Takumi Nishiuchi

@kanazawa-u.ac.jp

Research Center for Experimental Modeling of Human Disease
Kanazawa Unniversity



                 

https://researchid.co/tnish913

RESEARCH, TEACHING, or OTHER INTERESTS

Plant Science, Biochemistry, Genetics and Molecular Biology, Agronomy and Crop Science, Archeology

138

Scopus Publications

5010

Scholar Citations

39

Scholar h-index

92

Scholar i10-index

Scopus Publications

  • Comprehensive antitumor immune response boosted by dual inhibition of SUMOylation and MEK in MYC-expressing KRAS-mutant cancers
    Hiroshi Kotani, Tomoyoshi Yamano, Justin C. Boucher, Shigeki Sato, Hiroyuki Sakaguchi, Koji Fukuda, Akihiro Nishiyama, Kaname Yamashita, Koushiro Ohtsubo, Shinji Takeuchi,et al.

    Springer Science and Business Media LLC
    AbstractPrecision medicine has drastically changed cancer treatment strategies including KRAS-mutant cancers which have been undruggable for decades. While intrinsic or acquired treatment resistance remains unresolved in many cases, epigenome-targeted therapy may be an option to overcome. We recently discovered the effectiveness of blocking small ubiquitin-like modifier (SUMO) signaling cascade (SUMOylation) in MYC-expressing KRAS-mutant cancer cells using a SUMO-activating enzyme E inhibitor TAK-981 that results in SUMOylation inhibition. Interestingly, TAK-981 promoted the degradation of MYC via the ubiquitin–proteasome system. Moreover, combination therapy with TAK-981 and MEK inhibitor trametinib remarkably regressed xenografted KRAS-mutant tumors by accumulating DNA damage and inducing apoptosis. Whereas our recent study revealed immune-independent antitumor efficacy, we evaluated the immune responses of cancer cells and immune cells in this study. We found that TAK-981-induced MYC downregulation promoted the activation of STING followed by Stat1 and MHC class I in KRAS-mutant cancer cells. Activation of dendritic cells or T cells treated with TAK-981 was also verified by upregulated activation markers in dendritic cells or skew-toward effector-like phenotypes in T cells. Furthermore, the enhanced immune-dependent antitumor efficacy of the combination therapy with TAK-981 and trametinib was confirmed by infiltration of immune cells into tumor tissues and immunodepleting-test using immunodepleting antibodies in syngeneic immunocompetent mouse models. Together with our recent study and here, the findings support that combination inhibition of SUMOylation and MEK comprehensively conquers MYC-expressing KRAS-mutant cancers by both immune-dependent and immune-independent antitumor responses.

  • Dual inhibition of SUMOylation and MEK conquers MYC-expressing KRAS-mutant cancers by accumulating DNA damage
    Hiroshi Kotani, Hiroko Oshima, Justin C. Boucher, Tomoyoshi Yamano, Hiroyuki Sakaguchi, Shigeki Sato, Koji Fukuda, Akihiro Nishiyama, Kaname Yamashita, Koushiro Ohtsubo,et al.

    Springer Science and Business Media LLC
    Abstract Background KRAS mutations frequently occur in cancers, particularly pancreatic ductal adenocarcinoma, colorectal cancer, and non-small cell lung cancer. Although KRASG12C inhibitors have recently been approved, effective precision therapies have not yet been established for all KRAS-mutant cancers. Many treatments for KRAS-mutant cancers, including epigenome-targeted drugs, are currently under investigation. Small ubiquitin-like modifier (SUMO) proteins are a family of small proteins covalently attached to and detached from other proteins in cells via the processes called SUMOylation and de-SUMOylation. We assessed whether SUMOylation inhibition was effective in KRAS-mutant cancer cells. Methods The efficacy of the first-in-class SUMO-activating enzyme E inhibitor TAK-981 (subasumstat) was assessed in multiple human and mouse KRAS-mutated cancer cell lines. A gene expression assay using a TaqMan array was used to identify biomarkers of TAK-981 efficacy. The biological roles of SUMOylation inhibition and subsequent regulatory mechanisms were investigated using immunoblot analysis, immunofluorescence assays, and mouse models. Results We discovered that TAK-981 downregulated the expression of the currently undruggable MYC and effectively suppressed the growth of MYC-expressing KRAS-mutant cancers across different tissue types. Moreover, TAK-981-resistant cells were sensitized to SUMOylation inhibition via MYC-overexpression. TAK-981 induced proteasomal degradation of MYC by altering the balance between SUMOylation and ubiquitination and promoting the binding of MYC and Fbxw7, a key factor in the ubiquitin–proteasome system. The efficacy of TAK-981 monotherapy in immunocompetent and immunodeficient mouse models using a mouse-derived CMT167 cell line was significant but modest. Since MAPK inhibition of the KRAS downstream pathway is crucial in KRAS-mutant cancer, we expected that co-inhibition of SUMOylation and MEK might be a good option. Surprisingly, combination treatment with TAK-981 and trametinib dramatically induced apoptosis in multiple cell lines and gene-engineered mouse-derived organoids. Moreover, combination therapy resulted in long-term tumor regression in mouse models using cell lines of different tissue types. Finally, we revealed that combination therapy complementally inhibited Rad51 and BRCA1 and accumulated DNA damage. Conclusions We found that MYC downregulation occurred via SUMOylation inhibition in KRAS-mutant cancer cells. Our findings indicate that dual inhibition of SUMOylation and MEK may be a promising treatment for MYC-expressing KRAS-mutant cancers by enhancing DNA damage accumulation.

  • Palaeoproteomic investigation of an ancient human skeleton with abnormal deposition of dental calculus
    Yoko Uchida-Fukuhara, Shigeru Shimamura, Rikai Sawafuji, Takumi Nishiuchi, Minoru Yoneda, Hajime Ishida, Hirofumi Matsumura, and Takumi Tsutaya

    Springer Science and Business Media LLC
    AbstractDetailed investigation of extremely severe pathological conditions in ancient human skeletons is important as it could shed light on the breadth of potential interactions between humans and disease etiologies in the past. Here, we applied palaeoproteomics to investigate an ancient human skeletal individual with severe oral pathology, focusing our research on bacterial pathogenic factors and host defense response. This female skeleton, from the Okhotsk period (i.e., fifth to thirteenth century) of Northern Japan, poses relevant amounts of abnormal dental calculus deposition and exhibits oral dysfunction due to severe periodontal disease. A shotgun mass-spectrometry analysis identified 81 human proteins and 15 bacterial proteins from the calculus of the subject. We identified two pathogenic or bioinvasive proteins originating from two of the three “red complex” bacteria, the core species associated with severe periodontal disease in modern humans, as well as two additional bioinvasive proteins of periodontal-associated bacteria. Moreover, we discovered defense response system-associated human proteins, although their proportion was mostly similar to those reported in ancient and modern human individuals with lower calculus deposition. These results suggest that the bacterial etiology was similar and the host defense response was not necessarily more intense in ancient individuals with significant amounts of abnormal dental calculus deposition.

  • Proteomic Analysis to Understand the Promotive Effect of Ethanol on Soybean Growth Under Salt Stress
    Setsuko Komatsu and Takumi Nishiuchi

    MDPI AG
    Finding solutions to mitigate the impact of salinity on crops is important for global food security because soil salinity significantly reduces plant growth and grain yield. Ethanol may play an important role in mitigating the negative salt-induced effects on crops. Soybean root growth was significantly reduced under salt stress; however, it was restored and comparable to control values by ethanol application even under stress. To study the positive mechanism of ethanol on soybean growth, a proteomic approach was carried out. The categories with the greatest changes in protein numbers were protein metabolism, transport, and cell organization in biological processes, nucleus and cytosol in cellular components, and nucleic acid binding activity in molecular functions. Proteomic data were confirmed using immunoblot analysis. Reactive oxygen species enzymes increased under salt stress; among them, mitochondrial ascorbate peroxidase was further accumulated by ethanol application. Among the cell wall and membrane-associated proteins, xyloglucan xyloglucosyl transferase and H+-ATPase increased and decreased, respectively, under salt stress; however, they were restored to control levels by ethanol application. These results suggest that soybeans were adversely affected by salt stress and recovered with ethanol application via the regulation of cell wall and membrane functions through the detoxification of reactive oxygen species.

  • Super-enhancer trapping by the nuclear pore via intrinsically disordered regions of proteins in squamous cell carcinoma cells
    Masaharu Hazawa, Dini Kurnia Ikliptikawati, Yuki Iwashima, De-Chen Lin, Yuan Jiang, Yujia Qiu, Kei Makiyama, Koki Matsumoto, Akiko Kobayashi, Goro Nishide,et al.

    Elsevier BV

  • Wet-type grinder-treated okara modulates gut microbiota composition and attenuates obesity in high-fat-fed mice
    Takao Nagano, Chihiro Watanabe, Eri Oyanagi, Hiromi Yano, and Takumi Nishiuchi

    Elsevier BV

  • Identification of uromodulin deposition in the stroma of perinephric fibromyxoid nephrogenic adenoma by mass spectrometry
    Kaori Yoshimura, Yukinobu Ito, Mina Suzuki, Masafumi Horie, Takumi Nishiuchi, Yukako Shintani‐Domoto, Kazuyoshi Shigehara, Hiroko Oshima, Masanobu Oshima, Akiteru Goto,et al.

    Wiley
    AbstractNephrogenic adenoma (NA) is an epithelial lesion that usually occurs in the mucosa of the urinary tract. Rare cases of deep infiltrative or perinephric lesions have also been reported. Recently, NA with characteristic fibromyxoid stroma (fibromyxoid NA) has been proposed as a distinct variant. Although shedding of distal renal tubular cells due to urinary tract rupture has been postulated as the cause of NA in general, the mechanism underlying extraurinary presentation of NA and fibromyxoid stromal change in fibromyxoid NA remains unknown. In this study, we performed mass spectrometry (MS) analysis in a case of perinephric fibromyxoid NA of an 82‐year‐old man who underwent right nephroureterectomy for distal ureteral cancer. The patient had no prior history of urinary tract injury or radiation. Periodic acid‐Schiff staining‐positive eosinophilic structureless deposits in the stroma of fibromyxoid NA were microdissected and subjected to liquid chromatography/MS. The analysis revealed the presence of a substantial amount of uromodulin (Tamm−Horsfall protein). The presence of urinary content in the stroma of perinephric fibromyxoid NA suggests that urinary tract rupture and engraftment of renal tubular epithelial cells directly cause the lesion.

  • The disordered C-terminal tail of fungal LPMOs from phytopathogens mediates protein dimerization and impacts plant penetration
    Ketty C. Tamburrini, Sayo Kodama, Sacha Grisel, Mireille Haon, Takumi Nishiuchi, Bastien Bissaro, Yasuyuki Kubo, Sonia Longhi, and Jean-Guy Berrin

    Proceedings of the National Academy of Sciences
    Lytic polysaccharide monooxygenases (LPMOs) are monocopper enzymes that oxidatively degrade various polysaccharides, such as cellulose. Despite extensive research on this class of enzymes, the role played by their C-terminal regions predicted to be intrinsically disordered (dCTR) has been overlooked. Here, we investigated the function of the dCTR of an LPMO, called Co AA9A, up-regulated during plant infection by Colletotrichum orbiculare , the causative agent of anthracnose. After recombinant production of the full-length protein, we found that the dCTR mediates Co AA9A dimerization in vitro, via a disulfide bridge, a hitherto-never-reported property that positively affects both binding and activity on cellulose. Using SAXS experiments, we show that the homodimer is in an extended conformation. In vivo, we demonstrate that gene deletion impairs formation of the infection-specialized cell called appressorium and delays penetration of the plant. Using immunochemistry, we show that the protein is a dimer not only in vitro but also in vivo when secreted by the appressorium. As these peculiar LPMOs are also found in other plant pathogens, our findings open up broad avenues for crop protection.



  • Translocation of green fluorescent protein in homo-and hetero-transgrafted plants
    Takumi Ogawa, Kanae Kato, Harue Asuka, Yumi Sugioka, Tomofumi Mochizuki, Hirokazu Fukuda, Takumi Nishiuchi, Taira Miyahara, Hiroaki Kodama, and Daisaku Ohta

    Japanese Society for Plant Cell and Molecular Biology

  • Renal Pharmacokinetic Adaptation to Cholestasis Causes Increased Nephrotoxic Drug Accumulation by Mrp6 Downregulation in Mice
    Hiroshi Arakawa, Takumi Kawanishi, Dai Shengyu, Takumi Nishiuchi, Makiko Meguro-Horike, Shin-ichi Horike, Masahiro Sugimoto, and Yukio Kato

    Elsevier BV

  • Kynurenine promotes Calcitonin secretion and reduces cortisol in the Japanese flounder Paralichthys olivaceus
    Takahiro Ikari, Yukihiro Furusawa, Yoshiaki Tabuchi, Yusuke Maruyama, Atsuhiko Hattori, Yoichiro Kitani, Kenji Toyota, Arata Nagami, Jun Hirayama, Kazuki Watanabe,et al.

    Springer Science and Business Media LLC
    AbstractDeep ocean water (DOW) exerts positive effects on the growth of marine organisms, suggesting the presence of unknown component(s) that facilitate their aquaculture. We observed that DOW suppressed plasma cortisol (i.e., a stress marker) concentration in Japanese flounder (Paralichthys olivaceus) reared under high-density condition. RNA-sequencing analysis of flounder brains showed that when compared to surface seawater (SSW)-reared fish, DOW-reared fish had lower expression of hypothalamic (i.e., corticotropin-releasing hormone) and pituitary (i.e., proopiomelanocortin, including adrenocorticotropic hormone) hormone-encoding genes. Moreover, DOW-mediated regulation of gene expression was linked to decreased blood cortisol concentration in DOW-reared fish. Our results indicate that DOW activated osteoblasts in fish scales and facilitated the production of Calcitonin, a hypocalcemic hormone that acts as an analgesic. We then provide evidence that the Calcitonin produced is involved in the regulatory network of genes controlling cortisol secretion. In addition, the indole component kynurenine was identified as the component responsible for osteoblast activation in DOW. Furthermore, kynurenine increased plasma Calcitonin concentrations in flounders reared under high-density condition, while it decreased plasma cortisol concentration. Taken together, we propose that kynurenine in DOW exerts a cortisol-reducing effect in flounders by facilitating Calcitonin production by osteoblasts in the scales.

  • Potential biomarker proteins for aspiration pneumonia detected by shotgun proteomics using buccal mucosa samples: a cross-sectional case–control study
    Kohei Ogura, Maho Endo, Takashi Hase, Hitomi Negami, Kohsuke Tsuchiya, Takumi Nishiuchi, Takeshi Suzuki, Kazuhiro Ogai, Hiromi Sanada, Shigefumi Okamoto,et al.

    Springer Science and Business Media LLC
    Abstract Background Aspiration pneumonia (AP), which is a major cause of death in the elderly, does present with typical symptoms in the early stages of onset, thus it is difficult to detect and treat at an early stage. In this study, we identified biomarkers that are useful for the detection of AP and focused on salivary proteins, which may be collected non-invasively. Because expectorating saliva is often difficult for elderly people, we collected salivary proteins from the buccal mucosa. Methods We collected samples from the buccal mucosa of six patients with AP and six control patients (no AP) in an acute-care hospital. Following protein precipitation using trichloroacetic acid and washing with acetone, the samples were analyzed by liquid chromatography and tandem mass spectrometry (LC–MS/MS). We also determined the levels of cytokines and chemokines in non-precipitated samples from buccal mucosa. Results Comparative quantitative analysis of LC–MS/MS spectra revealed 55 highly (P values < 0.10) abundant proteins with high FDR confidence (q values < 0.01) and high coverage (> 50%) in the AP group compared with the control group. Among the 55 proteins, the protein abundances of four proteins (protein S100-A7A, eukaryotic translation initiation factor 1, Serpin B4, and peptidoglycan recognition protein 1) in the AP group showed a negative correlation with the time post-onset; these proteins are promising AP biomarker candidates. In addition, the abundance of C-reactive protein (CRP) in oral samples was highly correlated with serum CRP levels, suggesting that oral CRP levels may be used as a surrogate to predict serum CRP in AP patients. A multiplex cytokine/chemokine assay revealed that MCP-1 tended to be low, indicating unresponsiveness of MCP-1 and its downstream immune pathways in AP. Conclusion Our findings suggest that oral salivary proteins, which are obtained non-invasively, can be utilized for the detection of AP.

  • Apple-derived extracellular vesicles modulate the expression of human intestinal bile acid transporter ASBT/SLC10A2 via downregulation of transcription factor RARα
    Shinya Usui, Qiunan Zhu, Hisakazu Komori, Yui Iwamoto, Takumi Nishiuchi, Yoshiyuki Shirasaka, and Ikumi Tamai

    Elsevier BV

  • Postnatal expression of CD38 in astrocytes regulates synapse formation and adult social memory
    Tsuyoshi Hattori, Stanislav M Cherepanov, Ryo Sakaga, Jureepon Roboon, Dinh Thi Nguyen, Hiroshi Ishii, Mika Takarada‐Iemata, Takumi Nishiuchi, Takayuki Kannon, Kazuyoshi Hosomichi,et al.

    EMBO
    AbstractSocial behavior is essential for health, survival, and reproduction of animals; however, the role of astrocytes in social behavior remains largely unknown. The transmembrane protein CD38, which acts both as a receptor and ADP‐ribosyl cyclase to produce cyclic ADP–ribose (cADPR) regulates social behaviors by promoting oxytocin release from hypothalamic neurons. CD38 is also abundantly expressed in astrocytes in the postnatal brain and is important for astroglial development. Here, we demonstrate that the astroglial‐expressed CD38 plays an important role in social behavior during development. Selective deletion of CD38 in postnatal astrocytes, but not in adult astrocytes, impairs social memory without any other behavioral abnormalities. Morphological analysis shows that depletion of astroglial CD38 in the postnatal brain interferes with synapse formation in the medial prefrontal cortex (mPFC) and hippocampus. Moreover, astroglial CD38 expression promotes synaptogenesis of excitatory neurons by increasing the level of extracellular SPARCL1 (also known as Hevin), a synaptogenic protein. The release of SPARCL1 from astrocytes is regulated by CD38/cADPR/calcium signaling. These data demonstrate a novel developmental role of astrocytes in neural circuit formation and regulation of social behavior in adults.

  • Membrane Proteomics to Understand Enhancement Effects of Millimeter-Wave Irradiation on Wheat Root under Flooding Stress
    Setsuko Komatsu, Kazuna Hamada, Takashi Furuya, Takumi Nishiuchi, and Masahiko Tani

    MDPI AG
    Millimeter-wave irradiation of wheat seeds enhances the growth of roots under flooding stress, but its mechanism is not clearly understood. To understand the role of millimeter-wave irradiation on root-growth enhancement, membrane proteomics was performed. Membrane fractions purified from wheat roots were evaluated for purity. H+-ATPase and calnexin, which are protein markers for membrane-purification efficiency, were enriched in a membrane fraction. A principal-component analysis of the proteomic results indicated that the millimeter-wave irradiation of seeds affects membrane proteins in grown roots. Proteins identified using proteomic analysis were confirmed using immunoblot or polymerase chain reaction analyses. The abundance of cellulose synthetase, which is a plasma-membrane protein, decreased under flooding stress; however, it increased with millimeter-wave irradiation. On the other hand, the abundance of calnexin and V-ATPase, which are proteins in the endoplasmic reticulum and vacuolar, increased under flooding stress; however, it decreased with millimeter-wave irradiation. Furthermore, NADH dehydrogenase, which is found in mitochondria membranes, was upregulated due to flooding stress but downregulated following millimeter-wave irradiation even under flooding stress. The ATP content showed a similar trend toward change in NADH dehydrogenase expression. These results suggest that millimeter-wave irradiation improves the root growth of wheat via the transitions of proteins in the plasma membrane, endoplasmic reticulum, vacuolar, and mitochondria.

  • Cell assembly analysis of neural circuits for innate behavior in Drosophila melanogaster using an immediate early gene stripe/egr-1
    Seika Takayanagi-Kiya, Natsumi Shioya, Takumi Nishiuchi, Masafumi Iwami, and Taketoshi Kiya

    Proceedings of the National Academy of Sciences
    Innate behavior, such as courtship behavior, is controlled by a genetically defined set of neurons. To date, it remains challenging to visualize and artificially control the neural population that is active during innate behavior in a whole-brain scale. Immediate early genes (IEGs), whose expression is induced by neural activity, can serve as powerful tools to map neural activity in the animal brain. We screened for IEGs in vinegar fly Drosophila melanogaster and identified stripe/egr-1 as a potent neural activity marker. Focusing on male courtship as a model of innate behavior, we demonstrate that stripe - GAL4- mediated reporter expression can label fruitless ( fru )-expressing neurons involved in courtship in an activity (experience)-dependent manner. Optogenetic reactivation of the labeled neurons elicited sexual behavior in males, whereas silencing of the labeled neurons suppressed courtship and copulation. Further, by combining stripe-GAL4- mediated reporter expression and detection of endogenous Stripe expression, we established methods that can label neurons activated under different contexts in separate time windows in the same animal. The cell assembly analysis of fru neural population in males revealed that distinct groups of neurons are activated during interactions with a female or another male. These methods will contribute to building a deeper understanding of neural circuit mechanisms underlying innate insect behavior.

  • Tandem metalloenzymes gate plant cell entry by pathogenic fungi
    Bastien Bissaro, Sayo Kodama, Takumi Nishiuchi, Anna Maria Díaz-Rovira, Hayat Hage, David Ribeaucourt, Mireille Haon, Sacha Grisel, A. Jalila Simaan, Fred Beisson,et al.

    American Association for the Advancement of Science (AAAS)
    Global food security is endangered by fungal phytopathogens causing devastating crop production losses. Many of these pathogens use specialized appressoria cells to puncture plant cuticles. Here, we unveil a pair of alcohol oxidase–peroxidase enzymes to be essential for pathogenicity. Using Colletotrichum orbiculare , we show that the enzyme pair is cosecreted by the fungus early during plant penetration and that single and double mutants have impaired penetration ability. Molecular modeling, biochemical, and biophysical approaches revealed a fine-tuned interplay between these metalloenzymes, which oxidize plant cuticular long-chain alcohols into aldehydes. We show that the enzyme pair is involved in transcriptional regulation of genes necessary for host penetration. The identification of these infection-specific metalloenzymes opens new avenues on the role of wax-derived compounds and the design of oxidase-specific inhibitors for crop protection.


  • Proteomic Profiling of Plant and Pathogen Interaction on the Leaf Epidermis
    Yasir Sidiq, Daisuke Tamaoki, and Takumi Nishiuchi

    MDPI AG
    The plant epidermis is the first line of plant defense against pathogen invasion, and likely contains important regulatory proteins related to the plant–pathogen interaction. This study aims to identify the candidates of these regulatory proteins expressed in the plant epidermis. We performed comparative proteomic studies to identify rapidly and locally expressed proteins in the leaf epidermis inoculated with fungal phytopathogen. The conidia solutions were dropped onto the Arabidopsis leaf surface, and then, we collected the epidermal tissues from inoculated and mock-treated leaves at 4 and 24 hpi. The label-free quantification methods showed that expressions of Arabidopsis proteins, which are related to defense signals, such as BAK1, MKK5, receptor-like protein kinases, transcription factors, and stomatal functions, were rapidly induced in the epidermal tissues of inoculated leaves. In contrast, most of them were not differentially regulated by fugal inoculation in the whole leaves. These findings clearly indicate that epidermal proteomics can monitor locally expressed proteins in inoculated areas of plant tissues. We also identified the 61 fungal proteins, including effector-like proteins specifically expressed on the Arabidopsis epidermis. Our new findings suggested that epidermal proteomics is useful for understanding the local expressions of plant and fungal proteins related to their interactions.

  • Estrogen induces the expression of EBV lytic protein ZEBRA, a marker of poor prognosis in nasopharyngeal carcinoma
    Hirotomo Dochi, Satoru Kondo, Takayuki Murata, Masaki Fukuyo, Asuka Nanbo, Kousho Wakae, Wen‐Ping Jiang, Toshihide Hamabe‐Horiike, Mariko Tanaka, Takumi Nishiuchi,et al.

    Wiley
    AbstractSeveral epidemiological studies have suggested that Epstein–Barr virus (EBV) lytic infection is essential for the development of nasopharyngeal carcinoma (NPC), as the elevation of antibody titers against EBV lytic proteins is a common feature of NPC. Although ZEBRA protein is a key trigger for the initiation of lytic infection, whether its expression affects the prognosis and pathogenesis of NPC remains unclear. In this study, 64 NPC biopsy specimens were analyzed using immunohistochemistry. We found that ZEBRA was significantly associated with a worsening of progression‐free survival in NPC (adjusted hazard ratio, 3.58; 95% confidence interval, 1.08–11.87; p = 0.037). Moreover, ZEBRA expression positively correlated with key endocrinological proteins, estrogen receptor α, and aromatase. The transcriptional level of ZEBRA is activated by estrogen in an estrogen receptor α‐dependent manner, resulting in an increase in structural gene expression levels and extracellular virus DNA copy number in NPC cell lines, reminiscent of lytic infection. Interestingly, it did not suppress cellular proliferation or increase apoptosis, in contrast with cells treated with 12‐O‐tetradecanoylphorbol‐13‐acetate and sodium butyrate, indicating that viral production induced by estrogen is not a cell lytic phenomenon. Our results suggest that intratumoral estrogen overproduced by aromatase could induce ZEBRA expression and EBV reactivation, contributing to the progression of NPC.

  • Dehalococcoides mccartyi NIT01, a novel isolate, dechlorinates high concentrations of chloroethenes by expressing at least six different reductive dehalogenases
    Masaki Asai, Naoko Yoshida, Toshiya Kusakabe, Mohamed Ismaeil, Takumi Nishiuchi, and Arata Katayama

    Elsevier BV

  • Subcellular proteomics to understand promotive effect of plant-derived smoke solution on soybean root
    Yusuke Murashita, Takumi Nishiuchi, Shafiq Ur Rehman, and Setsuko Komatsu

    MDPI AG
    Plant-derived smoke solution enhances soybean root growth; however, its mechanism is not clearly understood. Subcellular proteomics techniques were used for underlying roles of plant-derived smoke solution on soybean root growth. The fractions of membrane and nucleus were purified and evaluated for purity. ATPase and histone were enriched in the fractions of membrane and nucleus, respectively. Principal component analysis of proteomic results indicated that the plant-derived smoke solution affected the proteins in the membrane and nucleus. The proteins in the membrane and nucleus mainly increased and decreased, respectively, by the treatment of plant-derived smoke solution compared with control. In the proteins in the plasma membrane, ATPase increased, which was confirmed by immunoblot analysis, and ATP contents increased through the treatment of plant-derived smoke solution. Additionally, although the nuclear proteins mainly decreased, the expression of RNA polymerase II was up-regulated through the treatment of plant-derived smoke solution. These results indicate that plant-derived smoke solution enhanced soybean root growth through the transcriptional promotion with RNA polymerase II expression and the energy production with ATPase accumulation.

  • Coculture with hiPS-derived intestinal cells enhanced human hepatocyte functions in a pneumatic-pressure-driven two-organ microphysiological system
    Marie Shinohara, Hiroshi Arakawa, Yuuichi Oda, Nobuaki Shiraki, Shinji Sugiura, Takumi Nishiuchi, Taku Satoh, Keita Iino, Sylvia Leo, Yusuke Kato,et al.

    Springer Science and Business Media LLC
    AbstractExamining intestine–liver interactions is important for achieving the desired physiological drug absorption and metabolism response in in vitro drug tests. Multi-organ microphysiological systems (MPSs) constitute promising tools for evaluating inter-organ interactions in vitro. For coculture on MPSs, normal cells are challenging to use because they require complex maintenance and careful handling. Herein, we demonstrated the potential of coculturing normal cells on MPSs in the evaluation of intestine–liver interactions. To this end, we cocultured human-induced pluripotent stem cell-derived intestinal cells and fresh human hepatocytes which were isolated from PXB mice with medium circulation in a pneumatic-pressure-driven MPS with pipette-friendly liquid-handling options. The cytochrome activity, albumin production, and liver-specific gene expressions in human hepatocytes freshly isolated from a PXB mouse were significantly upregulated via coculture with hiPS-intestinal cells. Our normal cell coculture shows the effects of the interactions between the intestine and liver that may occur in vivo. This study is the first to demonstrate the coculturing of hiPS-intestinal cells and fresh human hepatocytes on an MPS for examining pure inter-organ interactions. Normal-cell coculture using the multi-organ MPS could be pursued to explore unknown physiological mechanisms of inter-organ interactions in vitro and investigate the physiological response of new drugs.

RECENT SCHOLAR PUBLICATIONS

  • Trideoxycytidine diphosphate promotes neural stem cell proliferation and neurogenesis in mice
    T Ishimoto, F Hayashi, Y Yamamoto, K Kiriyama, R Yamashita, ...
    The Journal of Nutrition 2024

  • Translocation of green fluorescent protein in homo-and hetero-transgrafted plants
    T Ogawa, K Kato, H Asuka, Y Sugioka, T Mochizuki, H Fukuda, ...
    Plant Biotechnology 41 (4), 345-356 2024

  • Organocatalytic asymmetric tandem reaction for the enantioselective synthesis of chiral oxindoles to construct CyK dyes
    L Wang, ZH Li, D Wu, RT Ge, J Zhou, YF Zhang, SY Zhang
    Chem Catalysis 2024

  • Proteomic Analysis to Understand the Promotive Effect of Ethanol on Soybean Growth Under Salt Stress Finding solutions to mitigate the impact of salinity on crops is important
    S Komatsu, T Nishiuchi
    Biology (2079-7737) 13 (11) 2024

  • Proteomic Analysis to Understand the Promotive Effect of Ethanol on Soybean Growth Under Salt Stress
    S Komatsu, T Nishiuchi
    Biology 13 (11), 861 2024

  • Comprehensive antitumor immune response boosted by dual inhibition of SUMOylation and MEK in MYC-expressing KRAS-mutant cancers
    H Kotani, T Yamano, JC Boucher, S Sato, H Sakaguchi, K Fukuda, ...
    Experimental Hematology & Oncology 13 (1), 94 2024

  • Dual inhibition of SUMOylation and MEK conquers MYC-expressing KRAS-mutant cancers by accumulating DNA damage
    H Kotani, H Oshima, JC Boucher, T Yamano, H Sakaguchi, S Sato, ...
    Journal of Biomedical Science 31 (1), 68 2024

  • Identification of uromodulin deposition in the stroma of perinephric fibromyxoid nephrogenic adenoma by mass spectrometry
    K Yoshimura, Y Ito, M Suzuki, M Horie, T Nishiuchi, Y Shintani‐Domoto, ...
    Pathology International 74 (4), 187-196 2024

  • The disordered C-terminal tail of fungal LPMOs from phytopathogens mediates protein dimerization and impacts plant penetration
    KC Tamburrini, S Kodama, S Grisel, M Haon, T Nishiuchi, B Bissaro, ...
    Proceedings of the National Academy of Sciences 121 (13), e2319998121 2024

  • Proteomic and molecular analyses to understand the promotive effect of safranal on soybean growth under salt stress
    R Kausar, T Nishiuchi, S Komatsu
    Journal of Proteomics 294, 105072 2024

  • Millmeter-wave irradiation regulates mRNA-expression and the ubiquitin-proteasome system in wheat exposed to flooding stress
    S Komatsu, T Nishiuchi, T Furuya, M Tani
    Journal of Proteomics 294, 105073 2024

  • Palaeoproteomic investigation of an ancient human skeleton with abnormal deposition of dental calculus
    Y Uchida-Fukuhara, S Shimamura, R Sawafuji, T Nishiuchi, M Yoneda, ...
    Scientific reports 14 (1), 5938 2024

  • Renal Pharmacokinetic Adaptation to Cholestasis Causes Increased Nephrotoxic Drug Accumulation by Mrp6 Downregulation in Mice
    H Arakawa, T Kawanishi, D Shengyu, T Nishiuchi, M Meguro-Horike, ...
    Journal of Pharmaceutical Sciences 112 (12), 3209-3215 2023

  • An agroecological structure model of compost—soil—plant interactions for sustainable organic farming
    H Miyamoto, K Shigeta, W Suda, Y Ichihashi, N Nihei, M Matsuura, ...
    ISME communications 3 (1), 28 2023

  • Potential biomarker proteins for aspiration pneumonia detected by shotgun proteomics using buccal mucosa samples: a cross-sectional case–control study
    K Ogura, M Endo, T Hase, H Negami, K Tsuchiya, T Nishiuchi, T Suzuki, ...
    Clinical Proteomics 20 (1), 9 2023

  • Apple-derived extracellular vesicles modulate the expression of human intestinal bile acid transporter ASBT/SLC10A2 via downregulation of transcription factor RARα
    S Usui, Q Zhu, H Komori, Y Iwamoto, T Nishiuchi, Y Shirasaka, I Tamai
    Drug metabolism and pharmacokinetics 52, 100512 2023

  • Cell assembly analysis of neural circuits for innate behavior in Drosophila melanogaster using an immediate early gene stripe/egr-1
    S Takayanagi-Kiya, N Shioya, T Nishiuchi, M Iwami, T Kiya
    Proceedings of the National Academy of Sciences 120 (33), e2303318120 2023

  • Postnatal expression of CD38 in astrocytes regulates synapse formation and adult social memory
    T Hattori, SM Cherepanov, R Sakaga, J Roboon, DT Nguyen, H Ishii, ...
    The EMBO Journal 42 (15), e111247 2023

  • Kynurenine promotes Calcitonin secretion and reduces cortisol in the Japanese flounder Paralichthys olivaceus
    T Ikari, Y Furusawa, Y Tabuchi, Y Maruyama, A Hattori, Y Kitani, K Toyota, ...
    Scientific Reports 13 (1), 8700 2023

  • Membrane proteomics to understand enhancement effects of millimeter-wave irradiation on wheat root under flooding stress
    S Komatsu, K Hamada, T Furuya, T Nishiuchi, M Tani
    International Journal of Molecular Sciences 24 (10), 9014 2023

MOST CITED SCHOLAR PUBLICATIONS

  • High-level overexpression of the Arabidopsis HsfA2 gene confers not only increased themotolerance but also salt/osmotic stress tolerance and enhanced callus
    D Ogawa, K Yamaguchi, T Nishiuchi
    Journal of experimental botany 58 (12), 3373-3383 2007
    Citations: 359

  • A gene encoding a chloroplast omega-3 fatty acid desaturase complements alterations in fatty acid desaturation and chloroplast copy number of the fad7 mutant of Arabidopsis
    K Iba, S Gibson, T Nishiuchi, T Fuse, M Nishimura, V Arondel, S Hugly, ...
    Journal of Biological Chemistry 268 (32), 24099-24105 1993
    Citations: 316

  • Fatty acid desaturation during chilling acclimation is one of the factors involved in conferring low-temperature tolerance to young tobacco leaves
    H Kodama, G Horiguchi, T Nishiuchi, M Nishimura, K Iba
    Plant Physiology 107 (4), 1177-1185 1995
    Citations: 252

  • Rapid and transient activation of transcription of the ERF3 gene by wounding in tobacco leaves: possible involvement of NtWRKYs and autorepression
    T Nishiuchi, H Shinshi, K Suzuki
    Journal of Biological Chemistry 279 (53), 55355-55361 2004
    Citations: 200

  • Wounding changes the spatial expression pattern of the arabidopsis plastid omega-3 fatty acid desaturase gene (FAD7) through different signal transduction pathways.
    T Nishiuchi, T Hamada, H Kodama, K Iba
    The Plant Cell 9 (10), 1701-1712 1997
    Citations: 143

  • Involvement of the osmosensor histidine kinase and osmotic stress-activated protein kinases in the regulation of secondary metabolism in Fusarium graminearum
    N Ochiai, T Tokai, T Nishiuchi, N Takahashi-Ando, M Fujimura, M Kimura
    Biochemical and Biophysical Research Communications 363 (3), 639-644 2007
    Citations: 137

  • Phytotoxic effects of trichothecenes on the growth and morphology of Arabidopsis thaliana
    D Masuda, M Ishida, K Yamaguchi, I Yamaguchi, M Kimura, T Nishiuchi
    Journal of Experimental Botany 58 (7), 1617-1626 2007
    Citations: 128

  • Fusarium Phytotoxin Trichothecenes Have an Elicitor-Like Activity in Arabidopsis thaliana, but the Activity Differed Significantly Among Their Molecular Species
    T Nishiuchi, D Masuda, H Nakashita, K Ichimura, K Shinozaki, S Yoshida, ...
    Molecular plant-microbe interactions 19 (5), 512-520 2006
    Citations: 119

  • Sphingosine-1-phosphate receptor-2 deficiency leads to inhibition of macrophage proinflammatory activities and atherosclerosis in apoE-deficient mice
    F Wang, Y Okamoto, I Inoki, K Yoshioka, W Du, X Qi, N Takuwa, K Gonda, ...
    The Journal of clinical investigation 120 (11), 3979-3995 2010
    Citations: 106

  • Arabidopsis ENHANCED DISEASE RESISTANCE 1 is required for pathogen‐induced expression of plant defensins in nonhost resistance, and acts through interference of
    K Hiruma, T Nishiuchi, T Kato, P Bednarek, T Okuno, P Schulze‐Lefert, ...
    The Plant Journal 67 (6), 980-992 2011
    Citations: 98

  • Visualization of neural activity in insect brains using a conserved immediate early gene, Hr38
    N Fujita, Y Nagata, T Nishiuchi, M Sato, M Iwami, T Kiya
    Current Biology 23 (20), 2063-2070 2013
    Citations: 90

  • Melatonin is a potential drug for the prevention of bone loss during space flight
    M Ikegame, A Hattori, MJ Tabata, K Kitamura, Y Tabuchi, Y Furusawa, ...
    Journal of pineal research 67 (3), e12594 2019
    Citations: 86

  • The chloroplast genome from a lycophyte (microphyllophyte), Selaginella uncinata, has a unique inversion, transpositions and many gene losses
    S Tsuji, K Ueda, T Nishiyama, M Hasebe, S Yoshikawa, A Konagaya, ...
    Journal of plant research 120, 281-290 2007
    Citations: 86

  • Characterization of the chemical diversity of glycosylated mycosporine-like amino acids in the terrestrial cyanobacterium Nostoc commune
    E Nazifi, N Wada, T Asano, T Nishiuchi, Y Iwamuro, S Chinaka, ...
    Journal of Photochemistry and Photobiology B: Biology 142, 154-168 2015
    Citations: 84

  • Retinoblastoma inactivation induces a protumoral microenvironment via enhanced CCL2 secretion
    F Li, S Kitajima, S Kohno, A Yoshida, S Tange, S Sasaki, N Okada, ...
    Cancer Research 79 (15), 3903-3915 2019
    Citations: 82

  • Transgenic rice plants expressing trichothecene 3-O-acetyltransferase show resistance to the Fusarium phytotoxin deoxynivalenol
    S Ohsato, T Ochiai-Fukuda, T Nishiuchi, N Takahashi-Ando, S Koizumi, ...
    Plant Cell Reports 26, 531-538 2007
    Citations: 78

  • Tissue-specific and light-responsive regulation of the promoter region of the Arabidopsis thaliana chloroplast ω-3 fatty acid desaturase gene (FAD7)
    T Nishiuchi, T Nakamura, T Abe, H Kodama, M Nishimura, K Iba
    Plant molecular biology 29, 599-609 1995
    Citations: 77

  • cDNA cloning of a wounding-inducible gene encoding a plastid ω-3 fatty acid desaturase from tobacco
    T Hamada, T Nishiuchi, H Kodama, M Nishimura, K Iba
    Plant and cell physiology 37 (5), 606-611 1996
    Citations: 74

  • Glycosylated porphyra-334 and palythine-threonine from the terrestrial cyanobacterium Nostoc commune
    E Nazifi, N Wada, M Yamaba, T Asano, T Nishiuchi, S Matsugo, ...
    Marine Drugs 11 (9), 3124-3154 2013
    Citations: 72

  • Comparative analysis of the effect of inorganic and organic chemicals with silver nanoparticles on soybean under flooding stress
    T Hashimoto, G Mustafa, T Nishiuchi, S Komatsu
    International journal of molecular sciences 21 (4), 1300 2020
    Citations: 71