Nucleic acids symposium series最新文献

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Separation of triplet repeat DNA by capillary electrophoresis and the conformational analysis by atomic force microscope. 毛细管电泳分离三联体重复DNA及原子力显微镜构象分析。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.67
T Nakagawa, M Ueda, Y Baba
{"title":"Separation of triplet repeat DNA by capillary electrophoresis and the conformational analysis by atomic force microscope.","authors":"T Nakagawa,&nbsp;M Ueda,&nbsp;Y Baba","doi":"10.1093/nass/44.1.67","DOIUrl":"https://doi.org/10.1093/nass/44.1.67","url":null,"abstract":"<p><p>We investigated the relationship between electrophoretic behaviors and higher order structures of triplet repeat DNA fragments by means of capillary electrophoresis and atomic force microscopy (AFM). It was suggested that the mobility difference between triplet repeat DNA and random sequence DNA should be correlated to differences in their dynamic conformation.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.67","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517645","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Dynamics of the fluorescence properties of pyrene residues appended to oligonucleotide hybridization probes. 附在寡核苷酸杂交探针上的芘残基的荧光特性动力学。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.51
H Ohtani, M Masuko, Y Wada, T Kodama
{"title":"Dynamics of the fluorescence properties of pyrene residues appended to oligonucleotide hybridization probes.","authors":"H Ohtani,&nbsp;M Masuko,&nbsp;Y Wada,&nbsp;T Kodama","doi":"10.1093/nass/44.1.51","DOIUrl":"https://doi.org/10.1093/nass/44.1.51","url":null,"abstract":"<p><p>The dynamic and static properties of the fluorescence of a pyrene-introduced oligonucleotide 16 mer and its hybrid with a target 32 mer. Their fluorescence quantum yields (< 1%) were much weaker than that of unsubstituted pyrene and their fluorescence lifetime of the major decay components were less than 1 ns. The rapid fluorescence quenching was due to the interaction between the fluorophore and bases in the oligonucleotides. The fluorescence of pyrene was quenched efficiently by TMP and slightly by AMP. The quenching by CMP and GMP were the intermediate case.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.51","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517741","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
RecA-double stranded DNA complexes studied by atomic force microscopy. 原子力显微镜研究reca -双链DNA复合物。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.213
K Umemura, J Komatsu, T Uchihashi, N Choi, S Ikawa, T Nishinaka, T Shibata, Y Nakayama, S Katsura, A Mizuno, H Tokumoto, M Ishikawa, R Kuroda
{"title":"RecA-double stranded DNA complexes studied by atomic force microscopy.","authors":"K Umemura,&nbsp;J Komatsu,&nbsp;T Uchihashi,&nbsp;N Choi,&nbsp;S Ikawa,&nbsp;T Nishinaka,&nbsp;T Shibata,&nbsp;Y Nakayama,&nbsp;S Katsura,&nbsp;A Mizuno,&nbsp;H Tokumoto,&nbsp;M Ishikawa,&nbsp;R Kuroda","doi":"10.1093/nass/44.1.213","DOIUrl":"https://doi.org/10.1093/nass/44.1.213","url":null,"abstract":"<p><p>RecA-double stranded (ds) DNA complexes have been studied by atomic force microscopy (AFM). When the complexes were prepared in the presence of ATP gamma S, fully covered RecA-dsDNA filaments were observed by AFM. When the concentration of RecA proteins was lower, various lengths of filaments were found. The variation of the observed structures may directly reflect the real distribution of the intermediate complexes in the reaction mixture, as the mixture was simply deposited on a mica surface for AFM observation without special fixation or staining. The use of a carbon nanotube (CNT) AFM tip enabled high resolution to reveal the periodicity of RecA-dsDNA filaments. Our observations demonstrated the potential of the AFM method for the structural studies of the RecA-dsDNA complexes, especially their intermediate states.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.213","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517746","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Control of DNA photocleavage by oligothiazole derivatives. 低聚噻唑衍生物对DNA光裂解的控制。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.223
K Ninomiya, R Kuroda
{"title":"Control of DNA photocleavage by oligothiazole derivatives.","authors":"K Ninomiya,&nbsp;R Kuroda","doi":"10.1093/nass/44.1.223","DOIUrl":"https://doi.org/10.1093/nass/44.1.223","url":null,"abstract":"<p><p>Mechanism of DNA damage by the p-cyanobenzamide (pCyBz)-oligothiazole derivatives were investigated by HPLC analysis. The oxidation product of dG by the photocleaver was imidazolone (dIz).</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.223","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517751","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Non-enzymatic oligomerization of racemic adenosine 5'-phosphorimidazolide on Na(+)-montmorillonite. 外消旋腺苷5′-磷咪唑烷在Na(+)-蒙脱土上的非酶低聚反应。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.225
H Urata, C Aono, N Ohmoto, Y Shimamoto, Y Kobayashi, M Akagi
{"title":"Non-enzymatic oligomerization of racemic adenosine 5'-phosphorimidazolide on Na(+)-montmorillonite.","authors":"H Urata,&nbsp;C Aono,&nbsp;N Ohmoto,&nbsp;Y Shimamoto,&nbsp;Y Kobayashi,&nbsp;M Akagi","doi":"10.1093/nass/44.1.225","DOIUrl":"https://doi.org/10.1093/nass/44.1.225","url":null,"abstract":"<p><p>In this study, we have investigated non-enzymatic oligomerization of an activated racemic mononucleotide in the presence of Na(+)-montmorillonite. Oligomers up to the decamer in length were formed by oligomerization reactions of activated D- and L-mononucleotides. Similarly, oligomerization of an activated racemic mononucleotide results in the formation of oligomers up to the octamer. These results suggest that montmorillonite catalysis is quite efficient for the oligomerization of racemic monomers, though it is somewhat less efficient than that of D- and L-monomers.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.225","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517752","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Hydrolysis of DNA by Ce(IV)/EDTA complexes--the mechanism of DNA cleavage and design of artificial restriction enzymes. Ce(IV)/EDTA络合物对DNA的水解——DNA裂解机制及人工限制性内切酶的设计。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.231
Y Yamamoto, T Igawa, J Sumaoka, M Komiyama
{"title":"Hydrolysis of DNA by Ce(IV)/EDTA complexes--the mechanism of DNA cleavage and design of artificial restriction enzymes.","authors":"Y Yamamoto,&nbsp;T Igawa,&nbsp;J Sumaoka,&nbsp;M Komiyama","doi":"10.1093/nass/44.1.231","DOIUrl":"https://doi.org/10.1093/nass/44.1.231","url":null,"abstract":"<p><p>Homogeneous Ce(IV) complex of EDTA promptly hydrolyzes oligonucleotides under physiological conditions. Moreover, the activity of Ce(IV)/EDTA for DNA hydrolysis is promoted by the addition of amines. When [Ce(IV)/EDTA] = 5 mumol dm3 and [ethylenediamine] = 100 mmol dm3, the catalytic activity is about 50 times as large as that of Ce(IV)/EDTA. The combination of Ce(IV)/EDTA and amines is eminent tools for the future molecular biology and biotechnology.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.231","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517755","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of histidine-dependent antitermination in Bacillus subtilis hut operon. 枯草芽孢杆菌操纵子组氨酸依赖抗体分析。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.5
M Oda, N Kobayashi, Y Kurusu, M Fujita
{"title":"Analysis of histidine-dependent antitermination in Bacillus subtilis hut operon.","authors":"M Oda,&nbsp;N Kobayashi,&nbsp;Y Kurusu,&nbsp;M Fujita","doi":"10.1093/nass/44.1.5","DOIUrl":"https://doi.org/10.1093/nass/44.1.5","url":null,"abstract":"<p><p>We have previously shown that a positive regulator, HutP, of Bacillus subtilis hut operon is a RNA binding protein. Here, we report precise binding site of HutP in cis-regulatory region on hut mRNA and the role of HutP in histidine-dependent antitermination of hut expression. Ethylnitrosourea modification interference assay showed that four binding sites of HutP were found in the cis-regulatory sequences and were located at the stem and the internal loop of an antiterminator structure. In vitro transcription assay indicated that HutP suppressed transcription termination in the presence of histidine. These results suggest that HutP function as an antiterminator in response to the presence of histidine.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.5","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Different toxicity of Escherichia coli and Agrobacterium tumefaciens against tobacco BY2 cells. 大肠杆菌和农杆菌对烟草 BY2 细胞的不同毒性。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.185
K Fukumaru, K Yoshida
{"title":"Different toxicity of Escherichia coli and Agrobacterium tumefaciens against tobacco BY2 cells.","authors":"K Fukumaru, K Yoshida","doi":"10.1093/nass/44.1.185","DOIUrl":"10.1093/nass/44.1.185","url":null,"abstract":"<p><p>Tobacco BY2 cells were withered away by the physical contact with intestinal bacterium Escherichia coli. In contrast, plant pathogenic bacterium Agrobacterium tumefaciens with/without tumor inducing Ti plasmid was not so toxic as E. coli. Mini-cells of E. coli decreased their toxicity.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.185","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Cytotoxic mechanisms of inhibitor of RNA synthesis, 1-(3-C-ethynyl-beta-D-ribo-pentofuranosyl)cytosine (ECyd, TAS-106). RNA合成抑制剂1-(3- c -乙基- β - d -核糖-戊呋喃基)胞嘧啶的细胞毒性机制(ECyd, TAS-106)。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.193
T Yokogawa, K Takenaka, D Ogawa, M Futagami, A Matsuda, M Fukushima, Y Kitade, Y Wataya
{"title":"Cytotoxic mechanisms of inhibitor of RNA synthesis, 1-(3-C-ethynyl-beta-D-ribo-pentofuranosyl)cytosine (ECyd, TAS-106).","authors":"T Yokogawa,&nbsp;K Takenaka,&nbsp;D Ogawa,&nbsp;M Futagami,&nbsp;A Matsuda,&nbsp;M Fukushima,&nbsp;Y Kitade,&nbsp;Y Wataya","doi":"10.1093/nass/44.1.193","DOIUrl":"https://doi.org/10.1093/nass/44.1.193","url":null,"abstract":"<p><p>We investigated the molecular mechanisms of cell death induced by 1-(3-C-ethynyl-beta-D-ribo-pentofuranosyl)cytosine (ECyd, TAS-106: Figure 1), a potent inhibitor of RNA synthesis, using mouse mammary tumor FM3A cells and human fibrosarcoma HT1080 cells. ECyd induced the characteristics of apoptosis on these cells, such as morphological changes, DNA fragmentations and caspase-3-like protease activation. General caspases inhibitor (Z-Asp-CH2-DCB) inhibited cell death. Interestingly, we also found that ECyd induced rRNA fragmentation with the size of 3.2, 2.8 and 1.5 kb, and which might be caused by inhibition of RNA synthesis. rRNA fragmentation was mainly occurred in D8 domain of 28 S rRNA, and the end of 5'-terminal sequence of 1.5 kb fragment was C3220pC3221p or C3221pG3222p, that was identical to the recognition sequence of RNase L. Furthermore, the fragmentation patterns of rRNA digested with RNase L resembled that of ECyd treated cells in shape. These results indicate that antitumor mechanisms of ECyd are involved in activation of RNase L. rRNA fragmentation may be one of the death events as a result of inhibition of RNA synthesis and play an important role in the antitumor activity of ECyd.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.193","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22517925","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Introduction of a benzoyl group onto 6-chloropurine riboside in aqueous solution and its application to the synthesis of nucleoside derivatives. 6-氯嘌呤核苷水溶液中苯甲酰基团的引入及其在核苷衍生物合成中的应用。
Nucleic acids symposium series Pub Date : 2000-01-01 DOI: 10.1093/nass/44.1.103
T Maruyama, S Kozai, S Takamatsu, K Izawa
{"title":"Introduction of a benzoyl group onto 6-chloropurine riboside in aqueous solution and its application to the synthesis of nucleoside derivatives.","authors":"T Maruyama,&nbsp;S Kozai,&nbsp;S Takamatsu,&nbsp;K Izawa","doi":"10.1093/nass/44.1.103","DOIUrl":"https://doi.org/10.1093/nass/44.1.103","url":null,"abstract":"<p><p>A benzoyl group was introduced onto the 3'-hydroxyl group of 6-chloropurine riboside by treatment with benzoic anhydride in the presence of a base in aqueous solution. The product (3b) was converted to 9-(2,3-Di-deoxy-2-fluoro-beta-D-threo-pentofuranosyl)adenine (1, FddA) in 6 steps, including radical deoxygenation.</p>","PeriodicalId":19394,"journal":{"name":"Nucleic acids symposium series","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2000-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/44.1.103","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"22518139","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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