著者

Zong Min Satoh Ayano Yu Mei Kuen Siu Ka Yu Ng Wing Yan Chan Hsiao Chang Tanner Julian A. Yu Sidney

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.7, no.1, 2012-01-18

被引用文献数

33

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Background: The transport of endoplasmic reticulum (ER)-derived COPII vesicles toward the ER-Golgi intermediatecompartment (ERGIC) requires cytoplasmic dynein and is dependent on microtubules. p150^Glued, a subunit of dynactin, hasbeen implicated in the transport of COPII vesicles via its interaction with COPII coat components Sec23 and Sec24. However,whether and how COPII vesicle tether, TRAPP (Transport protein particle), plays a role in the interaction between COPIIvesicles and microtubules is currently unknown.Principle Findings: We address the functional relationship between COPII tether TRAPP and dynactin. Overexpressed TRAPPsubunits interfered with microtubule architecture by competing p150^Glued away from the MTOC. TRAPP subunit TRAPPC9bound directly to p150^Glued via the same carboxyl terminal domain of p150^Glued that binds Sec23 and Sec24. TRAPPC9 alsoinhibited the interaction between p150^Glued and Sec23/Sec24 both in vitro and in vivo, suggesting that TRAPPC9 serves touncouple p150^Glued from the COPII coat, and to relay the vesicle-dynactin interaction at the target membrane.Conclusions: These findings provide a new perspective on the function of TRAPP as an adaptor between the ERGICmembrane and dynactin. By preserving the connection between dynactin and the tethered and/or fused vesicles, TRAPPallows nascent ERGIC to continue the movement along the microtubules as they mature into the cis-Golgi.

著者

Kadoya Ryosuke Matsumoto Ken'ichiro Ooi Toshihiko Taguchi Seiichi

出版者

PLOS

雑誌

PLOS one (ISSN:19326203)

巻号頁・発行日

vol.10, no.6, 2015-06-04

被引用文献数

19

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Bacterial polyester polyhydroxyalkanoates (PHAs) have been produced in engineered Escherichia coli, which turned into an efficient and versatile platform by applying metabolic and enzyme engineering approaches. The present study aimed at drawing out the latent potential of this organism using genome-wide mutagenesis. To meet this goal, a transposon-based mutagenesis was carried out on E. coli, which was transformed to produce poly (lactate-co-3-hydroxybutyrate) from glucose. A high-throughput screening of polymer-accumulating cells on Nile red-containing plates isolated one mutant that produced 1.8-fold higher quantity of polymer without severe disadvantages in the cell growth and monomer composition of the polymer. The transposon was inserted into the locus within the gene encoding MtgA that takes part, as a non-lethal component, in the formation of the peptidoglycan backbone. Accordingly, the mtgA-deleted strain E. coli JW3175, which was a derivate of superior PHA-producing strain BW25113, was examined for polymer production, and exhibited an enhanced accumulation of the polymer (7.0 g/l) compared to the control (5.2 g/l). Interestingly, an enlargement in cell width associated with polymer accumulation was observed in this strain, resulting in a 1.6-fold greater polymer accumulation per cell compared to the control. This result suggests that the increase in volumetric capacity for accumulating intracellular material contributed to the enhanced polymer production. The mtgA deletion should be combined with conventional engineering approaches, and thus, is a promising strategy for improved production of intracellularly accumulated biopolymers.

著者

Fujima Noriyuki Sakashita Tomohiro Homma Akihiro Hirata Kenji Shiga Tohru Kudo Kohsuke Shirato Hiroki

出版者

The Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.11, no.11, 2016-11-08

被引用文献数

5

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Objective: To determine the relationship between tumor glucose metabolism and tumor blood flow (TBF) in head and neck squamous cell carcinoma (HNSCC). Methods: We retrospectively analyzed 57 HNSCC patients. Tumor glucose metabolism was assessed by maximum and mean standardized uptake values (SUVmax and SUVmean) obtained by 18F-fluorodeoxyglucose positron-emission tomography. TBF values were obtained by arterial spin labeling with 3-tesla MRI. The correlations between both SUVs and TBF were assessed in the total series and among patients divided by T-stage (T1-T3 and T4 groups) and tumor location (pharynx/oral cavity and sinonasal cavity groups). Pearson's correlation coefficients were calculated for significant correlations. Results: Significant correlations were detected: a negative correlation in the advanced T-stage group (TBF and SUV max: r, -0.61, SUVmean: r, -0.62), a positive correlation in the non-advanced T-stage pharynx/oral cavity group (TBF and SUVmax: r, 0.70, SUVmean: r, 0.73), a negative correlation in the advanced T-stage pharynx/oral cavity group (TBF and SUVmax: r, -0.62, SUVmean: r, -0.65), and a negative correlation in the advanced Tstage sinonasal cavity group (TBF and SUVmax: r, -0.61, SUVmean: r, -0.65). Conclusion: Significant correlations between glucose uptake and TBF in HNSCC were revealed by the division of T-stage and tumor location.

著者

Imada Yume Kato Makoto

出版者

Public Library of Science

雑誌

PLOS ONE (ISSN:19326203)

巻号頁・発行日

vol.11, no.11, 2016-11-03

被引用文献数

6

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風変わりな口器は葉潜りに合わせて進化した : 植物食の新しい方法を発見. 京都大学プレスリリース. 2016-11-16.

著者

Kawahara Ai An Gi-Hong Miyakawa Sachie Sonoda Jun Ezawa Tatsuhiro

出版者

Public Library of Science

雑誌

PLOS ONE (ISSN:19326203)

巻号頁・発行日

vol.11, no.10, pp.e0165035, 2016-08-18

被引用文献数

21

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Soil acidity is a major constraint on plant productivity. Arbuscular mycorrhizal (AM) fungi support plant colonization in acidic soil, but soil acidity also constrains fungal growth and diversity. Fungi in extreme environments generally evolve towards specialists, suggesting that AM fungi in acidic soil are acidic-soil specialists. In our previous surveys, however, some AM fungi detected in strongly acidic soils could also be detected in a soil with moderate pH, which raised a hypothesis that the fungi in acidic soils are pH generalists. To test the hypothesis, we conducted a pH-manipulation experiment and also analyzed AM fungal distribution along a pH gradient in the field using a synthesized dataset of the previous and recent surveys. Rhizosphere soils of the generalist plant Miscanthus sinensis were collected both from a neutral soil and an acidic soil, and M. sinensis seedlings were grown at three different pH. For the analysis of field communities, rhizosphere soils of M. sinensis were collected from six field sites across Japan, which covered a soil pH range of 3.0±7.4, and subjected to soil trap culture. AM fungal community compositions were determined based on LSU rDNA sequences. In the pH-manipulation experiment the acidification of medium had a significant impact on the compositions of the community from the neutral soil, but the neutralization of the medium had no effect on those of the community from the acidic soil. Furthermore, the communities in lower -pH soils were subsets of (nested in) those in higher-pH soils. In the field communities a significant nestedness pattern was observed along the pH gradient. These observations suggest that the fungi in strongly acidic soils are pH generalists that occur not only in acidic soil but also in wide ranges of soil pH. Nestedness in AM fungal community along pH gradients may have important implications for plant community resilience and early primary succession after disturbance in acidic soils.

著者

Morimoto Chie Manabe Sho Kawaguchi Takahisa Kawai Chihiro Fujimoto Shuntaro Hamano Yuya Yamada Ryo Matsuda Fumihiko Tamaki Keiji

出版者

Public Library of Science

雑誌

PLOS ONE (ISSN:19326203)

巻号頁・発行日

vol.11, no.7, 2016-07-29

被引用文献数

13

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DNAで「またいとこ」がわかる : 新しい血縁判定法の開発. 京都大学プレスリリース. 2016-08-10.

著者

Okuda Hiroko Noguchi Atsuko Kobayashi Hatasu Kondo Daiki Harada Kouji H Youssefian Shohab Shioi Hirotomo Kabata Risako Domon Yuki Kubota Kazufumi Kitano Yutaka Takayama Yasunori Hitomi Toshiaki Ohno Kousaku Saito Yoshiaki Asano Takeshi Tominaga Makoto Takahashi Tsutomu Koizumi Akio

出版者

Public Library of Science

雑誌

PLOS ONE (ISSN:19326203)

巻号頁・発行日

vol.11, no.5, 2016-05-25

被引用文献数

36

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乳幼児期に特異的な手足の痛み発作を起こす病気を見つけ原因を解明 -この病気を小児四肢疼痛発作症と命名-. 京都大学プレスリリース. 2016-05-27.

著者

Takayasu Misako Sato Kazuya Sano Yukie Yamada Kenta Miura Wataru Takayasu Hideki

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.10, no.4, 2015-04

被引用文献数

93

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We focus on Internet rumors and present an empirical analysis and simulation results of their diffusion and convergence during emergencies. In particular, we study one rumor that appeared in the immediate aftermath of the Great East Japan Earthquake on March 11, 2011, which later turned out to be misinformation. By investigating whole Japanese tweets that were sent one week after the quake, we show that one correction tweet, which originated from a city hall account, diffused enormously. We also demonstrate a stochastic agent-based model, which is inspired by contagion model of epidemics SIR, can reproduce observed rumor dynamics. Our model can estimate the rumor infection rate as well as the number of people who still believe in the rumor that cannot be observed directly. For applications, rumor diffusion sizes can be estimated in various scenarios by combining our model with the real data.

著者

Tsuji Yamato

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.9, no.10, 2014-10-01

被引用文献数

8

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森にタネをまくニホンザルの役割は、年によって変化する. 京都大学プレスリリース. 2014-10-02.

著者

Kret Mariska E. Tomonaga Masaki Matsuzawa Tetsuro

出版者

Public Library of Science

雑誌

PloS one (ISSN:19326203)

巻号頁・発行日

vol.9, no.8, 2014-08-20

被引用文献数

70

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チンパンジーもヒトも瞳の変化に敏感 -ヒトとチンパンジーに共通の情動認知過程を非侵襲の視線追従装置で解明-. 京都大学プレスリリース. 2014-08-21.

著者

Kawakami Ryosuke Dobi Alice Shigemoto Ryuichi Ito Isao

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.4, no.3, 2008-04-16

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Left-right (L-R) asymmetry is a fundamental feature of higher-order neural function. However, the molecular basis of brain asymmetry remains unclear. We recently reported L-R asymmetry of hippocampal circuitry caused by differential allocation of N-methyl-D-aspartate receptor (NMDAR) subunit GluRε2 (NR2B) in hippocampal synapses. Using electrophysiology and immunocytochemistry, here we analyzed the hippocampal circuitry of the inversus viscerum (iv) mouse that has a randomized laterality of internal organs. The iv mouse hippocampus lacks L-R asymmetry, it exhibits right isomerism in the synaptic distribution of the ε2 subunit, irrespective of the laterality of visceral organs. This independent right isomerism of the hippocampus is the first evidence that a distinct mechanism downstream of the iv mutation generates brain asymmetry.

著者

Ueda Sayoko Kumagai Gaku Otaki Yusuke Yamaguchi Shinya Kohshima Shiro

出版者

Public Library of Science

雑誌

PloS one (ISSN:19326203)

巻号頁・発行日

vol.9, no.2, 2014-06-11

被引用文献数

23

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オオカミは目で語る? -視線を使ったコミュニケーションの可能性-. 京都大学プレスリリース. 2014-06-12.

著者

Tsugawa Sho Ohsaki Hiroyuki

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.12, pp.e81727, 2013-12

被引用文献数

5 3

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Research on link prediction for social networks has been actively pursued. In link prediction for a given social network obtained from time-windowed observation, new link formation in the network is predicted from the topology of the obtained network. In contrast, recent advances in sensing technology have made it possible to obtain face-to-face behavioral networks, which are social networks representing face-to-face interactions among people. However, the effectiveness of link prediction techniques for face-to-face behavioral networks has not yet been explored in depth. To clarify this point, here we investigate the accuracy of conventional link prediction techniques for networks obtained from the history of face-to-face interactions among participants at an academic conference. Our findings were (1) that conventional link prediction techniques predict new link formation with a precision of 0.30–0.45 and a recall of 0.10–0.20, (2) that prolonged observation of social networks often degrades the prediction accuracy, (3) that the proposed decaying weight method leads to higher prediction accuracy than can be achieved by observing all records of communication and simply using them unmodified, and (4) that the prediction accuracy for face-to-face behavioral networks is relatively high compared to that for non-social networks, but not as high as for other types of social networks.

著者

Kuwayama Hidekazu Miyanaga Yukihiro Urushihara Hideko Ueda Masahiro

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.12, pp.e81811, 2013-12

被引用文献数

5

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Background:The life-cycle of cellular slime molds comprises chronobiologically regulated processes. During the growth phase, the amoeboid cells proliferate at a definite rate. Upon starvation, they synthesize cAMP as both first and second messengers in signalling pathways and form aggregates, migrating slugs, and fruiting bodies, consisting of spores and stalk cells, within 24 h. In Dictyostelium discoideum, because most growth-specific events cease during development, proliferative and heterochronic mutations are not considered to be interrelated and no genetic factor governing the entire life-cycle duration has ever been identified.Methodology/Principal Findings:Using yeast 2-hybrid library screening, we isolated a Dictyostelium discoideum RabGAP, Dd Rbg-3, as a candidate molecule by which the Dictyostelium Gα2 subunit directs its effects. Rab GTPase-activating protein, RabGAP, acts as a negative regulator of Rab small GTPases, which orchestrate the intracellular membrane trafficking involved in cell proliferation. Deletion mutants of Dd rbg-3 exhibited an increased growth rate and a shortened developmental period, while an overexpression mutant demonstrated the opposite effects. We also show that Dd Rbg-3 interacts with 2 Gα subunits in an activity-dependent manner in vitro. Furthermore, both human and Caenorhabditis elegans rbg-3 homologs complemented the Dd rbg-3–deletion phenotype in D. discoideum, indicating that similar pathways may be generally conserved in multicellular organisms.Conclusions/Significance:Our findings suggest that Dd Rbg-3 acts as a key element regulating the duration of D. discoideum life-span potentially via trimeric G-protein cascades.

著者

Sasaoka Norio Sakamoto Megumi Kanemori Shoko Kan Michiru Tsukano Chihiro Takemoto Yoshiji Kakizuka Akira

出版者

Public Library of Science

雑誌

PloS one (ISSN:19326203)

巻号頁・発行日

vol.9, no.1, 2014-01-29

被引用文献数

22

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ホップ抽出物でアルツハイマー病の発症を抑えることに成功 -認知症の発症と進行の予防につながると期待-. 京都大学プレスリリース. 2014-01-30.

著者

Morisaka Tadamichi Sakai Mai Kogi Kazunobu Nakasuji Akane Sakakibara Kasumi Kasanuki Yuria Yoshioka Motoi

出版者

Public Library of Science

雑誌

PloS one (ISSN:19326203)

巻号頁・発行日

vol.8, no.8, 2013-08-28

被引用文献数

4

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野生イルカの突発性射精(夢精)を世界で初めて記録 : さまざまな動物で見られる現象か?. 京都大学プレスリリース. 2013-08-28

著者

Ebina Manato Tsuruta Fuminori Katoh Megumi C. Kigoshi Yu Someya Akie Chiba Tomoki

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.6, pp.e65285, 2013-06

被引用文献数

14 3

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Nucleolus is a dynamic structure that controls biogenesis of ribosomal RNA and senses cellular stresses. Nucleolus contains a number of proteins including ribosomal proteins that conduct cellular stresses to downstream signaling such as p53 pathway. Recently, it has been reported that modification by a ubiquitin-like molecule, Nedd8, regulates subnuclear localization of ribosomal protein L11. Most of L11 is normally localized and neddylated in nucleolus. However, cellular stress triggers deneddylation and redistribution of L11, and subsequent activation of p53. Although Nedd8 modification is thought to be important for L11 localization, the mechanism of how neddylation of L11 is regulated remains largely unknown. Here, we show that Myeloma overexpressed 2 (Myeov2) controls L11 localization through down-regulation of Nedd8 modification. Expression of Myeov2 reduced neddylation of proteins including L11. We also found that Myeov2 associates with L11 and withholds L11 in nucleoplasm. Although Myeov2 interacted with a Nedd8 deconjugation enzyme COP9 signalosome, L11 deneddylation was mediated by another deneddylase Nedp1, independently of Myeov2. Finally, p53 transcriptional activity is upregulated by Myeov2 expression. These data demonstrate that Myeov2 hampers L11 neddylation through their interactions and confines L11 to nucleoplasm to modulate nucleolar integrity. Our findings provide a novel link between oncogenic stress and p53 pathway and may shed light on the protective mechanism against cancer.

著者

Kanakogi Yasuhiro Okumura Yuko Inoue Yasuyuki Kitazaki Michiteru Itakura Shoji

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.6, 2013-06-12

被引用文献数

57

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前言語期の10ヶ月の乳児が苦境にある他者へ同情的態度を示すことを発見. 京都大学プレスリリース. 2013-06-13.

著者

Horiuchi Yasue Ishikawa Maya Kaito Nobuko Iijima Yoshimi Tanabe Yoshiko Ishiguro Hiroki Arinami Tadao

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.4, pp.e59320, 2013-04

被引用文献数

17 3

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BackgroundReports indicate that PDLIM5 is involved in mood disorders. The PDLIM5 (PDZ and LIM domain 5) gene has been genetically associated with mood disorders; it’s expression is upregulated in the postmortem brains of patients with bipolar disorder and downregulated in the peripheral lymphocytes of patients with major depression. Acute and chronic methamphetamine (METH) administration may model mania and the evolution of mania into psychotic mania or schizophrenia-like behavioral changes, respectively.MethodsTo address whether the downregulation of PDLIM5 protects against manic symptoms and cause susceptibility to depressive symptoms, we evaluated the effects of reduced Pdlim5 levels on acute and chronic METH-induced locomotor hyperactivity, prepulse inhibition, and forced swimming by using Pdlim5 hetero knockout (KO) mice.ResultsThe homozygous KO of Pdlim5 is embryonic lethal. The effects of METH administration on locomotor hyperactivity and the impairment of prepulse inhibition were lower in Pdlim5 hetero KO mice than in wild-type mice. The transient inhibition of PDLIM5 (achieved by blocking the translocation of protein kinase C epsilon before the METH challenge) had a similar effect on behavior. Pdlim5 hetero KO mice showed increased immobility time in the forced swimming test, which was diminished after the chronic administration of imipramine. Chronic METH treatment increased, whereas chronic haloperidol treatment decreased, Pdlim5 mRNA levels in the prefrontal cortex. Imipramine increased Pdlim5 mRNA levels in the hippocampus.ConclusionThese findings are partially compatible with reported observations in humans, indicating that PDLIM5 is involved in psychiatric disorders, including mood disorders.

著者

Matsuda Yoshi-Taka Okanoya Kazuo Myowa-Yamakoshi Masako

出版者

Public Library of Science

雑誌

PLoS ONE (ISSN:19326203)

巻号頁・発行日

vol.8, no.6, 2013-06-05

被引用文献数

17

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赤ちゃんの「人見知り」行動 : 単なる怖がりではなく「近づきたいけど怖い」心の葛藤. 京都大学プレスリリース. 2013-06-05.