Environmental Biofunctio Team
PUBLICATIONS

1.Refereed Papers (since 2016)

2022

  • Ohbayashi, T., Cossard, R., Lextrait, G., Hosokawa, T., Lesieur, V., Takeshita, K., Tago, K., Mergaert, P., Kikuchi, Y.: Intercontinental diversity of Caballeronia gut symbionts in the conifer pest bug Leptoglossus occidentalis. Microbes Environ. 37(3):ME22042 (2022). DOI:10.1264/jsme2.ME22042 .
  • Ishigami, K., Jang, S., Itoh, H., Kikuchi, Y.: Obligate gut symbiotic association with Caballeronia in the mulberry seed bug Paradieuches dissimilis (Lygaeoidea: Rhyparochromidae). Microb Ecol (2022). DOI:10.1007/s00248-022-02117-2.
  • Furubayashi, M., Umeno, D.: Use of directed enzyme evolution to create novel biosynthetic pathways for production of rare or non-natural carotenoids. Methods Enzymol. 671:351–82 (2022). DOI:10.1016/bs.mie.2022.03.008.
  • Furubayashi, M., Maoka, T. Mitani, Y.: Promiscuous activity of β-carotene hydroxylase CrtZ on epoxycarotenoids leads to the formation of rare carotenoids with 6-Hydroxy-3-keto-ε-ends. FEBS Lett. 596 (5):1921–31 (2022). DOI:10.1002/1873-3468.14342.
  • Kanie, S., Komatsu, M., Mitani, Y.: Molecular insights into luminescence system of the pelagic shrimp Lucensosergia lucens. Biosci Biotechnol Biochem. 86:368-373 (2022). DOI:10.1093/bbb/zbac004.
  • Mitani, Y., Yasuno, R., Kihira, K., Chung, K., Mitsuda, N., Kanie, S., Tomioka, A., Kaji, H., Ohmiya, Y.: Host-dependent producibility of recombinant Cypridina noctiluca luciferase with glycosylation defects. Front Bioeng Biotechnol. 10:774786 (2022). DOI:10.3389/fbioe.2022.774786.
  • Kanie, S., Mitani, Y.: Potential use of cypridina luciferin for quantifying alpha 1-acid glycoprotein in human serum. Anal Sci. (2022). DOI:10.1007/s44211-022-00191-7.
  • Huang, Y., Nobu, MK., Igarashi, K., Kato, S.: Draft genome sequence of the alkaliphilic, lithoautotrophic homoacetogen Fuchsiella alkaliacetigena Z-7100T. Microbiol Resour Announc. 11:e0047122 (2022). DOI:10.1128/mra.00471-22.
  • Huang, Y., Nobu, MK., Igarashi, K., Kato, S.: Draft genome sequence of the extremely haloalkaliphilic and homoacetic bacterium Natroniella acetigena Z-7937T. Microbiol Resour Announc. 11:e0047222 (2022). DOI:10.1128/mra.00472-22.

2021

  • Watanabe, M, Igarashi, K, Kato, S, Kamagata, Y, Kitagawa, W.: Complete Genome Sequence of Alphaproteobacteria Bacterium Strain SO-S41, Isolated from Forest Soil. Microbiol Resour Announc. 10(29) :e0053621. (2021). DOI=10.1128/MRA.00536-21
  • Igarashi, K., Kato, S.: Reductive Transformation of Fe(III) (oxyhydr)Oxides by Mesophilic Homoacetogens in the Genus Sporomusa. Front Microbiol. 12:600808. (2021). DOI=10.3389/fmicb.2021.600808
  • Tanaka, K., Shimakawa, G., Kusama, S., Harada, T., Kato, S., Nakanishi, S.: Ferrihydrite reduction by photosynthetic Synechocystis sp. PCC 6803 and its correlation with electricity generation. Front. Microbiol. 12:650832 (2021). DOI=10.3389/fmicb.2021.650832
  • Furubayashi, M., Wallace, A. K., González, L. M., Jahnke, J. P., Hanrahan, B. M., Payne, A. L., Stratis-Cullum, D. N., Gray, M. T., Liu, H., Rhoads, M. K., Voigt, C. A.: Genetic Tuning of Iron Oxide Nanoparticle Size, Shape, and Surface Properties in Magnetospirillum magneticum. Adv. Funct. Mater. 31 (4):2004813 (2021). DOI=10.1002/adfm.202004813
  • Furubayashi, M., Kubo, A., Takemura, M., Otani, Y., Maoka, T., Terada, Y., Yaoi, K., Ohdan, K., Misawa, N., Mitani, Y.: Capsanthin Production in Escherichia coli by Overexpression of Capsanthin/Capsorubin Synthase from Capsicum annuum. J. Agric. Food Chem. 69 (17):5076–5085 (2021). DOI=10.1021/acs.jafc.1c00083
  • Doi, M., Morita, N., Sakashita, M., Okuzawa, T., Ohgiya, S., Okamoto, D., Sato, K., Ito, Y., Matsuura, H., Hashidoko, Y.: Pinellic acid isolated from quercetin-rich onions has a peroxisome proliferator-activated receptor-alpha/gamma (PPAR-α/γ) transactivation activity. Planta Medica, DOI:10.1055/a-1345-9471.
  • Lopes H. F. S., Tu Z., Sumi, H., Furukawa H., Yumoto I.: Indigofera tinctoria leaf powder as a promising additive to improve indigo fermentation prepared with sukumo (composted Polygonum tinctorium leaves). World J. Microbiol. Biotechnol (2021). DOI:10.1007/s11274-021-03142-y.
  • Lopes H. F. S., Tu Z., Sumi, H., Yumoto, I.: Analysis of bacterial flora of indigo fermentation fluids utilizing composted indigo leaves (sukumo) and indigo extracted from plants (Ryukyu-ai and Indian indigo). J. Biosci. Bioeng. 132(3): 279-286 (2021). DOI=10.1016/j.jbiosc.2021.05.004
  • Tu Z., Lopes H. F. S., Narihiro, T., Yumoto I.: The mechanisms underlying of long-term stable indigo reduction state in indigo fermentation using sukumo (composted Polygonum tinctorium Leaves). Front. Microbiol. 12:698674 (2021). DOI=10.3389/fmicb.2021.698674
  • Kanie, S., Miura, D., Jimi, N., Hayashi, T., Nakamura, K., Sakata, M., Ogoh, K., Ohmiya, Y., Mitani, Y.: Violet bioluminescent Polycirrus sp. (Annelida: Terebelliformia) discovered in the shallow coastal waters of the Noto Peninsula in Japan. Sci Rep, in press
  • Hensley N. M., Ellis, E. A., Leung, N. Y., Coupart, J., Mikhailovsky, A., Taketa, D. A., Tessler, M., Gruber, D. F., De Tomaso, A. W., Mitani, Y., Rivers, T. J., Gerrish, G. A., Torres, E., Oakley, T. H.: Selection, drift, and constraint in cypridinid luciferases and the diversification of bioluminescent signals in sea fireflies. Mol Ecol. 30(8):1864-1879 (2021). DOI=10.1111/mec.15673
  • Ishigami, K., Jang, S., Itoh, H., Kikuchi, Y.: Insecticide resistance governed by gut symbiosis in a rice pest, Cletus punctiger, under laboratory conditions. Biol Lett. 17(3):20200780 (2021). DOI:10.1098/rsbl.2020.0780.
  • Shimoji, H., Itoh, H., Matsuura, Y., Yamashita, R., Hori, T., Hojo, M. K., Kikuchi, Y.: Worker-dependent gut symbiosis in an ant. ISME Commun. 1:60 (2021). DOI:10.1038/s43705-021-00061-9.
  • Jang, S., Mergaert, P., Ohbayashi, T., Ishigami, K, Shigenobu, S., Itoh, H., Kikuchi, Y.: Dual oxidase enables insect gut symbiosis by mediating respiratory network formation. Proc Natl Acad Sci USA. 118(10):e2020922118 (2021). DOI:10.1073/pnas.2020922118.
  • Sato, Y., Jang, S., Takeshita, K., Itoh, H., Koike, H., Tago, K., Hayatsu, M., Hori, T., Kikuchi, Y.: Insecticide resistance by a host-symbiont reciprocal detoxification. Nat Commun. 12:6432 (2021). DOI:10.1038/s41467-021-26649-2.

2020

  • Kato, S., Takashino, M., Igarashi, K., Mochimaru, H., Mayumi, D., Tamaki, H.: An Iron Corrosion-Assisted H2-Supplying System: A Culture Method for Methanogens and Acetogens under Low H2 Pressures. Sci Rep. 10: 19124. (2020). DOI=10.1038/s41598-020-76267-z
  • Quaiyum, S., Igarashi, K., Narihiro, T., Kato, S.: Microbial Community Analysis of Anaerobic Enrichment Cultures Supplemented with Bacterial Peptidoglycan as the Sole Substrate. Microbes Environ. 35(3): ME20002 (2020). DOI=10.1264/jsme2.ME20002
  • Kato, S., Takashino, M., Igarashi, K., Kitagawa, W.: Isolation and Genomic Characterization of a Proteobacterial Methanotroph Requiring Lanthanides. Microbes Environ. 35(1): ME19128. (2020). DOI=10.1264/jsme2.ME19128
  • Preiner, M.*, Igarashi, K.*, Muchowska, K. B.*, Yu, M.*, Varma, S. J., Kleinermanns, K., Nobu, M., K., Kamagata, Y., Tüysüz, H., Moran, J., Martin, W. F.: A Hydrogen Dependent Geochemical Analogue of Primordial Carbon and Energy Metabolism. Nat Ecol Evol. 4: 534-542 (2020) (*Equal contributions). DOI=10.1038/s41559-020-1125-6
  • Igarashi, K., Miyako, E., Kato, S.: Direct Interspecies Electron Transfer Mediated by Graphene Oxide-Based Materials. Front Microbiol. 10: 3068 (2020). DOI=10.3389/fmicb.2019.03068
  • Kuwabara, T., Igarashi, K.: Thermotogales Origin Scenario of Eukaryogenesis. J Theor Biol. 492: 110192 (2020). DOI=10.1016/j.jtbi.2020.110192
  • Kato, S., Terashima, M., Yama, A., Sato, M., Kitagawa, W., Kawasaki, K., Kamagata, Y.: Improved Isolation of Uncultured Anaerobic Bacteria using Medium Prepared with Separate Sterilization of Agar and Phosphate. Microbes Environ. (2020) 35:ME19060. DOI=10.1264/jsme2.ME19060
  • Terashima, M., Kamagata, Y., Kato, S.: Rapid enrichment and isolation of polyphosphate-accumulating organisms through 4’6-diamidino-2-phenylindole (DAPI) staining with fluorescence-activated cell sorting (FACS). Front. Microbiol. 11:793 (2020). DOI=10.3389/fmicb.2020.00793
  • Lee, J.Y., Haruta, S., Kato, S., Bernstein, H.C., Lindemann, S., Lee, D.Y., Fredrickson, J.K., Song, H.S.: Prediction of neighbor-dependent microbial interactions from limited population data. Front. Microbiol. 10:3049 (2020). DOI=10.3389/fmicb.2019.03049
  • Kanie, S., Komatsu, M., Mitani, Y.: Luminescence of Cypridina luciferin in the presence of human alpha 1-acid glycoprotein. Int. J. Mol. Sci. 21(20): 7516 (2020). DOI=10.3390/ijms21207516
  • Schuerle, S., Furubayashi, M., Soleimany, A. P., Gwisai, T., Huang, W., Voigt, C., Bhatia, S. N.: Genetic Encoding of Targeted Magnetic Resonance Imaging Contrast Agents for Tumor Imaging. ACS Synth. Biol. 9 (2):392–401 (2020). DOI=10.1021/acssynbio.9b00416
  • Umeno, A., Sakashita, M., Sugino, S., Murotomi, K., Okuzawa, T., Morita, N., Tomii, K., Tsuchiya, Y., Yamasaki, K., Horie, M., Takahara, K., Yoshida, Y.: Comprehensive analysis of PPARγ agonist activities of stereo-, regio-, and enantio-isomers of hydroxyoctadecadienoic acids. BIosci Rep. 40(4): BSR20193767 (2020). DOI=10.1042/BSR20193767
  • Hanaoka, Y., Kimoto, H., Yoshimune, K., Hara, I., Matsuyama, H., Yumoto, I.: Relationship between main channel structure of catalases and the evolutionary direction in cold-adapted hydrogen peroxide-tolerant Exiguobacteium and Psychrobacter. Indian J. Microbiol. 60(3):353-362 (2020). DOI=10.1007%2Fs12088-020-00878-3
  • Tanaka, M., Mino, S., Doi, H., Ogura, Y., Hayashi, T., Yumoto, I., Cai, M., Yu-Guang Zhou Y.-G., Gomez-Gil, B., Araki, T., Sawabe, T.: Genomic characterization of closely related species in the Rumoiensis clade infers ecogenomic signatures to non-marine environments. Environ. Microbiol. 22(8): 3205–3217 (2020). DOI=10.1111/1462-2920.15062
  • Hirota, K., Hironaga K., Tu, Z., Yumoto, I.: Comparison between wet and semi-dry anaerobic biogas diester under thermophilic and mesophilic conditions: methane productivity and analysis of microbiota. African J. Microbiol. Res. 14(7): 319-331 (2020). DOI=10.5897/AJMR2020.9280
  • Schramm, S., Al-Handawi, M. B., Karothu, D. P., Kurlevskaya, A., Commins, P., Mitani, Y., Wu, C., Ohmiya, Y., & Naumov, P.: Mechanically Assisted Bioluminescence with Natural Luciferase. Angewandte Chemie (International ed. in English) 59(38), 16485–16489. (2020). DOI=10.1002/anie.202007440

2019

  • Hirota, K., Miura, C., Motomura, N., Matsuyama, H., Yumoto, I.: Isolation and identification of bacteria from high-temperature compost at temperature exceeding 90°C. African J. Microbiol. Res. 13(7):134-144 (2019). DOI=10.5897/AJMR2018.9022
  • Tu, Z., Lopes, H. F. S., Hirota, K., Yumoto, I.: Analysis of the microbiota involved in the early changes associated with indigo reduction in the natural fermentation of indigo. World J. Microbiol. Biotechnol. 35:123 (2019). DOI=10.1007%2Fs11274-019-2699-5
  • Tu, Z., Lopes, H. F. S., Igarashi, K., Yumoto, I.: Characterization of the microbiota in long- and short-term natural indigo fermentation. J. Ind. Microbiol. Biotechnol. 46:1657-1667 (2019). DOI=10.1007/s10295-019-02223-0
  • Haga, S., Yimin, Yamaki, H., Jin, S., Sogon, T., Morita, N., Ozaki, M.: Extracts of bilberry (Vaccinium myrtillus L.) fruits improve liver steatosis and injury in mice by preventing lipid accumulation and cell death. Biosci Biotechnol Biochem. 83(11): 2110-2120 (2019). DOI=10.1080/09168451.2019.1634514
  • Makino, M., Sahara, T., Morita, N., Ueno, H.: Carboxypeptidase Y activity and maintenance is modulated by a large helical structure. FEBS Open Bio. 9(7): 1337-1343 (2019). DOI=10.1002/2211-5463.12686
  • Kato, S., Tobe, H., Matsubara, H., Sawada, M., Sasaki, Y., Fukiya, S., Morita, N., Yokota, A.: The membrane phospholipid cardiolipin plays a pivotal role in bile acid adaptation by Lactobacillus gasseri JCM1131T. Biochim Biophys Acta. 1864(3): 403-412 (2019). DOI=10.1016/j.bbalip.2018.06.004
  • Mitani, Y., Yasuno, R., Futahashi, R., Oakley, T. H., Ohmiya, Y.: Luciferase gene of a Caribbean fireworm (Syllidae) from Puerto Rico. Sci Rep, 9(1), 13015. (2019). DOI=10.1038/s41598-019-49538-7
  • Itoh, H., Kawano, K., Kihara, M.: Draft Genome Sequence of Agarivorans sp. Strain Toyoura001, Isolated from an Abalone Gut. Microbiol Resour Announc. 8(19):e00169-19 (2019). DOI:10.1128/MRA.00169-19
  • Ohbayashi, T., Itoh, H., Lachat, J., Kikuchi, Y., and Mergaert, P.: Burkholderia gut symbionts associated with European and Japanese populations of the dock bug Coreus marginatus (Coreoidea : Coreidae). Microbes Environ. (2019). DOI:10.1264/jsme2.ME19011
  • Kato, S., Wada, K., Kitagawa, W., Mayumi, D., Ikarashi, M., Sone, T., Asano, K., Kamagata, Y.: Conductive Iron Oxides Promote Methanogenic Acetate Degradation by Microbial Communities in a High-Temperature Petroleum Reservoir. Microbes Environ. 34(1):95-98 (2019). DOI:10.1264/jsme2.ME18140
  • Ohbayashi, T., Futahashi, R., Terashima, M., Barrière, Q., Lamouche, F., Takeshita, K., Meng, XY., Mitani, Y., Sone, T., Shigenobu, S., Fukatsu, T., Mergaert, P. Kikuchi, Y.: Comparative cytology, physiology and transcriptomics of Burkholderia insecticola in symbiosis with the bean bug Riptortus pedestris and in culture. ISME J. 13(6):1469-1483 (2019). DOI:10.1038/s41396-019-0361-8
  • Yoshida, K., Kitagawa, W., Ishiya, K., Mitani, Y., Nakashima, N., Aburatani, S., Tamura, T.: Genome Sequence of Rhodococcus erythropolis Type Strain JCM 3201. Microbiol Resour Announc. 8(14):e01730-18 (2019). DOI:10.1128/MRA.01730-18
  • Igarashi, K.: Draft Genome Sequence of Thermosipho globiformans Strain MN14. Microbiol Resour Announc. 8(9):e01728-18 (2019). DOI:10.1128/MRA.01728-18
  • Gabriel, G.V.M., Yasuno, R., Mitani, Y., Ohmiya, Y., Viviani, V.R.: Novel application of Macrolampis sp2 firefly luciferase for intracellular pH-biosensing in mammalian cells. Photochem. Photobiol. Sci. 18:1212-1217 (2019). DOI:10.1039/C8PP00573G

2018

  • Yamamoto, R., Minami, H., Matsusaki, H., Sakashita, M., Morita, N., Nishimiya, O., Tsutsumi, N., Hosokawa, M., Itabashi, Y., Matsui, T., Ura, K.: Consumption of the edible sea urchin Mesocentrotus nudus attenuates body weight gain and hepatic lipid accumulation in mice. J Func Foods. 47: 40-47 (2018). DOI=10.1016/j.jff.2018.04.063
  • Haga, S., Kanno, H., Ozawa, T., Morita, N., Asano, M., Ozaki, M.: Detection of necroptosis in ligand-mediated and hypoxia-induced injury of hepatocytes using a novel optic probe detecting receptor-interacting protein (RIP)1/RIP3 binding. Oncol Res. 26(3): 503-513 (2018). DOI=10.3727/096504017X15005102445191
  • Haga, S., Ozawa, T., Morita, N., Asano, M., Jin, S., Yimin, Ozaki, M.: Photo-activatable Akt probe - A new tool to study Akt-dependent physio-pathology of cancer cells. Oncol Res. 26(3): 467-472 (2018). DOI=10.3727/096504017X15040166233313
  • Hirota, K., Nishita, M., Tu, Z., Matsuyama, H., Yumoto, I.: Bacillus fermenti sp. nov., an indigo-reducing obligate alkaliphile isolated from indigo fermentation liquor for dyeing. Int. J. Syst. Evol. Microbiol. 68(4):1123-1129 (2018). DOI=10.1099/ijsem.0.002636
  • Tanaka, K., Yokoe, S., Igarashi, K., Takashino, M., Ishikawa, M., Hori, K., Nakanishi, S., Kato, S.: Extracellular Electron Transfer via Outer Membrane Cytochromes in a Methanotrophic Bacterium Methylococcus capsulatus (Bath) Front. Microbiol. 9:2905 (2018). DOI:10.3389/fmicb.2018.02905
  • Kanie, S., Nakai, R., Ojika, M., Oba, Y.: 2-S-cysteinylhydroquinone is an intermediate for the firefly luciferin biosynthesis that occurs in the pupal stage of the Japanese firefly, Luciola lateralis. Bioorg. Chem. 80:223-229 (2018). DOI:10.1016/j.bioorg.2018.06.028
  • Ishikawa, M., Yokoe, S., Kato, S., Hori, K.: Efficient Counterselection for Methylococcus capsulatus (Bath) by Using a Mutated pheS Gene. Appl. Environ. Microbiol. 84(23):e01875-18 (2018). DOI:10.1128/AEM.01875-18
  • Kato, S., Yamagishi, A., Daimon, S., Kawasaki, K., Tamaki, H., Kitagawa, W., Abe, A., Tanaka, M., Sone, T., Asano, K., Kamagata, Y.: Isolation of Previously Uncultured Slow-Growing Bacteria by Using a Simple Modification in the Preparation of Agar Media. Appl. Environ. Microbiol. 84(19):e00807-18 (2018). DOI:10.1128/AEM.00807-18
  • Mitani, Y., Yasuno, R., Isaka, M., Mitsuda, N., Futahashi, R., Kamagata, Y., Ohmiya, Y.: Novel gene encoding a unique luciferase from the fireworm Odontsyllis undecimdonta. Sci. Rep. 24;8(1):12789 (2018). DOI:10.1038/s41598-018-31086-1
  • Takeshita, K., Tamaki, H., Ohbayashi, T., Meng, XY., Sone, T., Mitani, Y., Peeters, C., Kikuchi, Y., Vandamme, P.: Burkholderia insecticola sp. nov., a gut symbiotic bacterium of the bean bug Riptortus pedestris. Int. J. Syst. Evol. Microbiol. 68(7):2370-2374 (2018). DOI:10.1099/ijsem.0.002848
  • Kato, S., Igarashi, K.: Enhancement of methanogenesis by electric syntrophy with biogenic iron-sulfide minerals. Microbiologyopen. 8(3):e00647 (2019). DOI:10.1002/mbo3.647
  • Aoyagi, T., Morishita, F., Sugiyama, Y., Ichikawa, D., Mayumi, D., Kikuchi, Y., Ogata, A., Muraoka, K., Habe, H., Hori, T.: Identification of active and taxonomically diverse 1,4-dioxane degraders in a full-scale activated sludge system by high-sensitivity stable isotope probing. ISME J. 12(10):2376-2388 (2018). DOI:10.1038/s41396-018-0201-2
  • Itoh, H., Tago, K., Hayatsu, M., Kikuchi, Y.: Detoxifying symbiosis: microbe-mediated detoxification of phytotoxins and pesticides in insects. Nat. Prod. Rep. 35(5):434-454 (2018). DOI:10.1039/C7NP00051K
  • Masuda, Y., Itoh, H., Shiratori, Y., Senoo, K.: Metatranscriptomic insights into microbial consortia driving methane metabolism in paddy soils. Soil Sci. Plant Nutr. 64(4):455-464 (2018). DOI:10.1080/00380768.2018.1457409
  • Sasaki, K., Sasaki, D., Kamiya, K., Nakanishi, S., Kondo, A., Kato, S.: Electrochemical biotechnologies minimizing the required electrode assemblies. Curr. Opin. Biotechnol. 50:182-188 (2018). DOI:10.1016/j.copbio.2018.01.016
  • Itoh, H., Hori, T., Sato, Y., Nagayama, A., Tago, K., Hayatsu, M., Kikuchi, Y.: Infection dynamics of insecticide-degrading symbionts from soil to insects in response to insecticide spraying. ISME J. 12:909-920 (2018). DOI:10.1038/s41396-017-0021-9
  • Kinosita, Y., Kikuchi, Y., Mikami, N., Nakane, D., Nishizaka, T.: Unforeseen swimming and gliding mode of an insect gut symbiont, Burkholderia sp. RPE64, with wrapping of the flagella around its cell body. ISME. J. 12(3):838-848 (2018). DOI:10.1038/s41396-017-0010-z
  • Crüsemann, M., Reher, R., Schamari, I., Brachmann, AO., Ohbayashi, T., Kuschak, M., Malfacini, D., Seidinger, A., Pinto-Carbó, M., Richarz, R., Reuter, T., Kehraus, S., Hallab, A., Attwood, M., Schiöth, HB., Mergaert, P., Kikuchi, Y., Schäberle, TF., Kostenis, E., Wenzel, D., Müller, CE., Piel, J., Carlier, A., Eberl, L., König GM.: Heterologous Expression, Biosynthetic Studies, and Ecological Function of the Selective Gq-Signaling Inhibitor FR900359. Angew. Chem. Int. Ed. Engl. 57(3):836-840 (2018). DOI:10.1002/anie.201707996
  • Yasuno, R., Mitani, Y., Ohmiya, Y.: Effects of N-Glycosylation Deletions on Cypridina Luciferase Activity. Photochem. Photobiol. 94(2):338-342 (2018). DOI:10.1111/php.12847

2017

  • Adachi, T., Sahara, T., Okuyama, H., Morita, N.: Glass bead-based genetic transformation: An efficient method for transformation of thraustochytrid microorganisms. J Oleo Sci. 66(7): 791-795 (2017). DOI=10.5650/jos.ess17084
  • Mitani Y., Futahashi R., Liu Z., Liang X., Ohmiya Y.: Tibetan firefly luciferase with low temperature adaptation. Photochem. Photobiol. 93: 466-472 (2017). DOI:10.1111/php.12643
  • Kawasaki, K., Kamagata, Y.: Phosphate-Catalyzed Hydrogen Peroxide Formation from Agar, Gellan, and κ-Carrageenan and Recovery of Microbial Cultivability via Catalase and Pyruvate. Appl. Environ. Microbiol. 83(21):e01366-17 (2017). DOI:10.1128/AEM.01366-17
  • Park, KE., Jang, SH., Lee, J., Lee, SA., Kikuchi, Y., Seo, YS., Lee, BL.: The roles of antimicrobial peptide, rip-thanatin, in the midgut of Riptortus pedestris. Dev. Comp. Immunol. 78:83-90 (2018). DOI:10.1016/j.dci.2017.09.009
  • Amaral, DT., Mitani, Y., Oliveira, G., Ohmiya, Y., Viviani, VR.: Revisiting Coleoptera a + T-rich region: structural conservation, phylogenetic and phylogeographic approaches in mitochondrial control region of bioluminescent Elateridae species (Coleoptera). Mitochondrial DNA A DNA Mapp. Seq. Anal. 28(5):671-680 (2017). DOI:10.3109/24701394.2016.1174220
  • Mitani, Y., Oshima, Y., Mitsuda, N., Tomioka, A., Sukegawa, M., Fujita, M., Kaji, H., Ohmiya, Y.: Efficient production of glycosylated Cypridina luciferase using plant cells. Protein. Expr. Purif. 133:102-109 (2017). DOI:10.1016/j.pep.2017.03.008
  • Jia, H., Hanate, M., Aw, W., Itoh, H., Saito, K., Kobayashi, S., Hachimura, S., Fukuda, S., Tomita, M., Hasebe, Y., Kato, H.: Eggshell membrane powder ameliorates intestinal inflammation by facilitating the restitution of epithelial injury and alleviating microbial dysbiosis. Sci. Rep. 7: 43993 (2017). DOI:10.1038/srep43993
  • Masuda, Y*., Itoh, H.*, Shiratori, Y., Isobe, K., Otsuka, S., Senoo, K.: Predominant but previously-overlooked prokaryotic drivers of reductive nitrogen transformation in paddy soils, revealed by metatranscriptomics. Microbes Environ. 32:180-183 (2017). (*Equal contributions) DOI:10.1264/jsme2.ME16179
  • Mergaert, P., Kikuchi, Y., Shigenobu, S., Nowack, E.C.M.: Metabolic integration of bacterial endosymbionts through antimicrobial peptides. Trends Microbiol. 25:703-712 (2017). DOI:10.1016/j.tim.2017.04.007
  • Takeshita, K., Kikuchi, Y.: Riptortus pedestris and Burkholderia symbiont: an ideal model system for insect–microbe symbiotic associations. Res. Microbiol. 168:175-187 (2017). DOI:10.1016/j.resmic.2016.11.005
  • Igarashi, K., Kato, S.: Extracellular electron transfer in acetogenic bacteria and its application for conversion of carbon dioxide into organic compounds. Appl. Microbiol Biotechnol. 101:6301-6307 (2017). DOI:10.1007/s00253-017-8421-3
  • Kato, S., Kanata, Y., Kitagawa, W., Sone, T., Asano, K., Kamagata, Y.: Restoration of the growth of Escherichia coli under K+-deficient conditions by Cs+ incorporation via the K+ transporter Kup. Sci. Rep. 7:1965 (2017). DOI:10.1038/s41598-017-02024-4
  • Ishikawa, M., Tanaka, Y., Suzuki, R., Kimura, K., Tanaka, K., Kamiya, K., Ito, H., Kato, S., Kamachi, T., Hori, K., Nakanishi, S.: Real-time monitoring of intracellular redox changes in Methylococcus capsulatus (Bath) for efficient bioconversion of methane to methanol. Bioresour Technol. 241:1157-1161 (2017). DOI:10.1016/j.biortech.2017.05.107
  • Tanaka, K., Kaneko, M., Ishikawa, M., Kato, S., Ito, H., Kamachi, T., Kamiya, K., Nakanishi, S.: Specific interaction between redox phospholipid polymers and plastoquinone in photosynthetic electron transport chain. ChemPhysChem. 18:878-881 (2017). DOI:10.1002/cphc.201700065
  • Kato, S.: Influence of anode potentials on current generation and extracellular electron transfer paths of Geobacter species. Int. J. Mol. Sci. 18:108 (2017). DOI:10.3390/ijms18010108
  • Kaneko, M., Ishikawa, M., Song, J., Kato, S., Hashimoto, K., Nakanishi, S.: Cathodic supply of electrons to living microbial cells via cytocompatible redox-active polymers. Electrochem. Commun. 75:17-20 (2017). DOI:10.1016/j.elecom.2016.12.002
  • Itoh, H., Matsuura, Y., Hosokawa, T., Fukatsu T., Kikuchi, Y.: Obligate gut symbiotic association in the sloe bug Dolycoris baccarum (Hemiptera: Pentatomidae). Appl. Entomol. Zool. 52:51-59 (2017). DOI:10.1007/s13355-016-0453-0
  • Lee, J. B., Park, K. E., Lee, S. A., Jang, S. H., Eo, H. J., Jang, H. A., Kim, C. H., Ohbayashi, T., Matsuura, Y., Kikuchi, Y., Futahashi, R., Fukatsu, T., Lee, B. L.: Gut symbiotic bacteria stimulate insect growth and egg production by modulating hexamerin and vitellogenin gene expression. Dev. Comp. Immunol. 69:12-22 (2017). DOI:10.1016/j.dci.2016.11.019
  • Yoshimune, K., Yamamoto, M., Aoyagi, T., Yumoto, I.: High and rapid L-lactic acid production by alkaliphilic Enterococcus sp. by adding wheat bran hydrolysate. Ferment. Technol. 6:1 (2017). DOI:10.4172/2167-7972.1000138
  • Kuwabara, T., Igarashi, K.: Progeny production in the periplasm of Thermosipho globiformans. Extremophiles 21: 805-815 (2017) DOI:10.1007/s00792-017-0944-0
  • Okamoto, T., Aino, K., Narihiro, T., Matsuyama, H., Yumoto, I.: Analysis of microbiota involved in the aged natural fermentation. World J. Microbiol. Biotechnol. 33:70 (2017). DOI:10.1007/s11274-017-2238-1
  • Nishita, M., Hirota, K., Matsuyama H., Yumoto, I.: Development of media to accelerate the isolation of indigo-reducing bacteria, which are difficult to isolate using conventional media. World J. Microbiol. Biotechnol.33:133 (2017). DOI:10.1007/s11274-017-2300-z
  • Tanaka, M., Endo S., Kotake F, Al-saari, N., Amin, A.K.M.R, Feng, G., Mino, S., Doi, H. Ogura, Y., Hayashi T., Suda, W., Masahira Hattori, M., Yumoto I., Sawabe, T., Sawabe T., Araki, T.: Vibrio aphrogenes sp. nov., in the Rumoiensis clade isolated from a seaweed. PLOS ONE journal.pone.0180053 June 29, (2017). DOI:10.1371/journal.pone.0180053
  • Hirota, K., Nishita, M., Matsuyama H., Yumoto, I.: Paralkalibacillus indicireducens gen., nov., sp. nov., an indigo-reducing obligate alkaliphile isolated from indigo fermentation liquor for dyeing. Int. J. Syst. Evol. Microbiol. in press (2017). DOI:10.1099/ijsem.0.002248

2016

  • Morita, N., Haga, S., Ohmiya, Y., Ozaki, M.: Long-term ex vivo and in vivo monitoring of tumor progression by using dual luciferases. Anal Biochem. 497: 24-26 (2016). DOI=10.1016/j.ab.2015.12.007
  • Yoshida, K., Hashimoto, M., Hori, R., Adachi, T., Okuyama, H., Orikasa, Y., Nagamine, T., Shimizu, S., Ueno, A., Morita, N.: Bacterial long-chain polyunsaturated fatty acids: Their biosynthetic genes, functions, and practical use. Marine Drugs. 14(5): 94 (2016). DOI=10.3390/md14050094
  • Okuda, T., Morita, N.: A very low carbohydrate ketogenic diet increases hepatic glycosphingolipids related to regulation of insulin signaling. J Func Foods 21: 70-74 (2016). DOI=10.1016/j.jff.2015.11.040
  • Tamazawa S., Yamamoto K., Takasahi H., Mitani Y., Hanada S., Kamagata Y., Tamaki H.: In situ gene expression responsible for sulfide oxidation and CO2 fixation of an uncultured large sausage-shaped Aquificae bacterium in a sulfidic hot spring. Microbs Environ. 31-2:194-198 (2016). DOI:10.1264/jsme2.ME16013
  • Amaral D., Mitani Y., Ohmiya Y., Viviani VR.: Organization and comparative analysis of the mitochondrial genomes of bioluminescent Elateroidea (Coleoptera: Polyphaga). Gene 586:254-262 (2016). 10.1016/j.gene.2016.04.009
  • Kato, S., Goya, E., Tanaka, M., Kitagawa, W., Kikuchi, Y., Asano, K., Kamagata, Y.: Enrichment and isolation of Flavobacterium strains with tolerance to high concentrations of cesium ion. Sci. Rep. 6:20041 (2016). DOI:10.1038/srep20041
  • Kato, S.: Microbial extracellular electron transfer and its relevance to iron corrosion. Microbial Biotechnol. 9:141-148 (2016). DOI:10.1111/1751-7915.12340
  • Terashima, M., Yama, A., Sato, M., Yumoto, I., Kamagata, Y., Kato, S.: Culture-dependent and -independent identification of polyphosphate-accumulating Dechloromonas spp. predominating in a full-scale oxidation ditch wastewater treatment plant. Microbes Environ. 31:449-455 (2016). DOI:10.1264/jsme2.ME16097
  • Song, J., Sasaki, D., Sasaki, K., Kato, S., Kondo, A., Hashimoto, K., Nakanishi, S.: Comprehensive metabolomic analyses of anode-respiring Geobacter sulfurreducens cells: the impact of anode-respiration activity on intracellular metabolite levels. Process Biochem. 51:34-38 (2016). DOI:10.1016/j.procbio.2015.11.012
  • Hosokawa, T., Matsuura, Y., Kikuchi, Y., Fukatsu, T.: Recurrent evolution of gut symbiotic bacteria in pentatomid stinkbugs. Zoological Lett. 2:24 (2016). DOI:10.1186/s40851-016-0061-4
  • Kikuchi, Y., Tada, A., Musolin, D. L., Hari, N., Hosokawa, T., Fujisaki, K., Fukatsu, T.: Collapse of Insect gut symbiosis under simulated Climate Change. mBio 7:e01578-01516. DOI:10.1128/mBio.01578-16
  • Kuechler, S. M., Matsuura, Y., Dettner, K., Kikuchi, Y.: Phylogenetically diverse Burkholderia associated with midgut crypts of spurge bugs, Dicranocephalus spp. (Heteroptera: Stenocephalidae). Microbes Environ. 31:145-153 (2016). DOI:10.1264/jsme2.ME16042
  • Sudakaran, S., Retz, F., Kikuchi, Y., Kost, C., Kaltenpoth, M.: Evolutionary transition in symbiotic syndromes enabled diversification of phytophagous insects on an imbalanced diet. ISME J. 9: 2587-2604 (2016). DOI:10.1038/ismej.2015.75
  • Goto, T., Hirabayashi, T., Morimoto, H., Yamazaki, K., Inoue, N., Matsuyama, H., Yumoto, I.: Contribution of intracellular negative ion capacity to Donnan effect across the membrane in alkaliphilic Bacillus spp. J. Bioenerg. Biomembr. 48:87-96 (2016). DOI:10.1007/s10863-015-9641-9
  • Hirota, K., Yokota, Y., Sekimura, T., Uchiumi, H., Guo, Y., Ohta, H., Yumoto, I.: Bacterial communities in different locations, seasons and segments of a dairy wastewater treatment system consisting of six segments. J. Environ. Sci. 45:109-115 (2016). DOI:10.1016/j.jes.2015.09.025
  • Hirota, K., Aino, K, Yumoto, I.: Fermentibacillus polygoni gen. nov., sp. nov., an alkaliphile that reduces indigo dye. Int. J. Syst. Evol. Microbiol. 66:2247-2253 (2016). DOI:10.1099/ijsem.0.001015
  • Sae-Tang, P., Hihara, Y., Yumoto, I., Orikasa, Y., Okuyama, H., Nishiyama, Y.: Overexpression superoxide dismutase and catalase act synergistically to protect the repair of PS II during photoinhibition in Synechococcus elongates PCC 7942. Plant Cell Physiol. 57:1899-1907 (2016). DOI:10.1093/pcp/pcw110
  • Hirota, K., Okanoto, T., Matsuyama, H., Yumoto, I.: Polygonibacillus indicireducens gen. nov., sp. nov., an indigo-reducing and obligate alkaliphile isolated from indigo fermentation liquor for dyeing. Int. J. Syst. Evol. Microbiol. 66:2247-2253 (2016). DOI:10.1099/ijsem.0.001405
  • Igarashi, K., Yamamura, Y., Kuwabara, T.: Natural synthesis of bioactive greigite by solid-gas reactions. Geochim. Cosmochim. Acta 191:47-57 (2016). DOI:10.1016/j.gca.2016.07.005
  • Igarashi, K., Kuwabara, T.: Hydrogen sulfide-free methane production by fermenter–methanogen syntrophy using dacite pumice under aerobic gas phase. Energy & Fuels 30:4945-4950 (2016) DOI:10.1021/acs.energyfuels.6b00494

2. Publications (since 2016）

2021

  • Yumoto, I., Hanaoka, Y., Hara, I.: Evolutionary strategies of highly functional catalases for adaptation to high H2O2 environments. IntechOpen, (2021) DOI=10.5772/intechopen.95489

2020

  • Kato, S.: Electrochemical interactions between microorganisms and conductive particles.　Electron-Based Bioscience and Biotechnology, Springer, pp. 73-80 (2020).
  • Hirota, K., Aino, K., Yumoto, I.: Fermentibacillus In Bergey's Manual of Systematics of Archaea and Bacteria Eds, Rainey F et al. John Wiley & Sons Inc. published: 01 June 2020. DOI=10.1002/9781118960608.gbm01612

2019

  • Hirota, K., Okamoto, T., Matsuyama, H., Yumoto, I.: Polygonibacillus In Bergey's Manual of Systematics of Archaea and Bacteria Eds, Rainey F et al. John Wiley & Sons Inc. published: 16 December 2019. DOI=10.1002/9781118960608.gbm01613

2018

  • Aino, K., Hirota, K., Okamoto, T., Tu, Z., Matsuyama, H., Yumoto, I.: Microbial communities associated with indigo fermentation that thrive in anaerobic alkaline environments. Front. Microbiol. 9:2196 (2018). DOI=10.3389/fmicb.2018.02196
  • Matsuno, T, Goto, T., Ogami, S., Morimoto, H., Yamazaki, K., Inoue, N., Matsuyama, H., Yoshimune, K., Yumoto, I.: Formation of proton motive force under low-aeration alkaline conditions in alkaliphilic bacteria. Front. Microbiol. 9:2331 (2018). DOI=10.3389/fmicb.2018.02331

2016

3. Patents

  • Kawasaki, K., Morita, Y., Ohgiya, S., Ohmiya, Y., Ohyama, H.: Mutant luciferase 2452457(2011 UK)
  • Sahara, T., Ohgiya, S., Goda, T., Kawasaki, K.: Yeast-origin promoter and vector and expression system using the same. 7371847 (2008 USA)
  • Hoshino, T., Kiriaki, M., Tsuda, S., Ohgiya, S., Kondo, H., Yokota, Y., Yumoto, I.: Antifreeze proteins from basidiomycetes. 7442769B2 (2008 USA).

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Bioproduction Research Institute

AIST Hokkaido
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