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Shimojima Y, Kishida D, Ichikawa T, Kida T, Yajima N, Omura S, Nakagomi D, Abe Y, Masatoshi K, Takizawa N, Nomura A, Kukida Y, Kondo N, Yasuhiko Y, Yanagida T, Endo K, Hirata S, Kawahata K, Matsui K, Takeuchi T, Ichinose K, Kato M, Yanai R, Matsuo Y, Yamasaki A, Nishioka R, Takata T, Moriyama M, Takatani A, Ito T, Miyawaki Y, Ito-Ihara T, Kawaguchi T, Kawahito Y, Sekijima Y. POS0822 HYPERTROPHIC PACHYMENINGITIS IN ANTINEUTROPHIL CYTOPLASMIC ANTIBODY-ASSOCIATED VASCULITIS: A MULTICENTER SURVEY IN JAPAN. Ann Rheum Dis 2022. [DOI: 10.1136/annrheumdis-2022-eular.32] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
BackgroundHypertrophic pachymeningitis (HP), characterized by an inflammatory disorder indicating intracranial or spinal thickening of dura mater, is found to develop as a neurological involvement in antineutrophil cytoplasmic antibody (ANCA)-associated vasculitis (AAV). Meanwhile, the previous studies focusing on HP in AAV have been reported as a single-institution study, and the analyses were performed in a small number of patients because HP is a rare neurological disorder. Therefore, neither etiological nor clinical characteristics of HP in AAV have been adequately elucidated.ObjectivesThis study clarified the characteristics of HP in AAV by analyzing the information of multicenter study in Japan (Japan collaborative registry of ANCA-associated vasculitis: J-CANVAS).MethodsWe analyzed the clinical information from 541 Asian patients with AAV enrolled in J-CANVAS. Of them, newly diagnosed and relapsed AAV were included in 448 and 93, respectively. The epidemiological and clinical findings were compared between patients with and without HP. Clinical manifestations related to AAV were evaluated based on the Birmingham Vasculitis Activity Score version 3. To elucidate independent factors in HP development, logistic regression analyses were additionally performed.ResultsOf the total 541 patients (mean age: 71±14 years, M:F = 1:1.2), HP was demonstrated in 28 (5.17%), including 17 (3.79%) in newly diagnosed AAV and 11 (11.8%) in relapsed AAV. The classification of granulomatosis with polyangiitis (GPA) was significantly higher in patients with HP than those without HP (50% vs. 21%, p = 0.0007). In newly diagnosed AAV, patients with HP significantly had higher GPA classification and higher positivity for PR3-ANCA than those without HP (53% vs. 17%, p = 0.001; 29% vs. 9%, p = 0.015, respectively). Conversely, positivity for MPO-ANCA was significantly higher in patients with HP than those without HP in relapsed AAV (91% vs. 55%, p = 0.025), despite not significantly different in the classification of AAV. Headache and cranial neuropathies were significant neurological symptoms in patients with HP compared to those without HP (82% vs. 6.6%, p < 0.0001; 32% vs. 2.9%, p < 0.0001, respectively). Besides, ear, nose and throat (ENT) and mucous membranes/eyes were significantly higher involvements in patients with HP than in those without HP (54% vs. 26%, p = 0.003; 29% vs. 9%, p = 0.003, respectively). Moreover, higher complications of “conjunctive hearing loss” and “sudden visual loss”, which are included in the categories of ENT and mucous membranes/eyes involvement, respectively, were significantly indicated in patients with HP than those without HP (39% vs. 7.2%, p < 0.0001; 21% vs. 1.2%, p < 0.0001, respectively). Multivariable logistic regression analysis identified that ENT (odds ratio [OR] 1.28, 95% confident interval [CI] 1.09 to 1.49, p = 0.002) and mucous membranes/eyes involvement (OR 1.37, CI 1.14 to 1.65, p = 0.0006), as well as conjunctive hearing loss (OR 4.52, CI 1.56 to 13.05, p = 0.005) and sudden visual loss (OR 1.84, CI 1.12 to 3.00, p = 0.015), were independent related factors in patients with HP.ConclusionGPA could be significantly classified in patients with HP. Notably, patients with HP significantly showed higher positivity for PR3-ANCA than those without HP in newly diagnosed AAV. Furthermore, sudden visual loss and conjunctive hearing loss might be implicated in HP development.Disclosure of InterestsNone declared
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Kawamori K, Oguro N, Kida T, Omura S, Nakagomi D, Masatoshi K, Takizawa N, Nomura A, Yuji K, Kondo N, Yasuhiko Y, Yanagida T, Endo K, Hirata S, Kawahata K, Matsui K, Takeuchi T, Ichinose K, Kato M, Yanai R, Matsuo Y, Shimojima Y, Nishioka R, Yamasaki A, Takata T, Ito T, Moriyama M, Takatani A, Miyawaki Y, Kawahito Y, Ito-Ihara T, Kawaguchi T, Yajima N. AB0625 Association between Cytomegalovirus Reactivation and Renal Prognosis during Remission Induction Therapy for ANCA-Associated Vasculitis. Ann Rheum Dis 2022. [DOI: 10.1136/annrheumdis-2022-eular.3011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
BackgroundCytomegalovirus (CMV) has been associated with atherosclerosis in patients with chronic renal failure, and may cause secondary nephrotic syndrome. Therefore, we hypothesized that the reactivation of CMV by immunosuppressive therapy in patients with vasculitis may affect renal function.ObjectivesThe purpose of this study was to investigate relationships between CMV infection and renal function during ANCA-associated vasculitis remission induction therapy.MethodsThis retrospective cohort study enrolled microscopic polyangiitis (MPA), granulomatosis with polyangiitis (GPA), and eosinophilic granulomatosis with polyangiitis patients at 25 sites in Japan who had a first or severe relapse between January 2017 and June 2020. Of these, patients with MPA or GPA who had a positive renal lesion score on BVAS (version 3) at baseline, or vasculitis findings on renal biopsy, CMV assayed by 48 weeks of treatment, were included. Patients were divided into two groups based on the presence or absence of a positive CMV antigen test during the remission induction phase (0–48 weeks of treatment). Outcomes were the rate of change in estimated glomerular filtration rate (eGFR) at 48 weeks after initiation of treatment in both groups, as determined by (eGFR at 48 weeks - eGFR at the initiation of treatment)/eGFR at the initiation of treatment; where lower values were associated with worse renal function. General linear models adjusted for age, gender, presence of diabetes or chronic kidney disease, and the use of rituximab or cyclophosphamide were generated.ResultsA total of 387 patients had CMV antigen measured during ANCA-associated vasculitis treatment, of which 164 had renal involvement and eGFR measured at 48 weeks. Seventy-seven (47.0%) were male and the median age was 75 years (range 69–80 years). CMV reactivation was observed in 44 patients (26.8%). The beta coefficient of multiple regression analysis with CMV positive as 1 and negative as 0 was 0.08 (95% confidence interval -0.13 to 0.29) (p = 0.47). The rate of change in eGFR was higher in the CMV positive group, but not statistically significantly.ConclusionContrary to our hypothesis, renal prognoses tended to be better when CMV reactivation was observed. The patients in the CMV reactivation group may have been treated more aggressively, and some patients with a poor prognosis who were not followed up for 48 weeks dropped out. Further research investigating the adjustment of treatment methods is required.Disclosure of InterestsNone declared
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Nishioka R, Mizushima I, Kida T, Omura S, Nakagomi D, Masatoshi K, Takizawa N, Nomura A, Yuji K, Kondo N, Yasuhiko Y, Yanagida T, Endo K, Hirata S, Kawahata K, Matsui K, Takeuchi T, Ichinose K, Kato M, Yanai R, Matsuo Y, Shimojima Y, Yamasaki A, Takata T, Ito T, Moriyama M, Takatani A, Miyawaki Y, Ito-Ihara T, Kawaguchi T, Yajima N, Kawahito Y, Kawano M. POS0247 GLUCOCORTICOID TAPERING STRATEGY FOR ANCA-ASSOCIATED VASCULITIS: ADDRESSING THE GAP BETWEEN RECOMMENDATIONS AND REAL-WORLD PRACTICE. Ann Rheum Dis 2022. [DOI: 10.1136/annrheumdis-2022-eular.3039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
BackgroundAntineutrophil cytoplasmic antibody -associated vasculitis (AAV) is usually treated with combination of high-dose glucocorticoid (GC) and immunosuppressive agents, followed by tapering GC dose. Although the European League Against Rheumatism (EULAR) has specific recommendations for tapering the GC dose, clinicians often taper it slower than recommended due to concerns of potential disease relapse. However, such slower taper may prolong GC exposure for the patients, increasing the risk of adverse events, particularly infection.ObjectivesThe aims of our study were (1) to clarify GC dose tapering in the treatment of AAV in a real-world setting, in contrast to the EULAR recommendation of 2015 and (2) to compare the incidence of AAV relapse and severe infection between patients underdoing EULAR-recommended tapering and those undergoing slower tapering than the recommendation.MethodsIn this multicenter (25 sites in Japan), observational, retrospective study of AAV, 541 patients who had initial or severe relapse were enrolled between January 2017 and June 2020. Of these, 349 patients with microscopic polyangiitis (MPA) or granulomatosis with polyangiitis (GPA) who entered in GC tapering phase after successful induction treatment were included. These patients were then grouped on the pace of GC tapering, defined as the GC dose at 12 weeks after treatment initiation: (1) EULAR group: 7.5-10 mg/day of GC, according to the EULAR recommendation of 2015, and (2) SLOWER group: >10 mg/day of GC. Their baseline characteristics and clinical outcomes were compared. Primary outcome was defined as relapse-free days from treatment initiation, whereas secondary outcome included the incidence of infectious events requiring hospitalization within 48 weeks from treatment initiation. Multivariable analysis was performed to assess the relationship between tapering pace and clinical outcomes.ResultsThere were 44 patients (12.6%) in the EULAR group and 290 (83.2%) in the SLOWER group. Regarding baseline characteristics, compared with the EULAR group, the SLOWER group had significantly higher serum C-reactive protein level (EULAR, 5.89 ± 6.89 mg/dL vs SLOWER, 7.56 ± 6.01 mg/dL; p = 0.03), as well as a trend toward higher Birmingham Vasculitis Activity Score (version 3) (EULAR, 11.80 ± 7.01 SLOWER, 13.93 ± 7.06; p = 0.08) We did not observe any significant differences in the frequency of relapses between the two groups (EULAR, 8/44, 18.2% vs SLOWER, 55/290, 19.0%; p = 0.63). Multivariable Cox proportional hazard analysis revealed no relationship GC dose at 12 weeks from treatment initiation and incidence of relapse. However, upon logistic regression analysis, the SLOWER group was found to have significant higher risk of a severe infectious event within 48 weeks from treatment initiation (p = 0.046; hazard ratio, 1.27; 95% confidence interval, 1.004 – 1.601).ConclusionOur finding indicates that clinicians tended to taper GC slower for patients with higher disease activity. However, slower GC taper was not found to reduce the frequency of relapse. In addition, slower GC taper was found to increase the risk of a severe infection. Hence, clinicians should pay attention not only relapsing but also late GC taper resulting in the risk of serious infection, especially in patients with higher disease activity of AAV.References[1]Eur J Clin Invest 2015;45 (3): 346–368.[2]Rheumatology (Oxford). 2021 Dec 24;61(1):205-212.[3]Arthritis Res Ther. 2021 Mar 20;23(1):90.[4]Scand J Rheumatol. 2022 Jan 20;1-13.[5]J Rheumatol. 2018 Apr;45(4):521-528.[6]Rheumatol Adv Pract. 2021 Mar 9;5(3):rkab018.[7]Ann Rheum Dis. 2016 Sep;75(9):1583-94.Figure 1.AcknowledgementsWe would like to thank Editage (www.editage.com) for English language editing.Disclosure of InterestsNone declared
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Maezawa H, Fujimoto M, Hata Y, Matsuhashi M, Hashimoto H, Kashioka H, Yanagida T, Hirata M. Functional cortical localization of tongue movements using corticokinematic coherence with a deep learning-assisted motion capture system. Sci Rep 2022; 12:388. [PMID: 35013521 PMCID: PMC8748830 DOI: 10.1038/s41598-021-04469-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Accepted: 12/23/2021] [Indexed: 11/09/2022] Open
Abstract
Corticokinematic coherence (CKC) between magnetoencephalographic and movement signals using an accelerometer is useful for the functional localization of the primary sensorimotor cortex (SM1). However, it is difficult to determine the tongue CKC because an accelerometer yields excessive magnetic artifacts. Here, we introduce a novel approach for measuring the tongue CKC using a deep learning-assisted motion capture system with videography, and compare it with an accelerometer in a control task measuring finger movement. Twelve healthy volunteers performed rhythmical side-to-side tongue movements in the whole-head magnetoencephalographic system, which were simultaneously recorded using a video camera and examined using a deep learning-assisted motion capture system. In the control task, right finger CKC measurements were simultaneously evaluated via motion capture and an accelerometer. The right finger CKC with motion capture was significant at the movement frequency peaks or its harmonics over the contralateral hemisphere; the motion-captured CKC was 84.9% similar to that with the accelerometer. The tongue CKC was significant at the movement frequency peaks or its harmonics over both hemispheres. The CKC sources of the tongue were considerably lateral and inferior to those of the finger. Thus, the CKC with deep learning-assisted motion capture can evaluate the functional localization of the tongue SM1.
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Affiliation(s)
- Hitoshi Maezawa
- Department of Neurological Diagnosis and Restoration, Graduate School of Medicine, Osaka University, Yamadaoka 2-2, Suita, Osaka, 565-0871, Japan.
| | - Momoka Fujimoto
- Graduate School of Simulation Studies, University of Hyogo, Minatojima-minamimachi 7-1-28, Chuo-ku, Kobe, Hyogo, 650-0047, Japan
| | - Yutaka Hata
- Graduate School of Simulation Studies, University of Hyogo, Minatojima-minamimachi 7-1-28, Chuo-ku, Kobe, Hyogo, 650-0047, Japan
| | - Masao Matsuhashi
- Graduate School of Medicine, Human Brain Research Center, Kyoto University, Kawahara-cho 53, Sakyo-ku, Kyoto, 606-8507, Japan
| | - Hiroaki Hashimoto
- Department of Neurological Diagnosis and Restoration, Graduate School of Medicine, Osaka University, Yamadaoka 2-2, Suita, Osaka, 565-0871, Japan.,Neurosurgery, Otemae Hospital, Otemae1-5-34, Chuo-ku, Osaka, 540-0008, Japan
| | - Hideki Kashioka
- Center for Information and Neural Networks (CiNet), National Institute of Information and Communications Technology, and Osaka University, Yamadaoka 1-4, Suita, Osaka, 565-0871, Japan
| | - Toshio Yanagida
- Center for Information and Neural Networks (CiNet), National Institute of Information and Communications Technology, and Osaka University, Yamadaoka 1-4, Suita, Osaka, 565-0871, Japan
| | - Masayuki Hirata
- Department of Neurological Diagnosis and Restoration, Graduate School of Medicine, Osaka University, Yamadaoka 2-2, Suita, Osaka, 565-0871, Japan
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Marcucci L, Fukunaga H, Yanagida T, Iwaki M. The Synergic Role of Actomyosin Architecture and Biased Detachment in Muscle Energetics: Insights in Cross Bridge Mechanism Beyond the Lever-Arm Swing. Int J Mol Sci 2021; 22:ijms22137037. [PMID: 34210098 PMCID: PMC8269045 DOI: 10.3390/ijms22137037] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2021] [Revised: 06/24/2021] [Accepted: 06/25/2021] [Indexed: 02/04/2023] Open
Abstract
Muscle energetics reflects the ability of myosin motors to convert chemical energy into mechanical energy. How this process takes place remains one of the most elusive questions in the field. Here, we combined experimental measurements of in vitro sliding velocity based on DNA-origami built filaments carrying myosins with different lever arm length and Monte Carlo simulations based on a model which accounts for three basic components: (i) the geometrical hindrance, (ii) the mechano-sensing mechanism, and (iii) the biased kinetics for stretched or compressed motors. The model simulations showed that the geometrical hindrance due to acto-myosin spatial mismatching and the preferential detachment of compressed motors are synergic in generating the rapid increase in the ATP-ase rate from isometric to moderate velocities of contraction, thus acting as an energy-conservation strategy in muscle contraction. The velocity measurements on a DNA-origami filament that preserves the motors’ distribution showed that geometrical hindrance and biased detachment generate a non-zero sliding velocity even without rotation of the myosin lever-arm, which is widely recognized as the basic event in muscle contraction. Because biased detachment is a mechanism for the rectification of thermal fluctuations, in the Brownian-ratchet framework, we predict that it requires a non-negligible amount of energy to preserve the second law of thermodynamics. Taken together, our theoretical and experimental results elucidate less considered components in the chemo-mechanical energy transduction in muscle.
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Affiliation(s)
- Lorenzo Marcucci
- Department of Biomedical Sciences, University of Padova, 35131 Padova, Italy
- Center for Biosystems Dynamics Research, RIKEN, Suita 5650874, Japan; (T.Y.); (M.I.)
- Correspondence:
| | - Hiroki Fukunaga
- Graduate School of Frontier Biosciences, Osaka University, Suita 5650871, Japan;
| | - Toshio Yanagida
- Center for Biosystems Dynamics Research, RIKEN, Suita 5650874, Japan; (T.Y.); (M.I.)
- Graduate School of Frontier Biosciences, Osaka University, Suita 5650871, Japan;
- Center for Information and Neural Networks, NICT, Suita 5650871, Japan
| | - Mitsuhiro Iwaki
- Center for Biosystems Dynamics Research, RIKEN, Suita 5650874, Japan; (T.Y.); (M.I.)
- Graduate School of Frontier Biosciences, Osaka University, Suita 5650871, Japan;
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Machiyama H, Yamaguchi T, Watanabe TM, Yanagida T, Fujita H. Activation probability of a single naïve T cell upon TCR ligation is controlled by T cells interacting with the same antigen-presenting cell. FEBS Lett 2021; 595:1512-1524. [PMID: 33826750 DOI: 10.1002/1873-3468.14082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 03/19/2021] [Accepted: 03/25/2021] [Indexed: 11/07/2022]
Abstract
Accurate recognition of antigens by specific T cells is crucial for adaptive immunity to work properly. The activation of a T-cell antigen-specific response by an antigen-presenting cell (APC) has not been clearly measured at a single T-cell level. It is also unknown whether the cell-extrinsic environment alters antigen recognition by a T cell. To measure the activation probability of a single T cell by an APC, we performed a single-cell live imaging assay and found that the activation probability changes depending not only on the antigens but also on the interactions of other T cells with the APC. We found that the specific reactivity of single naïve T cells was poor. However, their antigen-specific reactivity increased drastically when attached to an APC interacting with activated T cells. Activation of T cells was suppressed when regulatory T cells interacted with the APC. These findings suggest that although the ability of APCs to activate an antigen-specific naïve T cell is low at a single-cell level, the surrounding environment of APCs improves the specificity of the bulk response.
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Affiliation(s)
- Hiroaki Machiyama
- Immunology Frontier Research Center, Osaka University, Suita, Japan.,Department of Immunology, Tokyo Medical University, Japan
| | - Tomoyuki Yamaguchi
- Immunology Frontier Research Center, Osaka University, Suita, Japan.,Research Institute, Nozaki Tokushukai Hospital, Daito, Japan
| | - Tomonobu M Watanabe
- RIKEN Center for Biosystems Dynamics Research, Laboratory for Comprehensive Bioimaging, Kobe, Japan.,Department of Stem Cell Biology, Research Institute for Radiation Biology and Medicine, Hiroshima University, Japan
| | - Toshio Yanagida
- Immunology Frontier Research Center, Osaka University, Suita, Japan.,RIKEN Center for Biosystems Dynamics Research, Laboratory for Comprehensive Bioimaging, Kobe, Japan.,Center for Information and Neural Networks, National Institute of Information and Communications Technology, Suita, Japan
| | - Hideaki Fujita
- Immunology Frontier Research Center, Osaka University, Suita, Japan.,RIKEN Center for Biosystems Dynamics Research, Laboratory for Comprehensive Bioimaging, Kobe, Japan.,Department of Stem Cell Biology, Research Institute for Radiation Biology and Medicine, Hiroshima University, Japan
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Rittmannsberger D, Yanagida T, Weber G, Lueger‐Schuster B. The association between challenging behaviour and symptoms of post-traumatic stress disorder in people with intellectual disabilities: a Bayesian mediation analysis approach. J Intellect Disabil Res 2020; 64:538-550. [PMID: 32378249 PMCID: PMC7317343 DOI: 10.1111/jir.12733] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Revised: 03/25/2020] [Accepted: 04/09/2020] [Indexed: 05/03/2023]
Abstract
BACKGROUND A preponderance of behavioural symptoms is assumed to be the main difference in the manifestation of symptoms of post-traumatic stress disorder (PTSD) in people with intellectual disability (ID). However, no study so far has assessed the relationship between challenging behaviour (CB) and PTSD. The present study aims to explore this relationship by exploring whether CB is directly related to trauma exposure or whether this relationship is mediated through core symptoms of PTSD. METHODS Trauma exposure and current symptoms of PTSD were assessed in 43 adults with mild to moderate ID. Parallel versions were administered to 43 caregivers, including the Aberrant Behaviour Checklist to measure CB. Bayesian mediation analyses were conducted using self-rated and informant-rated data. RESULTS The self-report data showed no associations of CB with trauma exposure or PTSD symptoms. The association between informant-rated trauma exposure and irritability was mediated by severity and frequency of PTSD symptoms. The associations between informant-reported trauma exposure and the Aberrant Behaviour Checklist subscales hyperactivity and inappropriate speech were mediated by PTSD symptom severity. CONCLUSIONS The relationship between trauma exposure and CB was mediated by PTSD symptoms. PTSD core symptoms should be considered as underlying causes of CB, highlighting the necessity to explore trauma biography and symptoms of PTSD. The improvement of self-report assessment in people with ID is an important task for future studies.
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Affiliation(s)
- D. Rittmannsberger
- Department of Clinical and Health PsychologyFaculty of Psychology, University of ViennaViennaAustria
| | - T. Yanagida
- Department of Developmental and Educational PsychologyFaculty of Psychology, University of ViennaViennaAustria
| | - G. Weber
- Department of Clinical and Health PsychologyFaculty of Psychology, University of ViennaViennaAustria
| | - B. Lueger‐Schuster
- Department of Clinical and Health PsychologyFaculty of Psychology, University of ViennaViennaAustria
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Fujita K, Ohmachi M, Ikezaki K, Yanagida T, Iwaki M. Direct visualization of human myosin II force generation using DNA origami-based thick filaments. Commun Biol 2019; 2:437. [PMID: 31799438 PMCID: PMC6881340 DOI: 10.1038/s42003-019-0683-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2019] [Accepted: 11/07/2019] [Indexed: 11/08/2022] Open
Abstract
The sarcomere, the minimal mechanical unit of muscle, is composed of myosins, which self-assemble into thick filaments that interact with actin-based thin filaments in a highly-structured lattice. This complex imposes a geometric restriction on myosin in force generation. However, how single myosins generate force within the restriction remains elusive and conventional synthetic filaments do not recapitulate the symmetric bipolar filaments in sarcomeres. Here we engineered thick filaments using DNA origami that incorporate human muscle myosin to directly visualize the motion of the heads during force generation in a restricted space. We found that when the head diffuses, it weakly interacts with actin filaments and then strongly binds preferentially to the forward region as a Brownian ratchet. Upon strong binding, the two-step lever-arm swing dominantly halts at the first step and occasionally reverses direction. Our results illustrate the usefulness of our DNA origami-based assay system to dissect the mechanistic details of motor proteins.
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Affiliation(s)
- Keisuke Fujita
- RIKEN Center for Biosystems Dynamics Research, RIKEN, Osaka, Japan
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
| | - Masashi Ohmachi
- RIKEN Center for Biosystems Dynamics Research, RIKEN, Osaka, Japan
| | | | - Toshio Yanagida
- RIKEN Center for Biosystems Dynamics Research, RIKEN, Osaka, Japan
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
- Center for Information and Neural Networks, NICT, Osaka, Japan
| | - Mitsuhiro Iwaki
- RIKEN Center for Biosystems Dynamics Research, RIKEN, Osaka, Japan
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
- AMED-PRIME, Japan Agency for Medical Research and Development, Tokyo, Japan
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Yamaguchi T, Teraguchi S, Furusawa C, Machiyama H, Watanabe TM, Fujita H, Sakaguchi S, Yanagida T. Theoretical modeling reveals that regulatory T cells increase T-cell interaction with antigen-presenting cells for stable immune tolerance. Int Immunol 2019; 31:743-753. [PMID: 31131864 PMCID: PMC6794947 DOI: 10.1093/intimm/dxz043] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Accepted: 05/24/2019] [Indexed: 01/22/2023] Open
Abstract
The immune system in tolerance maintains cell diversity without responding to self-antigens. Foxp3-expressing CD25+CD4+ regulatory T cells (Tregs) inhibit T-cell activation through various molecular mechanisms. However, several key questions are still not resolved, including how Tregs control the immune response on the basis of their self-skewed T-cell receptor repertoire and how Tregs avoid impeding relevant immunity against pathogens. Here, we show that Tregs promote the proliferation of conventional T cells in the presence of excessive co-stimulation when murine T cells are stimulated in vitro with allogeneic antigen-presenting cells (APCs). Antigen-specific Tregs increase the number of cells interacting with dendritic cells (DCs) by increasing the number of viable DCs and the expression of adhesion molecules on DCs. Theoretical simulations and mathematical models representing the dynamics of T-APC interaction and T-cell numbers in a lymph node indicate that Tregs reduce the dissociation probability of T cells from APCs and increase the new association. These functions contribute to tolerance by enhancing the interaction of low-affinity T cells with APCs. Supporting the theoretical analyses, we found that reducing the T-cell numbers in mice increases the ratio of specific T cells among CD4+ T cells after immunization and effectively induces autoimmune diabetes in non obese diabetes mice. Thus, as a critical function, antigen-specific Tregs stabilize the immune state, irrespective of it being tolerant or responsive, by augmenting T-APC interaction. We propose a novel regulation model in which stable tolerance with large heterogeneous populations proceeds to a specific immune response through a transient state with few populations.
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Affiliation(s)
- Tomoyuki Yamaguchi
- Basic Immunology Laboratory, Research Institute, Nozaki Tokushukai Hospital, Tanigawa, Daito, Osaka, Japan
- Single Molecule Imaging, WPI Immunology Frontier Research Center, Osaka University, Furuedai, Suita, Osaka, Japan
- Quantitative Biology Center, RIKEN, Furuedai, Suita, Osaka, Japan
| | - Shunsuke Teraguchi
- Systems Immunology, WPI Immunology Frontier Research Center, Osaka University, Yamadaoka, Suita, Osaka, Japan
| | - Chikara Furusawa
- Quantitative Biology Center, RIKEN, Furuedai, Suita, Osaka, Japan
- Universal Biology Institute, University of Tokyo, Hongo, Tokyo, Japan
| | - Hiroaki Machiyama
- Single Molecule Imaging, WPI Immunology Frontier Research Center, Osaka University, Furuedai, Suita, Osaka, Japan
- Quantitative Biology Center, RIKEN, Furuedai, Suita, Osaka, Japan
| | | | - Hideaki Fujita
- Single Molecule Imaging, WPI Immunology Frontier Research Center, Osaka University, Furuedai, Suita, Osaka, Japan
- Quantitative Biology Center, RIKEN, Furuedai, Suita, Osaka, Japan
| | - Shimon Sakaguchi
- Experimental Immunology, WPI Immunology Frontier Research Center, Osaka University, Yamadaoka, Suita, Osaka, Japan
| | - Toshio Yanagida
- Single Molecule Imaging, WPI Immunology Frontier Research Center, Osaka University, Furuedai, Suita, Osaka, Japan
- Quantitative Biology Center, RIKEN, Furuedai, Suita, Osaka, Japan
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Ali A, Abouleila Y, Shimizu Y, Hiyama E, Watanabe TM, Yanagida T, Germond A. Single-Cell Screening of Tamoxifen Abundance and Effect Using Mass Spectrometry and Raman-Spectroscopy. Anal Chem 2019; 91:2710-2718. [PMID: 30664349 DOI: 10.1021/acs.analchem.8b04393] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Monitoring drug uptake, its metabolism, and response on the single-cell level is invaluable for sustaining drug discovery efforts. In this study, we show the possibility of accessing the information about the aforementioned processes at the single-cell level by monitoring the anticancer drug tamoxifen using live single-cell mass spectrometry (LSC-MS) and Raman spectroscopy. First, we explored whether Raman spectroscopy could be used as a label-free and nondestructive screening technique to identify and predict the drug response at the single-cell level. Then, a subset of the screened cells was isolated and analyzed by LSC-MS to measure tamoxifen and its metabolite, 4-Hydroxytamoxifen (4-OHT) in a highly selective, sensitive, and semiquantitative manner. Our results show the Raman spectral signature changed in response to tamoxifen treatment which allowed us to identify and predict the drug response. Tamoxifen and 4-OHT abundances quantified by LSC-MS suggested some heterogeneity among single-cells. A similar phenomenon was observed in the ratio of metabolized to unmetabolized tamoxifen across single-cells. Moreover, a correlation was found between tamoxifen and its metabolite, suggesting that the drug was up taken and metabolized by the cell. Finally, we found some potential correlations between Raman spectral intensities and tamoxifen abundance, or its metabolism, suggesting a possible relationship between the two signals. This study demonstrates for the first time the potential of using Raman spectroscopy and LSC-MS to investigate pharmacokinetics at the single-cell level.
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Affiliation(s)
- Ahmed Ali
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan.,Research Center , Misr International University , Cairo 19648 , Egypt
| | - Yasmine Abouleila
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan.,Research Center , Misr International University , Cairo 19648 , Egypt
| | - Yoshihiro Shimizu
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan
| | - Eiso Hiyama
- Graduate School of Biomedical and Health Sciences , 1-2-3 Kasumi , Hiroshima , 734-0037 , Japan
| | - Tomonobu M Watanabe
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan
| | - Toshio Yanagida
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan
| | - Arno Germond
- Riken Biodynamics Research Center (BDR) , 6-2-3 Furuedai , Suita , Osaka 565-0874 , Japan
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11
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Abouleila Y, Onidani K, Ali A, Shoji H, Kawai T, Lim CT, Kumar V, Okaya S, Kato K, Hiyama E, Yanagida T, Masujima T, Shimizu Y, Honda K. Live single cell mass spectrometry reveals cancer-specific metabolic profiles of circulating tumor cells. Cancer Sci 2019; 110:697-706. [PMID: 30549153 PMCID: PMC6361580 DOI: 10.1111/cas.13915] [Citation(s) in RCA: 67] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Revised: 12/05/2018] [Accepted: 12/09/2018] [Indexed: 02/06/2023] Open
Abstract
Recently, there has been increased attention on the analysis of circulating tumor cells (CTCs), also known as liquid biopsy, owing to its potential benefits in cancer diagnosis and treatment. Circulating tumor cells are released from primary tumor lesions into the blood stream and eventually metastasize to distant body organs. However, a major hurdle with CTC analysis is their natural scarcity. Existing methods lack sensitivity, specificity, or reproducibility required in CTC characterization and detection. Here, we report untargeted molecular profiling of single CTCs obtained from gastric cancer and colorectal cancer patients, using live single cell mass spectrometry integrated with microfluidics‐based cell enrichment techniques. Using this approach, we showed the difference in the metabolomic profile between CTCs originating from different cancer groups. Moreover, potential biomarkers were putatively annotated to be specific to each cancer type.
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Affiliation(s)
- Yasmine Abouleila
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan.,Natural Science for Basic Research and Development, Hiroshima University, Hiroshima, Japan.,Misr International University Research Center (MIU-RC), Cairo, Egypt
| | - Kaoru Onidani
- Department of Biomarkers for Early Detection of Cancer, National Cancer Center Research Institute, Tokyo, Japan.,Department of Oral and Maxillofacial Surgery, Tokyo Dental College, Tokyo, Japan
| | - Ahmed Ali
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan.,Natural Science for Basic Research and Development, Hiroshima University, Hiroshima, Japan.,Misr International University Research Center (MIU-RC), Cairo, Egypt
| | - Hirokazu Shoji
- Department of Biomarkers for Early Detection of Cancer, National Cancer Center Research Institute, Tokyo, Japan.,Gastrointestinal Medical Oncology Division, National Cancer Center Hospital, Tokyo, Japan
| | - Takayuki Kawai
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan.,Japan Science and Technology Agency, PRESTO, Saitama, Japan.,Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
| | - Chwee Teck Lim
- Department of Biomedical Engineering, National University of Singapore, Singapore.,Biomedical Institute for Global Health Research and Technology, National University of Singapore, Singapore
| | - Vipin Kumar
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan
| | - Shinobu Okaya
- Department of Biomarkers for Early Detection of Cancer, National Cancer Center Research Institute, Tokyo, Japan
| | - Ken Kato
- Gastrointestinal Medical Oncology Division, National Cancer Center Hospital, Tokyo, Japan
| | - Eiso Hiyama
- Natural Science for Basic Research and Development, Hiroshima University, Hiroshima, Japan
| | - Toshio Yanagida
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan
| | - Tsutomu Masujima
- RIKEN Center for Biosystems Dynamics research (BDR), Osaka, Japan
| | | | - Kazufumi Honda
- Department of Biomarkers for Early Detection of Cancer, National Cancer Center Research Institute, Tokyo, Japan.,Japan Agency for Medical Research and Development (AMED) CREST, Tokyo, Japan
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12
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Mano H, Kotecha G, Leibnitz K, Matsubara T, Sprenger C, Nakae A, Shenker N, Shibata M, Voon V, Yoshida W, Lee M, Yanagida T, Kawato M, Rosa MJ, Seymour B. Classification and characterisation of brain network changes in chronic back pain: A multicenter study. Wellcome Open Res 2018; 3:19. [PMID: 29774244 PMCID: PMC5930551 DOI: 10.12688/wellcomeopenres.14069.2] [Citation(s) in RCA: 49] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/05/2018] [Indexed: 01/03/2023] Open
Abstract
Background. Chronic pain is a common, often disabling condition thought to involve a combination of peripheral and central neurobiological factors. However, the extent and nature of changes in the brain is poorly understood. Methods. We investigated brain network architecture using resting-state fMRI data in chronic back pain patients in the UK and Japan (41 patients, 56 controls), as well as open data from USA. We applied machine learning and deep learning (conditional variational autoencoder architecture) methods to explore classification of patients/controls based on network connectivity. We then studied the network topology of the data, and developed a multislice modularity method to look for consensus evidence of modular reorganisation in chronic back pain. Results. Machine learning and deep learning allowed reliable classification of patients in a third, independent open data set with an accuracy of 63%, with 68% in cross validation of all data. We identified robust evidence of network hub disruption in chronic pain, most consistently with respect to clustering coefficient and betweenness centrality. We found a consensus pattern of modular reorganisation involving extensive, bilateral regions of sensorimotor cortex, and characterised primarily by negative reorganisation - a tendency for sensorimotor cortex nodes to be less inclined to form pairwise modular links with other brain nodes. Furthermore, these regions were found to display increased connectivity with the pregenual anterior cingulate cortex, a region known to be involved in endogenous pain control. In contrast, intraparietal sulcus displayed a propensity towards positive modular reorganisation, suggesting that it might have a role in forming modules associated with the chronic pain state. Conclusion. The results provide evidence of consistent and characteristic brain network changes in chronic pain, characterised primarily by extensive reorganisation of the network architecture of the sensorimotor cortex.
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Affiliation(s)
- Hiroaki Mano
- Center for Information and Neural Networks, National Institute of Information and Communications Technology, Osaka, Japan
| | - Gopal Kotecha
- Cambridge University Hospitals NHS Foundation Trust, Cambridge, UK
| | - Kenji Leibnitz
- Center for Information and Neural Networks, National Institute of Information and Communications Technology, Osaka, Japan
| | | | - Christian Sprenger
- Computational and Biological Learning Laboratory, Department of Engineering, University of Cambridge, Cambridge, UK
| | - Aya Nakae
- Osaka University School of Medicine, Osaka, Japan.,Immunology Frontiers Research Center, Osaka University, Osaka, Japan
| | - Nicholas Shenker
- Cambridge University Hospitals NHS Foundation Trust, Cambridge, UK
| | | | - Valerie Voon
- School of Clinical Medicine, University of Cambridge, Cambridge, UK
| | - Wako Yoshida
- Advanced Telecommunications Research Center International, Kyoto, Japan
| | - Michael Lee
- School of Clinical Medicine, University of Cambridge, Cambridge, UK
| | - Toshio Yanagida
- Center for Information and Neural Networks, National Institute of Information and Communications Technology, Osaka, Japan
| | - Mitsuo Kawato
- Advanced Telecommunications Research Center International, Kyoto, Japan
| | - Maria Joao Rosa
- Max-Planck UCL Centre for Computational Psychiatry and Ageing Research, University College London, London, UK.,Department of Computer Science, University College London, London, UK
| | - Ben Seymour
- Center for Information and Neural Networks, National Institute of Information and Communications Technology, Osaka, Japan.,Computational and Biological Learning Laboratory, Department of Engineering, University of Cambridge, Cambridge, UK.,Immunology Frontiers Research Center, Osaka University, Osaka, Japan.,Advanced Telecommunications Research Center International, Kyoto, Japan
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13
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Kimura Y, Yanagida T, Tsukui D, Asako K, Kikuchi H, Kono H. Decreased inflammasome activation in healthy subjects treated with benzbromarone. Atherosclerosis 2018. [DOI: 10.1016/j.atherosclerosis.2018.06.301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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14
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Tsukui D, Kimura Y, Yanagida T, Kono H. Reduced atherosclerosis in mice with conditional deletion of spleen tyrosine kinase. Atherosclerosis 2018. [DOI: 10.1016/j.atherosclerosis.2018.06.115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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15
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Mano H, Kotecha G, Leibnitz K, Matsubara T, Nakae A, Shenker N, Shibata M, Voon V, Yoshida W, Lee M, Yanagida T, Kawato M, Rosa MJ, Seymour B. Classification and characterisation of brain network changes in chronic back pain: A multicenter study. Wellcome Open Res 2018; 3:19. [DOI: 10.12688/wellcomeopenres.14069.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/23/2018] [Indexed: 11/20/2022] Open
Abstract
Background. Chronic pain is a common, often disabling condition thought to involve a combination of peripheral and central neurobiological factors. However, the extent and nature of changes in the brain is poorly understood. Methods. We investigated brain network architecture using resting-state fMRI data in chronic back pain patients in the UK and Japan (41 patients, 56 controls), as well as open data from USA. We applied machine learning and deep learning (conditional variational autoencoder architecture) methods to explore classification of patients/controls based on network connectivity. We then studied the network topology of the data, and developed a multislice modularity method to look for consensus evidence of modular reorganisation in chronic back pain. Results. Machine learning and deep learning allowed reliable classification of patients in a third, independent open data set with an accuracy of 63%, with 68% in cross validation of all data. We identified robust evidence of network hub disruption in chronic pain, most consistently with respect to clustering coefficient and betweenness centrality. We found a consensus pattern of modular reorganisation involving extensive, bilateral regions of sensorimotor cortex, and characterised primarily by negative reorganisation - a tendency for sensorimotor cortex nodes to be less inclined to form pairwise modular links with other brain nodes. In contrast, intraparietal sulcus displayed a propensity towards positive modular reorganisation, suggesting that it might have a role in forming modules associated with the chronic pain state. Conclusion. The results provide evidence of consistent and characteristic brain network changes in chronic pain, characterised primarily by extensive reorganisation of the network architecture of the sensorimotor cortex.
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16
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Abstract
Live single-cell mass spectrometry (LSC-MS) allows for the detection of hundreds to thousands of metabolite peaks acquired from a single plant cell within a few minutes. Plant cells are first observed under a stereomicroscope, a cell of interest is chosen, and then sampled using a metal-coated glass microcapillary for subsequent analysis. A few microliters of ionization solvent is then added to the rear end of the capillary followed by the introduction of the capillary's content directly into the mass spectrometer. High voltage is applied between the capillary and the mass spectrometer inlet to induce nanospray ionization. Metabolite structural confirmation is performed using tandem mass spectrometry analysis (MS/MS) and fragments are matched with MS/MS databases to predict metabolic pathways. This method enables swift and direct molecular detection and identification of specific metabolites from a single plant cell along with their localization within the cell, which will allow for comprehensive understanding of plant metabolomics on a single cell level.
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Affiliation(s)
- Keiko Masuda
- Laboratory for Single-Cell Mass Spectrometry, Quantitative Biology Center, RIKEN, Osaka, Japan.
| | - Yasmine Abouleila
- Laboratory for Single-Cell Mass Spectrometry, Quantitative Biology Center, RIKEN, Osaka, Japan
| | - Ahmed Ali
- Laboratory for Single-Cell Mass Spectrometry, Quantitative Biology Center, RIKEN, Osaka, Japan
| | - Toshio Yanagida
- Laboratory for Single-Cell Mass Spectrometry, Quantitative Biology Center, RIKEN, Osaka, Japan
| | - Tsutomu Masujima
- Laboratory for Single-Cell Mass Spectrometry, Quantitative Biology Center, RIKEN, Osaka, Japan
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17
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18
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Nakauchi D, Koshimizu M, Okada G, Yanagida T. Floating zone growth and scintillation properties of undoped and Ce-doped GdTaO4 crystals. RADIAT MEAS 2017. [DOI: 10.1016/j.radmeas.2017.03.033] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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19
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Chaisiri K, Aueawiboonsri S, Kusolsuk T, Dekumyoy P, Sanguankiat S, Homsuwan N, Peunpipoom G, Okamoto M, Yanagida T, Sako Y, Ito A. Gastrointestinal helminths and Taenia spp. in parenteral tissues of free-roaming pigs (Sus scrofa indicus) from hilltribe village at the western border of Thailand. Trop Biomed 2017; 34:464-470. [PMID: 33593030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
A serological survey of pig cysticercosis was conducted in a hill-tribe village at Thai-Myanmar border, Tak province of Thailand in 2012. Sixteen backyard pigs were examined for pig cysticercosis and gastrointestinal helminth infection. In addition to cysticerci of Taenia solium and Taenia hydatigena found outside the gut, nine other helminth species were found in guts: Echinostoma malayanum, Pseudanoplocephala crawfordi, Ascarops dentata, Physocephalus sexalatus, Gnathostoma doloresi, Ascaris suum, Globocephalus sp., Oesophagostomum dentatum and Bourgelatia diducta. The study presents a report for the first time of adult tapeworm, P. crawfordi infection in pigs from Thailand. For medical importance, E. malayanum, P. crawfordi, G. doloresi and A. suum have been confirmed as potentially zoonotic helminths and pigs may act as one of the reservoir hosts for human helminthiases. Pigs of both gender and all ages appeared to be exposed to the parasites equally and did not show any significant difference to these helminth species in richness and total intensity.
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Affiliation(s)
- K Chaisiri
- Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
| | - S Aueawiboonsri
- Nong Bua Health Promoting Hospital, Tha Song Yang, Tak, Thailand
| | - T Kusolsuk
- Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
| | - P Dekumyoy
- Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
| | - S Sanguankiat
- Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
| | - N Homsuwan
- Department of Helminthology, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
| | | | - M Okamoto
- Section of Wildlife Diversity, Center for Human Evolution Modeling Research, Primate Research Institute, Kyoto University, Inuyama, Aichi, Japan
| | - T Yanagida
- Laboratory of Parasitology, Joint Faculty of Veterinary Medicine, Yamaguchi University, Yamaguchi, Japan
| | - Y Sako
- Department of Parasitology, Asahikawa Medical University, Asahikawa, Hokkaido, Japan
| | - A Ito
- Department of Parasitology, Asahikawa Medical University, Asahikawa, Hokkaido, Japan
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20
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Tanaka H, Fujimoto Y, Koshimizu M, Yanagida T, Yahaba T, Saeki K, Asai K. Radiophotoluminescence properties of Ag-doped phosphate glasses. RADIAT MEAS 2016. [DOI: 10.1016/j.radmeas.2016.09.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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21
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Kimura Y, Yanagida T, Onda A, Asako K, Kikuchi H, Kono H. Soluble uric acid promotes development of atherosclerosis lesions via enhancement of innate inflammation in mice. Atherosclerosis 2016. [DOI: 10.1016/j.atherosclerosis.2016.07.214] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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22
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Chang JC, Umehara T, Fujita K, Taniguchi Y, Yanagida T, Minoda A. Single-Molecule Analysis of Colocalized Epigenetic Modifications. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.424] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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23
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Marcucci L, Washio T, Yanagida T. Oscillatory Behavior in Muscle Myosin. Biophys J 2016. [DOI: 10.1016/j.bpj.2015.11.2480] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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24
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Nakamura Y, Hibino K, Yanagida T, Sako Y. Switching of the positive feedback for RAS activation by a concerted function of SOS membrane association domains. Biophys Physicobiol 2016; 13:1-11. [PMID: 27924253 PMCID: PMC5042160 DOI: 10.2142/biophysico.13.0_1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2015] [Accepted: 12/11/2015] [Indexed: 01/12/2023] Open
Abstract
Son of sevenless (SOS) is a guanine nucleotide exchange factor that regulates cell behavior by activating the small GTPase RAS. Recent in vitro studies have suggested that an interaction between SOS and the GTP-bound active form of RAS generates a positive feedback loop that propagates RAS activation. However, it remains unclear how the multiple domains of SOS contribute to the regulation of the feedback loop in living cells. Here, we observed single molecules of SOS in living cells to analyze the kinetics and dynamics of SOS behavior. The results indicate that the histone fold and Grb2-binding domains of SOS concertedly produce an intermediate state of SOS on the cell surface. The fraction of the intermediated state was reduced in positive feedback mutants, suggesting that the feedback loop functions during the intermediate state. Translocation of RAF, recognizing the active form of RAS, to the cell surface was almost abolished in the positive feedback mutants. Thus, the concerted functions of multiple membrane-associating domains of SOS governed the positive feedback loop, which is crucial for cell fate decision regulated by RAS.
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Affiliation(s)
- Yuki Nakamura
- Cellular Informatics Laboratory, RIKEN, Wako, Saitama 351-0198, Japan; Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan
| | - Kayo Hibino
- Laboratory for Cell Signaling Dynamics, RIKEN QBiC, Suita, Osaka 565-0874, Japan
| | - Toshio Yanagida
- Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan
| | - Yasushi Sako
- Cellular Informatics Laboratory, RIKEN, Wako, Saitama 351-0198, Japan; Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan
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25
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Kotecha G, Mano H, Leibnitz K, Nakae A, Voon V, Yoshida W, Yanagida T, Kawato M, Rosa MJ, Seymour B. A NEURAL BIOMARKER FOR CHRONIC PAIN BASED ON DECODED BRAIN NETWORKS. J Neurol Psychiatry 2015. [DOI: 10.1136/jnnp-2015-312379.20] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
The lack of a biomarker for chronic pain remains an important impediment to clinical and translational pain research. The problem stems from the multiple parallel but subtle abnormalties thought to represent the chronic pain state, yielding the emerging view of chronic pain as a ‘network disorder’. This suggests analysis approaches that aim to identify distributed patterns of data (multivariate, machine learning methods) might offer the best opportunity to discover biomarkers. Here, we performed a multi-center functional brain imaging study to record state functional brain networks resting in 41 patients with chronic back pain and 33 healthy control subjects. We calculated with functional covariance matrix from 160 regions of interest, and used Sparse Multinomial Logistic Regression to classify subjects as patient or control using a leave-one-out cross validation. Diagnostic accuracy was 91.9%, with sensitivity and specificity 90.2% and 93.9% respectively. We then used graph theoretic measures to characterise the pattern of network differences between the groups, and showed that the chronic pain state was associated with disrupted network ‘assortativity’. These data provide evidence to support an accurate functional biomarker of chronic pain, and open the door to the development of translatable biomarkers using similar methodologies in animals.
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26
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Sugo N, Morimatsu M, Arai Y, Kousoku Y, Ohkuni A, Nomura T, Yanagida T, Yamamoto N. Single-Molecule Imaging Reveals Dynamics of CREB Transcription Factor Bound to Its Target Sequence. Sci Rep 2015; 5:10662. [PMID: 26039515 PMCID: PMC4454023 DOI: 10.1038/srep10662] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2014] [Accepted: 04/22/2015] [Indexed: 12/31/2022] Open
Abstract
Proper spatiotemporal gene expression is achieved by selective DNA binding of transcription factors in the genome. The most intriguing question is how dynamic interactions between transcription factors and their target sites contribute to gene regulation by recruiting the basal transcriptional machinery. Here we demonstrate individual binding and dissociation events of the transcription factor cAMP response element-binding protein (CREB), both in vitro and in living cells, using single-molecule imaging. Fluorescent–tagged CREB bound to its target sequence cAMP-response element (CRE) for a remarkably longer period (dissociation rate constant: 0.21 s-1) than to an unrelated sequence (2.74 s-1). Moreover, CREB resided at restricted positions in the living cell nucleus for a comparable period. These results suggest that CREB stimulates transcription by binding transiently to CRE in the time range of several seconds.
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Affiliation(s)
- Noriyuki Sugo
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
| | | | - Yoshiyuki Arai
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
| | - Yoshinori Kousoku
- Graduate School of Engineering Science, Osaka University, Osaka, Japan
| | - Aya Ohkuni
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
| | - Taishin Nomura
- Graduate School of Engineering Science, Osaka University, Osaka, Japan
| | - Toshio Yanagida
- 1] Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan [2] Riken Quantitative Biological Center (QBic), Osaka, Japan
| | - Nobuhiko Yamamoto
- Graduate School of Frontier Biosciences, Osaka University, Osaka, Japan
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27
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Noguchi TQP, Morimatsu M, Iwane AH, Yanagida T, Uyeda TQP. The role of structural dynamics of actin in class-specific myosin motility. PLoS One 2015; 10:e0126262. [PMID: 25945499 PMCID: PMC4422724 DOI: 10.1371/journal.pone.0126262] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2014] [Accepted: 03/31/2015] [Indexed: 11/18/2022] Open
Abstract
The structural dynamics of actin, including the tilting motion between the small and large domains, are essential for proper interactions with actin-binding proteins. Gly146 is situated at the hinge between the two domains, and we previously showed that a G146V mutation leads to severe motility defects in skeletal myosin but has no effect on motility of myosin V. The present study tested the hypothesis that G146V mutation impaired rotation between the two domains, leading to such functional defects. First, our study showed that depolymerization of G146V filaments was slower than that of wild-type filaments. This result is consistent with the distinction of structural states of G146V filaments from those of the wild type, considering the recent report that stabilization of actin filaments involves rotation of the two domains. Next, we measured intramolecular FRET efficiencies between two fluorophores in the two domains with or without skeletal muscle heavy meromyosin or the heavy meromyosin equivalent of myosin V in the presence of ATP. Single-molecule FRET measurements showed that the conformations of actin subunits of control and G146V actin filaments were different in the presence of skeletal muscle heavy meromyosin. This altered conformation of G146V subunits may lead to motility defects in myosin II. In contrast, distributions of FRET efficiencies of control and G146V subunits were similar in the presence of myosin V, consistent with the lack of motility defects in G146V actin with myosin V. The distribution of FRET efficiencies in the presence of myosin V was different from that in the presence of skeletal muscle heavy meromyosin, implying that the roles of actin conformation in myosin motility depend on the type of myosin.
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Affiliation(s)
- Taro Q. P. Noguchi
- Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki, Japan
- Graduate School of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan
- Department of Chemical Science and Engineering, National Institute of Technology, Miyakonojo College, Miyakonojo, Miyazaki, Japan
- * E-mail:
| | - Masatoshi Morimatsu
- Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
| | - Atsuko H. Iwane
- Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
- Quantitative Biology Center (QBiC), RIKEN, Suita, Osaka, Japan
| | - Toshio Yanagida
- Nanobiology Laboratories, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
- Quantitative Biology Center (QBiC), RIKEN, Suita, Osaka, Japan
| | - Taro Q. P. Uyeda
- Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki, Japan
- Graduate School of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan
- Graduate School of Medical Life Science, Yokohama City University, Tsurumi, Yokohama, Kanagawa, Japan
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Okuda S, Tamaki K, Ando T, Yanagida T, Fujishima M. TGF-beta behavior in the progressive process in the focal glomerulosclerosis rat model: the role of latent TGF-beta-binding protein. Contrib Nephrol 2015; 118:78-85. [PMID: 8744043 DOI: 10.1159/000425079] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- S Okuda
- Second Department of Internal Medicine, Faculty of Medicine, Kyushu University, Fukuoka City, Japan
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Abstract
Myosin is a mechano-enzyme that hydrolyzes ATP in order to move unidirectionally along actin filaments. Here we show by single molecule imaging that myosin V motion can be activated by local heat. We constructed a dark-field microscopy that included optical tweezers to monitor 80 nm gold nanoparticles (GNP) bound to single myosin V molecules with nanometer and submillisecond accuracy. We observed 34 nm processive steps along actin filaments like those seen when using 200 nm polystyrene beads (PB) but dwell times (ATPase activity) that were 4.5 times faster. Further, by using DNA nanotechnology (DNA origami) and myosin V as a nanometric thermometer, the temperature gradient surrounding optically trapped GNP could be estimated with nanometer accuracy. We propose our single molecule measurement system should advance quantitative analysis of the thermal control of biological and artificial systems like nanoscale thermal ratchet motors.
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Affiliation(s)
- Mitsuhiro Iwaki
- †Quantitative Biology Center, RIKEN, Suita, Osaka 5650874, Japan
- ‡Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, 5650874, Japan
| | - Atsuko H Iwane
- †Quantitative Biology Center, RIKEN, Suita, Osaka 5650874, Japan
- ‡Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, 5650874, Japan
| | - Keigo Ikezaki
- §School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, 2778561, Japan
| | - Toshio Yanagida
- †Quantitative Biology Center, RIKEN, Suita, Osaka 5650874, Japan
- ‡Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, 5650874, Japan
- ∥Center for Information and Neural Networks, NICT, Suita, Osaka, 5650874, Japan
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30
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Ikezaki K, Komori T, Arai Y, Yanagida T. Lever arm extension of myosin VI is unnecessary for the adjacent binding state. Biophysics (Nagoya-shi) 2015; 11:47-53. [PMID: 27493514 PMCID: PMC4736786 DOI: 10.2142/biophysics.11.47] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2014] [Accepted: 12/21/2014] [Indexed: 12/01/2022] Open
Abstract
Myosin VI is a processive myosin that has a unique stepping motion, which includes three kinds of steps: a large forward step, a small forward step and a backward step. Recently, we proposed the parallel lever arms model to explain the adjacent binding state, which is necessary for the unique motion. In this model, both lever arms are directed the same direction. However, experimental evidence has not refuted the possibility that the adjacent binding state emerges from myosin VI folding its lever arm extension (LAE). To clarify this issue, we constructed a myosin VI/V chimera that replaces the myosin VI LAE with the IQ3-6 domains of the myosin V lever arm, which cannot fold, and performed single molecule imaging. Our chimera showed the same stepping patterns as myosin VI, indicating the LAE is not responsible for the adjacent binding state.
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Affiliation(s)
- Keigo Ikezaki
- Graduate School of Frontier Biosciences, Osaka University, Yamadaoka, Suita, Osaka 565-0871, Japan; Quantitative Biology Center (QBiC), RIKEN, Furuedai, Suita, Osaka 565-0874, Japan
| | - Tomotaka Komori
- Graduate School of Frontier Biosciences, Osaka University, Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Yoshiyuki Arai
- Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
| | - Toshio Yanagida
- Graduate School of Frontier Biosciences, Osaka University, Yamadaoka, Suita, Osaka 565-0871, Japan; Quantitative Biology Center (QBiC), RIKEN, Furuedai, Suita, Osaka 565-0874, Japan; Center for Information and Neural Networks (CiNet), Yamadaoka, Suita, Osaka 565-0871, Japan; WPI, Immunology Frontier Research Center, Osaka University, Yamadaoka, Suita, Osaka 565-0871, Japan
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31
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32
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Murata T, Hamada T, Shimokawa T, Tanifuji M, Yanagida T. Stochastic process underlying emergent recognition of visual objects hidden in degraded images. PLoS One 2014; 9:e115658. [PMID: 25542034 PMCID: PMC4277371 DOI: 10.1371/journal.pone.0115658] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2013] [Accepted: 11/27/2014] [Indexed: 11/25/2022] Open
Abstract
When a degraded two-tone image such as a “Mooney” image is seen for the first time, it is unrecognizable in the initial seconds. The recognition of such an image is facilitated by giving prior information on the object, which is known as top-down facilitation and has been intensively studied. Even in the absence of any prior information, however, we experience sudden perception of the emergence of a salient object after continued observation of the image, whose processes remain poorly understood. This emergent recognition is characterized by a comparatively long reaction time ranging from seconds to tens of seconds. In this study, to explore this time-consuming process of emergent recognition, we investigated the properties of the reaction times for recognition of degraded images of various objects. The results show that the time-consuming component of the reaction times follows a specific exponential function related to levels of image degradation and subject's capability. Because generally an exponential time is required for multiple stochastic events to co-occur, we constructed a descriptive mathematical model inspired by the neurophysiological idea of combination coding of visual objects. Our model assumed that the coincidence of stochastic events complement the information loss of a degraded image leading to the recognition of its hidden object, which could successfully explain the experimental results. Furthermore, to see whether the present results are specific to the task of emergent recognition, we also conducted a comparison experiment with the task of perceptual decision making of degraded images, which is well known to be modeled by the stochastic diffusion process. The results indicate that the exponential dependence on the level of image degradation is specific to emergent recognition. The present study suggests that emergent recognition is caused by the underlying stochastic process which is based on the coincidence of multiple stochastic events.
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Affiliation(s)
- Tsutomu Murata
- Center for Information and Neural Networks, National Institute of Information and Communications Technology (NICT), and Osaka University, Suita, Osaka, Japan
- Advanced ICT Research Center, NICT, Kobe, Hyogo, Japan
- * E-mail:
| | - Takashi Hamada
- Advanced ICT Research Center, NICT, Kobe, Hyogo, Japan
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
| | - Tetsuya Shimokawa
- Center for Information and Neural Networks, National Institute of Information and Communications Technology (NICT), and Osaka University, Suita, Osaka, Japan
- Advanced ICT Research Center, NICT, Kobe, Hyogo, Japan
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
| | - Manabu Tanifuji
- Laboratory for Integrative Neural Systems, RIKEN Brain Science Institute, Wako, Saitama, Japan
| | - Toshio Yanagida
- Center for Information and Neural Networks, National Institute of Information and Communications Technology (NICT), and Osaka University, Suita, Osaka, Japan
- Advanced ICT Research Center, NICT, Kobe, Hyogo, Japan
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
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33
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Miyamoto Y, Nanto H, Kurobori T, Fujimoto Y, Yanagida T, Ueda J, Tanabe S, Yamamoto T. RPL in alpha particle irradiated Ag+-doped phosphate glass. RADIAT MEAS 2014. [DOI: 10.1016/j.radmeas.2014.08.007] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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34
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Yanagida T. Single molecule imaging expanded to macroscopic level by computer simulation. Microscopy (Oxf) 2014; 63 Suppl 1:i1-2. [PMID: 25359794 DOI: 10.1093/jmicro/dfu084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Toshio Yanagida
- Graduate School of Frontier Biosciences, Osaka University, QBiC & SCLS (RIKEN), CiNet (NICT)
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35
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Hirohata S, Yanagida T, Yoshio T. OP0215 Association of Cerebrospinal Fluid Anti-Sm Antibodies with Acute Confusional State in Systemic Lupus Erythematosus. Ann Rheum Dis 2014. [DOI: 10.1136/annrheumdis-2014-eular.1677] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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36
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Affiliation(s)
- Peter Karagiannis
- Quantitative Biology Center, Riken (QBiC) , Furuedai 6-2-3, Suita, Osaka 565-0874, Japan
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37
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Ichimura T, Chiu LD, Fujita K, Kawata S, Watanabe TM, Yanagida T, Fujita H. Visualizing cell state transition using Raman spectroscopy. PLoS One 2014; 9:e84478. [PMID: 24409302 PMCID: PMC3883674 DOI: 10.1371/journal.pone.0084478] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2013] [Accepted: 11/14/2013] [Indexed: 11/22/2022] Open
Abstract
System level understanding of the cell requires detailed description of the cell state, which is often characterized by the expression levels of proteins. However, understanding the cell state requires comprehensive information of the cell, which is usually obtained from a large number of cells and their disruption. In this study, we used Raman spectroscopy, which can report changes in the cell state without introducing any label, as a non-invasive method with single cell capability. Significant differences in Raman spectra were observed at the levels of both the cytosol and nucleus in different cell-lines from mouse, indicating that Raman spectra reflect differences in the cell state. Difference in cell state was observed before and after the induction of differentiation in neuroblastoma and adipocytes, showing that Raman spectra can detect subtle changes in the cell state. Cell state transitions during embryonic stem cell (ESC) differentiation were visualized when Raman spectroscopy was coupled with principal component analysis (PCA), which showed gradual transition in the cell states during differentiation. Detailed analysis showed that the diversity between cells are large in undifferentiated ESC and in mesenchymal stem cells compared with terminally differentiated cells, implying that the cell state in stem cells stochastically fluctuates during the self-renewal process. The present study strongly indicates that Raman spectral morphology, in combination with PCA, can be used to establish cells' fingerprints, which can be useful for distinguishing and identifying different cellular states.
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Affiliation(s)
- Taro Ichimura
- Quantitative Biology Center, Riken, Suita, Osaka, Japan
| | - Liang-da Chiu
- Department of Applied Physics, Osaka University, Suita, Osaka, Japan
| | - Katsumasa Fujita
- Department of Applied Physics, Osaka University, Suita, Osaka, Japan
| | - Satoshi Kawata
- Department of Applied Physics, Osaka University, Suita, Osaka, Japan
- Nanophotonics Laboratory, Riken, Wako, Saitama, Japan
| | | | - Toshio Yanagida
- Quantitative Biology Center, Riken, Suita, Osaka, Japan
- Immunology Frontier Research Center, Osaka University, Suita, Osaka, Japan
| | - Hideaki Fujita
- Quantitative Biology Center, Riken, Suita, Osaka, Japan
- Immunology Frontier Research Center, Osaka University, Suita, Osaka, Japan
- * E-mail:
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38
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Iwaki M, Ikezaki K, Yanagida T, Shih W. Designing of Self-Assembled Biomolecular System and the Detection at the Single Molecule Resolution. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.1128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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39
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Marcucci L, Yanagida T. Attached Molecular Motor in Trapped Single Molecule Assay as a Bi-Dimensional Brownian Multi-Stable System. Biophys J 2014. [DOI: 10.1016/j.bpj.2013.11.895] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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40
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Peng WW, Niu G, Tétot R, Vilquin B, Raimondi F, Brubach JB, Amzallag E, Yanagida T, Autier-Laurent S, Lecoeur P, Roy P. Insulator-metal transition of VO₂ ultrathin films on silicon: evidence for an electronic origin by infrared spectroscopy. J Phys Condens Matter 2013; 25:445402. [PMID: 24121423 DOI: 10.1088/0953-8984/25/44/445402] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
We report on the first simultaneous observations of both electronic and structural temperature-induced insulator-to-metal transition (IMT) in VO2 ultrathin films, made possible by the use of broad range transmission infrared spectroscopy. Thanks to these techniques, the infrared phonon structures, as well as the appearance of the free carrier signature, were resolved for the first time. The temperature-resolved spectra allowed the determination of the temperature hysteresis for both the structural (monoclinic-to-rutile) and electronic (insulator-to-metallic) transitions. The combination of these new observations and DFT simulations for the monoclinic structure allows us to verify the direct transition from monoclinic (M1) to rutile and exclude an intermediate structural monoclinic form (M2). The delay in structural modification compared to the primer electronic transition (325 K compared to 304 K) supports the role of free charges as the transition driving force. The shape of the free charge hysteresis suggests that the primer electronic transition occurs first at 304 K, followed by both its propagation to the heart of the layer and the structural transition when T increases. This study outlines further the potential of VO2 ultrathin films integrated on silicon for optoelectronics and microelectronics.
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Affiliation(s)
- W W Peng
- Synchrotron SOLEIL, L'Orme des Merisiers, Saint-Aubin, BP 48, F-91192 Gif-sur-Yvette, France
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41
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Yasuhara N, Yamagishi R, Arai Y, Mehmood R, Kimoto C, Fujita T, Touma K, Kaneko A, Kamikawa Y, Moriyama T, Yanagida T, Kaneko H, Yoneda Y. Importin alpha subtypes determine differential transcription factor localization in embryonic stem cells maintenance. Dev Cell 2013; 26:123-35. [PMID: 23906064 DOI: 10.1016/j.devcel.2013.06.022] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2012] [Revised: 04/15/2013] [Accepted: 06/22/2013] [Indexed: 11/25/2022]
Abstract
We recently demonstrated that the expression of the importin α subtype is switched from α2 to α1 during neural differentiation in mouse embryonic stem cells (ESCs) and that this switching has a major impact on cell differentiation. In this study, we report a cell-fate determination mechanism in which importin α2 negatively regulates the nuclear import of certain transcription factors to maintain ESC properties. The nuclear import of Oct6 and Brn2 was inhibited via the formation of a transport-incompetent complex of the cargo bound to a nuclear localization signal binding site in importin α2. Unless this dominant-negative effect was downregulated upon ESC differentiation, inappropriate cell death was induced. We propose that although certain transcription factors are necessary for differentiation in ESCs, these factors are retained in the cytoplasm by importin α2, thereby preventing transcription factor activity in the nucleus until the cells undergo differentiation.
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Affiliation(s)
- Noriko Yasuhara
- Department of Biochemistry, Graduate School of Medicine, Osaka University, Suita, Osaka 565-0871, Japan.
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42
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Watanabe TM, Fujii F, Jin T, Umemoto E, Miyasaka M, Fujita H, Yanagida T. Four-dimensional spatial nanometry of single particles in living cells using polarized quantum rods. Biophys J 2013; 105:555-64. [PMID: 23931303 PMCID: PMC3736678 DOI: 10.1016/j.bpj.2013.07.001] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2012] [Revised: 06/28/2013] [Accepted: 07/01/2013] [Indexed: 11/29/2022] Open
Abstract
Single particle tracking is widely used to study protein movement with high spatiotemporal resolution both in vitro and in cells. Quantum dots, which are semiconductor nanoparticles, have recently been employed in single particle tracking because of their intense and stable fluorescence. Although single particles inside cells have been tracked in three spatial dimensions (X, Y, Z), measurement of the angular orientation of a molecule being tracked would significantly enhance our understanding of the molecule's function. In this study, we synthesized highly polarized, rod-shaped quantum dots (Qrods) and developed a coating method that optimizes the Qrods for biological imaging. We describe a Qrod-based single particle tracking technique that blends optical nanometry with nanomaterial science to simultaneously measure the three-dimensional and angular movements of molecules. Using Qrods, we spatially tracked a membrane receptor in living cells in four dimensions with precision close to the single-digit range in nanometers and degrees.
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43
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Miyamoto Y, Ohno T, Takei Y, Nanto H, Kurobori T, Yanagida T, Yoshikawa A, Nagashima Y, Yamamoto T. Optical properties in Ag+-doped phosphate glass irradiated with X-rays and α-particles. RADIAT MEAS 2013. [DOI: 10.1016/j.radmeas.2012.10.018] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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44
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Ito A, Li T, Chen X, Long C, Yanagida T, Nakao M, Sako Y, Okamoto M, Wu Y, Raoul F, Giraudoux P, Craig PS. Mini review on chemotherapy of taeniasis and cysticercosis due to Taenia solium in Asia, and a case report with 20 tapeworms in China. Trop Biomed 2013; 30:164-173. [PMID: 23959481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
A 43-year-old Tibetan woman living in northwest Sichuan, China, confirmed to be a taeniasis carrier of Taenia solium was treated with pumpkin seeds combined with Areca nut extract in October 2009. All 20 tapeworms except one without scolex were expelled under good conditions. She was free of secondary cysticercosis within one year follow up. Although the first choice for treatment of taeniasis is still praziquantel, it may often cause serious side effect on asymptomatic cysticercosis cases to suddenly become symptomatic within a half day of the treatment. Therefore, the problems in treatment of taeniasis and/or cysticercosis in Asia are briefly overviewed, since other platyhelminthic diseases including schistosomiasis, opisthorchiasis etc. are more common and praziquantel is strongly recommended for mass treatment of these trematodiases with no idea on the co-infection with eggs of T. solium which cause asymptomatic cysticercosis.
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Affiliation(s)
- A Ito
- Asahikawa Medical University, Asahikawa, Hokkaido, Japan
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45
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Kono H, Yanagida T, Kikuchi H, Asako K, Takayama M. AB0031 Anti-inflammatory property of hdl in nod1 ligand induced kawasaki arteritis in mice. Ann Rheum Dis 2013. [DOI: 10.1136/annrheumdis-2013-eular.2354] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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46
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Marcucci L, Yanagida T. Attached molecular motor in a trapped single molecule assay as a bidimensional Brownian multistable system. Phys Rev E Stat Nonlin Soft Matter Phys 2013; 87:062711. [PMID: 23848719 DOI: 10.1103/physreve.87.062711] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2012] [Revised: 04/27/2013] [Indexed: 06/02/2023]
Abstract
To elucidate the physical properties of the force generation mechanism in molecular motors, we have obtained an analytical solution of the bidimensional Fokker-Plank equation which describes a common setup used in single molecule experiments. As a first application of this general result, we have shown that the size of the trapping system affects the dwell time of a multistable particle linearly. A quantitative application to skeletal actomyosin complex, using direct observation of force generation dynamics in the literature, shows that the size of the trapping system used was important for increasing the dwell time of the myosin head stable states to an observable time scale.
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Affiliation(s)
- L Marcucci
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan.
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47
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Kono H, Yanagida T, Asako K, Kikuchi H, Kimura Y. AB0061 Reconstituted hdl ameliorates nod1 ligand induced kawasaki arteritis in mice. Ann Rheum Dis 2013. [DOI: 10.1136/annrheumdis-2012-eular.61] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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48
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Abstract
Myosin VI is an ATP driven molecular motor that normally takes forward and processive steps on actin filaments, but also on occasion stochastic backward steps. While a number of models have attempted to explain the backwards steps, none offer an acceptable mechanism for their existence. We therefore performed single molecule imaging of myosin VI and calculated the stepping rates of forward and backward steps at the single molecule level. The forward stepping rate was proportional to the ATP concentration, whereas the backward stepping rate was independent. Using these data, we proposed that spontaneous detachment of the leading head is uncoupled from ATP binding and is responsible for the backward steps of myosin VI.
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Affiliation(s)
- Keigo Ikezaki
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
- Quantitative Biology Center (QBiC), RIKEN, Suita, Osaka, Japan
| | - Tomotaka Komori
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
- Quantitative Biology Center (QBiC), RIKEN, Suita, Osaka, Japan
- * E-mail: (TK); (TY)
| | - Toshio Yanagida
- Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka, Japan
- Quantitative Biology Center (QBiC), RIKEN, Suita, Osaka, Japan
- Center for Information and Neural Networks (CiNet), Suita, Osaka, Japan
- Immunology Frontier Research Center (IFReC), Osaka University, Suita, Osaka, Japan
- * E-mail: (TK); (TY)
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49
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Kong SG, Arai Y, Suetsugu N, Yanagida T, Wada M. Rapid severing and motility of chloroplast-actin filaments are required for the chloroplast avoidance response in Arabidopsis. Plant Cell 2013; 25:572-90. [PMID: 23404888 PMCID: PMC3608779 DOI: 10.1105/tpc.113.109694] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2013] [Revised: 01/16/2013] [Accepted: 01/20/2013] [Indexed: 05/20/2023]
Abstract
Phototropins (phot1 and phot2 in Arabidopsis thaliana) relay blue light intensity information to the chloroplasts, which move toward weak light (the accumulation response) and away from strong light (the avoidance response). Chloroplast-actin (cp-actin) filaments are vital for mediating these chloroplast photorelocation movements. In this report, we examine in detail the cp-actin filament dynamics by which the chloroplast avoidance response is regulated. Although stochastic dynamics of cortical actin fragments are observed on the chloroplasts, the basic mechanisms underlying the disappearance (including severing and turnover) of the cp-actin filaments are regulated differently from those of cortical actin filaments. phot2 plays a pivotal role in the strong blue light-induced severing and random motility of cp-actin filaments, processes that are therefore essential for asymmetric cp-actin formation for the avoidance response. In addition, phot2 functions in the bundling of cp-actin filaments that is induced by dark incubation. By contrast, the function of phot1 is dispensable for these responses. Our findings suggest that phot2 is the primary photoreceptor involved in the rapid reorganization of cp-actin filaments that allows chloroplasts to change direction rapidly and control the velocity of the avoidance movement according to the light's intensity and position.
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Affiliation(s)
- Sam-Geun Kong
- Department of Biology, Graduate School of Sciences, Kyushu University, Higashi-ku, Fukuoka 812-8581, Japan
| | - Yoshiyuki Arai
- Laboratories for Nanobiology, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan
| | - Noriyuki Suetsugu
- Department of Biology, Graduate School of Sciences, Kyushu University, Higashi-ku, Fukuoka 812-8581, Japan
| | - Toshio Yanagida
- Laboratories for Nanobiology, Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan
| | - Masamitsu Wada
- Department of Biology, Graduate School of Sciences, Kyushu University, Higashi-ku, Fukuoka 812-8581, Japan
- Address correspondence to
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50
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Abstract
Single molecule measurements have shown that a muscle myosin step is driven by biased Brownian movement. Furthermore, they have also demonstrated that in response to strain in the backward direction a detached myosin head preferentially attaches to the forward direction due to an accelerated transition from a weak binding to strong binding state. Because they are consistent with the original Huxley model for muscle contraction, we have built a model that describes macroscopic muscle characteristics based on these single molecule results.
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Affiliation(s)
- Toshio Yanagida
- Graduate School of Frontier Biosciences, Osaka University, 6-2-3 Furuedai, Suita, Osaka 565-0874, Japan
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