Yoshikawa H

References (24)

Title : Two-step nationwide epidemiological survey of myasthenia gravis in Japan 2018 - Yoshikawa_2022_PLoS.One_17_e0274161
Author(s) : Yoshikawa H , Adachi Y , Nakamura Y , Kuriyama N , Murai H , Nomura Y , Sakai Y , Iwasa K , Furukawa Y , Kuwabara S , Matsui M
Ref : PLoS ONE , 17 :e0274161 , 2022
Abstract : OBJECTIVE: To study the updated prevalence and clinical features of myasthenia gravis (MG) in Japan during 2017. METHODS: We sent survey sheets to the randomly selected medical departments (number = 7,545). First, we asked the number of MG patients who visited medical departments from January 1, 2017, to December 31, 2017. Then, we sent the second survey sheet to the medical departments that answered the first survey to obtain the clinical information of patients who received MG diagnosis between January 1, 2015, and December 31, 2017. RESULTS: The received answer to the first survey were 2,708 (recovery rate: 35.9%). After all, the prevalence of the 100,000 population was estimated as 23.1 (95%CI: 20.5-25.6). As a result of the second survey, we obtained 1,464 case records. After checking the duplications and lacking data, we utilized 1,195 data for further analysis. The median [interquartile range (IQR)] from the onset age of total patients was 59 (43-70) years old. The male-female ratio was 1: 1.15. The onset age [median (IQR)] for female patients was 58 (40-72) years old, and that for male patients was 60 (49-69) years old (Wilcoxon-Mann-Whitney test, p = 0.0299). We divided patients into four categories: 1) anti-acetylcholine receptor antibody (AChRAb) (+) thymoma (Tm) (-), 2) AChRAb(+)Tm(+), 3) anti-muscle-specific kinase antibody (MuSKAb) (+), and AChRAb(-)MuSKAb(-) (double negative; DN). The onset age [median (IQR)] of AChRAb(+)Tm(-) was 64 (48-73) years old, and AChRb(+)Tm(+) was 55 (45-66), MuSKAb(+) was 49 (36-64), DN was 47 (35-60) year old. The multivariate logistic regression analysis using sex, initial symptoms, repetitive nerve stimulation test (RNST), and edrophonium test revealed that sex, ocular symptoms, bulbar symptoms, and RNST were factors to distinguish each category. The myasthenia gravis activities of daily living profile at the severest state were significantly higher in MuSKAb(+). MuSKAb(+) frequently received prednisolone, tacrolimus plasmapheresis, and intravenous immunoglobulin; however, they received less acetylcholine esterase inhibitor. 99.2% of AChRAb(+)Tm(+) and 15.4% of AChRAb(+)Tm(-) received thymectomy. MuSKAb(+) did not receive thymectomy, and only 5.7% of DN received thymectomy. The prognosis was favorable in all categories. CONCLUSION: Our result revealed that the prevalence of Japanese MG doubled from the previous study using the same survey method in 2006. We also found that the onset age shifted to the elderly, and the male-female ratio reached almost even. Classification in four categories; AChRAb(+)Tm(-), AChRAb(+)Tm(+), MuSKAb(+), and DN, well describe the specific clinical features of each category and differences in therapeutic approaches.
ESTHER : Yoshikawa_2022_PLoS.One_17_e0274161
PubMedSearch : Yoshikawa_2022_PLoS.One_17_e0274161
PubMedID: 36129914

Title : Complete genome sequence of cyanobacterium Nostoc sp. NIES-3756, a potentially useful strain for phytochrome-based bioengineering - Hirose_2016_J.Biotechnol_218_51
Author(s) : Hirose Y , Fujisawa T , Ohtsubo Y , Katayama M , Misawa N , Wakazuki S , Shimura Y , Nakamura Y , Kawachi M , Yoshikawa H , Eki T , Kanesaki Y
Ref : J Biotechnol , 218 :51 , 2016
Abstract : To explore the diverse photoreceptors of cyanobacteria, we isolated Nostoc sp. strain NIES-3756 from soil at Mimomi-Park, Chiba, Japan, and determined its complete genome sequence. The Genome consists of one chromosome and two plasmids (total 6,987,571 bp containing no gaps). The NIES-3756 strain carries 7 phytochrome and 12 cyanobacteriochrome genes, which will facilitate the studies of phytochrome-based bioengineering.
ESTHER : Hirose_2016_J.Biotechnol_218_51
PubMedSearch : Hirose_2016_J.Biotechnol_218_51
PubMedID: 26656223
Gene_locus related to this paper: 9noso-a0a0s3pjx6

Title : Complete genome sequence of cyanobacterium Fischerella sp. NIES-3754, providing thermoresistant optogenetic tools - Hirose_2016_J.Biotechnol_220_45
Author(s) : Hirose Y , Fujisawa T , Ohtsubo Y , Katayama M , Misawa N , Wakazuki S , Shimura Y , Nakamura Y , Kawachi M , Yoshikawa H , Eki T , Kanesaki Y
Ref : J Biotechnol , 220 :45 , 2016
Abstract : Cyanobacterial phytochrome-class photosensors are recently emerging optogenetic tools. We isolated Fischerella sp. strain NIES-3754 from hotspring at Suwa-shrine, Suwa, Nagano, Japan. We determined complete genome sequence of the NIES-3754 strain, which is composed of one chromosome and two putative replicons (total 5,826,863bp containing no gaps). We identified photosensor genes of 5 phytochromes and 9 cyanobacteriochromes, which will facilitate optogenetics of thermophile.
ESTHER : Hirose_2016_J.Biotechnol_220_45
PubMedSearch : Hirose_2016_J.Biotechnol_220_45
PubMedID: 26784989
Gene_locus related to this paper: 9cyan-a0a0s3tkv2

Title : Genetic Analysis of Collective Motility of Paenibacillus sp. NAIST15-1 - Kobayashi_2016_PLoS.Genet_12_e1006387
Author(s) : Kobayashi K , Kanesaki Y , Yoshikawa H
Ref : PLoS Genet , 12 :e1006387 , 2016
Abstract : Bacteria have developed various motility mechanisms to adapt to a variety of solid surfaces. A rhizosphere isolate, Paenibacillus sp. NAIST15-1, exhibited unusual motility behavior. When spotted onto 1.5% agar media, Paenibacillus sp. formed many colonies, each of which moved around actively at a speed of 3.6 mum/sec. As their density increased, each moving colony began to spiral, finally forming a static round colony. Despite its unusual motility behavior, draft genome sequencing revealed that both the composition and organization of flagellar genes in Paenibacillus sp. were very similar to those in Bacillus subtilis. Disruption of flagellar genes and flagellar stator operons resulted in loss of motility. Paenibacillus sp. showed increased transcription of flagellar genes and hyperflagellation on hard agar media. Thus, increased flagella and their rotation drive Paenibacillus sp. motility. We also identified a large extracellular protein, CmoA, which is conserved only in several Paenibacillus and related species. A cmoA mutant could neither form moving colonies nor move on hard agar media; however, motility was restored by exogenous CmoA. CmoA was located around cells and enveloped cell clusters. Comparison of cellular behavior between the wild type and cmoA mutant indicated that extracellular CmoA is involved in drawing water out of agar media and/or smoothing the cell surface interface. This function of CmoA probably enables Paenibacillus sp. to move on hard agar media.
ESTHER : Kobayashi_2016_PLoS.Genet_12_e1006387
PubMedSearch : Kobayashi_2016_PLoS.Genet_12_e1006387
PubMedID: 27764113
Gene_locus related to this paper: 9bacl-a0a1e1vn43 , 9bacl-a0a1e1vpc4

Title : Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp - Endo_2015_BMC.Genomics_16_1117
Author(s) : Endo A , Tanizawa Y , Tanaka N , Maeno S , Kumar H , Shiwa Y , Okada S , Yoshikawa H , Dicks L , Nakagawa J , Arita M
Ref : BMC Genomics , 16 :1117 , 2015
Abstract : BACKGROUND: Fructobacillus spp. in fructose-rich niches belong to the family Leuconostocaceae. They were originally classified as Leuconostoc spp., but were later grouped into a novel genus, Fructobacillus, based on their phylogenetic position, morphology and specific biochemical characteristics. The unique characters, so called fructophilic characteristics, had not been reported in the group of lactic acid bacteria, suggesting unique evolution at the genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp.
RESULTS: Fructobacillus species possess significantly less protein coding sequences in their small genomes. The number of genes was significantly smaller in carbohydrate transport and metabolism. Several other metabolic pathways, including TCA cycle, ubiquinone and other terpenoid-quinone biosynthesis and phosphotransferase systems, were characterized as discriminative pathways between the two genera. The adhE gene for bifunctional acetaldehyde/alcohol dehydrogenase, and genes for subunits of the pyruvate dehydrogenase complex were absent in Fructobacillus spp. The two genera also show different levels of GC contents, which are mainly due to the different GC contents at the third codon position. CONCLUSION: The present genome characteristics in Fructobacillus spp. suggest reductive evolution that took place to adapt to specific niches.
ESTHER : Endo_2015_BMC.Genomics_16_1117
PubMedSearch : Endo_2015_BMC.Genomics_16_1117
PubMedID: 26715526
Gene_locus related to this paper: 9lact-a0a0k8mi40 , 9lact-a0a0k8ms25 , 9lact-a0a0k8msc5

Title : Draft genome sequence of strain q-1, an iodide-oxidizing alphaproteobacterium isolated from natural gas brine water - Ehara_2014_Genome.Announc_2_e00659
Author(s) : Ehara A , Suzuki H , Kanesaki Y , Yoshikawa H , Amachi S
Ref : Genome Announc , 2 : , 2014
Abstract : Here we report the draft genome sequence of strain Q-1, an iodide (I(-))-oxidizing heterotrophic bacterium in the class Alphaproteobacteria isolated from natural gas brine water. The genome sequence contained a multicopper oxidase gene probably responsible for iodide oxidation. A photosynthetic gene cluster was found but genes for carbon-fixation were absent.
ESTHER : Ehara_2014_Genome.Announc_2_e00659
PubMedSearch : Ehara_2014_Genome.Announc_2_e00659
PubMedID: 24994802
Gene_locus related to this paper: 9prot-a0a061qis2 , 9prot-a0a061q8k2

Title : The early diverging ascomycetous budding yeast Saitoella complicata has three histone deacetylases belonging to the Clr6, Hos2, and Rpd3 lineages - Nishida_2014_J.Gen.Appl.Microbiol_60_7
Author(s) : Nishida H , Matsumoto T , Kondo S , Hamamoto M , Yoshikawa H
Ref : J Gen Appl Microbiol , 60 :7 , 2014
Abstract : We sequenced the genomic DNA and the transcribed RNA of the ascomycetous budding yeast Saitoella complicata, which belongs to the earliest lineage (Taphrinomycotina) of ascomycetes. We found 3 protein-coding regions similar to Clr6 of Schizosaccharomyces (a member of Taphrinomycotina). Clr6 has a structure similar to that of Rpd3 and Hos2 of Saccharomyces. These proteins belong to the class 1 histone deacetylase (HDAC) family. The phylogenetic tree showed that the Clr6, Hos2, and Rpd3 lineages are separated in fungal HDACs. Basidiomycetes have 3 proteins belonging to the Clr6, Hos2, and Rpd3 lineages. On the other hand, whereas ascomycetes except for Schizosaccharomyces have the Hos2 and Rpd3 homologs, and lack the Clr6 homolog, Schizosaccharomyces has the Clr6 and Hos2 homologs, and lacks the Rpd3 homolog. Interestingly, Pneumocystis and Saitoella have 3 proteins belonging to the Clr6, Hos2, and Rpd3 lineages. Thus, these fungi are the first ascomycete found to possess all 3 types. Our findings indicated that Taphrinomycotina has conserved the Clr6 protein, suggesting that the ancestor of Dikarya (ascomycetes and basidiomycetes) had 3 proteins belonging to the Clr6, Hos2, and Rpd3 lineages. During ascomycete evolution, Pezizomycotina and Saccharomycotina appear to have lost their Clr6 homologs and Schizosaccharomyces to have lost its Rpd3 homolog.
ESTHER : Nishida_2014_J.Gen.Appl.Microbiol_60_7
PubMedSearch : Nishida_2014_J.Gen.Appl.Microbiol_60_7
PubMedID: 24646756
Gene_locus related to this paper: 9asco-a0a0e9n858 , 9asco-a0a0e9nel9 , 9asco-a0a0e9nf84 , 9asco-a0a0e9ngh8 , 9asco-a0a0e9nl00 , 9asco-a0a0e9nnf5 , 9asco-a0a0e9nrg0 , 9asco-a0a0e9ns69 , saicn-a0a0e9n8s3 , saicn-a0a0e9ntr9

Title : Myasthenia gravis: Predictive factors associated with the synchronized elevation of anti-acetylcholine receptor antibody titer in Kanazawa, Japan - Iwasa_2014_J.Neuroimmunol_267_97
Author(s) : Iwasa K , Yoshikawa H , Samuraki M , Shinohara M , Hamaguchi T , Ono K , Nakamura H , Yamada M
Ref : Journal of Neuroimmunology , 267 :97 , 2014
Abstract : For a brief period, an increased incidence of elevated anti-acetylcholine receptor antibody titer was observed in patients with myasthenia gravis (MG) in Kanazawa, Japan. The purpose of this study was to examine the predictive factors associated with this antibody titer elevation. Decreased odds of titer elevation were seen in patients with early-onset MG than in those with late-onset MG. In patients with non-thymoma-related MG, thymectomy prevented the antibody titer elevation. Our data suggest that late-onset MG may have a different immunogenic response and the thymus might play an immunoregulatory role against extrinsic factors in some types of MG.
ESTHER : Iwasa_2014_J.Neuroimmunol_267_97
PubMedSearch : Iwasa_2014_J.Neuroimmunol_267_97
PubMedID: 24388223

Title : Complete sequence of the first chimera genome constructed by cloning the whole genome of Synechocystis strain PCC6803 into the Bacillus subtilis 168 genome - Watanabe_2012_J.Bacteriol_194_7007
Author(s) : Watanabe S , Shiwa Y , Itaya M , Yoshikawa H
Ref : Journal of Bacteriology , 194 :7007 , 2012
Abstract : Genome synthesis of existing or designed genomes is made feasible by the first successful cloning of a cyanobacterium, Synechocystis PCC6803, in Gram-positive, endospore-forming Bacillus subtilis. Whole-genome sequence analysis of the isolate and parental B. subtilis strains provides clues for identifying single nucleotide polymorphisms (SNPs) in the 2 complete bacterial genomes in one cell.
ESTHER : Watanabe_2012_J.Bacteriol_194_7007
PubMedSearch : Watanabe_2012_J.Bacteriol_194_7007
PubMedID: 23209249
Gene_locus related to this paper: bacsu-pnbae , bacsu-YBAC , bacsu-YVAK , synsp-ester , synsp-SLL1969

Title : Iodide oxidation by a novel multicopper oxidase from the alphaproteobacterium strain Q-1 - Suzuki_2012_Appl.Environ.Microbiol_78_3941
Author(s) : Suzuki M , Eda Y , Ohsawa S , Kanesaki Y , Yoshikawa H , Tanaka K , Muramatsu Y , Yoshikawa J , Sato I , Fujii T , Amachi S
Ref : Applied Environmental Microbiology , 78 :3941 , 2012
Abstract : Alphaproteobacterium strain Q-1 is able to oxidize iodide (I(-)) to molecular iodine (I(2)) by an oxidase-like enzyme. One of the two isoforms of the iodide-oxidizing enzyme (IOE-II) produced by this strain was excised from a native polyacrylamide gel, eluted, and purified. IOE-II appeared as a single band (51 kDa) and showed significant in-gel iodide-oxidizing activity in sodium dodecyl sulfate-polyacrylamide gel electrophoresis without heat treatment. However, at least two bands with much higher molecular masses (150 and 230 kDa) were observed with heat treatment (95 degrees C, 3 min). IOE-II was inhibited by NaN(3), KCN, EDTA, and a copper chelator, o-phenanthroline. In addition to iodide, IOE-II showed significant activities toward phenolic compounds such as syringaldazine, 2,6-dimethoxy phenol, and p-phenylenediamine. IOE-II contained copper atoms as prosthetic groups and had UV/VIS absorption peaks at 320 and 590 nm. Comparison of several internal amino acid sequences obtained from trypsin-digested IOE-II with a draft genome sequence of strain Q-1 revealed that the products of two open reading frames (IoxA and IoxC), with predicted molecular masses of 62 and 71 kDa, are involved in iodide oxidation. Furthermore, subsequent tandem mass spectrometric analysis repeatedly detected peptides from IoxA and IoxC with high sequence coverage (32 to 40%). IoxA showed homology with the family of multicopper oxidases and included four copper-binding regions that are highly conserved among various multicopper oxidases. These results suggest that IOE-II is a multicopper oxidase and that it may occur as a multimeric complex in which at least two proteins (IoxA and IoxC) are associated.
ESTHER : Suzuki_2012_Appl.Environ.Microbiol_78_3941
PubMedSearch : Suzuki_2012_Appl.Environ.Microbiol_78_3941
PubMedID: 22447601
Gene_locus related to this paper: 9prot-a0a061qis2 , 9prot-a0a061q8k2 , 9prot-a0a061qhj5

Title : Identification of substrain-specific mutations by massively parallel whole-genome resequencing of Synechocystis sp. PCC 6803 - Kanesaki_2012_DNA.Res_19_67
Author(s) : Kanesaki Y , Shiwa Y , Tajima N , Suzuki M , Watanabe S , Sato N , Ikeuchi M , Yoshikawa H
Ref : DNA Research , 19 :67 , 2012
Abstract : The cyanobacterium, Synechocystis sp. PCC 6803, was the first photosynthetic organism whose genome sequence was determined in 1996 (Kazusa strain). It thus plays an important role in basic research on the mechanism, evolution, and molecular genetics of the photosynthetic machinery. There are many substrains or laboratory strains derived from the original Berkeley strain including glucose-tolerant (GT) strains. To establish reliable genomic sequence data of this cyanobacterium, we performed resequencing of the genomes of three substrains (GT-I, PCC-P, and PCC-N) and compared the data obtained with those of the original Kazusa strain stored in the public database. We found that each substrain has sequence differences some of which are likely to reflect specific mutations that may contribute to its altered phenotype. Our resequence data of the PCC substrains along with the proposed corrections/refinements of the sequence data for the Kazusa strain and its derivatives are expected to contribute to investigations of the evolutionary events in the photosynthetic and related systems that have occurred in Synechocystis as well as in other cyanobacteria.
ESTHER : Kanesaki_2012_DNA.Res_19_67
PubMedSearch : Kanesaki_2012_DNA.Res_19_67
PubMedID: 22193367
Gene_locus related to this paper: synsp-ester

Title : Complete genome sequence of Lactococcus lactis IO-1, a lactic acid bacterium that utilizes xylose and produces high levels of L-lactic acid - Kato_2012_J.Bacteriol_194_2102
Author(s) : Kato H , Shiwa Y , Oshima K , Machii M , Araya-Kojima T , Zendo T , Shimizu-Kadota M , Hattori M , Sonomoto K , Yoshikawa H
Ref : Journal of Bacteriology , 194 :2102 , 2012
Abstract : We report the complete genome sequence of Lactococcus lactis IO-1 (= JCM7638). It is a nondairy lactic acid bacterium, produces nisin Z, ferments xylose, and produces predominantly L-lactic acid at high xylose concentrations. From ortholog analysis with other five L. lactis strains, IO-1 was identified as L. lactis subsp. lactis.
ESTHER : Kato_2012_J.Bacteriol_194_2102
PubMedSearch : Kato_2012_J.Bacteriol_194_2102
PubMedID: 22461545
Gene_locus related to this paper: lacla-menX

Title : Genomic structure of the cyanobacterium Synechocystis sp. PCC 6803 strain GT-S - Tajima_2011_DNA.Res_18_393
Author(s) : Tajima N , Sato S , Maruyama F , Kaneko T , Sasaki NV , Kurokawa K , Ohta H , Kanesaki Y , Yoshikawa H , Tabata S , Ikeuchi M , Sato N
Ref : DNA Research , 18 :393 , 2011
Abstract : Synechocystis sp. PCC 6803 is the most popular cyanobacterial strain, serving as a standard in the research fields of photosynthesis, stress response, metabolism and so on. A glucose-tolerant (GT) derivative of this strain was used for genome sequencing at Kazusa DNA Research Institute in 1996, which established a hallmark in the study of cyanobacteria. However, apparent differences in sequences deviating from the database have been noticed among different strain stocks. For this reason, we analysed the genomic sequence of another GT strain (GT-S) by 454 and partial Sanger sequencing. We found 22 putative single nucleotide polymorphisms (SNPs) in comparison to the published sequence of the Kazusa strain. However, Sanger sequencing of 36 direct PCR products of the Kazusa strains stored in small aliquots resulted in their identity with the GT-S sequence at 21 of the 22 sites, excluding the possibility of their being SNPs. In addition, we were able to combine five split open reading frames present in the database sequence, and to remove the C-terminus of an ORF. Aside from these, two of the Insertion Sequence elements were not present in the GT-S strain. We have thus become able to provide an accurate genomic sequence of Synechocystis sp. PCC 6803 for future studies on this important cyanobacterial strain.
ESTHER : Tajima_2011_DNA.Res_18_393
PubMedSearch : Tajima_2011_DNA.Res_18_393
PubMedID: 21803841
Gene_locus related to this paper: synsp-ester

Title : The genome of a lepidopteran model insect, the silkworm Bombyx mori - Xia_2008_Insect.Biochem.Mol.Biol_38_1036
Author(s) : Xia Q , Wang J , Zhou Z , Li R , Fan W , Cheng D , Cheng T , Qin J , Duana J , Xu H , Li Q , Li N , Wang M , Dai F , Liu C , Lin Y , Zhao P , Zhang H , Liu S , Zha X , Li C , Zhao A , Pan M , Pan G , Shen Y , Gao Z , Wang Z , Wang G , Wu Z , Hou Y , Chai C , Yu Q , He N , Zhang Z , Li S , Yang H , Lu C , Xiang Z , Mita K , Kasahara M , Nakatani Y , Yamamoto K , Abe H , Ahsan B , Daimoni T , Doi K , Fujii T , Fujiwara H , Fujiyama A , Futahashi R , Hashimotol S , Ishibashi J , Iwami M , Kadono-Okuda K , Kanamori H , Kataoka H , Katsuma S , Kawaoka S , Kawasaki H , Kohara Y , Kozaki T , Kuroshu RM , Kuwazaki S , Matsushima K , Minami H , Nagayasu Y , Nakagawa T , Narukawa J , Nohata J , Ohishi K , Ono Y , Osanai-Futahashi M , Ozaki K , Qu W , Roller L , Sasaki S , Sasaki T , Seino A , Shimomura M , Shin-I T , Shinoda T , Shiotsuki T , Suetsugu Y , Sugano S , Suwa M , Suzuki Y , Takiya S , Tamura T , Tanaka H , Tanaka Y , Touhara K , Yamada T , Yamakawa M , Yamanaka N , Yoshikawa H , Zhong YS , Shimada T , Morishita S
Ref : Insect Biochemistry & Molecular Biology , 38 :1036 , 2008
Abstract : Bombyx mori, the domesticated silkworm, is a major insect model for research, and the first lepidopteran for which draft genome sequences became available in 2004. Two independent data sets from whole-genome shotgun sequencing were merged and assembled together with newly obtained fosmid- and BAC-end sequences. The remarkably improved new assembly is presented here. The 8.5-fold sequence coverage of an estimated 432 Mb genome was assembled into scaffolds with an N50 size of approximately 3.7 Mb; the largest scaffold was 14.5 million base pairs. With help of a high-density SNP linkage map, we anchored 87% of the scaffold sequences to all 28 chromosomes. A particular feature was the high repetitive sequence content estimated to be 43.6% and that consisted mainly of transposable elements. We predicted 14,623 gene models based on a GLEAN-based algorithm, a more accurate prediction than the previous gene models for this species. Over three thousand silkworm genes have no homologs in other insect or vertebrate genomes. Some insights into gene evolution and into characteristic biological processes are presented here and in other papers in this issue. The massive silk production correlates with the existence of specific tRNA clusters, and of several sericin genes assembled in a cluster. The silkworm's adaptation to feeding on mulberry leaves, which contain toxic alkaloids, is likely linked to the presence of new-type sucrase genes, apparently acquired from bacteria. The silkworm genome also revealed the cascade of genes involved in the juvenile hormone biosynthesis pathway, and a large number of cuticular protein genes.
ESTHER : Xia_2008_Insect.Biochem.Mol.Biol_38_1036
PubMedSearch : Xia_2008_Insect.Biochem.Mol.Biol_38_1036
PubMedID: 19121390
Gene_locus related to this paper: bommo-a0mnw6 , bommo-a1yw85 , bommo-a9ls22 , bommo-ACHE1 , bommo-ACHE2 , bommo-b0fgv8 , bommo-b1q137 , bommo-b1q139 , bommo-b1q140 , bommo-b1q141 , bommo-b2zdz0 , bommo-b3gef6 , bommo-b3gef7 , bommo-b3gs55 , bommo-b3gs56 , bommo-d2ktu3 , bommo-d2ktu5 , bommo-d9ile0 , bommo-e1cga5 , bommo-e1cga6 , bommo-g8fpz6 , bommo-h9iu43 , bommo-h9iu46 , bommo-h9iu47.1 , bommo-h9iu47.2 , bommo-h9iue5 , bommo-h9ivg2 , bommo-h9iwj7 , bommo-h9iwj8 , bommo-h9ix58 , bommo-h9ixi1.1 , bommo-h9ixi1.2 , bommo-h9iy47 , bommo-h9izw1 , bommo-h9j0s4 , bommo-h9j1y0 , bommo-h9j3r0 , bommo-h9j3w6 , bommo-h9j3w7 , bommo-h9j5t0 , bommo-h9j8g3 , bommo-h9j9k9 , bommo-h9j066 , bommo-h9j067 , bommo-h9j593 , bommo-h9j594 , bommo-h9j990 , bommo-h9jde8 , bommo-h9jde9 , bommo-h9jdf0 , bommo-h9jds4 , bommo-h9jle7 , bommo-h9jn83 , bommo-h9jn85 , bommo-h9jrg2 , bommo-h9jyh9 , bommo-JHE , bommo-m1rmh6 , bommo-q1hq05 , bommo-q4tte1 , bommo-h9j592 , bommo-h9j604 , bommo-h9jpm8 , bommo-h9iss4 , bommo-h9j2c7

Title : Genes involved in SkfA killing factor production protect a Bacillus subtilis lipase against proteolysis - Westers_2005_Appl.Environ.Microbiol_71_1899
Author(s) : Westers H , Braun PG , Westers L , Antelmann H , Hecker M , Jongbloed JD , Yoshikawa H , Tanaka T , van Dijl JM , Quax WJ
Ref : Applied Environmental Microbiology , 71 :1899 , 2005
Abstract : Small lipases of Bacillus species, such as LipA from Bacillus subtilis, have a high potential for industrial applications. Recent studies showed that deletion of six AT-rich islands from the B. subtilis genome results in reduced amounts of extracellular LipA. Here we demonstrate that the reduced LipA levels are due to the absence of four genes, skfABCD, located in the prophage 1 region. Intact skfABCD genes are required not only for LipA production at wild-type levels by B. subtilis 168 but also under conditions of LipA overproduction. Notably, SkfA has bactericidal activity and, probably, requires the SkfB to SkfD proteins for its production. The present results show that LipA is more prone to proteolytic degradation in the absence of SkfA and that high-level LipA production can be improved significantly by employing multiple protease-deficient B. subtilis strains. In conclusion, our findings imply that SkfA protects LipA, directly or indirectly, against proteolytic degradation. Conceivably, SkfA could act as a modulator in LipA folding or as a protease inhibitor.
ESTHER : Westers_2005_Appl.Environ.Microbiol_71_1899
PubMedSearch : Westers_2005_Appl.Environ.Microbiol_71_1899
PubMedID: 15812018

Title : Evidence for functional nicotinic receptors on pancreatic beta cells - Yoshikawa_2005_Metabolism_54_247
Author(s) : Yoshikawa H , Hellstrom-Lindahl E , Grill V
Ref : Metabolism , 54 :247 , 2005
Abstract : Epidemiological studies associate smoking with reduced insulin secretion. We hypothesized that nicotine could negatively affect pancreatic beta-cell function. Acute or 48-hour exposures to nicotine (10(-4) to 10(-6) mol/L) moderately inhibited insulin release at basal (3.3 mmol/L) and/or elevated (27 mmol/L) glucose in rat and human islets. Acute exposure to nicotine (10(-6) mol/L) inhibited tolbutamide (200 micromol/L)-induced insulin release by 41% (P < .05), but did not affect secretion induced by KCl (20 mmol/L) or 3-isobutyl-1-methylxanthine (1 mmol/L) (tested in rat islets). Specific binding of [3H]nicotine was demonstrated in rat islets and in a beta -cell line of rat origin, INS-1. Such binding was enhanced by 48 hours of coculture with nicotine (10(-7) mol/L). Expression of mRNA for the nicotinic receptor subunits alpha 2, alpha 3, alpha 4, alpha 5, alpha 7, and beta 2 was detected in INS-1 cells by reverse transcriptase polymerase chain reaction. Acute exposure to cytisine (10(-6) mol/L), an agonist of alpha 4, beta 2 subunits, partially inhibited tolbutamide-induced insulin release. Specific binding of alpha bungarotoxin (10(-10) mol/L), an antagonist of the alpha 7 subunit, could be demonstrated in INS-1 cells, and culture with alpha bungarotoxin modestly increased insulin release in postculture incubations at basal and elevated glucose, P < .05. Our data indicate that functional nicotinic receptors are present in pancreatic islets and beta cells.
ESTHER : Yoshikawa_2005_Metabolism_54_247
PubMedSearch : Yoshikawa_2005_Metabolism_54_247
PubMedID: 15690320

Title : Effect of increased dosage of the ML-236B (compactin) biosynthetic gene cluster on ML-236B production in Penicillium citrinum - Abe_2002_Mol.Genet.Genomics_268_130
Author(s) : Abe Y , Suzuki T , Mizuno T , Ono C , Iwamoto K , Hosobuchi M , Yoshikawa H
Ref : Mol Genet Genomics , 268 :130 , 2002
Abstract : The gene cluster responsible for ML-236B (compactin) biosynthesis has recently been characterized from P. citrinum No. 41520. Here, we describe how the ML-236B-producing strain was improved using a cosmid-mediated recombination technique. The introduction of the cosmid pML48, which contains seven of the nine ML-236B biosynthetic genes, into P. citrinum No. 41520 resulted in transformants which produced increased amounts of ML-236B. Southern analysis showed that pML48 had been incorporated by a homologous recombination event, and all high producers possessed two copies of each of the seven genes, mlcA- mlcF and mlcR, suggesting that increased dosage of the biosynthetic gene cluster was responsible for the enhanced production of ML-236B. On the other hand, various kinds of mutants with decreased titers of ML-236B were also obtained. Characterization of one such mutant, designated as T48.28, which was more sensitive to ML-236B than the parental strain, suggested that one of the ML-236B biosynthetic genes, mlcD, which encodes a putative HMG-CoA reductase, was involved in conferring resistance to ML-236B.
ESTHER : Abe_2002_Mol.Genet.Genomics_268_130
PubMedSearch : Abe_2002_Mol.Genet.Genomics_268_130
PubMedID: 12242508
Gene_locus related to this paper: penci-MLCF

Title : ACh receptor protein drives primary and memory autoantibody responses in chimeric human-SCID mice - Yoshikawa_2002_Clin.Immunol_104_128
Author(s) : Yoshikawa H , Lennon VA
Ref : Clin Immunol , 104 :128 , 2002
Abstract : The native antigen that drives the T-helper cells regulating production of muscle acetylcholine receptor (AChR) autoantibodies is unknown. Human T cell lines activated by autoantigens in vitro are of unproven relevance to B cell help. Here we report the functional interaction and unprecedented longevity of AChR-specific human T and B lymphocytes residing in SCID mice. Lymphoid cells from myasthenia gravis (MG) patients and healthy subjects were injected ip. Recombinant human AChR-alpha1-subunit-1-210 was injected after day 75. Human AChR-specific Ig was produced rapidly in MG-SCID mice challenged once. Only 1 of 32 control hu-SCID mice produced AChR-specific Ig. This required multiple immunizations, was initially cross-reactive with Torpedo AChR, and had a slow course. Thus, memory T and B lymphocytes specific for human AChR-alpha1-subunit are readily demonstrable in MG patients, interact to produce autoantibody of the same restricted specificity found in the donor's serum, and are long-lived without exogenous autoantigen challenge. In healthy subjects, AChR-specific lymphocytes are infrequent and exhibit naive response characteristics, including apparent affinity maturation of Ig specificity.
ESTHER : Yoshikawa_2002_Clin.Immunol_104_128
PubMedSearch : Yoshikawa_2002_Clin.Immunol_104_128
PubMedID: 12165274

Title : Molecular cloning and characterization of an ML-236B (compactin) biosynthetic gene cluster in Penicillium citrinum - Abe_2002_Mol.Genet.Genomics_267_636
Author(s) : Abe Y , Suzuki T , Ono C , Iwamoto K , Hosobuchi M , Yoshikawa H
Ref : Mol Genet Genomics , 267 :636 , 2002
Abstract : Cloning of genes encoding polyketide synthases (PKSs) has allowed us to identify a gene cluster for ML-236B biosynthesis in Penicillium citrinum. Like lovastatin, which is produced by Aspergillus terreus, ML-236B (compactin) inhibits the enzyme 3-hydroxy-3-methylglutaryl-coenzyme A (HMG-CoA) reductase. Genomic sequencing and Northern analysis showed that nine predicted genes for ML-236B biosynthesis were located within a 38-kb region and were transcribed when ML-236B was produced. The predicted amino acid sequences encoded by these nine genes, designated mlcA- mlcH and mlcR, were similar to those encoded by the genes for lovastatin synthesis, and were therefore assumed to be involved either directly or indirectly in ML-236B biosynthesis. Targeted disruption experiments provided evidence that two PKS genes in the cluster, mlcA and mlcB, are required for the biosynthesis of the nonaketide and the diketide moieties, respectively, of ML-236B, suggesting that the gene cluster as a whole is responsible for ML-236B biosynthesis in P. citrinum. Bioconversion of some of the predicted intermediates by an mlcA-disrupted mutant was also investigated in order to analyze the ML-236B biosynthetic pathway. The molecular organization of the gene cluster and proposed functions for the ML-236B biosynthetic genes in P. citrinum are described.
ESTHER : Abe_2002_Mol.Genet.Genomics_267_636
PubMedSearch : Abe_2002_Mol.Genet.Genomics_267_636
PubMedID: 12172803
Gene_locus related to this paper: penci-MLCF

Title : Sequence and analysis of a 31 kb segment of the Bacillus subtilis chromosome in the area of the rrnH and rrnG operons. -
Author(s) : Liu H , Haga K , Yasumoto K , Ohashi Y , Yoshikawa H , Takahashi H
Ref : Microbiology , 143 :2763 , 1997
PubMedID: 9274029

Title : The complete genome sequence of the gram-positive bacterium Bacillus subtilis - Kunst_1997_Nature_390_249
Author(s) : Kunst F , Ogasawara N , Moszer I , Albertini AM , Alloni G , Azevedo V , Bertero MG , Bessieres P , Bolotin A , Borchert S , Borriss R , Boursier L , Brans A , Braun M , Brignell SC , Bron S , Brouillet S , Bruschi CV , Caldwell B , Capuano V , Carter NM , Choi SK , Cordani JJ , Connerton IF , Cummings NJ , Daniel RA , Denziot F , Devine KM , Dusterhoft A , Ehrlich SD , Emmerson PT , Entian KD , Errington J , Fabret C , Ferrari E , Foulger D , Fritz C , Fujita M , Fujita Y , Fuma S , Galizzi A , Galleron N , Ghim SY , Glaser P , Goffeau A , Golightly EJ , Grandi G , Guiseppi G , Guy BJ , Haga K , Haiech J , Harwood CR , Henaut A , Hilbert H , Holsappel S , Hosono S , Hullo MF , Itaya M , Jones L , Joris B , Karamata D , Kasahara Y , Klaerr-Blanchard M , Klein C , Kobayashi Y , Koetter P , Koningstein G , Krogh S , Kumano M , Kurita K , Lapidus A , Lardinois S , Lauber J , Lazarevic V , Lee SM , Levine A , Liu H , Masuda S , Mauel C , Medigue C , Medina N , Mellado RP , Mizuno M , Moestl D , Nakai S , Noback M , Noone D , O'Reilly M , Ogawa K , Ogiwara A , Oudega B , Park SH , Parro V , Pohl TM , Portelle D , Porwollik S , Prescott AM , Presecan E , Pujic P , Purnelle B , Rapoport G , Rey M , Reynolds S , Rieger M , Rivolta C , Rocha E , Roche B , Rose M , Sadaie Y , Sato T , Scanlan E , Schleich S , Schroeter R , Scoffone F , Sekiguchi J , Sekowska A , Seror SJ , Serror P , Shin BS , Soldo B , Sorokin A , Tacconi E , Takagi T , Takahashi H , Takemaru K , Takeuchi M , Tamakoshi A , Tanaka T , Terpstra P , Togoni A , Tosato V , Uchiyama S , Vandebol M , Vannier F , Vassarotti A , Viari A , Wambutt R , Wedler H , Weitzenegger T , Winters P , Wipat A , Yamamoto H , Yamane K , Yasumoto K , Yata K , Yoshida K , Yoshikawa HF , Zumstein E , Yoshikawa H , Danchin A
Ref : Nature , 390 :249 , 1997
Abstract : Bacillus subtilis is the best-characterized member of the Gram-positive bacteria. Its genome of 4,214,810 base pairs comprises 4,100 protein-coding genes. Of these protein-coding genes, 53% are represented once, while a quarter of the genome corresponds to several gene families that have been greatly expanded by gene duplication, the largest family containing 77 putative ATP-binding transport proteins. In addition, a large proportion of the genetic capacity is devoted to the utilization of a variety of carbon sources, including many plant-derived molecules. The identification of five signal peptidase genes, as well as several genes for components of the secretion apparatus, is important given the capacity of Bacillus strains to secrete large amounts of industrially important enzymes. Many of the genes are involved in the synthesis of secondary metabolites, including antibiotics, that are more typically associated with Streptomyces species. The genome contains at least ten prophages or remnants of prophages, indicating that bacteriophage infection has played an important evolutionary role in horizontal gene transfer, in particular in the propagation of bacterial pathogenesis.
ESTHER : Kunst_1997_Nature_390_249
PubMedSearch : Kunst_1997_Nature_390_249
PubMedID: 9384377
Gene_locus related to this paper: bacsu-CAH , bacsu-cbxnp , bacsu-lip , bacsu-LIPB , bacsu-PKSR , bacsu-pnbae , bacsu-PPSE , bacsu-srf4 , bacsu-srfac , bacsu-YBAC , bacsu-YBDG , bacsu-ybfk , bacsu-ycgS , bacsu-yczh , bacsu-YDEN , bacsu-ydjp , bacsu-yfhM , bacsu-yisY , bacsu-YITV , bacsu-yjau , bacsu-YJCH , bacsu-MHQD , bacsu-yqjl , bacsu-yqkd , bacsu-YRAK , bacsu-YTAP , bacsu-YTMA , bacsu-YTPA , bacsu-ytxm , bacsu-yugF , bacsu-YUII , bacsu-YUKL , bacsu-YVAK , bacsu-YvaM , bacsu-RsbQ

Title : Sequence analysis of a 50 kb region between spo0H and rrnH on the Bacillus subtilis chromosome - Yasumoto_1996_Microbiology_142 ( Pt 11)_3039
Author(s) : Yasumoto K , Liu H , Jeong SM , Ohashi Y , Kakinuma S , Tanaka K , Kawamura F , Yoshikawa H , Takahashi H
Ref : Microbiology , 142 ( Pt 11) :3039 , 1996
Abstract : The 49630 bp spo0H-rrnH region of the Bacillus subtilis genome has been fully sequenced. The sequence contains one partial and 62 complete ORFs, one partial and three complete rRNA genes and a cluster of six tRNA genes. The direction of the transcription and translation of 61 ORFs is the same as that of the movement of the replication fork. A homology search of 40 ORFs in newly determined sequence revealed that 27 of them had significant similarity to known proteins such as elongation factor G, elongation factor Tu, pseudouridine synthase I and ribsosomal proteins. Two adjacent genes, ybaD and ybaE, appeared to encode proteins belonging to the ATP-binding cassette (ABC) family.
ESTHER : Yasumoto_1996_Microbiology_142 ( Pt 11)_3039
PubMedSearch : Yasumoto_1996_Microbiology_142 ( Pt 11)_3039
PubMedID: 8969501
Gene_locus related to this paper: bacsu-YBAC

Title : Systematic sequencing of the 180 kilobase region of the Bacillus subtilis chromosome containing the replication origin. -
Author(s) : Ogasawara N , Nakai S , Yoshikawa H
Ref : DNA Research , 1 :1 , 1994
PubMedID: 7584024

Title : The effect of steric factors on the interaction of some phenylphosphonates with acetylcholinesterase and neuropathy target esterase of hen brain - Johnson_1986_Pestic.Biochem.Physiol_25_133
Author(s) : Johnson MK , Read DJ , Yoshikawa H
Ref : Pesticide Biochemistry and Physiology , 25 :133 , 1986
Abstract : At 37 C and pH 8.0 the resolved isomers of S-(4-chlorobenzyl or 2,4-dichlorobenzyl) ethyl phenylphosphonothiolate are moderate inhibitors of AChE of hen brain (ka = 300-1400 M-1min-1) and weak inhibitors of neuropathy target esterase (NTE) (ka = 40-240 M-1min-1). The two (R)P(+) isomers are more active against NTE than are the (S)P(-) while the opposite is true for AChE. NTE inhibited by either (R)P(+) isomer underwent slow spontaneous reactivation (about 30% in 18 hr) but (S)P(-)-inhibited NTE did not reactivate. No spontaneous reactivation was detected for AChE inhibited by either steric form. AChE inhibited by (R)p(+) isomers could be reactivated by N-methylpyridinium-2-aldoxime methanesulfonate and slow aging was detected (23% in 18 hr). NTE inhibited by (R)p(+) isomers could be reactivated by w-isonitrosoacetophenone and no significant aging occurred in 18 hr at 37degC. Neither of the enzymes could be reactivated 60 min after commencement of inhibition with saturated solutions of the (S)p(-) isomers. NTE inhibited by racemic EPNO in a 1-min incubation formed a mixture of rapidly aging (t1/2 = 1min) and apparently non-aging inhibited NTE. Since EPNO should form the same ethyl phenylphosphonylated enzymes as the isomers under study we conclude that the oxime-resistance of inhibited NTE after inhibition by these (S)p(-)-isomers is due to rapid formation of aged enzyme during the (necessarily) long inhibition period. Substantial inhibition of NTE in vivo should be possible in hens protected against cholinergic effects of a dose of either (R)P(+) isomer. The toxicological consequence of such inhibition (? neuropathy or protection) should be investigated
ESTHER : Johnson_1986_Pestic.Biochem.Physiol_25_133
PubMedSearch : Johnson_1986_Pestic.Biochem.Physiol_25_133