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  1. Article ; Online: Concentration Quantification of the Low-Complexity Domain of Fused in Sarcoma inside a Single Droplet and Effects of Solution Parameters.

    Yokosawa, Kohei / Kajimoto, Shinji / Shibata, Daiki / Kuroi, Kunisato / Konno, Tomohiro / Nakabayashi, Takakazu

    The journal of physical chemistry letters

    2022  Volume 13, Issue 24, Page(s) 5692–5697

    Abstract: Liquid-liquid phase separation (LLPS) is an important phenomenon in biology, and it is desirable to develop quantitative methods to analyze protein droplets generated by LLPS. This study quantified the change in protein concentration in a droplet in ... ...

    Abstract Liquid-liquid phase separation (LLPS) is an important phenomenon in biology, and it is desirable to develop quantitative methods to analyze protein droplets generated by LLPS. This study quantified the change in protein concentration in a droplet in label-free and single-droplet conditions using Raman imaging and the Raman band of water as an intensity standard. Small changes in the protein concentration with variations in pH and salt concentration were observed, and it was shown that the concentration in the droplet decreases as the conditions become less favorable for droplet formation. The effect of exposure to 1,6-hexanediol was also examined, and this additive was found to decrease the protein concentration in the droplet. A model can be proposed in which the addition of 1,6-hexanediol reduces the protein concentration in the droplet, and the droplet disappears when the concentration falls below a certain threshold value.
    MeSH term(s) Humans ; Proteins ; Sarcoma ; Sodium Chloride ; Water/chemistry
    Chemical Substances Proteins ; Water (059QF0KO0R) ; Sodium Chloride (451W47IQ8X)
    Language English
    Publishing date 2022-06-16
    Publishing country United States
    Document type Journal Article
    ISSN 1948-7185
    ISSN (online) 1948-7185
    DOI 10.1021/acs.jpclett.2c00962
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Observation of liquid-liquid phase separation of ataxin-3 and quantitative evaluation of its concentration in a single droplet using Raman microscopy.

    Murakami, Kazuki / Kajimoto, Shinji / Shibata, Daiki / Kuroi, Kunisato / Fujii, Fumihiko / Nakabayashi, Takakazu

    Chemical science

    2021  Volume 12, Issue 21, Page(s) 7411–7418

    Abstract: Liquid-liquid phase separation (LLPS) plays an important role in a variety of biological processes and is also associated with protein aggregation in neurodegenerative diseases. Quantification of LLPS is necessary to elucidate the mechanism of LLPS and ... ...

    Abstract Liquid-liquid phase separation (LLPS) plays an important role in a variety of biological processes and is also associated with protein aggregation in neurodegenerative diseases. Quantification of LLPS is necessary to elucidate the mechanism of LLPS and the subsequent aggregation process. In this study, we showed that ataxin-3, which is associated with Machado-Joseph disease, exhibits LLPS in an intracellular crowding environment mimicked by biopolymers, and proposed that a single droplet formed in LLPS can be quantified using Raman microscopy in a label-free manner. We succeeded in evaluating the protein concentration and identifying the components present inside and outside a droplet using the O-H stretching band of water as an internal intensity standard. Only water and protein were detected to be present inside droplets with crowding agents remaining outside. The protein concentration in a droplet was dependent on the crowding environment, indicating that the protein concentration and intracellular environment should be considered when investigating LLPS. Raman microscopy has the potential to become a powerful technique for clarifying the chemical nature of LLPS and its relationship with protein aggregation.
    Language English
    Publishing date 2021-04-14
    Publishing country England
    Document type Journal Article
    ZDB-ID 2559110-1
    ISSN 2041-6539 ; 2041-6520
    ISSN (online) 2041-6539
    ISSN 2041-6520
    DOI 10.1039/d0sc06095j
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Surgical resection of a tuberculoma in the diaphragm: a case report.

    Hashinokuchi, Asato / Kohno, Mikihiro / Kosai, Keisuke / Ono, Yuki / Haratake, Naoki / Shibata, Daiki / Yamamoto, Hidetaka / Takenaka, Tomoyoshi / Yoshizumi, Tomoharu

    Surgical case reports

    2022  Volume 8, Issue 1, Page(s) 198

    Abstract: Background: Extrapulmonary tuberculosis commonly affects the lymphatic system, nervous system, and gastrointestinal system. Tuberculous infection in the muscle is very rare. Moreover, tuberculous infection in the diaphragm is extremely rare. We herein ... ...

    Abstract Background: Extrapulmonary tuberculosis commonly affects the lymphatic system, nervous system, and gastrointestinal system. Tuberculous infection in the muscle is very rare. Moreover, tuberculous infection in the diaphragm is extremely rare. We herein report a case of tuberculomas in the diaphragm and posterior mediastinum that were successfully diagnosed and treated.
    Case presentation: We encountered a 62-year-old woman with a tuberculoma in the diaphragm. The patient presented with mild dyspnea. Computed tomography showed a mass in the left diaphragm, focal thickening of the posterior mediastinum, and multiple nodules in the lungs. Positron emission tomography-computed tomography showed increased uptake in the left diaphragm mass and thickening of the posterior mediastinum; therefore, we considered the masses to be malignant and planned surgical resection. However, the patient was diagnosed with tuberculosis from a sputum culture, and she was treated with anti-tuberculous therapy. The masses in the diaphragm and posterior mediastinum had become enlarged after 6 months of anti-tuberculous therapy; therefore, the patient underwent resection of both masses. Tuberculous infection was histologically confirmed in each lesion. She was pathologically diagnosed with tuberculous abscesses in the diaphragm and posterior mediastinum and began treatment with anti-tuberculosis drugs.
    Conclusions: Preoperative diagnosis of a tuberculoma in the diaphragm is usually difficult, and surgical intervention is important for both diagnosis and treatment.
    Language English
    Publishing date 2022-10-14
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2809613-7
    ISSN 2198-7793
    ISSN 2198-7793
    DOI 10.1186/s40792-022-01554-y
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Multiple deuteration of triphenylphosphine and live-cell Raman imaging of deuterium-incorporated Mito-Q.

    Moriyama, Shogo / Mae, Miyu / Shibata, Daiki / Yamakoshi, Hiroyuki / Kajimoto, Shinji / Nakabayashi, Takakazu / Ishimoto, Takayoshi / Mogi, Kaiki / Sajiki, Hironao / Akai, Shuji / Sawama, Yoshinari

    Chemical communications (Cambridge, England)

    2023  Volume 59, Issue 81, Page(s) 12100–12103

    Abstract: All aromatic C-H bonds of triphenylphosphine ( ... ...

    Abstract All aromatic C-H bonds of triphenylphosphine (PPh
    Language English
    Publishing date 2023-10-10
    Publishing country England
    Document type Journal Article
    ZDB-ID 1472881-3
    ISSN 1364-548X ; 1359-7345 ; 0009-241X
    ISSN (online) 1364-548X
    ISSN 1359-7345 ; 0009-241X
    DOI 10.1039/d3cc04410f
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Ratiometric analysis of reversible thia-Michael reactions using nitrile-tagged molecules by Raman microscopy.

    Yamakoshi, Hiroyuki / Shibata, Daiki / Bando, Kazuki / Kajimoto, Shinji / Kohyama, Aki / Egoshi, Syusuke / Dodo, Kosuke / Iwabuchi, Yoshiharu / Sodeoka, Mikiko / Fujita, Katsumasa / Nakabayashi, Takakazu

    Chemical communications (Cambridge, England)

    2023  Volume 59, Issue 98, Page(s) 14563–14566

    Abstract: Ratiometric Raman analysis of reversible thia-Michael reactions was achieved using α-cyanoacrylic acid (αCNA) derivatives. Among αCNAs, the smallest derivative, ThioRas (molecular weight: 167 g ... ...

    Abstract Ratiometric Raman analysis of reversible thia-Michael reactions was achieved using α-cyanoacrylic acid (αCNA) derivatives. Among αCNAs, the smallest derivative, ThioRas (molecular weight: 167 g mol
    Language English
    Publishing date 2023-12-07
    Publishing country England
    Document type Journal Article
    ZDB-ID 1472881-3
    ISSN 1364-548X ; 1359-7345 ; 0009-241X
    ISSN (online) 1364-548X
    ISSN 1359-7345 ; 0009-241X
    DOI 10.1039/d3cc05015g
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Approach for reclassification of collecting duct carcinoma and comparative histopathological analysis with SMARCB1/INI1-deficient renal cell carcinoma and fumarate hydratase-deficient renal cell carcinoma.

    Kiyozawa, Daisuke / Kohashi, Kenichi / Takamatsu, Dai / Iwasaki, Takeshi / Shibata, Daiki / Tomonaga, Takumi / Tateishi, Yuki / Eto, Masatoshi / Kinjo, Mitsuru / Nishiyama, Kenichi / Taguchi, Kenichi / Oshiro, Yumi / Kuboyama, Yusuke / Furuya, Mitsuko / Oda, Yoshinao

    Human pathology

    2022  Volume 124, Page(s) 36–44

    Abstract: Collecting duct carcinoma (CDC) is a rare subset of high-grade renal cell carcinoma (RCC). To diagnose CDC, it is necessary to rule out other renal tumors including renal medullary carcinoma and fumarate hydratase (FH)-deficient RCC. However, there is ... ...

    Abstract Collecting duct carcinoma (CDC) is a rare subset of high-grade renal cell carcinoma (RCC). To diagnose CDC, it is necessary to rule out other renal tumors including renal medullary carcinoma and fumarate hydratase (FH)-deficient RCC. However, there is overlap in the morphology of these three tumors, which all have poor outcomes. There is also still a need to sufficiently examine the therapeutic strategies for each of these tumors. In this study, we retrospectively reclassified invasive/infiltrating high-grade RCC and investigated its pathological features. We reviewed 18 cases previously diagnosed as "CDC," "FH-deficient RCC," and "unclassified RCC," which were reclassified as SMARCB1/INI1-deficient RCC, FH-deficient RCC, and CDC by SMARCB1/INI1, FH, and 2SC immunohistochemistry (IHC) and FH gene mutational status. As the result, 18 cases were reclassified into 2 cases of SMARCB1/INI1-deficient RCC, 7 cases of FH-deficient RCC, and 9 cases of CDC. The morphological features of each group overlapped, and no specific immunohistochemical expression except for SMARCB1/INI1, FH, and 2SC was detected. These results suggest that invasive/infiltrating high-grade RCC should be diagnosed by the combination of immunohistochemistry and molecular biological technique.
    MeSH term(s) Carcinoma, Renal Cell/pathology ; Fumarate Hydratase/genetics ; Humans ; Immunohistochemistry ; Kidney Neoplasms/pathology ; Retrospective Studies ; SMARCB1 Protein/genetics
    Chemical Substances SMARCB1 Protein ; SMARCB1 protein, human ; Fumarate Hydratase (EC 4.2.1.2)
    Language English
    Publishing date 2022-03-16
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 207657-3
    ISSN 1532-8392 ; 0046-8177
    ISSN (online) 1532-8392
    ISSN 0046-8177
    DOI 10.1016/j.humpath.2022.03.002
    Database MEDical Literature Analysis and Retrieval System OnLINE

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