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Nucleic acids research. Supplement (2001)最新文献

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Development of a novel genosensor based on ferrocenyl oligonucleotides. 新型二茂铁寡核苷酸基因传感器的研制。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.43
Kosuke Mukumoto, Takahiko Nojima, Nobuaki Furuno, Shigeori Takenaka
{"title":"Development of a novel genosensor based on ferrocenyl oligonucleotides.","authors":"Kosuke Mukumoto,&nbsp;Takahiko Nojima,&nbsp;Nobuaki Furuno,&nbsp;Shigeori Takenaka","doi":"10.1093/nass/3.1.43","DOIUrl":"https://doi.org/10.1093/nass/3.1.43","url":null,"abstract":"<p><p>Two types of ferrocenyl oligonucleotides, Fc1-ODN and Fc2-ODN, carrying a 5'-ATT GCT CAG GGG TAA GGT CAT TAG TTG GAA-3' sequence were allowed to hybridize with the DNA probe carrying a complementary sequence immobilized on the gold electrode to give rise to a redox signal deriving from their ferrocenyl moieties. When a mixture of these oligonucleotides in a proper ratio was used as a model of DNA samples, two redox peaks were observed in one differential pulse voltammogram. The peak currents varied depending on the initial ratio of the two oligonucleotides, suggesting a possibility that this technique may be applied to electrochemical monitoring of gene expression by, for example, the electrochemical differential hybridization, EDH.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"43-4"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.43","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40903182","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
Leucyl/phenylalanyl (L/F)-tRNA-protein transferase-mediated N-terminal specific labelling of a protein in vitro. 亮基/苯丙酰(L/F)- trna -蛋白转移酶介导的蛋白n端特异性标记。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.259
Atsushi Kuno, Masumi Taki, Satoshi Kaneko, Kazunari Taira, Tsunemi Hasegawa
{"title":"Leucyl/phenylalanyl (L/F)-tRNA-protein transferase-mediated N-terminal specific labelling of a protein in vitro.","authors":"Atsushi Kuno,&nbsp;Masumi Taki,&nbsp;Satoshi Kaneko,&nbsp;Kazunari Taira,&nbsp;Tsunemi Hasegawa","doi":"10.1093/nass/3.1.259","DOIUrl":"https://doi.org/10.1093/nass/3.1.259","url":null,"abstract":"<p><p>N-terminal specific radioisotope (RI) labelling of a protein posessing lysine as the N-terminal residue (Lys-XBD) was achieved under mild enzymatic reaction condition using L/F-tRNA-protein transferase. To expose a single lysine moiety only at the N-teminal site, we overexpressed pelB signal peptide-Lys-XBD fusion protein using the bacterial expression host BL21(DE3). The pelB signal peptide was sponteneously cleaved in E. coli to obtain the desired Lys-XBD.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"259-60"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.259","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40903184","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: 4
Stereo-defined synthesis of 5'-(Z)-substituted 4',5'-unsaturated adenosines and evaluation of their inhibitory activity against S-adenosyl homocysteine hydrolase. 立体定向合成5′-(Z)-取代4′，5′-不饱和腺苷及其对s -腺苷同型半胱氨酸水解酶抑制活性的评价
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.13
Hiroki Kumamoto, Sayoko Onuma, Hiromichi Tanaka, Yukio Kitade
{"title":"Stereo-defined synthesis of 5'-(Z)-substituted 4',5'-unsaturated adenosines and evaluation of their inhibitory activity against S-adenosyl homocysteine hydrolase.","authors":"Hiroki Kumamoto,&nbsp;Sayoko Onuma,&nbsp;Hiromichi Tanaka,&nbsp;Yukio Kitade","doi":"10.1093/nass/3.1.13","DOIUrl":"https://doi.org/10.1093/nass/3.1.13","url":null,"abstract":"<p><p>A new approach was developed for the synthesis of 5'-(Z)-substituted 4',5'-unsaturated adenosines, potential inhibitors against S-adenosyl-L-homocysteine hydrolase (SAHase). A highly stereoselective radical-mediated sulfur-extrusive stannylation was employed as a key step in the present approach. Inhibitory activity of the compounds against SAHase is also presented.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"13-4"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.13","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824173","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
Use of a ribozyme library for validation of gene functions and cellular pathways. 使用核酶文库验证基因功能和细胞途径。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.253
Eigo Suyama, Hiroaki Kawasaki, Kazunari Taira
{"title":"Use of a ribozyme library for validation of gene functions and cellular pathways.","authors":"Eigo Suyama,&nbsp;Hiroaki Kawasaki,&nbsp;Kazunari Taira","doi":"10.1093/nass/3.1.253","DOIUrl":"https://doi.org/10.1093/nass/3.1.253","url":null,"abstract":"<p><p>An effective and simple technology is required to identify genes that function in a particular phenotype of interest. A system for identification of genes with libraries of randomized ribozymes has a great potential to investigate gene functions and cellular pathways. This system has been used to identify genes that are relevant to several phenotypes. In vivo application of the library of ribozymes in mice model was also performed to identify genes involved in metastasis. Libraries of ribozymes might be used in vitro and in vivo to study various aspects of basic cell biology and disease processes including metastasis.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"253-4"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.253","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824185","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: 4
Synthetic biology with artificially expanded genetic information systems. From personalized medicine to extraterrestrial life. 人工扩展遗传信息系统的合成生物学。从个性化医疗到外星生命。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.125
Steven A Benner, Daniel Hutter, A Michael Sismour
{"title":"Synthetic biology with artificially expanded genetic information systems. From personalized medicine to extraterrestrial life.","authors":"Steven A Benner,&nbsp;Daniel Hutter,&nbsp;A Michael Sismour","doi":"10.1093/nass/3.1.125","DOIUrl":"https://doi.org/10.1093/nass/3.1.125","url":null,"abstract":"<p><p>Over 15 years ago, the Benner group noticed that the DNA alphabet need not be limited to the four standard nucleotides known in natural DNA. Rather, twelve nucleobases forming six base pairs joined by mutually exclusive hydrogen bonding patterns are possible within the geometry of the Watson-Crick pair (Fig. 1). Synthesis and studies on these compounds have brought us to the threshold of a synthetic biology, an artificial chemical system that does basic processes needed for life (in particular, Darwinian evolution), but with unnatural chemical structures. At the same time, the artificial genetic information systems (AEGIS) that we have developed have been used in FDA-approved commercial tests for managing HIV and hepatitis C infections in individual patients, and in a tool that seeks the virus for severe acute respiratory syndrome (SARS). AEGIS also supports the next generation of robotic probes to search for genetic molecules on Mars, Europa, and elsewhere where NASA probes will travel.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"125-6"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.125","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824474","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: 6
A direct and efficient synthesis method for dumbell-shaped linear DNA using PCR in vitro. 一种直接高效的体外聚合酶链反应合成哑铃形线性DNA的方法。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.191
Masumi Taki, Yoshio Kato, Makoto Miyagishi, Yasuomi Takagi, Masayuki Sano, Kazunari Taira
{"title":"A direct and efficient synthesis method for dumbell-shaped linear DNA using PCR in vitro.","authors":"Masumi Taki,&nbsp;Yoshio Kato,&nbsp;Makoto Miyagishi,&nbsp;Yasuomi Takagi,&nbsp;Masayuki Sano,&nbsp;Kazunari Taira","doi":"10.1093/nass/3.1.191","DOIUrl":"https://doi.org/10.1093/nass/3.1.191","url":null,"abstract":"<p><p>A linear, covalently-closed, dumbbell-shaped DNA vector including a transcription unit is known to have both biological stability and safety and is expected to be useful for gene therapy. We established an easy, quick, and large preparative synthetic method of modified- and unmodified-dumbbell DNA using an intramolecular cyclization at the DNA termini.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"191-2"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.191","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824487","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: 9
A new 2',3'-cis diol protecting group required for the solid-phase synthesis of capped oligonucleotide derivatives. 一种新的2'，3'-顺式二醇保护基团用于固相合成带帽寡核苷酸衍生物。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.149
Morihiro Aoyagi, Masatoshi Ushioda, Kohji Seio, Mitsuo Sekine
{"title":"A new 2',3'-cis diol protecting group required for the solid-phase synthesis of capped oligonucleotide derivatives.","authors":"Morihiro Aoyagi,&nbsp;Masatoshi Ushioda,&nbsp;Kohji Seio,&nbsp;Mitsuo Sekine","doi":"10.1093/nass/3.1.149","DOIUrl":"https://doi.org/10.1093/nass/3.1.149","url":null,"abstract":"<p><p>New 2',3'-cis-diol protecting groups of methylated G-capping reagents required for the solid-phase synthesis of capped oligonucleotide derivatives were designed so as to have a phenylborate skeleton with an alkylaminomethyl substituent and a DMTr group. The former can stabilize the boronic ester function. The latter led to significant enhancement of the solubility of the capping building units and the spectrometric assay of the DMTr cation generated upon acid treatment of capped products on solid supports enabled us to estimate easily the coupling yield of the 5'-capping reaction. The utility of these protecting groups are discussed.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"149-50"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.149","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824658","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: 2
Investigation of physical and physiological properties of 4'-thioribonucleotide (4'-thioRNA). 4'-硫核糖核苷酸(4'-thioRNA)物理生理性质的研究。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.209
Shuichi Hoshika, Naonori Inoue, Noriaki Minakawa, Akira Matsuda
{"title":"Investigation of physical and physiological properties of 4'-thioribonucleotide (4'-thioRNA).","authors":"Shuichi Hoshika,&nbsp;Naonori Inoue,&nbsp;Noriaki Minakawa,&nbsp;Akira Matsuda","doi":"10.1093/nass/3.1.209","DOIUrl":"https://doi.org/10.1093/nass/3.1.209","url":null,"abstract":"<p><p>An efficient and practical synthesis of 4'-thioribonucleosides was accomplished via the Pummerer reaction. The resulting 4'-thioribonucleosides were converted into the corresponding phosphoramidite units, and 4'-thioribonucleic acids (4'-thioRNAs) of 15 mer were synthesized on a DNA synthesizer using a controlled pore glass (CPG) with 4'-thiouridine unit. The thermal stability of 4'-thioRNA:RNA duplex was higher than that of RNA:RNA duplex. Moreover, the thermal stability of 4'-thioRNA:4'-thioRNA duplex was the highest and stabilized 30 degrees C or more compared with RNA:RNA duplex (>99 degrees C vs 66 degrees C). Structural analysis by CD spectra indicates that 4'-thioRNA:4'-thioRNA duplex and 4'-thioRNA:RNA duplex adapt A-form conformation as well as RNA:RNA duplex.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"209-10"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.209","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40824934","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
Synthesis and biological properties of stable phosmidosine analogs. 稳定硫磷类似物的合成及生物学性质。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.105
Kazuhisa Okada, Haruhiko Taguchi, Kohji Seio, Hideaki Kakeya, Hiroyuki Osada, Takuma Sasaki, Mitsuo Sekine
{"title":"Synthesis and biological properties of stable phosmidosine analogs.","authors":"Kazuhisa Okada,&nbsp;Haruhiko Taguchi,&nbsp;Kohji Seio,&nbsp;Hideaki Kakeya,&nbsp;Hiroyuki Osada,&nbsp;Takuma Sasaki,&nbsp;Mitsuo Sekine","doi":"10.1093/nass/3.1.105","DOIUrl":"https://doi.org/10.1093/nass/3.1.105","url":null,"abstract":"<p><p>Phosmidosine and a variety of its analogs were synthesized by reaction of N-diisopropyl-N'-(N tritylaminoacyl)phosphorodiamidite derivatives with appropriately protected 8-oxoadenosine derivatives. It was found that replacement of the methyl group of the N-acylphosphoramidate linkage with longer alkyl groups resulted in significant stabilization of the ester linkage. Among the phosmidosine analogs synthesized, the O-ethyl derivative was easily synthesized and was found to be sufficiently stable under acidic and neutral conditions. These stable phosmidosine analogs exhibited similar antitumor activities against several cancer cell lines. The structure-activity relationship is also discussed.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"105-6"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.105","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40825074","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
Molecular design of hairpin pyrrole-imidazole polyamides possessing sequence specific DNA alkylating moiety. 具有序列特异性DNA烷基化片段的发夹型吡咯-咪唑聚酰胺的分子设计。
Nucleic acids research. Supplement (2001) Pub Date : 2003-01-01 DOI: 10.1093/nass/3.1.119
Akihiko Narita, Toshikazu Bando, Hiroshi Sugiyama
{"title":"Molecular design of hairpin pyrrole-imidazole polyamides possessing sequence specific DNA alkylating moiety.","authors":"Akihiko Narita,&nbsp;Toshikazu Bando,&nbsp;Hiroshi Sugiyama","doi":"10.1093/nass/3.1.119","DOIUrl":"https://doi.org/10.1093/nass/3.1.119","url":null,"abstract":"<p><p>By conjugating pyrrole (Py)/imidazole (Im) hairpin polyamides with CBI, a stable alkylating moiety, we have developed a new type of DNA-sequence-specific alkylating agent. The sequence specificity and alkylation efficiency of the CBI conjugates were analyzed with high-resolution denaturing gel electrophoresis using linear 450- and 1000-bp DNA. The results demonstrate that CBI conjugates selectively alkylate adenine in specific sequences, whereas the previous type of alkylating polyamide, which contains segment A of DU-86, alkylates both adenine and guanine.</p>","PeriodicalId":86149,"journal":{"name":"Nucleic acids research. Supplement (2001)","volume":" 3","pages":"119-20"},"PeriodicalIF":0.0,"publicationDate":"2003-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/3.1.119","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40825081","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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