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Synthesis and properties of new RNA molecules incorporating 2'-O-aryluridine derivatives. 含2′- o -芳基尿苷衍生物的新型RNA分子的合成及其性质。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp059
Yusuke Oeda, Yoshihiro Iijima, Hirosuke Tsunoda, Akihiro Okubo, Kohji Seio, Mitsuo Sekine
{"title":"Synthesis and properties of new RNA molecules incorporating 2'-O-aryluridine derivatives.","authors":"Yusuke Oeda,&nbsp;Yoshihiro Iijima,&nbsp;Hirosuke Tsunoda,&nbsp;Akihiro Okubo,&nbsp;Kohji Seio,&nbsp;Mitsuo Sekine","doi":"10.1093/nass/nrp059","DOIUrl":"https://doi.org/10.1093/nass/nrp059","url":null,"abstract":"<p><p>A variety of 2'-O-arylnucleosides with functional groups were synthesized by the microwave-assisted reaction of 2,2'-anhydrouridine with phenol derivatives. The 2'-O-arylnucleosides thus obtained were incorporated into 2'-O-Me RNA or DNA oligomers and their hybridization properties were studied by T(m) measurements.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"117-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp059","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28397465","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
Structure and real-time monitoring of the enzymatic reaction of APOBEC3G which is involved in anti-HIV activity. 参与抗hiv活性的APOBEC3G酶促反应的结构和实时监测。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp044
Ayako Furukawa, Takashi Nagata, Akimasa Matsugami, Yuichirou Habu, Ryuichi Sugiyama, Fumiaki Hayashi, Naohiro Kobayashi, Shigeyuki Yokoyama, Hiroshi Takaku, Masato Katahira
{"title":"Structure and real-time monitoring of the enzymatic reaction of APOBEC3G which is involved in anti-HIV activity.","authors":"Ayako Furukawa,&nbsp;Takashi Nagata,&nbsp;Akimasa Matsugami,&nbsp;Yuichirou Habu,&nbsp;Ryuichi Sugiyama,&nbsp;Fumiaki Hayashi,&nbsp;Naohiro Kobayashi,&nbsp;Shigeyuki Yokoyama,&nbsp;Hiroshi Takaku,&nbsp;Masato Katahira","doi":"10.1093/nass/nrp044","DOIUrl":"https://doi.org/10.1093/nass/nrp044","url":null,"abstract":"<p><p>Human apolipoprotein B mRNA-editing enzyme catalytic polypeptide-like 3G (APOBEC3G) is known to play a role in intrinsic cellular immunity against human immunodeficiency virus type 1 (HIV-1). The antiretroviral activity of APOBEC3G is associated with hypermutation of viral DNA through cytidine deamination. APOBEC3G contains two cytidine deaminase domains that are characterized by a highly conserved zinc-coordinating motif. It is known that only the C-terminal domain of APOBEC3G (c-APOBEC3G) is involved in the catalytic activity. Here, we present the solution structure and the interaction with single-stranded DNA of c-APOBEC3G. Furthermore, we have succeeded for the first time in monitoring the deamination reaction of c-APOBEC3G in real-time using NMR signals. The monitoring has demonstrated that the deamination reaction occurs in a strict 3'-->5'</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"87-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp044","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28397561","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: 12
A selective and sensitive detection of SNP between rice cultivars by using DNA photoligation. 利用DNA光定位技术选择性、灵敏地检测水稻品种间SNP。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp100
Yoshinaga Yoshimura, Hajime Okada, Tomoko Ohtake, Tadashi Tsukaguchi, Kenzo Fujimoto
{"title":"A selective and sensitive detection of SNP between rice cultivars by using DNA photoligation.","authors":"Yoshinaga Yoshimura,&nbsp;Hajime Okada,&nbsp;Tomoko Ohtake,&nbsp;Tadashi Tsukaguchi,&nbsp;Kenzo Fujimoto","doi":"10.1093/nass/nrp100","DOIUrl":"https://doi.org/10.1093/nass/nrp100","url":null,"abstract":"<p><p>We describe a selective and sensitive single-nucleotide polymorphism (SNP) typing of genes from rice cultivars by using DNA photoligation. This SNP typing method facilitates qualitative determination of genes from indica and japonica rice, and showed a high degree of single nucleotide specificity.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"199-200"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp100","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28398393","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
Radiolytic one-electron reductive cyclization of oligodeoxynucleotides possessing a disulfide bond. 具有二硫键的寡脱氧核苷酸的放射性单电子还原环化。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp089
Eiji Matsumoto, Kazuhito Tanabe, Sei-ichi Nishimoto
{"title":"Radiolytic one-electron reductive cyclization of oligodeoxynucleotides possessing a disulfide bond.","authors":"Eiji Matsumoto,&nbsp;Kazuhito Tanabe,&nbsp;Sei-ichi Nishimoto","doi":"10.1093/nass/nrp089","DOIUrl":"https://doi.org/10.1093/nass/nrp089","url":null,"abstract":"<p><p>Radiolytic one-electron reduction of oligodeoxynucleotides (ODNs) possessing a disulfide bond induced strand exchange reaction in a hypoxia selective manner. In this study, we attempted to apply this radiolytic reaction to stem-and-loop structured ODNs. Hypoxic X-irradiation to an aqueous solution of stem-and-loop structured ODNs produced a cyclized DNA in good yield via an intrastrand ligation reaction.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"177-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp089","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28396120","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 an RNA adduct formed from aminophenylnorharman. 氨基苯基诺哈曼形成的RNA加合物的分析。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp106
Koichi Nishimura, Yukari Totsuka, Takashi Higuchi, Nobuo Kawahara, Takashi Sugimura, Keiji Wakabayashi
{"title":"Analysis of an RNA adduct formed from aminophenylnorharman.","authors":"Koichi Nishimura,&nbsp;Yukari Totsuka,&nbsp;Takashi Higuchi,&nbsp;Nobuo Kawahara,&nbsp;Takashi Sugimura,&nbsp;Keiji Wakabayashi","doi":"10.1093/nass/nrp106","DOIUrl":"https://doi.org/10.1093/nass/nrp106","url":null,"abstract":"<p><p>The endogenous mutagenic/carcinogenic 9- (4'-aminophenyl) -9H- pyrido [3,4-b] indole (aminophenylnorharman, APNH) is formed from norharman and aniline in the presence of cytochrome P-450s. The major APNH-DNA adduct has been reported to be 2'-deoxyguanosin-8-yl-aminophenylnorhaman (dG-C8-APNH). In addition, demonstrated formation of APNH-RNA adduct and conducted a structural analysis using various spectrometric approaches. The compound produced from guanosine (Guo) and N-acetoxy-APNH, an ultimate mutagenic form of APNH, was concluded to be guanosin-8-yl-APNH (Guo-C8-APNH) on the basis of various spectroscopic analysis. The same adduct was found in the livers of rats administered APNH. The total adduct levels of APNH-RNA were six times higher than total APNH-DNA adducts in the same rat liver samples.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"211-2"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp106","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28398862","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
The oxidation of 2'-deoxy-8-oxoguanosine by iodine. 碘对2'-脱氧-8-氧鸟苷的氧化作用
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp110
Masayuki Morikawa, Teruhiko Kobayashi, Takanobu Kobayashi, Rie Komori, Yoshihisa Sei, Hiroshi Miyazawa, Katsuhito Kino
{"title":"The oxidation of 2'-deoxy-8-oxoguanosine by iodine.","authors":"Masayuki Morikawa,&nbsp;Teruhiko Kobayashi,&nbsp;Takanobu Kobayashi,&nbsp;Rie Komori,&nbsp;Yoshihisa Sei,&nbsp;Hiroshi Miyazawa,&nbsp;Katsuhito Kino","doi":"10.1093/nass/nrp110","DOIUrl":"https://doi.org/10.1093/nass/nrp110","url":null,"abstract":"<p><p>8-Oxoguanine is the typical oxidative product, but 8-oxoguanine is further oxidized by several oxidizing agents. Here, we investigated the oxidation of 2'-deoxy-8-oxoguanosine with aqueous iodine.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"219-20"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp110","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28398866","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
Synthesis and properties of a novel artificial nucleoside that acts as a redox switch. 一种新型人工核苷氧化还原开关的合成及其性质。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp054
Takeshi Baba, Tetsuya Kodama, Takeshi Imanishi, Satoshi Obika
{"title":"Synthesis and properties of a novel artificial nucleoside that acts as a redox switch.","authors":"Takeshi Baba,&nbsp;Tetsuya Kodama,&nbsp;Takeshi Imanishi,&nbsp;Satoshi Obika","doi":"10.1093/nass/nrp054","DOIUrl":"https://doi.org/10.1093/nass/nrp054","url":null,"abstract":"<p><p>Oligonucleotide that can reversibly alter the duplex-forming ability in response to an external factor has potential to be applied to various genome technologies, e.g. antisense and gene diagnosis technology. A novel bridged nucleoside which is capable of sensing an oxidant and reductant was designed and synthesized. The nucleoside formed a disulfide bridge between C2' and C4' positions, which would enhance its duplex-forming ability under oxidative conditions. Contrastingly, the disulfide bridge was cleaved under reductive conditions; it could cause decrease of duplex-forming ability.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"107-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp054","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28397460","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
Identification of DNA binding specificity for TLS. TLS DNA结合特异性的鉴定。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp124
Kentaro Takahama, Shigeki Arai, Riki Kurokawa, Takanori Oyoshi
{"title":"Identification of DNA binding specificity for TLS.","authors":"Kentaro Takahama,&nbsp;Shigeki Arai,&nbsp;Riki Kurokawa,&nbsp;Takanori Oyoshi","doi":"10.1093/nass/nrp124","DOIUrl":"https://doi.org/10.1093/nass/nrp124","url":null,"abstract":"<p><p>TLS (Translocated in liposarcoma) has been characterized as a rearranged gene in chromosomal translocations specific of human myxoid liposarcoma. The various cellular functions of TLS participating either in transcription or splicing processes are thought the involvement of an interaction of TLS with DNA and/or RNA. To investigate insight into DNA-TLS interaction, we performed Electrophoretic mobility shift assay of TLS with G-quadruplex DNA. It revealed that TLS especially bound to single stranded human telomeric DNA in the presence of potassium ion while it was not able to bind double stranded human telomeric DNA and single stranded human telomeric DNA in the presence of sodium ion.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"247-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp124","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28397570","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: 10
Influence of 3'-azido-2',3'-dideoxyguanosine treatment on telomere length in human telomerase-immortalized human fibroblast cells. 3′-叠氮-2′，3′-二脱氧鸟苷处理对端粒酶永生化人成纤维细胞端粒长度的影响。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp125
Yuichi Kurashina, Xiaohong Liu, Chiemi Kato, Naoki Inoue, Mineo Saneyoshi, Toyofumi Yamaguchi
{"title":"Influence of 3'-azido-2',3'-dideoxyguanosine treatment on telomere length in human telomerase-immortalized human fibroblast cells.","authors":"Yuichi Kurashina,&nbsp;Xiaohong Liu,&nbsp;Chiemi Kato,&nbsp;Naoki Inoue,&nbsp;Mineo Saneyoshi,&nbsp;Toyofumi Yamaguchi","doi":"10.1093/nass/nrp125","DOIUrl":"https://doi.org/10.1093/nass/nrp125","url":null,"abstract":"<p><p>In order to study telomerase activation in normal cells, a telomerase-immortalized fibroblast cell line, hTERT-BJ1, treated with a telomerase inhibitor, 3'-azido-2',3'-dideoxyguanosine (AZddG), is considered to be a good model. Long-term treatment with AZddG resulted in telomere shortening from 10-20 kbp to 5-6 kbp in cultured hTERT BJ1 cells. However, the telomere length then stabilized. As expected, removal of AZddG from the culture medium induced telomere lengthening in the cells, suggesting that telomerase activity was recovered upon AZddG removal. The effect of recovery of telomerase activity in hTERT-BJ1 cells will be investigated in future studies.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"249-50"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp125","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28397571","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
Site-specific modification of RNA by functionality-transfer ODN probes. 功能转移ODN探针对RNA的位点特异性修饰。
Nucleic acids symposium series (2004) Pub Date : 2009-01-01 DOI: 10.1093/nass/nrp034
Kazumitsu Onizuka, Yosuke Taniguchi, Takamasa Nishioka, Shigeki Sasaki
{"title":"Site-specific modification of RNA by functionality-transfer ODN probes.","authors":"Kazumitsu Onizuka,&nbsp;Yosuke Taniguchi,&nbsp;Takamasa Nishioka,&nbsp;Shigeki Sasaki","doi":"10.1093/nass/nrp034","DOIUrl":"https://doi.org/10.1093/nass/nrp034","url":null,"abstract":"<p><p>Efficient methods for the modification of RNA molecules have been expected as innovative biological tools and therapeutic methods. In this study, the development of a general method for site-specific RNA modification by the functionality-transfer ODN probes has been investigated. Site-specific and cytosine-selective RNA modifications were achieved by the functionality-transfer reaction. It was shown that the base and site-selectivity were due to the close proximity of the reactants in the DNA-RNA duplexes.</p>","PeriodicalId":87448,"journal":{"name":"Nucleic acids symposium series (2004)","volume":" 53","pages":"67-8"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/nass/nrp034","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28398377","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
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