Published Papers - SHINZATO Naoya

Combination of combined-culture of <i>Amycolatopsis</i> sp. with <i>Tsukamurella pulmonis</i> and GNPS molecular networking reveals novel sulfur-containing cyclic lipopeptides thioamycolamides F-I

Pan, CQ; Zhang, L; Kuranaga, T; Onaka, H; Shinzato, N; Kakeya, H

JOURNAL OF ANTIBIOTICS     2026.03 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Microbial distribution on sandstone with honeycomb weathering along rocky coasts in a subtropical environment

Takayuki Ogata, Naoya Shinzato, Hitoshi Matsubara

Terrestrial, Atmospheric and Oceanic Sciences ( Springer Nature )  37 ( 9 )   2026.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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A new pyranonaphthoquinone, actinoquinonal A, and its congeners from the combined-culture of <i>Streptomyces</i> sp. 23-50 and <i>Tsukamurella pulmonis </i>TP-B0596

Yanagisawa, K; Kaneko, K; Ikeda, H; Iwata, S; Muranaka, A; Koshino, H; Nagao, N; Watari, S; Nishimura, S; Shinzato, N; Onaka, H; Kakeya, H

JOURNAL OF ANTIBIOTICS ( Journal of Antibiotics )  78 ( 6 ) 350 - 358   2025.05 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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The combined-culture of actinomycetes with mycolic acid-containing bacteria (MACB) Tsukamurella pulmonis TP-B0596 is a promising strategy to produce cryptic metabolites in actinomycetes. In this study, Streptomyces sp. 23-50 was identified as an appropriate strain for co-culturing with T. pulmonis TP-B0596 using on-gel combined-culture screening of 160 strains of actinomycetes. A new pyranonaphthoquinone, actinoquinonal A (1), along with two known congeners, compound 2 and mevashuntin (3), were isolated from the combined-culture of Streptomyces sp. 23-50 with T. pulmonis TP-B0596 based on global natural product social (GNPS) molecular networking. The planar structures of 1-3 were elucidated by analyzing 2D nuclear magnetic resonance (NMR) and LC-MS/MS spectral data, and the absolute configurations of 1 and 3 were unambiguously determined by comparing experimental and calculated ECD spectra. Moreover, the combined-culture characteristic metabolites, including 3, were enhanced when Streptomyces sp. 23-50 was cultured in the presence of pravastatin, an inhibitor of 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase in the mevalonate pathway, suggesting that T. pulmonis TP-B0596 triggered a shunt in the mevalonate pathway of Streptomyces sp. 23-50. Notably, compounds 1 and 3 exhibited cytotoxicity against human cervical epithelioid carcinoma HeLa S3 (IC50 = 60.5 μM for 1, 0.67 μM for 3) and human colorectal cancer HT29 cells (IC50 = 101.9 μM for 1, 0.45 μM for 3).

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New antimalarial iromycin analogs produced by <i>Streptomyces</i> sp. RBL-0292

Kimura, SI; Watanabe, Y; Shibasaki, S; Shinzato, N; Inahashi, Y; Sunazuka, T; Hokari, R; Ishiyama, A; Iwatsuki, M

JOURNAL OF ANTIBIOTICS ( Journal of Antibiotics )  77 ( 5 ) 272 - 277   2024.03 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Two new antimalarial compounds, named prenylpyridones A (1) and B (2), were discovered from the actinomycete cultured material of Streptomyces sp. RBL-0292 isolated from the soil on Hamahiga Island in Okinawa prefecture. The structures of 1 and 2 were elucidated as new iromycin analogs having α-pyridone ring by MS and NMR analyses. Compounds 1 and 2 showed moderate in vitro antimalarial activity against chloroquine-sensitive and chloroquine-resistant Plasmodium falciparum strains, with IC50 values ranging from 80.7 to 106.7 µM.

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Precezomycin, a novel antibiotic biosynthetic precursor of cezomycin, from actinomycete <i>Kitasatospora putterlickiae</i> 10-13

Mao, D; Yu, PW; Shinzato, N; Zhang, L; Zheng, WP; Lu, S; Kakeya, H

JOURNAL OF ANTIBIOTICS ( Journal of Antibiotics )  77 ( 3 ) 182 - 184   2024.03 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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A novel antibiotic biosynthetic precursor of cezomycin, named precezomycin (1), was isolated from culture broth of actinomycete Kitasatospora putterlickiae 10-13. The planar structure was determined by 1D/2D NMR and HR(ESI)MS data analyses, and the absolute configurations were established by TDDFT calculation of ECD spectra. Precezomycin (1) exhibited moderate antibacterial activity against gram-positive bacteria including Staphylococcus aureus and Bacillus subtilis. The discovery of 1 extends the natural product family of cezomycin and provides a new insight into understanding the biosynthetic process of these polyether ionophore metabolites.

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Effect of Bagasse on the Activity of Alkane-Degrading Bacteria Isolated from Waste Oil

SARAYAMA Kae, FUJII Yuta, HINO Ryota, ONISHI Kenji, NISHIKAWA Naohito, OGATA Hiroki, HIROSE Kosaburo, SHINZATO Naoya, MATSUBARA Hitoshi

Journal of the Society of Materials Science, Japan ( The Society of Materials Science, Japan )  73 ( 1 ) 58 - 63   2024.01 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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<p>This study investigates the effects of bagasse addition on the activity of alkane-degrading bacteria derived from waste oil. Bagasse, a fibrous residue of sugarcane after juice extraction, has potential as a substrate for various microbial process. In this experiment, alkane-degrading bacteria were isolated from waste oil samples in Okinawa, Japan and their activity in tetracosane and triacontane, which are alkanes constituting machine oils, was evaluated in the presence of dried bagasse, bagasse ash, and carbonized bagasse. The results indicate that addition of dried bagasse and bagasse ash significantly enhances the activity of the bacteria, leading to improved alkane degradation of tetracosane and triacontane. The findings suggests that bagasse can serve as a promising co-substrate for enhancing the efficiency of microbial remediation of oil-contaminated environments.</p>

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Amoxetamide A, a new anoikis inducer, produced by combined-culture of Amycolatopsis sp. and Tsukamurella pulmonis

Pan, CQ; Ikeda, H; Minote, M; Tokuda, T; Kuranaga, T; Taniguchi, T; Shinzato, N; Onaka, H; Kakeya, H

JOURNAL OF ANTIBIOTICS ( Journal of Antibiotics )  77 ( 1 ) 66 - 70   2023.10 [ Peer Review Accepted ]

Type of publication: Research paper (other science council materials etc.)

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Cancer cells including colorectal cancer cells are resistant to anoikis, an anchorage-independent programmed death, which enables metastasis and subsequent survival in a new tumor microenvironment. In this study, we identified a new anoikis inducer, amoxetamide A (1) with a β-lactone moiety, that was produced by combined-culture of Amycolatopsis sp. 26-4 and mycolic acid-containing bacteria (MACB) Tsukamurella pulmonis TP-B0596. The structure of 1 including the stereochemistry of C8 was determined by MS and NMR spectroscopy and modified Mosher's method, and the absolute configurations of C11 and C12 were suggested as 11R and 12S, respectively, by GIAO NMR calculations. Amoxetamide A (1) exhibited anoikis-inducing activity in human colorectal cancer HT-29 cells in anchorage-independent culture conditions.

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Microbial symbiosis in anaerobic ciliates

Naoya Shinzato

The CELL   55 ( 6 ) 37 - 41   2023.05

Type of publication: Research paper (scientific journal)

Complete Genome Sequence of "<i>Candidatus</i> Hydrogeosomobacter endosymbioticus," an Intracellular Bacterial Symbiont of the Anaerobic Ciliate Scuticociliate GW7.

Shiohama Y, Takeshita K, Hirakata Y, Nobu MK, Ito M, Shinzato N

Microbiology resource announcements ( Microbiology Resource Announcements )  11 ( 2 ) e0115021   2022.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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The bacterium “ <italic>Candidatus</italic> Hydrogenosomobacter endosymbioticus” is an intracellular symbiont of anaerobic scuticociliate GW7, which is associated with hydrogenosome together with methanogenic archaea. Here, we report a complete genome sequence of the symbiont consisting of 827 kbp. Knowing this sequence would contribute to the understanding of the metabolic interactions and evolution of the tripartite symbiosis.

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Amycolapeptins A and B, Cyclic Nonadepsipeptides Produced by Combined-culture of <i>Amycolatopsis</i> sp. and <i>Tsukamurella pulmonis</i>.

Pan C, Kuranaga T, Cao X, Suzuki T, Dohmae N, Shinzato N, Onaka H, Kakeya H

The Journal of organic chemistry ( Journal of Organic Chemistry )  86 ( 2 ) 1843 - 1849   2021.01 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Two nonapeptide natural products, amycolapeptins A (1) and B (2) with a 22-membered cyclic depsipeptide skeleton, β-hydroxytyrosine, and a highly modified side chain, which were not produced in a monoculture of the rare actinomycete Amycolatopsis sp. 26-4, were discovered in broth of its combined-culture with Tsukamurella pulmonis TP-B0596. The planar structures were elucidated by spectroscopic analyses (extensive 2D-NMR and MALDI-TOF MS/MS). The absolute configurations of component amino acids were unambiguously determined by the highly sensitive advanced Marfey's method we recently developed. Additionally, the structures of unstable/unusual moieties were corroborated by chemical synthesis and CD analysis.

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Pseudoalteropeptide A, A Novel Lipopeptide from the Marine Bacterium Pseudoalteromonas piscicida SWA4_PA4 Isolated from Marine Seaweed

Reiko Ueoka, Naoya Shinzato, Noritaka Kagaya, Hikaru Suenaga, Kazuo Shin-ya

The Journal of Antibiotics   74   105 - 110   2020.10 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

Thioamycolamides A-E, Sulfur-Containing Cycliclipopeptides Produced by the Rare Actinomycete <i>Amycolatopsis</i> sp.

Pan C, Kuranaga T, Liu C, Lu S, Shinzato N, Kakeya H

Organic letters ( American Chemical Society (ACS) )  22 ( 8 ) 3014 - 3017   2020.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Development of 22 Microsatellite Markers for Assessing Hybridization in the Genus <i>Gekko</i> (Squamata: Gekkonidae)

OKAMOTO KOTA, KURITA TAKAKI, NAGANO MASAHIRO, SATO YUKUTO, AOYAMA HIROAKI, SAITOH SEIKOH, SHINZATO NAOYA, TODA MAMORU

Current herpetology ( 日本爬虫両棲類学会 )  39 ( 1 ) 66 - 74   2020.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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<p><i>Gekko yakuensis</i> and <i>G. tawaensis</i>, both endemic to western Japan, are threatened by genetic introgression from <i>G. hokouensis</i> and <i>G. japonicus</i>, respectively. To know detailed situation of their hybridizations for planning relevant conservation measures, development of sensitive genetic markers is desired. We here developed microsatellite markers based on the sequences obtained from <i>G. hokouensis</i> using 454 GS Junior sequencer, and tested stability of PCR amplification and species-specificity of alleles at each locus using <i>G. hokouensis</i>, <i>G. yakuensis</i>, <i>G. japonicus</i>, and <i>G. tawaensis</i>. The results showed that 22 loci were almost constantly amplified in more than one species. We further confirmed that there were fixed or nearly fixed allelic displacement between <i>G. hokouensis</i> and <i>G. yakuensis</i>, and between <i>G. japonicus</i> and <i>G. tawaensis</i> at 14 loci. Thus, these 22 loci are considered to be useful for evaluation of hybridizations between these pairs of species.</p>

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Discovery of Sulfur-Containing Cyclic lipopeptides Thioamycolamides A-E, Produced by the Rare Actinomycete <i>Amycolatopsis</i> sp.

Pan C., Kuranaga T., Liu C., Lu S., Shinzato N., Kakeya H.

Symposium on the Chemistry of Natural Products, symposium papers ( Symposium on the Chemistry of Natural Products Steering Committee )  62 ( 0 ) 229-234   2020 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Tripartite Symbiosis of an Anaerobic Scuticociliate with Two Hydrogenosome-Associated Endosymbionts, a <i>Holospora</i>-Related Alphaproteobacterium and a Methanogenic Archaeon.

Takeshita K, Yamada T, Kawahara Y, Narihiro T, Ito M, Kamagata Y, Shinzato N

Applied and environmental microbiology ( Applied and Environmental Microbiology )  85 ( 24 ) e00854-19   2019.12 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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<i>Streptomyces</i> Strain 5-94, Obtained from the Subtropical Region in Okinawa, has Inhibitory Activity against <i>Colletotrichum orbiculare</i>

UENO Makoto, TAMURA Tomoko, YANO Yuka, ITO Michihiro, SHINZATO Naoya

Tropical Agriculture and Development ( 日本熱帯農業学会 )  63 ( 4 ) 192 - 197   2019.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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<p>We previously reported on the construction of a microbial library isolated from soils in Okinawa (Okinawa Microbial Library, OML, http://omlus.jimdo.com/), including the Yaeyama Archipelago, and validated its phylogenetic diversity. In the present study, we report that strain 5-94, obtained from soil samples collected from Ikei Island, Okinawa Prefecture, Japan, produced inhibitory compounds against <i>Colletotrichum orbiculare</i>, the causal agent of anthracnose disease. Mycelial growth of <i>C. orbiculare</i> was inhibited by strain 5-94 in a dual culture assay. Additionally, the use of culture filtrates of this strain significantly suppressed the spore germination in <i>C. orbicular</i>. The sequence analysis of the 16S rDNA region indicated that strain 5-94 was similar to the <i>Streptomyces</i> species. Anthracnose disease caused by <i>C. orbiculare</i> was suppressed by the strain 5-94 culture filtrate in cucumber leaves pretreated for 3 and 7 d. Furthermore, growth inhibition zones of <i>C. orbicular</i> in the culture filtrate of this strain were detected by a thin layer chromatography. These results, therefore, suggested that inhibitory compounds from the culture filtrate of <i>Streptomyces</i> strain 5-94 might be a promising source for the development of new chemical fungicides to prevent anthracnose disease caused by <i>C. orbiculare</i>.</p>

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Microbial secondary metabolite induction of abnormal appressoria formation mediates control of rice blast disease caused by Magnaporthe oryzae

Tamura T, Shinzato N, Ito M, Ueno M

Journal of phytopathology   167 ( 3 ) 156 - 162   2019.01 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

Population Connectivity in the Common Reef Zoantharian Zoanthus sansibaricus (Anthozoa: Hexacorallia) in Southern Japan.

Albinsky D, Wham D, Shinzato N, Reimer JD

Zoological science ( Zoological Science )  35 ( 4 ) 321 - 329   2018.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Geochemical and Microbiological Evidence for Microbial Methane Production in Deep Aquifers of the Cretaceous Accretionary Prism.

Matsushita M, Magara K, Sato Y, Shinzato N, Kimura H

Microbes and environments   33 ( 2 ) 205 - 213   2018.07 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Accretionary prisms are thick layers of sedimentary material piled up at convergent plate boundaries. Large amounts of anaerobic groundwater and methane (CH4) are contained in the deep aquifers associated with accretionary prisms. In order to identify microbial activity and CH4 production processes in the deep aquifers associated with the Cretaceous accretionary prism in Okinawa Island, Japan, we performed geochemical and microbiological studies using anaerobic groundwater and natural gas (mainly CH4) samples collected through four deep wells. Chemical and stable hydrogen and oxygen isotope analyses of groundwater samples indicated that the groundwater samples obtained from each site originated from ancient seawater and a mixture of rainwater and seawater, respectively. Additionally, the chemical and stable carbon isotopic signatures of groundwater and natural gas samples suggested that CH4 in the natural gas samples was of a biogenic origin or a mixture of biogenic and thermogenic origins. Microscopic observations and a 16S rRNA gene analysis targeting microbial communities in groundwater samples revealed the predominance of dihydrogen (H2)-producing fermentative bacteria and H2-utilizing methanogenic archaea. Moreover, anaerobic cultures using groundwater samples suggested a high potential for CH4 production by a syntrophic consortium of H2-producing fermentative bacteria and H2-utilizing methanogenic archaea through the biodegradation of organic substrates. Collectively, our geochemical and microbiological data support the conclusion that the ongoing biodegradation of organic matter widely contributes to CH4 production in the deep aquifers associated with the Cretaceous accretionary prism.

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Biotransformation of dibenzothiophene by resting cells of a newly isolated Serratia marscens sp. strain originated from industrial wastewater

El-Bassi L, Ouertani RN, Shinzato N, Ghrabi A

Journal of bioremediation and biodegradation   9 ( 3 ) 439   2018.05 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

Genome Sequence of Lactobacillus paracasei Strain LC-Ikematsu, Isolated from a Pineapple in Okinawa, Japan.

Tada I, Saitoh S, Aoyama H, Shinzato N, Yamamoto N, Arita M, Ikematsu S

Genome announcements ( American Society for Microbiology )  5 ( 5 )   2017.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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The draft genome sequence of Lactobacillus paracasei strain LCIkematsu, isolated from a pineapple in Okinawa, was determined. The total length of the 87 contigs was 3.08 Mb with a G+C content of 46.2% and 2,946 coding sequences. The genome analysis revealed its biosynthetic ability of 11 amino acids.

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Complete Genome Sequence of the Intracellular Bacterial Symbiont TC1 in the Anaerobic Ciliate Trimyema compressum.

Shinzato N, Aoyama H, Saitoh S, Nikoh N, Nakano K, Shimoji M, Shinzato M, Satou K, Teruya K, Hirano T, Yamada T, Nobu MK, Tamaki H, Shirai Y, Park S, Narihiro T, Liu WT, Kamagata Y

Genome announcements ( American Society for Microbiology )  4 ( 5 )   2016.09 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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A free-living ciliate, Trimyema compressum, found in anoxic freshwater environments harbors methanogenic archaea and a bacterial symbiont named TC1 in its cytoplasm. Here, we report the complete genome sequence of the TC1 symbiont, consisting of a 1.59-Mb chromosome and a 35.8-kb plasmid, which was determined using the PacBio RSII sequencer.

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Complete mitochondrial genome of <i>Cacospongia mycofijiensis</i> (Dictyoceratida: Demospongiae): the first report for the sponge family Thorectidae.

Aoyama H, Saitoh S, Park S, Shirai Y, Shinzato N

Mitochondrial DNA. Part B, Resources ( Mitochondrial DNA Part B: Resources )  1 ( 1 ) 477 - 478   2016.07 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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We sequenced a complete mitochondrial genome of the marine sponge, Cacospongia mycofijiensis, which is the first report for the family Thorectidae in the class Demospongiae. The mitogenome was obtained from a de novo assembly of shotgun genome sequencing using Illumina Miseq technology, which reconstructed a circular genome with 97 x of sequence coverage. The assembled mitochondrial genome consisting of 16,227 bp includes 14 protein-coding genes, 2 rRNAs and 2 tRNAs. This complete mitogenome sequence will be useful especially for the phylogenic studies of Demospongiae.

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A quantitative protocol for DNA metabarcoding of springtails (Collembola).

Saitoh S, Aoyama H, Fujii S, Sunagawa H, Nagahama H, Akutsu M, Shinzato N, Kaneko N, Nakamori T

Genome ( CANADIAN SCIENCE PUBLISHING, NRC RESEARCH PRESS )  59 ( 9 ) 705 - 23   2016.06 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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We developed a novel protocol with superior quantitative analysis results for DNA metabarcoding of Collembola, a major soil microarthropod order. Degenerate PCR primers were designed for conserved regions in the mitochondrial cytochrome c oxidase subunit I (mtCOI) and 16S ribosomal RNA (mt16S) genes based on published collembolan mitogenomes. The best primer pair was selected based on its ability to amplify each gene, irrespective of the species. DNA was extracted from 10 natural communities sampled in a temperate forest (with typically 25-30 collembolan species per 10 soil samples) and 10 mock communities (with seven cultured collembolan species). The two gene regions were then amplified using the selected primers, ligated with adapters for 454 technology, and sequenced. Examination of the natural community samples showed that 32 and 36 operational taxonomic units (defined at a 90% sequence similarity threshold) were recovered from the mtCOI and mt16S data, respectively, which were comparable to the results of the microscopic identification of 25 morphospecies. Further, sequence abundances for each collembolan species from the mtCOI and mt16S data of the mock communities, after normalization by using a species as the internal control, showed good correlation with the number of individuals in the samples (R = 0.91-0.99), although relative species abundances within a mock community sample estimated from sequences were skewed from community composition in terms of the number of individuals or biomass of the species. Thus, this protocol enables the comparison of collembolan communities in a quantitative manner by metabarcoding.

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Antifungal activity of microbes obtained from subtropical region, Okinawa, against Magnaporthe oryzae

Ueno M, Quyet NT, Shinzato N, Matsui T

Tropical agriculture and development   60 ( 1 ) 48 - 52   2016.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

Metabolic pathways in the mixed segment of the wood-feeding termite Nasutitermes takasagoensis (Blattodea (Isoptera): Termitidae)

Rohitha P. Kumara, Seikoh Saitoh, Hiroaki Aoyama, Naoya Shinzato, Gaku Tokuda

APPLIED ENTOMOLOGY AND ZOOLOGY ( SPRINGER JAPAN KK )  51 ( 3 ) 429 - 440   2016.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Alimentary canals of higher termites are equipped with a complex structural segment consisting of mesenteric and proctodeal epithelial tissues, which is termed the mixed segment. To assess metabolic functions occurring in the mixed segment, Nasutitermes takasagoensis (Shiraki) transcriptomes were obtained from the mixed segment and adjacent gut regions (midgut and first proctodeal segment) and were annotated using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. The predominant metabolic function detected in the mixed segment was energy production via oxidative phosphorylation. As KEGG orthologs involved in lysosomal and phagosomal systems were also characteristic of this segment, cellular components are probably recycled rather than newly produced, allowing higher energy production. The predominant adenosine triphosphate (ATP) consumer in the mixed segment was vacuolar-type H+-ATPase (V-ATPase), known to be involved in K+ transport in many insects. Based on our data, V-ATPases appear to electrogenically drive NHE6 or NHE7 (NHE6/7) K+/H+ antiporters to stimulate K+ secretion, increasing gut lumen pH. The mixed segment also expressed higher levels than did the adjacent gut regions of carbonic anhydrase, another contributor to gut alkalization through HCO3 (-) production. Thus, metabolic pathways in the mixed segment might promote lignocellulose solubilization in higher termites' gut, contributing to their success.

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DNA metabarcoding of springtails (Collembola)

Seikoh Saitoh, Hiroaki Aoyama, Saori Fujii, Haruki Sunagawa, Hideki Nagahama, Masako Akutsu, Naoya Shinzato, Nobuhiro Kaneko, Taizo Nakamori

GENOME ( CANADIAN SCIENCE PUBLISHING, NRC RESEARCH PRESS )  58 ( 5 ) 274 - 274   2015.05 [ Peer Review Accepted ]

Type of publication: Research paper (international conference proceedings)

Predominant expression and activity of vacuolar H(+)-ATPases in the mixed segment of the wood-feeding termite Nasutitermes takasagoensis.

Kumara RP, Saitoh S, Aoyama H, Shinzato N, Tokuda G

Journal of insect physiology ( PERGAMON-ELSEVIER SCIENCE LTD )  78   1 - 8   2015.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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The mixed segment is a unique part of the gut present only in the most apical lineage of termites and consists of a complex of overlapping mesenteric and proctodeal epithelia. In spite of its unique structure, the physiological functions of the mixed segment have been poorly studied. We performed transcriptome analysis to identify functional enzymes acting in the mixed segment of the wood-feeding higher termite Nasutitermes takasagoensis. We sequenced the transcripts (4563 isotigs) of the mixed segment and compared them with those of the midgut (4813 isotigs) and the first proctodeal segment (3629 isotigs). We found that vacuolar H+-ATPase (V-ATPase) subunits were predominant in the mixed segment, which was confirmed by RT-qPCR analysis. The V-ATPase activity in these three tissues was in a good agreement with the expression patterns, suggesting that V-ATPase is a prevalent enzyme in the mixed segment of the termites. The results confirmed the proposed role of the mixed segment as a transporting epithelium. (C) 2015 Elsevier Ltd. All rights reserved.

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A rapid method of non-destructive DNA extraction from individual springtails (Collembola)

Hiroaki Aoyama, Seikoh Saitoh, Saori Fujii, Hideki Nagahama, Naoya Shinzato, Nobuhiro Kaneko, Taizo Nakamori

APPLIED ENTOMOLOGY AND ZOOLOGY ( SPRINGER JAPAN KK )  50 ( 3 ) 419 - 425   2015.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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In this study, we describe an easy and rapid method for non-destructive DNA extraction from a single Collembola individual, without dissection, lysis of the specimen, or purification of extracted DNA. We demonstrate that, after a single specimen has been heat-treated in Tris-EDTA (TE) buffer using a standard thermocycler, the solution can be used for PCR amplification of the mitochondrial cytochrome c oxidase subunit 1 (COI) gene region, typically used for DNA barcoding. With this method, the morphological features of Collembola commonly used for species identification are well preserved. This DNA extraction method is preferable for DNA barcoding where the sequencing and preservation of a large number of small and fragile specimens are required.

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Isolation and validation of eight microsatellite loci in a damselfly Ischnura senegalensis (Odonata: Coenagrionidae) by pyrosequencing a bead-enriched library

Takaki Kurita, Hiroaki Aoyama, Seikoh Saitoh, Naoya Shinzato, Kouji Sawada, Takashi Kuriwada, Kumiko Hironaka, Nobuyuki Inomata, Kazunori Yamahira, Mamoru Toda

Applied Entomology and Zoology ( Springer-Verlag Tokyo )  49 ( 4 ) 623 - 626   2014.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Development and characterization of 24 microsatellite markers in a eublepharid gecko, Goniurosaurus kuroiwae

Takaki Kurita, Hiroaki Aoyama, Seikoh Saitoh, Naoya Shinzato, Masanao Honda, Mamoru Toda

Conservation Genetics Resources   6 ( 1 ) 247 - 249   2013.10 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Degradation of oil tank sludge using long-chain alkane-degrading bacteria

Toru Matsui, Takahiro Yamamoto, Naoya Shinzato, Tsukasa Mitsuta, Kazuma Nakano, Tomoyuki Namihira

Annals of Microbiology ( BMC )  64 ( 1 ) 391 - 395   2013.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Genomic sequencing-based detection of large deletions in Rhodococcus rhodochrous strain B-276

Seikoh Saitoh, Hiroaki Aoyama, Masako Akutsu, Kazuma Nakano, Naoya Shinzato, Toru Matsui

Journal of Bioscience and Bioengineering   116 ( 3 ) 309 - 312   2013.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Antibiotics production by an actinomycete isolated from the termite gut

Toru Matsui, Junichi Tanaka, Tomoyuki Namihira, Naoya Shinzato

Journal of Basic Microbiology ( WILEY-BLACKWELL )  52 ( 6 ) 731 - 735   2012.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Comparative proteomic analysis of Methanothermobacter themautotrophicus ΔH in pure culture and in co-culture with a butyrate-oxidizing bacterium

Miho Enoki, Naoya Shinzato, Hiroaki Sato, Kohei Nakamura, Yoichi Kamagata

Miho Enoki, Naoya Shinzato, Hiroaki Sato, Kohei Nakamura, Yoichi Kamagata ( PLoS ONE )  6 ( 8 ) e24309   2011.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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The effect of nitrogen fertilization to the sward on guineagrass (Panicum maximum Jacq cv. Gatton) silage fermentation

Tomoyuki Namihira, Naoya Shinzato, Hikaru Akamine, Ichiro Nakamura, Hideaki Maekawa, Yasuhiro Kawamoto, Toru Matsui

Tomoyuki Namihira, Naoya Shinzato, Hikaru Akamine, Ichiro Nakamura, Hideaki Maekawa, Yasuhiro Kawamoto, Toru Matsui ( Asian Australasian Association of Animal Production Societies )  24 ( 3 ) 358 - 363   2011.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Isolation of salt stress tolerance genes from roots of mangrove plant, Rhizophora stylosa Griff., using PCR-based suppression subtractive hybridization

Mohammad Basyuni, Yuji Kinjo, Shigeyuki Baba, Naoya Shinzato, Hironori Iwasaki, Edy B. M. Siregar, Hirosuke Oku

Plant Molecular Biology Reporter ( Springer )  29   533 - 543   2010.10 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Optimized culture conditions for the efficient production of porcine adenylate kinase in recombinant Escherichia coli

Toru Matsui, Takashi Togari, Satoru Misawa, Tomoyuki Namihira, Naoya Shinzato, Hitoshi Matsuda, Seigo Sato

Applied Biochemistry and Biotechnology ( HUMANA PRESS INC )  162 ( 3 ) 823 - 829   2010.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Biodegradation of thiodiglycol, a hydrolyzate of the chemical weapon Yperite, by benzothiophene-desulfurizing bacteria

Leila El Bassi, Naoya Shinzato, Tomoyuki Namihira, Hirosuke Oku, Toru Matsui

Journal of Hazardous Materials ( ELSEVIER SCIENCE BV )  167 ( 1-3 ) 124 - 127   2009.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Biopreservation of refrigerated and vacuum-packed Dicentrarchus labrax by lactic acid bacteria

Leila El Bassi, Mnasser Hassouna, Naoya Shinzato, Toru Matsui

Journal of Food Science ( WILEY-BLACKWELL PUBLISHING, INC )  74 ( 6 ) M335 - M339   2009.07 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Stereospecific degradation of phenylsuccinate by actinomycetes

Toru Matsui, Katsuya Kato, Tomoyuki Namihira, Naoya Shinzato, Hisashi Semba

Chemosphere ( PERGAMON-ELSEVIER SCIENCE LTD )  76 ( 9 ) 1278 - 1282   2009.06 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Application of random amplified polymorphic DNA (RAPD) analysis coupled with microchip electrophoresis for high-resolution identification of Monascus strains

Naoya Shinzato, Tomoyuki Namihira, Yasutomo Tamaki, Masatoshi Tsukahara, Toru Matsui

Applied Microbiology and Biotechnology ( SPRINGER )  82 ( 6 ) 1187 - 1193   2009.03 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Shinella yambaruensis sp. nov., a 3-methyl-sulfolane-assimilating bacterium isolated from soil

Toru Matsui, Naoya Shinzato, Hideyuki Tamaki, Mizuho Muramatsu, Satoshi Hanada

International Journal of Systematic and Evolutionary Microbiology ( SOC GENERAL MICROBIOLOGY )  59 ( 3 ) 536 - 539   2009.03 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Red yeast rice fermentation by selected Monascus sp. with deep-red color, lovastatin production but no citrinin, and effect of temperature-shift cultivation on lovastatin production

Masatoshi Tsukahara, Naoya Shinzato, Yasutomo Tamaki, Tomoyuki Namihira, Toru Matsui

Applied Biochemistry and Biotechnology ( HUMANA PRESS INC )  158 ( 2 ) 476 - 482   2009.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Termites as Functional Gene Resources

Toru Matsui, Gaku Tokuda, Naoya Shinzato

Recent Patents on Biotechnology ( Bentham Science Publishers )  3 ( 1 ) 10 - 18   2009 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Specific DNA binding of a potential transcriptional regulator, inosine 5'-monophosphate dehydrogenase-related protein VII, to the promoter region of a methyl coenzyme m reductase I-encoding operon retrieved from Methanothermobacter thermautotrophicus strain ΔH

Naoya Shinzato, Miho Enoki, Hiroaki Sato, Kohei Nakamura, Toru Matsui, Yoichi Kamagata

Naoya Shinzato, Miho Enoki, Hiroaki Sato, Kohei Nakamura, Toru Matsui, Yoichi Kamagata ( AMER SOC MICROBIOLOGY )  74 ( 20 ) 6239 - 6247   2008.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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High cell density cultivation of recombinant E. coli for hirudin variant 1 production by temperature shift controlled by pUC18-based replicative origin

Toru Matsui, Hiroaki Sato, Hotaka Yamamuro, Naoya Shinzato, Hitoshi Matsuda, Satoru Misawa, Seigo Sato

Applied Microbiology and Biotechnology ( SPRINGER )  80 ( 5 ) 779 - 783   2008.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Phylogenetic analysis and fluorescence in situ hybridization detection of archaeal and bacterial endosymbionts in the anaerobic ciliate Trimyema compressum

Naoya Shinzato, Ichiro Watanabe, Xian-Ying Meng, Yuji Sekiguchi, Hideyuki Tamaki, Toru Matsui, Yoichi Kamagata

Microbial Ecology ( SPRINGER )  54 ( 4 ) 627 - 636   2007.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Phylogenetic analysis of the gut bacterial microflora of the fungus-growing termite Odontotermes formosanus

Naoya Shinzato, Mizuho Muramatsu, Toru Matsui, Yoshio Watanabe

Bioscience, Biotechnology, and Biochemistry ( TAYLOR & FRANCIS LTD )  71 ( 4 ) 906 - 915   2007.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Analysis of the 7.6-kb cryptic plasmid pNC500 from Rhodococcus rhodochrous B-276 and construction of Rhodococcus-E. coli shuttle vector

Toru Matsui, Hisashi Saeki, Naoya Shinzato, Hitoshi Matsuda

Applied Microbiology and Biotechnology ( SPRINGER )  74 ( 1 ) 169 - 175   2006.10 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Characterization of Rhodococcus-E. coli shuttle vector pNC9501 constructed from the cryptic plasmid of a propene-degrading bacterium

Toru Matsui, Hisashi Saeki, Naoya Shinzato, Hitoshi Matsuda

Current Microbiology ( SPRINGER )  52 ( 6 ) 445 - 448   2006.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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High cell density cultivation of recombinant E. coli with a pressurized culture

Toru Matsui, Naoya Shinzato, Haruto Yokota, Joji Takahashi, Seigo Sato

Process Biochemistry ( ELSEVIER SCI LTD )  41 ( 4 ) 920 - 924   2006.04 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Termite-regulated fungal monoculture in fungus combs of a macrotermitine termite Odontotermes formosanus

Naoya Shinzato, Mizuho Muramatsu, Yoshio Watanabe, Toru Matsui

Zoological Science ( ZOOLOGICAL SOC JAPAN )  22 ( 8 ) 917 - 922   2005.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Molecular phylogenetic diversity of the bacterial community in the gut of the termite Coptotermes formosanus

Naoya Shinzato, Mizuho Muramatsu, Toru Matsui, Yoshio Watanabe

Bioscience, Biotechnology, and Biochemistry ( TAYLOR & FRANCIS LTD )  69 ( 6 ) 1145 - 1155   2005.06 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Effect of fatty oil dispersion on oil-containing wastewater treatment

Toru Matsui, Akira Miura, Toshio Iiyama, Naoya Shinzato, Hitoshi Matsuda, Keizo Furuhashi

Journal of Hazardous Materials ( ELSEVIER SCIENCE BV )  118 ( 1-3 ) 255 - 258   2005.02 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Endosymbiotic Methanobrevibacter species Living in Symbiotic Protists of the Termite Reticulitermes speratus Detected by Fluorescent In Situ Hybridization

Kurt Hara, Naoya Shinzato, Tairo Oshima, Akihiko Yamagishi

Microbes and Environments ( Japanese Society of Microbial Ecology )  19 ( 2 ) 120 - 127   2004 [ Peer Review Accepted ]

Type of publication: Research paper (other science council materials etc.)

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Isolation of Actinomycetes from Termites' Guts

Yoshio Watanabe, Naoya Shinzato, Takema Fukatsu

Bioscience, Biotechnology, and Biochemistry ( TAYLOR & FRANCIS LTD )  67 ( 8 ) 1797 - 1801   2003.08 [ Peer Review Accepted ]

Type of publication: Research paper (scientific journal)

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Isolation and characterization of aromatic-degrading microorganisms from the gut of the lower termite Coptotermes formosanus.

K.Harazono, N.Yamashita, N.Shinzato, Y.Watanabe, T.Fukatsu, R.Kurane

Biosci. Biotech. Biochem ( その他の出版社 )  ( 67 ) 889 - 892   2003.03

Type of publication: Research paper (other science council materials etc.)

Phylogenetic analysis of symbiotic archaea living in the gut of xylophagous cockroaches.

K.Hara, N.Shinzato, M.Seo, T.Oshima, A.Yamagishi

Microb. Environ. ( その他の出版社 )  ( 17 ) 185 - 190   2002.03

Type of publication: Research paper (other science council materials etc.)

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Genetic variation of symbiotic fungi cultivated by the macrotermitine termite Odontotermes formosanus (Isoptera: Termitidae) in the Ryukyu Archipelago.

H.Katoh, T.Miura, K.Maekawa, N.Shinzato, T.Matsumoto

Mol. Ecol. ( その他の出版社 )  ( 11 ) 1565 - 1572   2002.03

Type of publication: Research paper (other science council materials etc.)

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Methanogenic symbionts and the locality of their host lower termites.

N.Shinzato, T.Matsumoto, I.Yamaoka, T.Oshima, A.Yamagishi

Microb. Environ. ( その他の出版社 )  ( 16 ) 43 - 47   2001.03

Type of publication: Research paper (other science council materials etc.)

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Phylogenetic Diversity of Symbiotic Methanogens Living in the Hindgut of the Lower Termite Reticulitermes speratus Analyzed by PCR and In Situ Hybridization

N.Shinzato, T.Matsumoto, I.Yamaoka, T.Oshima, A.Yamagishi

Environ. Microbiol ( その他の出版社 )  ( 65 ) 837 - 840   1999.03

Type of publication: Research paper (other science council materials etc.)