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Inoue I, Inubushi Y, Osaka T, Yamada J, Hara T, Nishibori E, Yabashi M. Ultrafast structural changes in matter induced by intense X-ray free-electron laser pulses. Acta Crystallogr A Found Adv 2021. [DOI: 10.1107/s010876732109173x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Hong L, Zarepisheh M, Zhou Y, Huang Q, Jhanwar G, Yang J, Pham H, Cervino L, Yamada J, Deasy J. OC-0472 Automated and clinical-criteria-driven optimal planning: clinical experience with over 3400 patients. Radiother Oncol 2021. [DOI: 10.1016/s0167-8140(21)06921-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Kato K, Akeda K, Miyazaki S, Yamada J, Muehleman C, Miyamoto K, Asanuma YA, Asanuma K, Fujiwara T, Lenz ME, Nakazawa T, An H, Masuda K. NF-kB decoy oligodeoxynucleotide preserves disc height in a rabbit anular-puncture model and reduces pain induction in a rat xenograft-radiculopathy model. Eur Cell Mater 2021; 42:90-109. [PMID: 34284523 DOI: 10.22203/ecm.v042a07] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/31/2023] Open
Abstract
While it is known that the degenerated intervertebral disc (IVD) is one of the primary reasons for low-back pain and subsequent need for medical care, there are currently no established effective methods for direct treatment. Nuclear factor-κB (NF-κB) is a transcription factor that regulates various genes' expression, among which are inflammatory cytokines, in many tissues including the IVD. NF-κB decoy is an oligodeoxynucleotide containing the NF-κB binding site that entraps NF-κB subunits, resulting in suppression of NF-κB activity. In the present preclinical study, NF-κB decoy was injected into degenerated IVDs using the rabbit anular-puncture model. In terms of distribution, NF-κB decoy persisted in the IVDs up to at least 4 weeks after injection. The remaining amount of NF-κB decoy indicated that it fit a double-exponential-decay equation. Investigation of puncture-caused degeneration of IVDs showed that NF-κB decoy injection recovered, dose-dependently, the reduced disc height that was associated with reparative cell cloning and morphological changes, as assessed through histology. Gene expression, by quantitative real-time polymerase chain reaction (qRT-PCR), showed that NF-κB decoy attenuated inflammatory gene expression, such as that of interleukin-1 and tumor necrosis factor-α, in rabbit degenerated IVDs. NF-κB decoy also reduced the pain response as seen using the "pain sensor" nude rat xenograft-radiculopathy model. This is the first report demonstrating that NF-κB decoy suppresses the inflammatory response in degenerated IVDs and restores IVD disc height loss. Therefore, the intradiscal injection of NF-κB decoy may have the potential as an effective therapeutic strategy for discogenic pain associated with degenerated IVDs.
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Hong L, Zhou Y, Yang J, Mechalakos J, Hunt M, Yang J, Yamada J, Deasy J, Zarepisheh M. OC-0221: Clinical experience of automated SBRT planning with Constrained Hierarchical Optimization. Radiother Oncol 2020. [DOI: 10.1016/s0167-8140(21)00245-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Hirano S, Saitoh E, Kagaya H, Sonoda S, Mukaino M, Tsunoda T, Tanabe S, Yamada J, Suzuki A, Konosu H. Welwalk facilitate early improvement in walking independence of stroke patients with hemiplegia. Ann Phys Rehabil Med 2018. [DOI: 10.1016/j.rehab.2018.05.199] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Nanri K, Yajima R, Yamada J, Ohtomo T, Nakayama S, Terashi H, Ueta Y, Kanemaru K, Ishiko T, Tanaka N, Niwa H. Detection of anti-cerebellar antibody by western blot analysis in serum from a patient with low-titer anti-gad-antibody-positive cerebellar ataxia. J Neurol Sci 2017. [DOI: 10.1016/j.jns.2017.08.2505] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Ishiguchi H, Kobayashi S, Kohno M, Nanno T, Myoren T, Oda S, Tateishi H, Mochizuki M, Oda T, Yamada J, Okamura T, Yano M. P5408Urinary 8-hydroxy-2-deoxyguanosine as a novel myocardial oxidative stress marker for sustained ventricular tachycardia in patients with active cardiac sarcoidosis. Eur Heart J 2017. [DOI: 10.1093/eurheartj/ehx493.p5408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Shanks JA, Ito S, Schaevitz L, Yamada J, Chen B, Litke A, Feldheim DA. Corticothalamic Axons Are Essential for Retinal Ganglion Cell Axon Targeting to the Mouse Dorsal Lateral Geniculate Nucleus. J Neurosci 2016. [PMID: 27170123 DOI: 10.6080/k07d2s2f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/26/2023] Open
Abstract
UNLABELLED Retinal ganglion cells (RGCs) relay information about the outside world to multiple subcortical targets within the brain. This information is either used to dictate reflexive behaviors or relayed to the visual cortex for further processing. Many subcortical visual nuclei also receive descending inputs from projection neurons in the visual cortex. Most areas receive inputs from layer 5 cortical neurons in the visual cortex but one exception is the dorsal lateral geniculate nucleus (dLGN), which receives layer 6 inputs and is also the only RGC target that sends direct projections to the cortex. Here we ask how visual system development and function changes in mice that develop without a cortex. We find that the development of a cortex is essential for RGC axons to terminate in the dLGN, but is not required for targeting RGC axons to other subcortical nuclei. RGC axons also fail to target to the dLGN in mice that specifically lack cortical layer 6 projections to the dLGN. Finally, we show that when mice develop without a cortex they can still perform a number of vision-dependent tasks. SIGNIFICANCE STATEMENT The dorsal lateral geniculate nucleus (dLGN) is a sensory thalamic relay area that receives feedforward inputs from retinal ganglion cells (RGCs) in the retina, and feed back inputs from layer 6 neurons in the visual cortex. In this study we examined genetically manipulated mice that develop without a cortex or without cortical layer 6 axonal projections, and find that RGC axons fail to project to the dLGN. Other RGC recipient areas, such as the superior colliculus and suprachiasmatic nucleus, are targeted normally. These results provide support for a new mechanism of target selection that may be specific to the thalamus, whereby descending cortical axons provide an activity that promotes feedforward targeting of RGC axons to the dLGN.
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Tang G, LoSasso T, Saleh Z, Mechalakos J, Lim S, Laufer I, Bilsky M, Yamada J, Lovelock D. SU-E-T-328: Dosimetric Impact of Cobalt-Chrome Stabilization Hardware in Paraspinal Radiation Therapy. Med Phys 2015. [DOI: 10.1118/1.4924689] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Nagata H, Yamada S, Tsujita M, Yamada J, Hosoe H, Goto N, Watarai Y. Investigation of exercise capacity after renal transplantation. Physiotherapy 2015. [DOI: 10.1016/j.physio.2015.03.1947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Yamada J, Ohgomori T, Jinno S. Perineuronal nets affect parvalbumin expression in GABAergic neurons of the mouse hippocampus. Eur J Neurosci 2014; 41:368-78. [PMID: 25411016 DOI: 10.1111/ejn.12792] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Revised: 10/16/2014] [Accepted: 10/17/2014] [Indexed: 12/15/2022]
Abstract
Recent studies have suggested that the perineuronal net (PNN), a specialised extracellular matrix structure, and parvalbumin (PV), an EF-hand calcium-binding protein, are involved in the regulation of plasticity of neural circuits. Here, we aimed to quantitatively estimate the relationship between the two plasticity regulators, PV and PNNs, in the hippocampus of young adult mice. Dual fluorescence staining for PV and Wisteria floribunda agglutinin (a broad PNN marker) showed that a substantial population of PV-expressing (PV(+) ) GABAergic neurons lacked PNNs. Optical disector analysis demonstrated that there were fewer PNN(+) neurons than PV(+) neurons. The ratio of PNN expression in PV(+) neurons was generally lower in the dendritic layers than in the principal cell layers, whereas the ratio of PV expression in PNN(+) neurons was effectively 100%. The mean PV fluorescence was significantly higher in PNN(+) /PV(+) neurons than in PNN(-) /PV(+) neurons. Cumulative frequencies for single-cell PV fluorescence indicated that intensely stained PV(+) neurons tend to be enwrapped by PNNs, whereas weakly stained PV(+) neurons are likely to lack PNNs. We digested the PNNs by a unilateral injection of chondroitinase ABC (chABC) into the dorsal CA1 region. Although the densities of PV(+) neurons remained unchanged, the PV fluorescence declined 7 days after chABC injection. Quantitative real-time polymerase chain reaction analysis demonstrated a reduction in PV mRNA expression following chABC injection. These findings indicate that the presence or absence of PNNs affects the relative PV expression in GABAergic neurons in the hippocampus.
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Escorcia FE, Folkert MR, Spratt DE, Zumsteg Z, Chan T, Omuro AM, Beal K, Gutin PH, Yamada J. AI-09 * PATTERNS OF SALVAGE TREATMENT FOR HIGH GRADE GLIOMA IN THE TEMOZOLOMIDE ERA. Neuro Oncol 2014. [DOI: 10.1093/neuonc/nou238.9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
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Zhang P, Goodman K, Han Q, Yamada J, Mageras G, Yorke E. Setting Action Levels for Abdominal Stereotactic Body Radiation Therapy Monitored With Frequent kV Imaging Surveillance. Int J Radiat Oncol Biol Phys 2014. [DOI: 10.1016/j.ijrobp.2014.05.2383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Kobayashi K, Satsukawa H, Yamada J, Terashima T, Uji S. Observation of orbital resonance Hall effect in (TMTSF)2ClO4. PHYSICAL REVIEW LETTERS 2014; 112:116805. [PMID: 24702404 DOI: 10.1103/physrevlett.112.116805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Indexed: 06/03/2023]
Abstract
We report the observation of a Hall effect driven by orbital resonance in the quasi-1-dimensional (q1D) organic conductor (TMTSF)2ClO4. Although a conventional Hall effect is not expected in this class of materials due to their reduced dimensionality, we observed a prominent Hall response at certain orientations of the magnetic field B corresponding to lattice vectors of the constituent molecular chains, known as the magic angles (MAs). We show that this Hall effect can be understood as the response of conducting planes generated by an effective locking of the orbital motion of the charge carriers to the MA driven by an electron-trajectory resonance. This phenomenon supports a class of theories describing the rich behavior of MA phenomena in q1D materials based on altered dimensionality. Furthermore, we observed that the effective carrier density of the conducting planes is exponentially suppressed in large B, which indicates possible density wave formation.
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Din S, Yamada J, Yorke E, Foster A, Poppens E, Thompson M, Jackson A, Wu A, Rimner A. Brachial Plexopathy After High-Dose Stereotactic Body Radiation Therapy (SBRT). Int J Radiat Oncol Biol Phys 2013. [DOI: 10.1016/j.ijrobp.2013.06.1372] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Ohira H, Matsunaga M, Murakami H, Osumi T, Fukuyama S, Shinoda J, Yamada J. Neural mechanisms mediating association of sympathetic activity and exploration in decision-making. Neuroscience 2013; 246:362-74. [PMID: 23643977 DOI: 10.1016/j.neuroscience.2013.04.050] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2013] [Revised: 04/02/2013] [Accepted: 04/25/2013] [Indexed: 11/19/2022]
Abstract
The somatic marker hypothesis asserts that decision-making can be guided by feedback of bodily states to the brain. In line with this hypothesis, the present study tested whether sympathetic activity shows an association with a tonic dimension of decision-making, exploratory tendency represented by entropy in information theory, and further examined the neural mechanisms of the association. Twenty participants performed a stochastic reversal learning task that required decision-making in an unstable and uncertain situation. Regional cerebral blood flow was evaluated using (15)O-water positron emission tomography (PET), and cardiovascular indices and concentrations of catecholamine in peripheral blood were also measured, during the task. In reversal learning, increased epinephrine during the task positively correlated with larger entropy, indicating a greater tendency for exploration in decision-making. The increase of epinephrine also correlated with brain activity revealed by PET in the somatosensory cortices, anterior insula, dorsal anterior cingulate cortex, and the dorsal pons. This result is consistent with previously reported brain matrixes of representation of bodily states and interoception. In addition, activity of the anterior insula specifically correlated with entropy, suggesting possible mediation of this brain region between peripheral sympathetic arousal and exploration in decision-making. These findings shed a new light about a role of bodily states in decision-making and underlying neural mechanisms.
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Sakuratani Y, Zhang HQ, Nishikawa S, Yamazaki K, Yamada T, Yamada J, Gerova K, Chankov G, Mekenyan O, Hayashi M. Hazard Evaluation Support System (HESS) for predicting repeated dose toxicity using toxicological categories. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2013; 24:351-363. [PMID: 23548036 DOI: 10.1080/1062936x.2013.773375] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Repeated dose toxicity (RDT) is one of the most important hazard endpoints in the risk assessment of chemicals. However, due to the complexity of the endpoints associated with whole body assessment, it is difficult to build up a mechanistically transparent structure-activity model. The category approach, based on mechanism information, is considered to be an effective approach for data gap filling for RDT by read-across. Therefore, a library of toxicological categories was developed using experimental RDT data for 500 chemicals and mechanistic knowledge of the effects of these chemicals on different organs. As a result, 33 categories were defined for 14 types of toxicity, such as hepatotoxicity, hemolytic anemia, etc. This category library was then incorporated in the Hazard Evaluation Support System (HESS) integrated computational platform to provide mechanistically reasonable predictions of RDT values for untested chemicals. This article describes the establishment of a category library and the associated HESS functions used to facilitate the mechanistically reasonable grouping of chemicals and their subsequent read-across.
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Sakuratani Y, Zhang HQ, Nishikawa S, Yamazaki K, Yamada T, Yamada J, Hayashi M. Categorization of nitrobenzenes for repeated dose toxicity based on adverse outcome pathways. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2013; 24:35-46. [PMID: 23039897 DOI: 10.1080/1062936x.2012.728995] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Adoption of the data-gap filling method for complex endpoints such as repeated dose toxicity (RDT) and reproductive/developmental toxicity is one of the most important issues affecting international chemical management at present. A categorization method based on adverse outcome pathways (AOPs) has recently been investigated for such complex endpoints. In this paper, we report results of the categorization of nitrobenzenes for RDT based on the AOPs obtained by analysing the detailed RDT test reports for 24 different nitrobenzenes already evaluated. In most RDT testing of nitrobenzenes without hydroxyl groups or acid groups, findings related to haemolytic anaemia and liver effects were observed at low dosages. It was, therefore, possible to assume common AOPs for haemolytic anaemia and liver effects induced by these nitrobenzenes. As a result, a group of nitrobenzenes was defined as a single category for both haemolytic anaemia and liver effects, respectively, based on these AOPs.
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Mizuno Y, Yamada J, Abe H, Natori T, Sato K. Abstract PD06-02: Standardized Assessment of Ki-67 Using Virtual Slides and Automated Analyzer for Breast Cancer Patients: Comparison of Automated and Central/Local Pathology Assessment. Cancer Res 2012. [DOI: 10.1158/0008-5472.sabcs12-pd06-02] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Abstract
Background: Ki-67 is useful in determining the effect of hormonal therapy and also as a prognostic factor. However, the method for its evaluation has not been standardized, and the results vary depending on the assessment by pathologists. We reported that the discordance rate of Ki-67 in preoperative core needle biopsy and the surgical specimens was higher than that of other biological markers, and this was considered to be due to the discrepancies in the evaluation methods (SABCS 2011). In this report, we reviewed the possibility of introducing an automated analyzer by comparing the diagnosis made by local pathologists and reassessment by central review to standardize the evaluation method for Ki-67.
Subjects and Method: Of the 354 cases of primary breast cancer that had their first operation from October 2008 to March 2012, 225 cases that had preoperative core needle biopsy at Tokyo-West Tokushukai Hospital were selected as the subjects of this study. Cases with ductal carcinoma in situ (DCIS) and cases with neoadjuvant chemotherapy were excluded. A cut-off value of 20% was used for Ki-67 positive criteria. The concordance rates of estrogen receptors (ER), progesterone receptor (PgR), human epidermal growth factor receptor 2 (HER2), and Ki-67 by local pathologists were reviewed, and in cases of non-matching Ki-67, tumor diameter (≈ heterogeneity) and operative method (≈ condition of formalin fixation) were studied. Next, non-matching cases (∼ to October 2011) were reassessed both by central review and by an automated analyzer (Ventana Digital Pathology) using virtual slides, and the results were studied and compared with the evaluation by local pathologists. The Wilcoxon-t test was used to review the p value for statistical analysis. Parameters such as tumor diameter, operative method were analyzed by χ2 analysis.
Results: The concordance rate of Ki-67 in preoperative core needle biopsy and surgical specimens was 76.9% in 225 cases of local pathology assessment from October 2008 to March 2012. This rate was significantly lower (p < 0.001) than that of ER (95.6%), PgR (88.0%), and HER2 (91.5%). In non-matching cases, no difference was observed in tumor diameter and operative method. Reassessment of the 39 cases of non-matching Ki-67 to October 2011 using central review and an automated analyzer resulted in matching 27 cases (94.8%) and 32 (96.3%) out of 39 cases, respectively.
Conclusion: The concordance rate of Ki-67 in preoperative core needle biopsy and surgical specimens was lower compared with other biological markers. However, they were nearly equal with reassessment using central review and an automated analyzer. Clinical application of Ki-67 and its standardization are challenging due to variable counting methods and measurement sites. Conducting central reviews in general clinical facilities is difficult, but introducing an automated analyzer with a Ki-67 labeling index is shown to achieve that goal.
Citation Information: Cancer Res 2012;72(24 Suppl):Abstract nr PD06-02.
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Spratt D, Zhang C, Zumsteg Z, Pei X, Zhang Z, Yamada J, Kollmeier M, Cox B, Zelefsky M. Metformin Improves Prostate Cancer-specific Survival and Inhibits the Development of Castrate Resistant Metastasis. Int J Radiat Oncol Biol Phys 2012. [DOI: 10.1016/j.ijrobp.2012.07.243] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Teckie S, Yamada J, Rao S, Lee N. Ultra-high-dose Stereotactic Body Radiation Therapy (SBRT) is Feasible for Tumors in the Head and Neck (HN). Int J Radiat Oncol Biol Phys 2012. [DOI: 10.1016/j.ijrobp.2012.07.1372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Kohutek Z, Chan T, Yamada J, Zhang Z, Brennan C, Tabar V, Gutin P, Beal K. Clinical Factors Associated With Radiation Necrosis After Stereotactic Radiosurgery for Brain Metastases. Int J Radiat Oncol Biol Phys 2012. [DOI: 10.1016/j.ijrobp.2012.07.205] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Spratt D, Pei X, Yamada J, Kollmeier M, Cox B, Zhang Z, Zelefsky M. Long-term Survival and Toxicity of Patients Treated With Ultra-high-dose IMRT for Localized Prostate Cancer. Int J Radiat Oncol Biol Phys 2012. [DOI: 10.1016/j.ijrobp.2012.07.041] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Yamada S, Sato K, Yamada J, Yasutomi M, Tokumoto T, Ishikawa K. Activation of the 20S Proteasome of Xenopus Oocytes by SDS: Evidence for the Substrate-Induced Conformational Change Characteristic of Trypsin-Like Peptidase. Zoolog Sci 2012; 15:353-7. [PMID: 18465998 DOI: 10.2108/zsj.15.353] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/1997] [Accepted: 03/09/1998] [Indexed: 11/17/2022]
Abstract
The 20S proteasome of eukaryotic cells has at least three distinct peptidase activities (trypsin-like, chymotrypsin-like and peptidylglutamylpeptide (PGP) hydrolase activities). These peptidases are latent and require appropriate activators. SDS has been widely used as an activator of these peptidases, but the mechanism of its activation remains unresolved. In this study, we investigated the kinetics of the SDS-activated hydrolysis of the above three types of peptidase of the 20S proteasome purified from Xenopus oocytes. When the reaction was started by simultaneous adding both SDS and substrate, maximal rates of hydrolysis were reached after appreciable lag phases with the trypsin-type substrate [t-butyloxycarbonylLeu-Arg-Arg-4-methylcoumaryl-7-amide (Boc-LRR-MCA)], but no such lag phases were observed with the chymotrypsin-type and PGP hydrolase-type substrates [succinyl-Leu-Leu-Val-Tyr-4-methylcoumaryl-7-amide (Suc-LLVY-MCA), and benzyloxycarbonyl-Leu-Leu-Glu-2-naphthylamide (Cbz-LLE-2NA), respectively]. Similarly, changes in the hydrolysis rate to a reduced level upon dilution of SDS occurred after an appreciable lag phase again in the trypsin-like peptidase, but not in the other types. The lag phase characteristic of the trypsin-like peptidase was dependent on the substrate concentration. Thus, the lag phase was less discernible at very low concentrations of the substrate (e.g. at concentrations in the order of 1/100 of the Km value), but became more conspicuous with the increases in the substrate concentration. This lag phase also vanished upon preincubation of the activator (SDS) for a short period of 5 sec. These results suggest that the formation of the enzyme-substrate complex in the trypsin-like reaction induces a conformational change in the enzyme which makes the SDS activator site(s) in an occluded form, reducing the rates of SDS binding and dissociation.
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Matsunaga T, Chikuni K, Tanabe R, Muroya S, Nakai H, Shibata K, Yamada J, Shinmura Y. Determination of mitochondrial cytochrome B gene sequence for red deer (Cervus elaphus) and the differentiation of closely related deer meats. Meat Sci 2012; 49:379-85. [PMID: 22060620 DOI: 10.1016/s0309-1740(97)00145-9] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/1997] [Revised: 10/28/1997] [Accepted: 12/19/1997] [Indexed: 10/18/2022]
Abstract
The cytochrome b gene sequence for red deer was determined using the Dye Terminator Cycle Sequencing method and used for identification of deer meat in meat and meat products. Red deer showed a similarity of 94.1, 84.0, 81.1, 85.5 and 85.6% to sika deer (Cervus nippon), bovine, pigs, sheep and goats, respectively. To differentiate the deer meat, oligonucleotide primers RD-1(5'-TCATCGCAGCACTCGCTATAGTACACT-3'), RD-2(5'-ATCTCCAAGTAGGTCTGGTGCGAATAA-3') were designed for the region of the cytochrome b gene of red deer. The PCR amplified 194 bp fragments from red and sika deer, but no fragments from bovine, pig, chicken, sheep, goat, horse and rabbit DNA. Although cooking the meats reduced the PCR products, red deer could still be detected in meat heated at 120 °C. To discriminate between red and sika deer, these PCR products were digested by a restriction enzyme (EcoRI,BamHI,ScaI) and analyzed by 4% agorose gel electrophoresis. As a result, the red deer fragment was digested by EcoRI to 67/127 bp fragments but not by BamHI and ScaI. The sika deer fragment was digested to 48/146 bp and 49/145 bp fragments with the two other enzymes, and thus it is possible to differentiate between the two kinds of deer from the digestion pattern of restriction enzymes.
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