Aoki K

References (13)

Title : Low Infection of Phelipanche aegyptiaca in Micro-Tom Mutants Deficient in CAROTENOIDCLEAVAGE DIOXYGENASE 8 - Hasegawa_2018_Int.J.Mol.Sci_19_
Author(s) : Hasegawa S , Tsutsumi T , Fukushima S , Okabe Y , Saito J , Katayama M , Shindo M , Yamada Y , Shimomura K , Yoneyama K , Akiyama K , Aoki K , Ariizumi T , Ezura H , Yamaguchi S , Umehara M
Ref : Int J Mol Sci , 19 : , 2018
Abstract : Strigolactones (SLs), a group of plant hormones, induce germination of root-parasitic plants and inhibit shoot branching in many plants. Shoot branching is an important trait that affects the number and quality of flowers and fruits. Root-parasitic plants, such as Phelipanche spp., infect tomato roots and cause economic damage in Europe and North Africa-hence why resistant tomato cultivars are needed. In this study, we found carotenoid cleavage dioxygenase 8-defective mutants of Micro-Tom tomato (slccd8) by the "targeting induced local lesions in genomes" (TILLING) method. The mutants showed excess branching, which was suppressed by exogenously applied SL. Grafting shoot scions of the slccd8 mutants onto wild-type (WT) rootstocks restored normal branching in the scions. The levels of endogenous orobanchol and solanacol in WT were enough detectable, whereas that in the slccd8 mutants were below the detection limit of quantification analysis. Accordingly, root exudates of the slccd8 mutants hardly stimulated seed germination of root parasitic plants. In addition, SL deficiency did not critically affect the fruit traits of Micro-Tom. Using a rhizotron system, we also found that Phelipanche aegyptiaca infection was lower in the slccd8 mutants than in wild-type Micro-Tom because of the low germination. We propose that the slccd8 mutants might be useful as new tomato lines resistant to P. aegyptiaca.
ESTHER : Hasegawa_2018_Int.J.Mol.Sci_19_
PubMedSearch : Hasegawa_2018_Int.J.Mol.Sci_19_
PubMedID: 30200620

Title : Quantitative in vivo fluorescence cross-correlation analyses highlight the importance of competitive effects in the regulation of protein-protein interactions - Sadaie_2014_Mol.Cell.Biol_34_3272
Author(s) : Sadaie W , Harada Y , Matsuda M , Aoki K
Ref : Molecular & Cellular Biology , 34 :3272 , 2014
Abstract : Computer-assisted simulation is a promising approach for clarifying complicated signaling networks. However, this approach is currently limited by a deficiency of kinetic parameters determined in living cells. To overcome this problem, we applied fluorescence cross-correlation spectrometry (FCCS) to measure dissociation constant (Kd) values of signaling molecule complexes in living cells (in vivo Kd). Among the pairs of fluorescent molecules tested, that of monomerized enhanced green fluorescent protein (mEGFP) and HaloTag-tetramethylrhodamine was most suitable for the measurement of in vivo Kd by FCCS. Using this pair, we determined 22 in vivo Kd values of signaling molecule complexes comprising the epidermal growth factor receptor (EGFR)-Ras-extracellular signal-regulated kinase (ERK) mitogen-activated protein (MAP) kinase pathway. With these parameters, we developed a kinetic simulation model of the EGFR-Ras-ERK MAP kinase pathway and uncovered a potential role played by stoichiometry in Shc binding to EGFR during the peak activations of Ras, MEK, and ERK. Intriguingly, most of the in vivo Kd values determined in this study were higher than the in vitro Kd values reported previously, suggesting the significance of competitive bindings inside cells. These in vivo Kd values will provide a sound basis for the quantitative understanding of signal transduction.
ESTHER : Sadaie_2014_Mol.Cell.Biol_34_3272
PubMedSearch : Sadaie_2014_Mol.Cell.Biol_34_3272
PubMedID: 24958104

Title : Comparative functional genomics of the fission yeasts - Rhind_2011_Science_332_930
Author(s) : Rhind N , Chen Z , Yassour M , Thompson DA , Haas BJ , Habib N , Wapinski I , Roy S , Lin MF , Heiman DI , Young SK , Furuya K , Guo Y , Pidoux A , Chen HM , Robbertse B , Goldberg JM , Aoki K , Bayne EH , Berlin AM , Desjardins CA , Dobbs E , Dukaj L , Fan L , Fitzgerald MG , French C , Gujja S , Hansen K , Keifenheim D , Levin JZ , Mosher RA , Muller CA , Pfiffner J , Priest M , Russ C , Smialowska A , Swoboda P , Sykes SM , Vaughn M , Vengrova S , Yoder R , Zeng Q , Allshire R , Baulcombe D , Birren BW , Brown W , Ekwall K , Kellis M , Leatherwood J , Levin H , Margalit H , Martienssen R , Nieduszynski CA , Spatafora JW , Friedman N , Dalgaard JZ , Baumann P , Niki H , Regev A , Nusbaum C
Ref : Science , 332 :930 , 2011
Abstract : The fission yeast clade--comprising Schizosaccharomyces pombe, S. octosporus, S. cryophilus, and S. japonicus--occupies the basal branch of Ascomycete fungi and is an important model of eukaryote biology. A comparative annotation of these genomes identified a near extinction of transposons and the associated innovation of transposon-free centromeres. Expression analysis established that meiotic genes are subject to antisense transcription during vegetative growth, which suggests a mechanism for their tight regulation. In addition, trans-acting regulators control new genes within the context of expanded functional modules for meiosis and stress response. Differences in gene content and regulation also explain why, unlike the budding yeast of Saccharomycotina, fission yeasts cannot use ethanol as a primary carbon source. These analyses elucidate the genome structure and gene regulation of fission yeast and provide tools for investigation across the Schizosaccharomyces clade.
ESTHER : Rhind_2011_Science_332_930
PubMedSearch : Rhind_2011_Science_332_930
PubMedID: 21511999
Gene_locus related to this paper: schjy-b6jxl8 , schjy-b6k0k9 , schjy-b6k7s4 , schjy-b6k575 , schcr-s9vnl9 , schoy-s9q625 , schjy-kex1 , schpo-ykv6

Title : Diet-induced adipose tissue inflammation and liver steatosis are prevented by DPP-4 inhibition in diabetic mice - Shirakawa_2011_Diabetes_60_1246
Author(s) : Shirakawa J , Fujii H , Ohnuma K , Sato K , Ito Y , Kaji M , Sakamoto E , Koganei M , Sasaki H , Nagashima Y , Amo K , Aoki K , Morimoto C , Takeda E , Terauchi Y
Ref : Diabetes , 60 :1246 , 2011
Abstract : OBJECTIVE: Diet composition alters the metabolic states of adipocytes and hepatocytes in diabetes. The effects of dipeptidyl peptidase-4 (DPP-4) inhibition on adipose tissue inflammation and fatty liver have been obscure. We investigated the extrapancreatic effects of DPP-4 inhibition on visceral fat and the liver. RESEARCH DESIGN AND METHODS: We investigated diet-induced metabolic changes in beta-cell-specific glucokinase haploinsufficient (Gck(+/-)) diabetic mice. We challenged animals with a diet containing a combination of sucrose and oleic acid (SO) or sucrose and linoleic acid (SL). Next, we assessed the effects of a DPP-4 inhibitor, des-fluoro-sitagliptin, on adipose tissue inflammation and hepatic steatosis. RESULTS: The epididymal fat weight and serum leptin level were significantly higher in Gck(+/-) mice fed SL than in mice fed SO, although no significant differences in body weight or adipocyte size were noted. Compared with SO, SL increased the numbers of CD11c(+) M1 macrophages and CD8(+) T-cells in visceral adipose tissue and the expression of E-selectin, P-selectin, and plasminogen activator inhibitor-1 (PAI-1). DPP-4 inhibition significantly prevented adipose tissue infiltration by CD8(+) T-cells and M1 macrophages and decreased the expression of PAI-1. The production of cytokines by activated T-cells was not affected by DPP-4 inhibition. Furthermore, DPP-4 inhibition prevented fatty liver in both wild-type and Gck(+/-) mice. DPP-4 inhibition also decreased the expressions of sterol regulatory element-binding protein-1c, stearoyl-CoA desaturase-1, and fatty acid synthase, and increased the expression of peroxisome proliferator-activated receptor-alpha in the liver. CONCLUSIONS: Our findings indicated that DPP-4 inhibition has extrapancreatic protective effects against diet-induced adipose tissue inflammation and hepatic steatosis.
ESTHER : Shirakawa_2011_Diabetes_60_1246
PubMedSearch : Shirakawa_2011_Diabetes_60_1246
PubMedID: 21330637

Title : Effects of miglitol, sitagliptin or their combination on plasma glucose, insulin and incretin levels in non-diabetic men - Aoki_2010_Endocr.J_57_667
Author(s) : Aoki K , Masuda K , Miyazaki T , Togashi Y , Terauchi Y
Ref : Endocrine Journal , 57 :667 , 2010
Abstract : alpha-glucosidase inhibitors (alphaGIs) increase active glucagon-like peptide-1 (GLP-1) and reduce the total glucosedependent insulinotropic polypeptide (GIP) levels, but their ability to prevent diabetes remains uncertain. Dipeptidyl peptidase-4 (DPP-4) inhibitors, such as sitagliptin, increase active GLP-1 and GIP levels and improve hyperglycemia in a glucose-dependent fashion. However, the effectiveness of their combination in subjects with normal glucose tolerance (NGT) or impaired glucose tolerance (IGT) is uncertain. The present study evaluated the effect of miglitol, sitagliptin, and their combination on glucose, insulin and incretin levels in non-diabetic men. Miglitol and sitagliptin were administered according to four different intake schedules (C: no drug, M: miglitol; S: sitagliptin, M+S: miglitol and sitagliptin). The plasma glucose levels were significantly lower for M, S and M+S than for the control. The areas under the curve (AUCs) of the plasma active GLP-1 level in the M, S, and M+S groups were significantly greater than that in the control group. The AUC of the plasma active GLP-1 level was significantly greater for M+S group than for the M and S groups. The AUC of the plasma total GIP level was significantly smaller for M+S group than for the control and M and S groups. The results of our study suggest that miglitol, sitagliptin, or their combination contributes to the prevention of type 2 diabetes.
ESTHER : Aoki_2010_Endocr.J_57_667
PubMedSearch : Aoki_2010_Endocr.J_57_667
PubMedID: 20519806

Title : Identification of N-glycosylated proteins from the central nervous system of Drosophila melanogaster - Koles_2007_Glycobiology_17_1388
Author(s) : Koles K , Lim JM , Aoki K , Porterfield M , Tiemeyer M , Wells L , Panin V
Ref : Glycobiology , 17 :1388 , 2007
Abstract : Although the function of many glycoproteins in the nervous system of fruit flies is well understood, information about the glycosylation profile and glycan attachment sites for such proteins is scarce. In order to fill this gap and to facilitate the analysis of N-linked glycosylation in the nervous system, we have performed an extensive survey of membrane-associated glycoproteins and their N-glycosylation sites isolated from the adult Drosophila brain. Following subcellular fractionation and trypsin digestion, we used different lectin affinity chromatography steps to isolate N-glycosylated glycopeptides. We identified a total of 205 glycoproteins carrying N-linked glycans and revealed their 307 N-glycan attachment sites. The size of the resulting dataset furthermore allowed the statistical characterization of amino acid distribution around the N-linked glycosylation sites. Glycan profiles were analyzed separately for glycopeptides that were strongly and weakly bound to Concanavalin A (Con A), or that failed to bind Concanavalin A, but did bind to wheat germ agglutinin (WGA). High- or paucimannosidic glycans dominated each of the profiles, although the wheat germ agglutinin-bound glycan population was enriched in more extensively processed structures. A sialylated glycan structure was unambiguously detected in the wheat germ agglutinin-bound fraction. Despite the large amount of starting material, insufficient amount of glycopeptides was retained by the Wisteria floribunda (WFA) and Sambucus nigra columns to allow glycan or glycoprotein identification, providing further evidence that the vast majority of glycoproteins in the adult Drosophila brain carry primarily high-mannose, paucimannose, and hybrid glycans. The obtained results should facilitate future genetic and molecular approaches addressing the role of N-glycosylation in the central nervous system (CNS) of Drosophila.
ESTHER : Koles_2007_Glycobiology_17_1388
PubMedSearch : Koles_2007_Glycobiology_17_1388
PubMedID: 17893096

Title : Genome and virulence determinants of high virulence community-acquired MRSA - Baba_2002_Lancet_359_1819
Author(s) : Baba T , Takeuchi F , Kuroda M , Yuzawa H , Aoki K , Oguchi A , Nagai Y , Iwama N , Asano K , Naimi T , Kuroda H , Cui L , Yamamoto K , Hiramatsu K
Ref : Lancet , 359 :1819 , 2002
Abstract : BACKGROUND: A new type of meticillin-resistant Staphylococcus aureus (MRSA), designated community-acquired MRSA, is becoming increasingly noticeable in the community, some strains of which cause fatal infections in otherwise healthy individuals. By contrast with hospital-acquired MRSA, community-acquired MRSA is more susceptible to non b-lactam antibiotics. We investigated the high virulence potential of certain strains of this bacterium.
METHODS: We ascertained the whole genome sequence of MW2, a strain of community-acquired MRSA, by shotgun cloning and sequencing. MW2 caused fatal septicaemia and septic arthritis in a 16-month-old girl in North Dakota, USA, in 1998. The genome of this strain was compared with those of hospital-acquired MRSA strains, including N315 and Mu50. FINDINGS: Meticillin resistance gene (mecA) in MW2 was carried by a novel allelic form (type IVa) of staphylococcal cassette chromosome mec (SCCmec), by contrast with type II in N315 and Mu50. Type IVa SCCmec did not carry any of the multiple antibiotic resistance genes reported in type II SCCmec. By contrast, 19 additional virulence genes were recorded in the MW2 genome. All but two of these virulence genes were noted in four of the seven genomic islands of MW2. INTERPRETATION: MW2 carried a range of virulence and resistance genes that was distinct from those displayed on the chromosomes of extant S aureus strains. Most genes were carried by specific allelic forms of genomic islands in the MW2 chromosome. The combination of allelic forms of genomic islands is the genetic basis that determines the pathogenicity of medically important phenotypes of S aureus, including those of community-acquired MRSA strains.
ESTHER : Baba_2002_Lancet_359_1819
PubMedSearch : Baba_2002_Lancet_359_1819
PubMedID: 12044378
Gene_locus related to this paper: staau-d2uin3 , staau-LIP , staau-lipas , staau-MW0741 , staau-MW2456 , staau-q6gfm6 , staau-SA0011 , staau-SA0569 , staau-SA0572 , staau-SA0897 , staau-SA1143 , staau-SA2240 , staau-SA2306 , staau-SA2367 , staau-SA2422 , staau-SAV0321 , staau-SAV0446 , staau-SAV0457 , staau-SAV0655 , staau-SAV1014 , staau-SAV1765 , staau-SAV1793 , staau-SAV2188 , staau-SAV2350

Title : Complete genome sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7 - Kawarabayasi_2001_DNA.Res_8_123
Author(s) : Kawarabayasi Y , Hino Y , Horikawa H , Jin-no K , Takahashi M , Sekine M , Baba S , Ankai A , Kosugi H , Hosoyama A , Fukui S , Nagai Y , Nishijima K , Otsuka R , Nakazawa H , Takamiya M , Kato Y , Yoshizawa T , Tanaka T , Kudoh Y , Yamazaki J , Kushida N , Oguchi A , Aoki K , Masuda S , Yanagii M , Nishimura M , Yamagishi A , Oshima T , Kikuchi H
Ref : DNA Research , 8 :123 , 2001
Abstract : The complete genomic sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7 which optimally grows at 80 degrees C, at low pH, and under aerobic conditions, has been determined by the whole genome shotgun method with slight modifications. The genomic size was 2,694,756 bp long and the G + C content was 32.8%. The following RNA-coding genes were identified: a single 16S-23S rRNA cluster, one 5S rRNA gene and 46 tRNA genes (including 24 intron-containing tRNA genes). The repetitive sequences identified were SR-type repetitive sequences, long dispersed-type repetitive sequences and Tn-like repetitive elements. The genome contained 2826 potential protein-coding regions (open reading frames, ORFs). By similarity search against public databases, 911 (32.2%) ORFs were related to functional assigned genes, 921 (32.6%) were related to conserved ORFs of unknown function, 145 (5.1%) contained some motifs, and remaining 849 (30.0%) did not show any significant similarity to the registered sequences. The ORFs with functional assignments included the candidate genes involved in sulfide metabolism, the TCA cycle and the respiratory chain. Sequence comparison provided evidence suggesting the integration of plasmid, rearrangement of genomic structure, and duplication of genomic regions that may be responsible for the larger genomic size of the S. tokodaii strain7 genome. The genome contained eukaryote-type genes which were not identified in other archaea and lacked the CCA sequence in the tRNA genes. The result suggests that this strain is closer to eukaryotes among the archaea strains so far sequenced. The data presented in this paper are also available on the internet homepage (http:\/\/www.bio.nite.go.jp\/E-home\/genome_list-e.html\/).
ESTHER : Kawarabayasi_2001_DNA.Res_8_123
PubMedSearch : Kawarabayasi_2001_DNA.Res_8_123
PubMedID: 11572479
Gene_locus related to this paper: sulto-ST0002 , sulto-ST0071 , sulto-ST0672 , sulto-ST0779 , sulto-ST1414 , sulto-ST1737 , sulto-ST1745 , sulto-ST2026 , sulto-ST2099 , sulto-ST2511

Title : Whole genome sequencing of meticillin-resistant Staphylococcus aureus - Kuroda_2001_Lancet_357_1225
Author(s) : Kuroda M , Ohta T , Uchiyama I , Baba T , Yuzawa H , Kobayashi I , Cui L , Oguchi A , Aoki K , Nagai Y , Lian J , Ito T , Kanamori M , Matsumaru H , Maruyama A , Murakami H , Hosoyama A , Mizutani-Ui Y , Takahashi NK , Sawano T , Inoue R , Kaito C , Sekimizu K , Hirakawa H , Kuhara S , Goto S , Yabuzaki J , Kanehisa M , Yamashita A , Oshima K , Furuya K , Yoshino C , Shiba T , Hattori M , Ogasawara N , Hayashi H , Hiramatsu K
Ref : Lancet , 357 :1225 , 2001
Abstract : BACKGROUND: Staphylococcus aureus is one of the major causes of community-acquired and hospital-acquired infections. It produces numerous toxins including superantigens that cause unique disease entities such as toxic-shock syndrome and staphylococcal scarlet fever, and has acquired resistance to practically all antibiotics. Whole genome analysis is a necessary step towards future development of countermeasures against this organism.
METHODS: Whole genome sequences of two related S aureus strains (N315 and Mu50) were determined by shot-gun random sequencing. N315 is a meticillin-resistant S aureus (MRSA) strain isolated in 1982, and Mu50 is an MRSA strain with vancomycin resistance isolated in 1997. The open reading frames were identified by use of GAMBLER and GLIMMER programs, and annotation of each was done with a BLAST homology search, motif analysis, and protein localisation prediction. FINDINGS: The Staphylococcus genome was composed of a complex mixture of genes, many of which seem to have been acquired by lateral gene transfer. Most of the antibiotic resistance genes were carried either by plasmids or by mobile genetic elements including a unique resistance island. Three classes of new pathogenicity islands were identified in the genome: a toxic-shock-syndrome toxin island family, exotoxin islands, and enterotoxin islands. In the latter two pathogenicity islands, clusters of exotoxin and enterotoxin genes were found closely linked with other gene clusters encoding putative pathogenic factors. The analysis also identified 70 candidates for new virulence factors. INTERPRETATION: The remarkable ability of S aureus to acquire useful genes from various organisms was revealed through the observation of genome complexity and evidence of lateral gene transfer. Repeated duplication of genes encoding superantigens explains why S aureus is capable of infecting humans of diverse genetic backgrounds, eliciting severe immune reactions. Investigation of many newly identified gene products, including the 70 putative virulence factors, will greatly improve our understanding of the biology of staphylococci and the processes of infectious diseases caused by S aureus.
ESTHER : Kuroda_2001_Lancet_357_1225
PubMedSearch : Kuroda_2001_Lancet_357_1225
PubMedID: 11418146
Gene_locus related to this paper: staau-LIP , staau-lipas , staau-MW0741 , staau-MW2456 , staau-q6gfm6 , staau-SA0011 , staau-SA0569 , staau-SA0572 , staau-SA0897 , staau-SA1143 , staau-SA2240 , staau-SA2306 , staau-SA2367 , staau-SA2422 , staau-SAV0321 , staau-SAV0446 , staau-SAV0457 , staau-SAV0655 , staau-SAV1014 , staau-SAV1765 , staau-SAV1793 , staau-SAV2188 , staau-SAV2350 , staau-SAV2484 , staau-SAV2594

Title : A 38 kb segment containing the cdc2 gene from the left arm of fission yeast chromosome II: sequence analysis and characterization of the genomic DNA and cDNAs encoded on the segment - Machida_2000_Yeast_16_71
Author(s) : Machida M , Yamazaki S , Kunihiro S , Tanaka T , Kushida N , Jinnno K , Haikawa Y , Yamazaki J , Yamamoto S , Sekine M , Oguchi A , Nagai Y , Sakai M , Aoki K , Ogura K , Kudoh Y , Kikuchi H , Zhang MQ , Yanagida M
Ref : Yeast , 16 :71 , 2000
Abstract : A genomic 38 kbp segment on the c1750 cosmid clone containing the cdc2 gene, located in the left arm of chromosome II from Schizosaccharomyces pombe, was sequenced. The segment was found to have five previously known genes, pht1, cdc2, his3, act1 and mei4. Among 11 coding sequences (CDSs) predicted by the gene finding software INTRON.PLOT., four CDSs, pi007, pi010, pi014 and pi016, had considerable similarity to 40S ribosomal protein, glycosyltransferase, cdc2-related protein kinase and alpha-1, 2-mannosyltransferase, respectively. Another unusually huge open reading frame (ORF) (pi011), consisting of 2233 amino acids, existed, having significant homology to alpha-amylase, granule-bound glycogen synthase and the Sz. pombe YS 1110 clone product at the N-terminal, middle and C-terminal regions, respectively. All the predicted 11 CDSs were experimentally analysed by RACE PCR. The sequencing of the RACE products revealed that there were two small overlaps at the 3' untranslated regions (UTRs) between pi004 and pi005 (17 bp) and between pi007 and pi008 (2 bp). The distances between 5' end of the 5'UTR and the putative translation initiation codon varied from 10 to 302 nucleotides (nt) among the nine CDSs successfully analysed by 5'-RACE. The expression level of each CDS on this clone was determined. Among the 16 genes on this clone, the previously determined genes, pht1, cdc2, his3 and act1, were found to be most highly expressed. Finally, cDNAs of all the newly identified genes were detected by RACE, proving the actual expression of these genes. The nucleotide sequence has been submitted to the EMBL database under Accession No. AB004534.
ESTHER : Machida_2000_Yeast_16_71
PubMedSearch : Machida_2000_Yeast_16_71
PubMedID: 10620777
Gene_locus related to this paper: schpo-be46

Title : Cloning and sequence analysis of two catechol-degrading gene clusters from the aniline-assimilating bacterium Frateuria species ANA-18 - Murakami_1999_Gene_226_189
Author(s) : Murakami S , Takashima A , Takemoto J , Takenaka S , Shinke R , Aoki K
Ref : Gene , 226 :189 , 1999
Abstract : The aniline-assimilating bacterium Frateuria species ANA-18 produced two catechol 1,2-dioxygenases, CD I and CD II, and two muconate cycloisomerases, MC I and MC II. The catA genes catA1 and catA2 encoding CD I and CD II, respectively, were cloned from a gene library of this bacterium. The catA1 gene was clustered with catB1 encoding MC I, catC1 encoding muconolactone isomerase (MI), catD encoding beta-ketoadipate enol-lactone hydrolase (ELH), and ORFR1 encoding a putative LysR-type regulator. The organization of these genes was ORFR1catB1C1D. The catA2 gene also constructed a gene cluster involving catB2 encoding MC II, catC2 encoding MI, and ORFR2 encoding a putative LysR-type regulator with the alignment of ORFR2catB2A2C2. The intergenic regions of ORFR1-catB1 and ORFR2-catB2 contained homologous sequences with the catR-catB intergenic region containing a repression binding site and activation binding site of CatR in Pseudomonas putida. These findings suggest that the two cat clusters were regulated independently in their expression. When a product of cloned catD was added to a reaction mixture containing beta-ketoadipate enol-lactone, beta-ketoadipate was produced. This observation showed that the cloned catD encoded ELH and was expressed in Escherichia coli. We found that Frateuria sp. ANA-18 had a large plasmid with a molecular size more than 100kb. Polymerase chain reaction amplifying partial catA genes and Southern hybridization analyses with probes containing catA genes were conducted, to examine the localization of the two catA genes. We concluded that the catA1 and catA2 genes were located on the chromosomal and large plasmid DNAs, respectively, in Frateuria sp. ANA-18.
ESTHER : Murakami_1999_Gene_226_189
PubMedSearch : Murakami_1999_Gene_226_189
PubMedID: 9931486
Gene_locus related to this paper: frasp-catD

Title : Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3 - Kawarabayasi_1998_DNA.Res_5_55
Author(s) : Kawarabayasi Y , Sawada M , Horikawa H , Haikawa Y , Hino Y , Yamamoto S , Sekine M , Baba S , Kosugi H , Hosoyama A , Nagai Y , Sakai M , Ogura K , Otsuka R , Nakazawa H , Takamiya M , Ohfuku Y , Funahashi T , Tanaka T , Kudoh Y , Yamazaki J , Kushida N , Oguchi A , Aoki K , Kikuchi H
Ref : DNA Research , 5 :55 , 1998
Abstract : The complete sequence of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3, has been determined by assembling the sequences of the physical map-based contigs of fosmid clones and of long polymerase chain reaction (PCR) products which were used for gap-filling. The entire length of the genome was 1,738,505 bp. The authenticity of the entire genome sequence was supported by restriction analysis of long PCR products, which were directly amplified from the genomic DNA. As the potential protein-coding regions, a total of 2061 open reading frames (ORFs) were assigned, and by similarity search against public databases, 406 (19.7%) were related to genes with putative function and 453 (22.0%) to the sequences registered but with unknown function. The remaining 1202 ORFs (58.3%) did not show any significant similarity to the sequences in the databases. Sequence comparison among the assigned ORFs in the genome provided evidence that a considerable number of ORFs were generated by sequence duplication. By similarity search, 11 ORFs were assumed to contain the intein elements. The RNA genes identified were a single 16S-23S rRNA operon, two 5S rRNA genes and 46 tRNA genes including two with the intron structure. All the assigned ORFs and RNA coding regions occupied 91.25% of the whole genome. The data presented in this paper are available on the internet at http:@www.nite.go.jp.
ESTHER : Kawarabayasi_1998_DNA.Res_5_55
PubMedSearch : Kawarabayasi_1998_DNA.Res_5_55
PubMedID: 9679194
Gene_locus related to this paper: pyrho-PH0594 , pyrho-PH0863 , pyrho-PH1262

Title : Polymorphism of esterase D in some population groups in Japan - Omoto_1975_Hum.Hered_25_378
Author(s) : Omoto K , Aoki K , Harada S
Ref : Hum Hered , 25 :378 , 1975
Abstract : Electrophoretic types of red cell esterase D (Es D) have been determined in more than 1,000 blood samples from Tokyo. The allele frequency for Es D2 was found to be 0.342. Typing was also carried out in samples of the Ainu of Hokkaido and of the Ryukyuans of the Okinawa Island: the Es D2 frequencies were found to be 0.273 and 0.369, respectively. These values are considerably higher than those described in Europeans, Negroes and even in Asiatic Indians. The results indicate that Es D with a marked degree of heterogeneity is a valuable marker for genetic, anthropological and forensic application in Mongoloid groups.
ESTHER : Omoto_1975_Hum.Hered_25_378
PubMedSearch : Omoto_1975_Hum.Hered_25_378
PubMedID: 1222945