This set of notes on number theory was originally written in 1995 for students at the IMO level. It covers the basic background material that an IMO student should be familiar with. This text is...
Ishikawa, Masayuki, Fujiwara, Makoto, Sonoike, Kintake, Sato, Naoki
Chloroplasts are descendents of a cyanobacterial endosymbiont, but many chloroplast protein genes of endosymbiont origin are encoded by the nucleus. The chloroplast–cyanobacteria relationship is a...
Fujiwara, Makoto T., Sekine, Kohsuke, Yamamoto, Yoshiharu Y., Abe, Tomoko, Sato, Naoki, Itoh, Ryuuichi D.
Chloroplast division involves the tubulin-related GTPase FtsZ that assembles into a ring structure (Z-ring) at the mid-chloroplast division site, which is where invagination and constriction of the...
Gclust: trans-kingdom classification of proteins using automatic individual threshold setting (2009)
Motivation: Trans-kingdom protein clustering remained difficult because of large sequence divergence between eukaryotes and prokaryotes and the presence of a transit sequence in organellar proteins....
BIOINFORMATICS APPLICATIONS NOTE GenoMap, a circular genome data viewer (2008)
Summary: ATcl/Tk-based application called GenoMap is described, a viewer for genome-wide map of microarray expression data within a circular bacterial genome. An interactive interface facilitates...
Gclust Server: Phylogenetic Profiling with Pre-Defined Organism Sets (2008)
I describe a new type of comparative genomic database for phylogenetic profiling based on pre-calculated homologous protein groups. This methodology takes advantage of the fact that the proteins that...
For Identification Of, Naoki Sato
Introduction Use of whole genomic data in genome phylogeny is an alternative to the conventional sequence-based phylogeny. In sequence-based phylogeny, single-copy genes with well-defined orthologues...
Fujiwara, Makoto T., Hashimoto, Haruki, Kazama, Yusuke, Abe, Tomoko, Yoshida, Shigeo, Sato, Naoki, ...
Chloroplast division comprises a sequence of events that facilitate symmetric binary fission and that involve prokaryotic-like stromal division factors such as tubulin-like GTPase FtsZ and the...
Nozaki, Hisayoshi, Takano, Hiroyoshi, Misumi, Osami, Terasawa, Kimihiro, Matsuzaki, Motomichi, Maruyama, Shinichiro, ...
Abstract Background All previously reported eukaryotic nuclear genome sequences have been incomplete, especially in highly repeated units and chromosomal ends. Because repetitive DNA is important for...
Terasawa, Kimihiro, Odahara, Masaki, Kabeya, Yukihiro, Kikugawa, Tatsuhiko, Sekine, Yasuhiko, Fujiwara, Makoto, ...
The phylogenetic positions of bryophytes and charophytes, together with their genome features, are important for understanding early land plant evolution. Here we report the complete nucleotide...
Can We Omit Para-Aorta Lymph Node Dissection in Endometrial Cancer? (2006)
Tanaka, Hidenori, Sato, Hirokazu, Miura, Hiroshi, Sato, Naoki, Fujimoto, Toshio, Konishi, Yoshitomo, ...
Background: Patients with endometrial cancer can present with various complicating illnesses, including obesity, diabetes mellitus, hypertension and advanced aging. These patients are at high risk of...
Terasawa, Kimihiro, Odahara, Masaki, Kabeya, Yukihiro, Kikugawa, Tatsuhiko, Sekine, Yasuhiko, Fujiwara, Makoto, ...
The phylogenetic positions of bryophytes and charophytes, together with their genome features, are important for understanding early land plant evolution. Here we report the complete nucleotide...
Can We Omit Para-Aorta Lymph Node Dissection in Endometrial Cancer? (2006)
Tanaka, Hidenori, Sato, Hirokazu, Miura, Hiroshi, Sato, Naoki, Fujimoto, Toshio, Konishi, Yoshitomo, ...
Background: Patients with endometrial cancer can present with various complicating illnesses, including obesity, diabetes mellitus, hypertension and advanced aging. These patients are at high risk of...
Shigeki Ehira, Masayuki Ohmori, Naoki Sato
Most organisms have developed various strategies to react rapidly to temperature down-shift and regulate expression of various genes to acclimate to low temperature. In photosynthetic organisms,...
Visualization of Plastid Nucleoids in Situ Using the PEND-GFP Fusion Protein (2005)
Terasawa, Kimihiro, Sato, Naoki
Plastid DNA is a circular molecule of 120-150 kbp, which is organized into a protein-DNA complex called nucleoid. Although various plastids other than chloroplasts exist, such as etioplasts,...
Ehira, Shigeki, Ohmori, Masayuki, Sato, Naoki
Most organisms have developed various strategy to react rapidly to temperature downshift and regulate expression of various genes to acclimate to low temperature. In photosynthetic organisms,...
Visualization of Plastid Nucleoids In situ Using the PEND-GFP Fusion Protein (2005)
Terasawa, Kimihiro, Sato, Naoki
Plastid DNA is a circular molecule of 120–150 kbp, which is organized into a protein–DNA complex called a nucleoid. Although various plastids other than chloroplasts exist, such as etioplasts,...
Honda, Yoko, Tanikawa, Hideo, Fukuda, Jun, Kawamura, Kazuhiro, Sato, Naoki, Sato, Toshiharu, ...
Regulation of early embryonal development during fertilization and implantation is crucial for mammalian reproduction. Several studies have described cell death during preimplantation embryogenesis...
HCG up-regulates survivin mRNA in humangranulosa cells (2005)
Kumazawa, Yukiyo, Kawamura, Kazuhiro, Sato, Toshiharu, Sato, Naoki, Konishi, Yoshitomo, Shimizu, Yosushi, ...
The apoptosis of granulosa cells is involved in follicular atresia and degeneration of the corpus luteum. The mechanisms that regulate follicular atresia and luteal degeneration remain obscure....
HCG up-regulates survivin mRNA in human granulosa cells (2005)
Kumazawa, Yukiyo, Kawamura, Kazuhiro, Sato, Toshiharu, Sato, Naoki, Konishi, Yoshitomo, Shimizu, Yosushi, ...
The apoptosis of granulosa cells is involved in follicular atresia and degeneration of the corpus luteum. The mechanisms that regulate follicular atresia and luteal degeneration remain obscure....
Honda, Yoko, Tanikawa, Hideo, Fukuda, Jun, Kawamura, Kazuhiro, Sato, Naoki, Sato, Toshiharu, ...
Regulation of early embryonal development during fertilization and implantation is crucial for mammalian reproduction. Several studies have described cell death during preimplantation embryogenesis...
Ehira, Shigeki, Ohmori, Masayuki, Sato, Naoki
Most organisms have developed various strategies to react rapidly to temperature down-shift and regulate expression of various genes to acclimate to low temperature. In photosynthetic organisms,...
Visualization of Plastid Nucleoids in Situ Using the PEND-GFP Fusion Protein (2005)
Terasawa, Kimihiro, Sato, Naoki
Plastid DNA is a circular molecule of 120-150 kbp, which is organized into a protein-DNA complex called nucleoid. Although various plastids other than chloroplasts exist, such as etioplasts,...
Ehira, Shigeki, Ohmori, Masayuki, Sato, Naoki
Most organisms have developed various strategy to react rapidly to temperature downshift and regulate expression of various genes to acclimate to low temperature. In photosynthetic organisms,...
Nomata, Tsuyoshi, Kabeya, Yukihiro, Sato, Naoki
We isolated three cDNAs for the genes PpGRP1, PpGRP2 and PpGRP3 that encode glycine-rich RNA-binding proteins (GRPs) from Physcomitrella patens. Three full-length cDNA clones were isolated from a...
Ehira, Shigeki, Ohmori, Masayuki, Sato, Naoki
A heterocyst is a terminally differentiated cell of cyanobacteria which is specialized in dinitrogen fixation. Heterocyst differentiation in Anabaena sp. strain PCC 7120 is triggered by deprivation...
Kumagai, Akiko, Kodama, Hideya, Kumagai, Jin, Fukuda, Jun, Kawamura, Kazuhiro, Tanikawa, Hideo, ...
Apoptotic degeneration of germ cells in cryptorchid testis is associated with an increased level of reactive oxygen species, and may be prevented by antioxidant treatment. The objective of this study...
Kabeya, Yukihiro, Hashimoto, Kazuyoshi, Sato, Naoki
We isolated two cDNAs for the genes PpRPOT1 and PpRPOT2 that encode phage-type RNA polymerases (RPOTs) from Physcomitrella patens. Transcriptional activity of the encoded proteins was demonstrated by...
Yoshida, Hiroyuki, Tsutsumi, Kiyohiko, Sato, Naoki
Inverse photoemission spectroscopy (IPES) in the vacuum ultraviolet region was applied to directly observe behaviors of electron injection into unoccupied electronic states in perylene-3,4,9,10-...
Ohmori, Masayuki, Ikeuchi, Masahiko, Sato, Naoki, Wolk, Peter, Kaneko, Takakazu, Ogawa, Teruo, ...
Computational analysis of gene structures in the genome of Anabaena sp. PCC 7120 revealed the presence of a large number of genes encoding proteins with multiple functional domains. This was most...
The PEND protein is a DNA-binding protein in the inner envelope membrane of a developing chloroplast, which may anchor chloroplast nucleoids. Here we report the DNA-binding characteristics of the...
Sato, Naoki, Kawamoto, Ikuko, Sakuma, Taro, Yoshida, Hiroyuki
A molecular design towards a highly amphoteric and polar molecules (HAPM) to fabricate a novel molecular assembly with notable electronic properties is proposed. This design stresses the combination...
SISEQ: manipulation of multiple sequence and large database files for common platforms (2000)
Summary: A multiple sequence file converter for common platforms, SISEQ, is described, which performs extraction of DNA sequences that correspond to CDS or RNA field of a large database file as well...
Solid-state thermal isomerization reaction from methyl 4-(dimethylamino)benzenesulfonate to N,N,Ntrimethylbenzeneaminium- 4-sulfonate has been studied by X-ray diffraction and spectroscopic...
Sato, Naoki, Yoshida, Hiroyuki, Tsutsumi, Kiyohiko
Ultraviolet photoemission (PE) and inverse photoemission (IPE) spectra were measured for evaporated thin films of perylene-3,4,9,10-tetracarboxylic dianhydride (PTCDA) and...
Sato, Naoki, Wada, Akira, Tanaka, Ayumi
Ribosomal proteins from a cyanobacterium Anabaena variabilis were analyzed by two-dimensional gel electro-phoresis. We detected 21 protein spots of the small subunit and 29 protein spots of the large...
Valence electronic levels at the interfaces of a photovoltaic double-layered organic thin film prepared from N,N'- dimethylperylene-3,4,9,10-bis(dicarboximide) (DM-PBDCI) and chloroaluminum...
Molecular Mechanism of S-Modulin Action: Binding Target and Effect of ATP (1997)
S-Modulin is suggested to increase the light sensitivity of rods by inhibiting phosphoryla-tion of light-activated rhodopsin (Rh*) at high Ca2+ concentrations. The inhibition of rhodopsin...
Sato, Naoki, Maruyama, Kyonoshin
The RbpA3 protein of Anabaena variabilis contains one RNA-binding domain with a carboxy-terminal glycine-rich domain. Levels of two transcripts of the rbpA3 gene were differentially regulated by...
A cold-regulated operon, rbpA1-rpsU, encodes an RNA-binding protein and a ribosomal protein in Anabaena variabilis M3. The level of expression of this gene cluster was about ten times higher at...
Araki, Shigeru, Eichenberger, Waldemar, Sakurai, Takemaro, Sato, Naoki
Lipids were analyzed in thirteen species of brown algae collected at the seashore near Tokyo, Japan. Diacylglycerylhydroxymethyltrimethyl-β-alanine (DGTA), a recently identified betaine lipid, was...
Komeda, Yoshibumi, Yamashita, Hirofumi, Sato, Naoki, Tsukaya, Hirokazu, Naito, Satoshi
The 5′-upstream region (2.4 kb) of the gene for phytochrome I from Pisum sativum (phyl) was fused to the uidA gene from Escherichia coli that encodes β-glucuronidase (GUS). The resulting PHY-GUS...
Lipids in Cryptomonas CR-1. I. Occurrence of Betaine Lipids (1991)
Polar lipids of the cryptophyte Cryptomonas CR-1 were analyzed in detail. In addition to glycolipids and phospholipids, three Dragendorff-positive lipids were found. Two of these lipids were...
Lipids in Cryptomonas CR-1. II. Biosynthesis of Betaine Lipids and Galactolipids (1991)
The biosynthesis of lipids in Cryptomonas strain CR-1 was studied using radioactive tracers. For studies of general aspects of the biosynthesis of lipids, the cells were labelled with [14C]NaHCO3 or...
Characterization of Sulfoquinovosyl Diacylglycerol from Marine Red Algae (1989)
Araki, Shigeru, Sakurai, Takemaro, Oohusa, Tuyosi, Kayama, Mitsu, Sato, Naoki
Sulfoquinovosyl diacylglycerol (SQDG) from a red alga, Gracilaria verrucosa, contained high levels of saturated fatty acids, palmitic and myristic acids. The lipid was separated by normal-phase...
Sato, Naoki, Tomizawa, Ken-ichi, Komeda, Yoshibumi, Furuya, Masaki
Total cellular poly(A)+RNA from etiolated pea epicotyls was fractionated by urea-agarose gel electrophoresis and recovered by transfer to poly(U)-paper. Phytochrome mRNA activity was detected in...
Isolation of cDNA for Pea Phytochrome Using an Expression Vector (1986)
Tomizawa, Ken-ichi, Komeda, Yoshibumi, Sato, Naoki, Nagatani, Akira, Lino, Tetsuo, Furuya, Masaki
Partially purified phytochrome mRNA was obtained from etiolated pea epicotyls by polyribosome immunoprecipitation or by size fractionation of total poly(A)+RNA, and used for the synthesis of...
Protoplasts of epidermal cells, guard cells and mesophyll cells (ECPs, GCPs and MCPs) simultaneously were prepared enzymatically from light-grown leaves of Vicia faba then purified by discontinuous...
The activity of translatable mRNA for phytochrome was measured in excised embryonic axes of Pisum sativum L. during imbibition both in the dark and under continuous irradiation with white light. When...
Analysis of Lipids in Prochloron sp.: Occurrence of Monoglucosyl Diacylglycerol (1983)
Prochloron contained monogalactosyl diacylglycerol, digalactosyl diacylglycerol, sulfoquinovosyl diacylglycerol, phosphatidylglycerol and, as a minor component, monoglucosyl diacylglycerol, but no...
Diacylglyceryl-O-4′-(N,N,N-trimethyl)-homoserine was isolated from fronds of the fern Adiantum capillus-veneris L. and identified by chemical and spectral analyses. Positional analysis of the fatty...
Murata, Norio, Sato, Naoki, Takahashi, Nobuyoshi, Hamazaki, Yasushi
The compositions and positional distributions of fatty acids in the major leaf phospholipids of phosphatidylglycerol, phosphatidylcholine and phosphatidylethanolamine were analyzed by gas-liquid...
The synthesis of glyceroglycolipids was studied in membrane and soluble fractions of Anabaena variabilis. The membrane fraction exhibited a high activity of UDPglucose: diacylglycerol...
Murata, Norio, Sato, Naoki, Omata, Tatsuo, Kuwabara, Tomohiko
The thylakoid and the cell envelope of the blue-green alga Anacystis nidulans were separated by mechanical disruption of lysozyme-treated cells followed by differential and density gradient...
The desaturation of fatty acids in the monogalactosyl diacylglycerol upon a downward shift in temperature was studied under various conditions in Anabaena variabilis. The following conclusions are...
The absorption spectra of chlorophyll a were studied in aqueous dispersions of four major lipid components present in the thylakoid membranes. Chlorophyll a in aqueous dispersions of uncharged...
The PEND protein is a DNA-binding protein in the inner envelope membrane of a developing chloroplast, which may anchor chloroplast nucleoids. Here we report the DNA-binding characteristics of the...
Mamuti, Wulamu, Yamasaki, Hiroshi, Sako, Yasuhito, Nakao, Minoru, Xiao, Ning, Nakaya, Kazuhiro, ...
Full-length cDNA and genomic DNA encoding an 8-kDa subunit of antigen B from Echinococcus multilocularis (designated EmAgB8/1) were isolated from an E. multilocularis metacestode cDNA library and a...
Fork, David C., Murata, Norio, Sato, Naoki
The thermophilic blue-green alga Synechococcus lividus was grown at 55 and 38 C. Arrhenius plots of the transient reduction of cytochrome during actinic illumination with light that excited both...
Biosynthesis of the polar group of diacylglyceryl-O-4′-(N,N,N-trimethyl)homoserine (DGTS) was studied in intact cells of Chlamydomonas reinhardtii Dangeard. Among the three C4 amino acids tested,...
The nuclear genome of the moss Physcomitrella patens contains two genes encoding phage-type RNA polymerases (PpRPOT1 and PpRPOT2). Each of the PpRPOT1 and PpRPOT2 transcripts possesses two in-frame...
The PEND protein is a DNA-binding protein in the inner envelope membrane of a developing chloroplast, which may anchor chloroplast nucleoids. Here we report the DNA-binding characteristics of the...
Mamuti, Wulamu, Yamasaki, Hiroshi, Sako, Yasuhito, Nakao, Minoru, Xiao, Ning, Nakaya, Kazuhiro, ...
Full-length cDNA and genomic DNA encoding an 8-kDa subunit of antigen B from Echinococcus multilocularis (designated EmAgB8/1) were isolated from an E. multilocularis metacestode cDNA library and a...
Fork, David C., Murata, Norio, Sato, Naoki
The thermophilic blue-green alga Synechococcus lividus was grown at 55 and 38 C. Arrhenius plots of the transient reduction of cytochrome during actinic illumination with light that excited both...
Biosynthesis of the polar group of diacylglyceryl-O-4′-(N,N,N-trimethyl)homoserine (DGTS) was studied in intact cells of Chlamydomonas reinhardtii Dangeard. Among the three C4 amino acids tested,...
The nuclear genome of the moss Physcomitrella patens contains two genes encoding phage-type RNA polymerases (PpRPOT1 and PpRPOT2). Each of the PpRPOT1 and PpRPOT2 transcripts possesses two in-frame...
Signal Transduction Genes Required for Heterocyst Maturation in Anabaena sp. Strain PCC 7120
Fan, Qing, Lechno-Yossef, Sigal, Ehira, Shigeki, Kaneko, Takakazu, Ohmori, Masayuki, Sato, Naoki, ...
How heterocyst differentiation is regulated, once particular cells start to differentiate, remains largely unknown. Using near-saturation transposon mutagenesis and testing of transposon-tagged loci,...
Lechno-Yossef, Sigal, Fan, Qing, Ehira, Shigeki, Sato, Naoki, Wolk, C. Peter
Regulatory genes hepK, hepN, henR, and hepS are required for heterocyst maturation in Anabaena sp. strain PCC 7120. They presumptively encode two histidine kinases, a response regulator, and a...
Nozaki, Hisayoshi, Takano, Hiroyoshi, Misumi, Osami, Terasawa, Kimihiro, Matsuzaki, Motomichi, Maruyama, Shinichiro, ...
Sato, Naoki, Moriyama, Takashi
The acyl lipids making up the plastid membranes in plants and algae are highly enriched in polyunsaturated fatty acids and are synthesized by two distinct pathways, known as the prokaryotic and...
Sakurai, Isamu, Mizusawa, Naoki, Wada, Hajime, Sato, Naoki
The galactolipid digalactosyldiacylglycerol (DGDG) is present in the thylakoid membranes of oxygenic photosynthetic organisms such as higher plants and cyanobacteria. Recent x-ray crystallographic...