
Open AccessMolecular Evolution of APP family proteins: Rapid Evolution of the Mammalian APLP1 as a Synaptic Adhesion Molecule
Amyloid precursor protein (APP) family members are involved in essential neuronal activities, and dysfunction of APP family members leads to neurodegenerative diseases such as Alzheimer’s disease. Among the APP gene family members, amyloid precursor-like protein 1 (APLP1) is selectively expressed in neurons and has specialized functions during synaptogenesis. Although a potential role for APLP1 in neuronal evolution has been indicated, its precise evolutionary and functional contributions are unknown. This study shows the molecular evolution of the vertebrate APP family based on phylogenetic analysis, while contrasting the evolutionary differences within the APP family. Phylogenetic analysis showed 15 times higher substitution rate that is driven by positive selection at the stem branch of the mammalian APLP1, resulting in dissimilar protein sequences compared to APP/APLP2. Docking simulation identified one positively selected site in APLP1 that alters the heparin-binding site, which could affect its function, and dimerization rate. Furthermore, the evolutionary rate covariation between the mammalian APP family and synaptic adhesion molecules (SAMs) was confirmed, indicating that only APLP1 has evolved to gain synaptic adhesion property. Overall, our results suggest that the enhanced synaptogenesis property of APLP1 as one of the SAMs may have played a role in mammalian brain evolution.
- 1 March 2020
- Published by Elsevier in Biochemical and Biophysical Research Communications
- Vol. 524 (1) , 236-241
Cereblon-mediated degradation of the amyloid precursor protein via the ubiquitin-proteasome pathway
- 1 March 2020
- Published by Elsevier in Biochemical and Biophysical Research Communications
- Vol. 524 (1) , 236-241
Cereblon-mediated degradation of the amyloid precursor protein via the ubiquitin-proteasome pathway
- Open Access
- 22 November 2019
- Published by Springer Nature in Communications Biology
- Vol. 2 (1) , 1-11
Light-driven activation of mitochondrial proton-motive force improves motor behaviors in a Drosophila model of Parkinson’s disease
Mitochondrial degeneration is considered one of the major causes of Parkinson’s disease (PD). Improved mitochondrial functions are expected to be a promising therapeutic strategy for PD. In this study, we introduced a light-driven proton transporter, Delta-rhodopsin (dR), to Drosophila mitochondria, where the mitochondrial proton-motive force (Δp) and mitochondrial membrane potential are maintained in a light-dependent manner. The loss of the PD-associated mitochondrial gene CHCHD2 resulted in reduced ATP production, enhanced mitochondrial peroxide production and lower Ca2+-buffering activity in dopaminergic (DA) terminals in flies. These cellular defects were improved by the light-dependent activation of mitochondrion-targeted dR (mito-dR). Moreover, mito-dR reversed the pathology caused by the CHCHD2 deficiency to suppress α-synuclein aggregation, DA neuronal loss, and elevated lipid peroxidation in brain tissue, improving motor behaviors. This study suggests the enhancement of Δp by mito-dR as a therapeutic mechanism that ameliorates neurodegeneration by protecting mitochondrial functions.
- 22 November 2019
- Published by Springer Nature in Communications Biology
- Vol. 2 (1) , 1-11
Open AccessLight-driven activation of mitochondrial proton-motive force improves motor behaviors in a Drosophila model of Parkinson’s disease
Mitochondrial degeneration is considered one of the major causes of Parkinson’s disease (PD). Improved mitochondrial functions are expected to be a promising therapeutic strategy for PD. In this study, we introduced a light-driven proton transporter, Delta-rhodopsin (dR), to Drosophila mitochondria, where the mitochondrial proton-motive force (Δp) and mitochondrial membrane potential are maintained in a light-dependent manner. The loss of the PD-associated mitochondrial gene CHCHD2 resulted in reduced ATP production, enhanced mitochondrial peroxide production and lower Ca2+-buffering activity in dopaminergic (DA) terminals in flies. These cellular defects were improved by the light-dependent activation of mitochondrion-targeted dR (mito-dR). Moreover, mito-dR reversed the pathology caused by the CHCHD2 deficiency to suppress α-synuclein aggregation, DA neuronal loss, and elevated lipid peroxidation in brain tissue, improving motor behaviors. This study suggests the enhancement of Δp by mito-dR as a therapeutic mechanism that ameliorates neurodegeneration by protecting mitochondrial functions.
- 22 November 2019
- Published by Wiley in Biotechnology Progress
- Vol. 36 (2) , e2941
Mammalian cell cultivation using nutrients extracted from microalgae
Mammalian cells have been used in various research fields. More recently, cultured cells have been used as the cell source of “cultured meat.” Cell cultivation requires media containing nutrients, of which glucose and amino acids are the essential ones. These nutrients are generally derived from grains or heterotrophic microorganisms, which also require various nutrients derived from grains. Grain culture, in turn, requires many chemical fertilizers and agrochemicals, which can cause greenhouse gas emission and environmental contamination. Furthermore, grain production is greatly influenced by environmental changes. In contrast, microalgae efficiently synthesize various nutrients using solar energy, water, and inorganic substances, which are widely used in the energy sector. In this study, we aimed to apply nutrients extracted from microalgae in the culture media for mammalian cell cultivation. Glucose was efficiently extracted from Chlorococcum littorale or Arthrospira platensis using sulfuric acid, whereas 18 of the 20 proteinogenic amino acids were efficiently extracted from Chlorella vulgaris using hydrochloric acid. We further investigated whether nutrients present in the algal extracts could be used in mammalian cell cultivation. Although almost all C2C12 mouse myoblasts died during cultivation in a glucose‐ and amino acid‐free medium, the cell death was rescued by adding algal extract(s) into the nutrient‐deficient media. This indicates that nutrients present in algal extracts can be used for mammalian cell cultivation. This study is the first step toward the establishment of a new cell culture system that can reduce environmental loads and remain unaffected by the impact of environmental changes.
- 22 November 2019
- Published by Wiley in Biotechnology Progress
- Vol. 36 (2) , e2941
Mammalian cell cultivation using nutrients extracted from microalgae
Mammalian cells have been used in various research fields. More recently, cultured cells have been used as the cell source of “cultured meat.” Cell cultivation requires media containing nutrients, of which glucose and amino acids are the essential ones. These nutrients are generally derived from grains or heterotrophic microorganisms, which also require various nutrients derived from grains. Grain culture, in turn, requires many chemical fertilizers and agrochemicals, which can cause greenhouse gas emission and environmental contamination. Furthermore, grain production is greatly influenced by environmental changes. In contrast, microalgae efficiently synthesize various nutrients using solar energy, water, and inorganic substances, which are widely used in the energy sector. In this study, we aimed to apply nutrients extracted from microalgae in the culture media for mammalian cell cultivation. Glucose was efficiently extracted from Chlorococcum littorale or Arthrospira platensis using sulfuric acid, whereas 18 of the 20 proteinogenic amino acids were efficiently extracted from Chlorella vulgaris using hydrochloric acid. We further investigated whether nutrients present in the algal extracts could be used in mammalian cell cultivation. Although almost all C2C12 mouse myoblasts died during cultivation in a glucose‐ and amino acid‐free medium, the cell death was rescued by adding algal extract(s) into the nutrient‐deficient media. This indicates that nutrients present in algal extracts can be used for mammalian cell cultivation. This study is the first step toward the establishment of a new cell culture system that can reduce environmental loads and remain unaffected by the impact of environmental changes.
- Open Access
- 1 October 2019
- Published by Elsevier in Data in Brief
- Vol. 26, 104499
Data for positive selection test and co-evolutionary analysis on mammalian cereblon
- 1 October 2019
- Published by Elsevier in Data in Brief
- Vol. 26, 104499
Open AccessData for positive selection test and co-evolutionary analysis on mammalian cereblon
- 1 June 2019
- Published by Elsevier in Molecular Phylogenetics and Evolution
- Vol. 135, 78-85
Positive selection of cereblon modified function including its E3 ubiquitin ligase activity and binding efficiency with AMPK
- 1 June 2019
- Published by Elsevier in Molecular Phylogenetics and Evolution
- Vol. 135, 78-85
Positive selection of cereblon modified function including its E3 ubiquitin ligase activity and binding efficiency with AMPK