• Suenami S, Koto A, Miyazaki R. Basic structures of gut bacterial communities in eusocial insects. 2023. Insects. 14(5):444. doi: 10.3390/insects14050444.
  • Takano S, Takahashi H, Yama Y, Miyazaki R, Furusawa C, Tsuru S. Inference of transcriptome signatures of Escherichia coli in long-term stationary phase. 2023. Sci Rep. 13(1):5647. doi: 10.1038/s41598-023-32525-4.
  • Mei R, Kaneko M, Imachi H, Nobu MK. The origin and evolution of methanogenesis and Archaea are intertwined. 2023. PNAS Nexus. 2(2):pgad023. doi: 10.1093/pnasnexus/pgad023.
  • Nobu MK, Nakai R, Tamazawa S, Mori H, Toyoda A, Ijiri A, Suzuki S, Kurokawa K, Kamagata Y, Tamaki H. Unique H2-utilizing lithotrophy in serpentinite-hosted systems. 2023. ISME J. 17(1):95-104. doi: 10.1038/s41396-022-01197-9.


  • Kuroda K, Kubota K, Kagemasa S, Nakai R, Hirakata Y, Yamamoto K, Nobu MK, Narihiro T. Novel Cross-domain Symbiosis between Candidatus Patescibacteria and Hydrogenotrophic Methanogenic Archaea Methanospirillum Discovered in a Methanogenic Ecosystem. 2022. Microbes Environ. 37(4):ME22063. doi: 10.1264/jsme2.ME22063.
  • Imachi H, Nobu MK, Miyazaki M, Tasumi E, Saito Y, Sakai S, Ogawara M, Ohashi A, Takai K. Cultivation of previously uncultured microorganisms with a continuous-flow down-flow hanging sponge (DHS) bioreactor, using a syntrophic archaeon culture obtained from deep marine sediment as a case study. 2022. Nat Protoc. 17(12):2784-2814. doi: 10.1038/s41596-022-00735-1.
  • Kuroda K, Yamamoto K, Nakai R, Hirakata Y, Kubota K, Nobu MK, Narihiro T. Symbiosis between Candidatus Patescibacteria and Archaea Discovered in Wastewater-Treating Bioreactors. 2022. mBio. 13(5):e0171122. doi: 10.1128/mbio.01711-22.
  • Kuroda K, Narihiro T, Shinshima F, Yoshida M, Yamaguchi H, Kurashita H, Nakahara N, Nobu MK, Noguchi TQP, Yamauchi M, Yamada M. High-rate cotreatment of purified terephthalate and dimethyl terephthalate manufacturing wastewater by a mesophilic upflow anaerobic sludge blanket reactor and the microbial ecology relevant to aromatic compound degradation. 2022. Water Res. 219:118581. doi: 10.1016/j.watres.2022.118581.
  • Shiohama Y, Takeshita K, Hirakata Y, Nobu MK, Ito M, Shinzato N. Complete Genome Sequence of “Candidatus Hydrogeosomobacter endosymbioticus,” an Intracellular Bacterial Symbiont of the Anaerobic Ciliate Scuticociliate GW7. 2022. Microbiol Resour Announc. 11(2):e0115021. doi: 10.1128/mra.01150-21.


  • Miyazaki K, Tomariguchi N, Ueno Y (2021) Complete genome sequences of four halophilic Thermus thermophilus strains isolated from Arima Hot Spring in Japan. Microbiol Resour Announc (in press)
  • Kimura T (2021) Stability and safety of inhibitor cystine knot peptide, GTx1-15, from the Tarantula spider Grammostola rosea. Toxins 13(9):621
  • Miyazaki K, Moriya T, Tokito N, Oshima T, Yura K, Bessho Y (2021) Complete genome sequences of Thermus thermophilus strains HB5002 and HB5008, isolated from Mine Hot Spring in Japan. Microbiology Resource Announcements 10(16):e00272-21
  • Miyazaki K, Moriya T, Nemoto N, Oshima T, Yura K, Bessho Y (2021) Complete genome sequence of Thermus thermophilus strain HB5018, isolated from Mine Hot Spring in Japan. Microbiology Resource Announcements 10(10):e00039-21
  • Miyazaki K, Suenaga H, Oshiki M, Kawano S, Fukushima T (2021) Complete genome sequence of Thiohalobacter sp. strain COW1, isolated from activated sludge treating coke oven wastewater. Microbiol Resour Announc 10(7):e00013-21
  • Wolter L, Suenami S, Miyazaki R. Frischella japonica sp. nov., an anaerobic member of the Orbales in the Gammaproteobacteria, isolated from the gut of the eastern honey bee, Apis cerana japonica Fabricius. 2021. Int J Syst Evol Microbiol. 71(3):004712. doi: 10.1099/ijsem.0.004712.
  • 宮崎 健太郎(2021)「リボソーム改変による好熱菌の低温適応進化」アグリバイオ 5(10):95-100 (北隆館)
  • 宮崎 健太郎(2021)「リボソーム改変による好熱菌の低温適応進化」細胞 53(4):49-53 (北隆館)


  • Umemura M, Kuriiwa K, Tamano K, Kawarabayasi Y (2020) Ustiloxin Biosynthetic Machinery Is Not Compatible between Aspergillus flavus and Ustilaginoidea virens. Fungal Genet Biol 143:103434
  • Umemura M (2020) Peptides derived from Kex2‑processed repeat proteins are widely distributed and highly diverse in the fungi kingdom. Fungal Biol Biotechnol 7:11
  • Miyazaki K, Wiseschart A, Pootanakit K, Kitahara K (2020) Complete genome sequence of Vibrio rotiferianus strain AM7. Microbiol Resour Announc 9(21):e01591-19
  • Miyazaki K, Hase E, Tokito N (2020) Complete genome sequence of Geobacillus sp. strain E55-1, isolated from Mine Geyser in Japan. Microbiol Resour Announc 9:e00339-20
  • Reddy GK, Leferink NGH, Umemura M, Ahmed ST, Breitling R, Scrutton NS, Takano E (2020) Exploring novel bacterial terpene synthases. PLoS One 15(4):e0232220
  • Yoshimura Y, Nagashima I, Yokoe T, Kishimoto T, Shimizu H, Chiba Y (2020) A New Strategy for the Chemoenzymatic Synthesis of Glycopeptides by De-O-acetylation With an Esterase and Glycosylations With Glycosyltransferases. Carbohydr Res 492:108023
  • Miyazaki K, Hase E, Maruya T (2020) Complete genome sequence of Pseudomonas otitidis strain MrB4, isolated from Lake Biwa in Japan. Microbiol Resour Announc 9(16):e00148-20
  • Miyazaki K, Hase E, Maruya T (2020) Complete genome sequence of Bacillus cereus strain PL1, isolated from soil in Japan. Microbiol Resour Announc 9(12):e00195-20
  • Tomariguchi N, Miyazaki K (2020) Complete genome sequences of Rhodothermus marinus strains AA2-13 and AA3-38, isolated from Arima Onsen hot spring in Japan. Microbiol Resour Announc 9(2):e.01475-19
  • Umemura M, Kuriiwa K, Dao LV, Okuda T, Terai G (2020) Promoter tools for further development of Aspergillus oryzae as a platform for fungal secondary metabolite production. Fungal Biol Biotechnol 7:3
  • Kosakamoto H, Yamauchi T, Akuzawa-Tokita Y, Nishimura K, Soga T, Murakami T, Mori H, Yamamoto K, Miyazaki R, Koto A, Miura M, Obata F. Local Necrotic Cells Trigger Systemic Immune Activation via Gut Microbiome Dysbiosis in Drosophila. 2020. Cell Rep. 32(3):107938. doi:10.1016/j.celrep.2020.107938.
  • Ellegaard KM, Suenami S, Miyazaki R, Engel P. Vast Differences in Strain-Level Diversity in the Gut Microbiota of Two Closely Related Honey Bee Species. 2020. Curr Biol. 30(13):2520-2531. doi:10.1016/j.cub.2020.04.070.
  • Ellegaard KM, Suenami S, Miyazaki R, Engel P. Vast differences in strain-level diversity in the gut microbiota of two closely related honey bee species. 2020. bioRxiv. doi:10.1101/2020.01.23.916296.
  • Koto A, Nobu MK, Miyazaki R. Deep Sequencing Uncovers Caste-Associated Diversity of Symbionts in the Social Ant Camponotus japonicus. 2020. mBio. 11(2):e00408-20. doi:10.1128/mBio.00408-20.
  • 清水 弘樹“マイクロ波酵素反応の作用機序を解き明かす”, 化学と工業, 73(3), 236-237 (2020)


  • Miyazaki K, Izumi K (2019) Complete genome sequence of Alteromonas sp. strain I4, isolated from the Japan sea. Microbiol Resour Announc 8(47):e01277-19
  • Yu H, Taniguchi M, Uesaka K., Wiseschart A, Pootanakit K, Nishitani Y, Murakami Y, Ishimori K, Miyazaki K, Kitahara K (2019) Complete genome sequence of Staphylococcus arlettae strain P2 isolated from laboratory environment. Microbiol Resour Announc 8(45):e00696-19
  • Yoshimura Y, Denda-Nagai K, Takahashi Y, Nagashima I, Shimizu H, Kishimoto T, Noji M, Shichino S, Chiba Y, Irimura T (2019) Products of Chemoenzymatic Synthesis Representing MUC1 Tandem Repeat Unit With T-, ST- Or STn-antigen Revealed Distinct Specificities of Anti-MUC1 Antibodies. Sci Rep 9(1):16641
  • Tamano K, Kuninaga M, Kojima N, Umemura M, Machida M, Koike H (2019) Use of the kojA promoter, involved in kojic acid biosynthesis, for polyketide production in Aspergillus oryzae: implications for long-term production. BMC Biotechnol. 19(1):709
  • Miyazaki K (2019) Complete genome sequencing of Thermus thermophilus strain HC11, isolated from Mine geyser in Japan. Microbiol Resour Announc 8(39):e00873-19
  • Zhang Y, Minagawa Y, Kizoe H, Miyazaki K, Iino R, Ueno H, Tabata KV, Shimane Y, Noji H (2019) Accurate high-throughput screening based on digital protein synthesis in a massively parallel femtoliter droplet array. Sci Adv 5(8): eaav8185
  • Miyazaki K, Tomariguchi N (2019) Occurrence of randomly recombined functional 16S rRNA genes in Thermus thermophilus suggests genetic interoperability and promiscuity of bacterial 16S rRNAs. Sci Rep 9:11233.
  • Tomariguchi N, Miyazaki K (2019) Complete genome sequence of Rubrobacter xylanophilus strain AA3-22, isolated from Arima Onsen hot spring in Japan. Microbiol Resour Announc 8(34):e00818-19
  • Miyazaki K, Tomariguchi N (2019) Complete genome sequences of Thermus thermophilus strains AA2-20 and AA2-29, isolated from Arima Onsen in Japan. Microbiol Resour Announc 8(31):e00820-19
  • Falconer, AMD; Chan, CM; Gray, J; Nagashima, I; Holland, RA; Shimizu, H; Pickford, AR; Rowan, AD; Wilkinson, DJ.(2019)Collagenolytic matrix metalloproteinases antagonise proteinase-activated receptor-2 activation, providing insights into extracellular matrix turnover. J Biol Chem 28;294(26):10266-10277
  • Yamasaki K, Kubota T, Yamasaki T, Nagashima I, Shimizu H, Terada RI, Nishigami H, Kang J, Tateno M, Tateno H.(2019)Structural basis for specific recognition of core fucosylation in N-glycans by Pholiota squarrosa lectin (PhoSL). Glycobiology 29(7):576-587
  • Takano S, Fukuda K, Koto A, Miyazaki R. A novel system of bacterial cell division arrest implicated in horizontal transmission of an integrative and conjugative element. 2019. PLoS Genet. 15(10):e1008445. doi:10.1371/journal.pgen.1008445.
  • Suenami S, Konishi Nobu M, Miyazaki R. Community analysis of gut microbiota in hornets, the largest eusocial wasps, Vespa mandarinia and V. simillima. 2019. Sci Rep. 9:9830. doi:10.1038/s41598-019-46388-1.
  • Takano S, Koto A, Miyazaki R. Dynamics of bacterial cell proliferation inhibited by specific proteins for effective horizontal transmission of the integrative and conjugative element ICEclc. 2019. bioRxiv. doi:10.1101/512285
  • 横江 孝之, 大木 裕太, 長島 生, 高橋 直之, 清水 弘樹* “低温マイクロ波利用が切り開いた糖ペプチド合成の汎用化”, 日本電磁波エネルギー応用学会論文誌, Vol3, 32-39 (2019)
  • 宮崎 健太郎(2019)「進化分子工学: 進化によるものづくり」(2018年ノーベル化学賞解説論文)じっきょう理科資料 85:1-5(実教出版)
  • 宮崎 健太郎(2019)「進化分子工学: 分子設計ツールとしての進化」(2018年ノーベル化学賞解説論文)科学2月号 1038:142-147(岩波書店)


  • Ye Y, Ozaki T, Umemura M, Liu C, Minami A, Oikawa H (2018) Heterologous production of asperipin-2a: proposal for sequential oxidative macrocyclization by a fungi-specific DUF3328 oxidase. Org Biomol Chem. 2018 Dec 19;17(1):39-43. doi: 10.1039/c8ob02824a.
  • Honda Y, Nakano S, Ito S, Dadashipour M, Zhang Z, Kawarabayasi Y (2018) Improvement of ST0452 N-Acetylglucosamine-1-Phosphate Uridyltransferase Activity by the Cooperative Effect of Two Single Mutations Identified through Structure-Based Protein Engineering. Appl Environ Microbiol 84(24). oi: 10.1128/AEM.02213-18
  • Miyazaki K (2018) Molecular engineering of the salicylate-inducible transcription factor Sal7AR for orthogonal and high gene expression in Escherichia coli. PLoS One 13(4):e0194090
  • Kitahara K, Miyazaki K (2018) Constructing mutant ribosomes containing mutant ribosomal RNAs. in Applied RNA Bioscience (eds. Masuda S and Izawa S, Springer) doi:10.1007/978-981-10-8372-3_2
  • Miyazaki K, Kitahara K (2018) Functional metagenomic approach to identify overlooked antibiotic resistance mutations in bacterial rRNA. Sci Rep 8:5179
  • Dadashipour M, Iwamoto M, Hossain MM, Akutsu JI, Zhang Z, Kawarabayasi Y (2018) Identification of direct biosynthetic pathway for UDP-N-acetylgalactosamine from glucosamine-6-phosphate in a thermophilic Crenarchaeon, Sulfolobus tokodaii. J Bacteriol 24;200(10):e00048-18
  • Suenami S, Miyazaki R, Kubo T. Detection of Phospholipase C Activity in the Brain Homogenate from the Honeybee. 2018. J Vis Exp. 139. doi:10.3791/58173
  • Miyazaki R, Yano H, Sentchilo V, van der Meer JR. Physiological and transcriptome changes induced by Pseudomonas putida acquisition of an integrative and conjugative element. 2018. Sci Rep. 8:5550.
  • 長島 生, 清水 弘樹(2018)「マイクロ波を利用したペプチド・糖ペプチド固相合成」 化学と生物 56(12):811-818.
  • 宮崎 健太郎(2018)「進化分子工学: 進化によるものづくり」(2018年ノーベル化学賞解説論文)現代化学 12月号 573:21-25(東京化学同人)


  • Sato M, Miyazaki K (2017) Phylogenetic network analysis revealed the occurrence of horizontal gene transfer of 16S rRNA in the genus Enterobacter. Front Microbiol 8:2225
  • Tsukuda M, Kitahara K, Miyazaki K (2017) Comparative RNA function analysis reveals high functional similarity between distantly related bacterial 16 S rRNAs. Sci Rep 7: 9993
  • Tamano K, Miura A, Koike H, Kamisaka Y, Umemura M, Machida M (2017) High-efficiency extracellular release of free fatty acids from Aspergillus oryzae using non-ionic surfactants. J Biotechnol 248:9-14
  • Miyazaki K, Sato M, Tsukuda M (2017) PCR primer design for 16S rRNAs for experimental horizontal gene transfer test in Escherichia coli. Front Bioeng Biotechnol 5:14
  • Delavat F, Miyazaki R, Carraro N, Pradervand N, van der Meer JR. The hidden life of integrative and conjugative elements. 2017. FEMS Microbiol Rev. 41(4):512-537.


  • Honda Y, Zang Q, Shimizu Y, Dadashipour M, Zhang Z, Kawarabayasi Y (2016) Increasing the thermostable sugar-1-phosphate nucleotidylyltransferase activities of archaeal ST0452 protein through site-saturation mutagenesis of the 97th amino acid position. Appl Environ Microbiol. doi: 10.1128/AEM.02291-16
  • Kamisaka Y, Kimura K, Uemura H, Ledesma-Amaro R (2016) Modulation of gluconeogenesis and lipid production in an engineered oleaginous Saccharomyces cerevisiae transformant. Appl Microbiol Biotechnol 100(18):8147-8157
  • Baweja M, Nain L, Kawarabayasi Y, Shukla P (2016) Current Technological Improvements in Enzymes toward Their Biotechnological Applications. Front Microbiol 16;7:965.
  • Hirano T, Tanidokoro K, Shimizu Y, Kawarabayasi Y, Ohshima T, Sato M, Tadano S, Ishikawa H, Takio S, Takechi K, Takano H (2016) Moss Chloroplasts Are Surrounded by a Peptidoglycan Wall Containing D-Amino Acids. Plant Cell 28(7):1521-32.
  • Roulling F, Godin A, Cipolla A, Collins T, Miyazaki K, Feller G (2016) Activity-stability relationships revisited in blue oxidases catalyzing electron transfer at extreme temperatures. Extremophiles 20(5):621-629
  • Wherland S, Miyazaki K, Pecht I (2016) Intramolecular Electron Transfer in the Bacterial Two-Domain Multicopper Oxidase mgLAC. Biochemistry 55(21):2960-2966.
  • Matsuzawa T, Jo T, Uchiyama T, Manninen JA, Arakawa T, Miyazaki K, Fushinobu S, Yaoi K (2016) Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity, and transglycosylation activity of metagenomic β-glucosidase Td2F2. FEBS J. doi: 10.1111/febs.13743.
  • Yamagami T, Matsukawa H, Tsunekawa S, Kawarabayasi Y, Ishino S, Ishino Y (2016) A longer finger-subdomain of family A DNA polymerases found by metagenomic analysis strengthens DNA binding and primer extension abilities. Gene 576:690-695.


  • Uchiyama T, Yaoi K and Miyazaki K (2015) Glucose-tolerant β-glucosidase retrieved from a Kusaya gravy metagenome. Front Microbiol 6:548. doi: 10.3389/fmicb.2015.00548.
  • Tsukuda M, Nakashima N, Miyazaki K (2015) Counterselection method based on conditional silencing of antitoxin genes in Escherichia coli. J Biosci Bioeng 120(5):591-595.
  • Miyazaki K (2015) Molecular engineering of a PheS counterselection marker for improved operating efficiency in Escherichia coli. Biotechniques 58(2):86-88.
  • Kamisaka Y, Kimura K, Uemura H, Yamaoka M (2015) Addition of methionine and low cultivation temperatures increase palmitoleic acid production by engineered Saccharomyces cerevisiae. Appl Microbiol Biotechnol 99(1):201-210.
  • Ueda T, Ishino S, Suematsu K, Nakashima T, Kakuta Y, Kawarabayasi Y, Ishino Y, Kimura M (2015) Mutation of the gene encoding the ribonuclease P RNA in the hyperthermophilic archaeon Thermococcus kodakarensis causes decreased growth rate and impaired processing of tRNA precursors. Biochem Biophys Res Commun 468(4):660-5.
  • Akutsu J, Zhang Z, Morita R, Kawarabayasi Y (2015) Identification and characterization of a thermostable bifunctional enzyme with phosphomannose isomerase and sugar-1-phosphate nucleotidylyltransferase activities from a hyperthermophilic archaeon, Pyrococcus horikoshii OT3. Extremophiles 19(6):1077-85.
  • Bertelli C, Aeby S, Chassot B, Clulow J, Hilfiker O, Rappo S, Ritzmann S, Schumacher P, Terrettaz C, Benaglio P, Falquet L, Farinelli L, Gharib WH, Goesmann A, Harshman K, Linke B, Miyazaki R, Rivolta C, Robinson-Rechavi M, van der Meer JR, Greub G. Sequencing and characterizing the genome of Estrella lausannensis as an undergraduate project: training students and biological insights. 2015. Front Microbiol. 6:101.
  • Miyazaki R, Bertelli C, Benaglio P, Canton J, De Coi N, Gharib WH, Gjoksi B, Goesmann A, Greub G, Harshman K, Linke B, Mikulic J, Mueller L, Nicolas D, Robinson-Rechavi M, Rivolta C, Roggo C, Roy S, Sentchilo V, Siebenthal AV, Falquet L, van der Meer JR. Comparative genome analysis of Pseudomonas knackmussii B13, the first bacterium known to degrade chloroaromatic compounds. 2015. Environ Microbiol. 17(1):91-104.


  • Kimura K, Kamisaka Y, Uemura H, Yamaoka M (2014) Increase in stearidonic acid by increasing the supply of histidine to oleaginous Saccharomyces cerevisiae. J Biosci Bioeng 117(1):53-56.
  • Suenaga H, Mizuta S, Miyazaki K, Yaoi K (2014) Diversity of extradiol dioxygenases in aromatic-degrading microbial community explored using both culture-dependent and culture-independent approaches. FEMS Microbiol Ecol 90(2):367-379.
  • Komori H, Sugiyama R, Kataoka K, Miyazaki K, Higuchi Y, Sakurai T (2014) New insights into the catalytic active-site structure of multicopper oxidases. Acta Crystallogr Sect D 70(3):772-779.
  • Nakashima N, Miyazaki K (2014) Bacterial cellular engineering by genome editing and gene silencing. Int J Mol Sci 15(2):2773-2793.
  • Miyazaki K (2014) Extradiol dioxygenases retrieved from the metagenome. in Nelson K. (Ed.) Encyclopedia of Metagenomics: Springer Reference (www.springerreference.com). Springer-Verlag Berlin Heidelberg, 2013. DOI: 10.1007/SpringerReference_364978 2014-01-07 17:15:16 UTC
  • Miyazaki K (2014) Diversity and evolution of aromatic degradation pathway enzymes in an activated sludge. Biodegradative bacteria-How bacteria degrade, survive, adapt, and evolve (Nojiri, H.; Tsuda, M.; Fukuda, M.; Kamagata, Y. Eds.), Chapter 12 (pp 249-264) (Springer Japan), 10.1007/978-4-431-54520-0_12
  • Hiraguri Y, Aiba S (2014) Synthesis and radical polymerization of bio-based new cyclic ketene acetal, 2-Methylene-4-methyl-1,3-dioxepane.J Macromol Sci Part A, Pure and Applied Chemistry, 51(7):582-588.
  • Watanabe N, Masubuchi D, Itoh M, Teradu S, Yazawa H, Uemura H (2014) Oral administration of whole dihomo-g-linolenic acid-producing Saccharomyces cerevisiae suppresses cutaneous inflammatory responses induced by croton oil application in mice. Appl Microbiol Biotechol 98(20):8697-8706.
  • Yazawa H, Ogiso M, Kumagai H, Uemura H (2014) Suppression of ricinoleic acid toxicity by ptl2 overexpression in fission yeast Schizosaccharomyces pombe. Appl Microbiol Biotechol 98(22):9325-9337.
  • Pradervand N, Delavat F, Sulser S, Miyazaki R, van der Meer JR. The TetR-type MfsR protein of the integrative and conjugative element (ICE) ICEclc controls both a putative efflux system and initiation of ICE transfer. 2014. J Bacteriol. 196(22):3971-3979.
  • Pradervand N, Sulser S, Delavat F, Miyazaki R, Lamas I, van der Meer JR. An operon of three transcriptional regulators controls horizontal gene transfer of the integrative and conjugative element ICEclc in Pseudomonas knackmussii B13. 2014. PLoS Genet. 10(6):e1004441.
  • 宮崎 健太郎(2014)「Ribosomal RNAの人工水平伝播による大腸菌宿主デザイン」生物工学会誌 92(11):607-611.
  • 宮崎 健太郎(2014)「リボソーム改変による大腸菌宿主デザイン」環境バイオテクノロジー学会誌 14(1):3-8.
  • 佐藤 允治(2014)「水平伝播による腸内細菌目16S rRNAの進化」日本ゲノム微生物学会 ニュースレター 9:9.
  • 宮崎 健太郎, 佃 美雪, 佐藤 允治(2014)「16S rRNA遺伝子の「水平伝播」― 異種16S rRNAによる遺伝的相補」化学と生物 52(2):70-72.


  • Tsujimura S, Asahi M, Goda-Tsutsumi M, Shirai O, Kano K, Miyazaki K (2013) Direct electron transfer of a metagenome-derived laccase fused to affinity tags near the electroactive copper site. Phys Chem Chem Phys 15(47):20585-20589.
  • Uchiyama T, Miyazaki K (2013) Metagenomic screening for aromatic compound-responsive transcriptional regulators. PLoS One 8(9):e75795.
  • Tsukuda M, Miyazaki K (2013) Directed evolution study unveiling key sequence factors that affect translation efficiency in Escherichia coli. J Biosci Bioeng 116(5):540-545.
  • Tsukuda M, Miyazaki K (2013) DNA fragmentation caused by an overdose of Zeocin. J Biosci Bioeng 116(5):644-646.
  • Uchiyama T, Miyazaki K, Yaoi K (2013) Characterization of a novel β-glucosidase from a compost microbial metagenome with strong transglycosylation activity. J Biol Chem 288(25):18325-18334.
  • Engel K, Ashby D, Brady SF, Cowan DA, Doemer J, Edwards EA, Fiebig K, Martens EC, McCormac D, Mead DA, Miyazaki K, Moreno-Hagelsieb G, O’Gara F, Reid A, Rose DR, Simonet P, Sjöling S, Smalla K, Streit WR, Tedman-Jones J, Valla S, Wellington EMH, Wu C-C, Liles MR, Neufeld JD, Sessitsch A, Charles TC (2013) Meeting Report: 1st International Functional Metagenomics Workshop May 7–8, 2012, St. Jacobs, Ontario, Canada. Stand Genomic Sci 8(1):106-111
  • Kitahara K, Miyazaki K (2013) Revisiting bacterial phylogeny: Natural and experimental evidence for horizontal gene transfer of 16S rRNA. Mob Genet Elements 3(1):e24210.
  • Verma D, Kawarabayasi Y, Miyazaki K, Satyanarayana T (2013) Cloning, expression and characteristics of a novel alkalistable and thermostable xylanase encoding gene (mxyl) retrieved from compost-soil metagenome. PLoS One 8(1):e52459.
  • Yazawa H, Kumagai H, Uemura H (2013) Secretory production of ricinoleic acid in fission yeast Schizosaccharomyces pombe. Appl Microbiol Biotech 97(19):8663-8671.
  • Yazawa H, Kumagai H, Uemura H (2013) Toxicity of ricinoleic acid production in fission yeast Schizosaccharomyces pombe is suppressed by the overexpression of plg7, phospholipase A2 of a platelet-activating factor (PAF) family homolog. Appl Microbiol Biotech 97(18):8193-8203.
  • Kamisaka Y, Kimura K, Uemura H, Yamaoka M (2013) Overexpression of the active diacylglycerol acyltransferase variant transforms Saccharomyces cerevisiae into an oleaginous yeast. Appl Microbiol Biotech 97(16):7345-7355.
  • Inoue K, Miyazaki R, Ohtsubo Y, Nagata Y, Tsuda M. Inhibitory effect of Pseudomonas putida nitrogen-related phosphotransferase system on conjugative transfer of IncP-9 plasmid from Escherichia coli. 2013. FEMS Microbiol Lett. 345(2):102-109.
  • Miyazaki R, van der Meer JR. A new large-DNA-fragment delivery system based on integrase activity from an integrative and conjugative element. 2013. Appl Environ Microbiol. 79(14):4440-4447.
  • Sentchilo V, Mayer AP, Guy L, Miyazaki R, Green Tringe S, Barry K, Malfatti S, Goessmann A, Robinson-Rechavi M, van der Meer JR. Community-wide plasmid gene mobilization and selection. 2013. ISME J. 7(6):1173-1186.
  • Reinhard F#, Miyazaki R#, Pradervand N, van der Meer JR. Cell differentiation to “mating bodies” induced by an integrating and conjugative element in free-living bacteria. 2013. Curr Biol. 23(3):255-259. #These authors are co-first authors. Press coverage: “Horizontal Gene Transfer: Linking Sex and Cell Gate.” 2013. Curr Biol. 23(3):R118-119. Brigid M. Davis and Matthew K. Waldor.
  • 宮崎 健太郎(2013)「生物種を超えた16S rRNA遺伝子の機能相補性の解明」 進化分子工学 ~高速分子進化によるタンパク質・核酸の開発~(エヌ・ティー・エス)


  • Kitahara K, Yasutake Y, Miyazaki K (2012) Mutational robustness of 16S ribosomal RNA, shown by experimental horizontal gene transfer in Escherichia coli. Proc Natl Acad Sci USA 109(47):19220-19225.
  • Yaoi K, Miyazaki K (2012) Cloning and Expression of Isoprimeverose-producing oligoxyloglucan hydrolase from Actinomycetes Species, Oerskovia sp. Y1. J Appl Glycosci 59(2):83-88.
  • Im DH, Kimura K, Hayasaka F, Tanaka T, Noguchi M, Kobayashi A, Shoda S, Miyazaki K, Wakagi T, Fushinobu S (2012) Crystal structures of glycoside hydrolase family 51 α-L-arabinofuranosidase from Thermotoga maritima. Biosci Biotechnol Biochem 76(2):423-428.
  • Yazawa H, Kumagai H, Uemura H (2012) Characterization of triglyceride lipase genes of fission yeast Schizosaccharomyces pombe. Appl Microbiol Biotech 96(4):981-991.
  • Matsuzawa T, Hara F, Tohda H, Uemura H, Takegawa K (2012) Promotion of glycerol utilization using ethanol and 1-propanol in Schizosaccharomyces pombe. Appl Microbiol Biotech 95(2):441-449.
  • Holic R, Yazawa H, Kumagai H, Uemura H (2012) Engineered high content of ricinoleic acid in fission yeast Schizosaccharomyces pombe. Appl Microbiol Biotech 95(1):179-187.
  • Miyazaki R, Minoia M, Pradervand N, Sulser S, Reinhard F, van der Meer JR. Cellular variability of RpoS expression underlies subpopulation activation of an integrative and conjugative element. 2012. PLoS Genet. 8(7):e1002818.
  • Miyazaki R, Minoia M, Pradervand N, Sentchilo V, Sulser S, Reinhard F, van der Meer JR. The clc Element and Related Genomic Islands in Proteobacteria. 2012. Bacterial integrative mobile genetic elements. 261-272. Edited by Roberts AP, Mullany P, Eds. Landes Bioscience, Madame Curie Bioscience Database.
  • 宮崎 健太郎(2012)「進化分子工学の事始」生命システム工学 進化分子工学から進化生命工学へ(化学同人)
  • 宮崎 健太郎(2012)「遺伝子資源の多様化」生命システム工学 進化分子工学から進化生命工学へ(化学同人)
  • 宮崎 健太郎(2012)「リボソームに翻訳以外の機能がある ― リボヌクレアーゼ作用阻害」生体の科学 63(5):356-357.(医学書院)
  • 宮崎 健太郎(2012)「リボソームに翻訳以外の機能を発見: 16S rRNA ヘリックス41によるリボヌクレアーゼT2の阻害」, 産総研TODAY 12, 20.


  • Kitahara K, Miyazaki K (2011) Specific inhibition of bacterial RNase T2 by helix 41 of 16S ribosomal RNA. Nat Commun 2:549
  • Hosokawa-Okamoto R, Miyazaki K (2011) Escherichia coli host engineering for efficient metagenomic enzyme discovery. in “Metagenomics: Current Innovations and Future Trends” (ed. Diana Marco, pp. 241-252, Horizon Scientific Press)
  • Miyazaki K (2011) MEGAWHOP Cloning: A method of creating random mutagenesis libraries via megaprimer PCR of whole plasmids. in “Synthetic Biology: Methods for Building and Programming Life” Part B Volume 498:399-406. (Methods in Enzymology Series, ed. Chris Voigt, Elsevier)
  • Miyazaki K (2011) Novel aromatic degradation pathway genes and their organization as revealed by metagenomic analysis. in “Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats” (ed. Frans J. de Bruijn, pp. 439-450, Wiley-Blackwell)
  • Suenaga H, Miyazaki K (2011) Exploration of a microbial community for novel genetic resources using activity-based screening of a metagenomic library. in Metagenomics and its applications in agriculture, biomedicine and environmental studies (ed. Li RW, Nova Science Publishers, NY)
  • Yazawa H., Kamisaka Y, Kimura K, Yamaoka M, Uemura H (2011) Efficient accumulation of oleic acid in Saccharomyces cerevisiae caused by expression of rat elongase 2 gene (rELO2) and its contribution to tolerance to alcohols. Appl Microbiol Biotech 91(6):1593-1600.
  • Kamisaka Y, Goto R, Shibakami M, Yoshioka K, Sato Y (2011) Surface plasmon resonance analysis of interactions between diacylglycerol acyltransferase and its interacting factors. Biosci Biotech Biochem 75(6):1135-1139.
  • Miyazaki R, van der Meer JR. How can a dual oriT system contribute to efficient transfer of an integrative and conjugative element? 2011. Mob Genet Elements. 1(1):82-84.
  • Miyazaki R, van der Meer JR. A dual functional origin of transfer in the ICEclc genomic island of Pseudomonas knackmussii B13. 2011. Mol Microbiol. 79(3):743-758.
  • 宮崎 健太郎(2011)「メタゲノムからの有用酵素の探索」(特集: 新規有用酵素を探索せよ)バイオインダストリー 28(9):32-38.(シーエムシー出版)