Artificial DNA: PNA & XNA最新文献_第6页

Sensitive detection of nucleic acids by PNA hybridization directed co-localization of fluorescent beads. 利用PNA杂交定向荧光珠共定位的核酸敏感检测方法。

Artificial DNA: PNA & XNA Pub Date : 2011-04-01 DOI: 10.4161/adna.2.2.16562

Takehiko Shiraishi, Stijn Deborggraeve, Philippe Büscher, Peter E Nielsen

{"title":"Sensitive detection of nucleic acids by PNA hybridization directed co-localization of fluorescent beads.","authors":"Takehiko Shiraishi, Stijn Deborggraeve, Philippe Büscher, Peter E Nielsen","doi":"10.4161/adna.2.2.16562","DOIUrl":"https://doi.org/10.4161/adna.2.2.16562","url":null,"abstract":"We have designed a pair of biotinylated peptide nucleic acid (PNA) probes targeting two sequences in 18S rRNA (from the parasite Trypanosoma brucei) at a distance of 191 nt (corresponding to maximum distance of ca. 60 nm) from each other. The PNA probes were individually bound to (strept)avidin-coated fluorescent beads, differing in size and color [green beads (1 µm) and red beads (5.9 µm)], thereby allowing distinct detection of each PNA probe by conventional fluorescence microscopy. These two PNA beads showed easily detectable co-localization when simultaneously hybridizing to a target nucleic acid. The assay detected the parasite 18S rRNA down to 1.6 fmol while there was no such co-localization visible with human 18S rRNA not containing the PNA targets. Furthermore, the assay showed positive detection with 1.6 ng of total RNA (corresponding to RNA from ca. 300 parasites). Upon further optimization this method may provide a new tool for a diagnosis of Human African Trypanosomiasis (HAT) and it may more generally have applications within diagnostics for (neglected) infectious diseases.","PeriodicalId":8444,"journal":{"name":"Artificial DNA: PNA & XNA","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2011-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4161/adna.2.2.16562","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"29991669","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 16

A novel pseudo-complementary PNA G-C base pair. 一种新型伪互补PNA G-C碱基对。

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15554

Anne G Olsen, Otto Dahl, Asger B Petersen, John Nielsen, Peter E Nielsen

引用次数: 13

DNA breathes Hoogsteen. DNA呼吸着Hoogsteen。

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15509

Maxim D Frank-Kamenetskii

引用次数: 12

Natural Arsenate DNA? 天然砷酸盐 DNA？

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15657

Peter E Nielsen

引用次数: 0

Molecular computing by PNA:PNA duplex formation. PNA分子计算:PNA双相结构。

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15459

Filbert Totsingan, Rosangela Marchelli, Roberto Corradini

引用次数: 5

Antisense mediated exon skipping therapy for duchenne muscular dystrophy (DMD). 反义介导的外显子跳跃治疗杜氏肌营养不良(DMD)。

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15425

Camilla Brolin, Takehiko Shiraishi

引用次数: 13

Targeted gene correction using psoralen, chlorambucil and camptothecin conjugates of triplex forming peptide nucleic acid (PNA). 使用补骨脂素、氯霉素和喜树碱三联肽核酸（PNA）共轭物进行靶向基因校正。

Artificial DNA: PNA & XNA Pub Date : 2011-01-01 DOI: 10.4161/adna.2.1.15553

Henrik Birkedal, Peter E Nielsen

{"title":"Targeted gene correction using psoralen, chlorambucil and camptothecin conjugates of triplex forming peptide nucleic acid (PNA).","authors":"Henrik Birkedal, Peter E Nielsen","doi":"10.4161/adna.2.1.15553","DOIUrl":"10.4161/adna.2.1.15553","url":null,"abstract":"Gene correction activation effects of a small series of triplex forming peptide nucleic acid (PNA) covalently conjugated to the DNA interacting ligands psoralen, chlorambucil and camptothecin targeted proximal to a stop codon mutation in an EGFP reporter gene were studied. A 15-mer homopyrimidine PNA conjugated to the topoisomerase I inhibitor camptothecin was found to increase the frequency of repair domain mediated gene correctional events of the EGFP reporter in an in vitro HeLa cell nuclear extract assay, whereas PNA psoralen or chlorambucil conjugates both of which form covalent and also interstrand crosslinked adducts with dsDNA dramatically decreased the frequency of targeted repair/correction. The PNA conjugates were also studied in mammalian cell lines upon transfection of PNA bound EGFP reporter vector and scoring repair of the EGFP gene by FACS analysis of functional EGFP expression. Consistent with the extract experiments, treatment with adduct forming PNA conjugates (psoralen and chlorambucil) resulted in a decrease in background correction frequencies in transiently transfected cells, whereas unmodified PNA or the PNA-camptothecin conjugate had little or no effect. These results suggest that simple triplex forming PNAs have little effect on proximal gene correctional events whereas PNA conjugates capable of forming DNA adducts and interstrand crosslinks are strong inhibitors. Most interestingly the PNA conjugated to the topoisomerase inhibitor, camptothecin enhanced repair in nuclear extract. Thus the effects and use of camptothecin conjugates in gene targeted repair merit further studies.","PeriodicalId":8444,"journal":{"name":"Artificial DNA: PNA & XNA","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2011-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3116579/pdf/adna0201_0023.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"29947328","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Small RNAs hit a new target: Modulation of gene expression by targeting the non-coding sequences downstream from a gene. 小rna击中了一个新的目标:通过靶向基因下游的非编码序列来调节基因表达。

Artificial DNA: PNA & XNA Pub Date : 2010-10-01 DOI: 10.4161/adna.1.2.13945

Vadim V Demidov

引用次数: 0

1,4-linked 1,2,3-Triazole des-peptidic analogues of PNA (TzNA): Synthesis of TzNA oligomers by "click" reaction on solid phase and stabilization of derived triplexes with DNA. PNA的1,4-链1,2,3-三唑去肽类似物(TzNA):通过固相“点击”反应合成TzNA低聚物并与DNA稳定衍生的三联体。

Artificial DNA: PNA & XNA Pub Date : 2010-10-01 DOI: 10.4161/adna.1.2.13185

Gitali Devi, Krishna N Ganesh

引用次数: 1

A pyrenyl-PNA probe for DNA and RNA recognition: Fluorescence and UV absorption studies. 用于DNA和RNA识别的芘基pna探针:荧光和紫外吸收研究。

Artificial DNA: PNA & XNA Pub Date : 2010-10-01 DOI: 10.4161/adna.1.2.13899

Tullia Tedeschi, Alessandro Tonelli, Stefano Sforza, Roberto Corradini, Rosangela Marchelli

{"title":"A pyrenyl-PNA probe for DNA and RNA recognition: Fluorescence and UV absorption studies.","authors":"Tullia Tedeschi, Alessandro Tonelli, Stefano Sforza, Roberto Corradini, Rosangela Marchelli","doi":"10.4161/adna.1.2.13899","DOIUrl":"https://doi.org/10.4161/adna.1.2.13899","url":null,"abstract":"The design and the synthesis of a PNA oligomer containing a pyrenyl residue in the backbone were performed. PNA sequence was chosen complementary to a \"G rich\" target sequence involved in G-quadruplex formation. The pyrenyl unit replaced a nucleobase in the middle of the PNA through covalent linkage to the backbone by a carboxymethyl unit. A systematic study on the binding properties of this probe towards DNA and RNA complementary strands was carried out by UV and fluorescence spectroscopy. UV melting curves indicated that the PNA probe binds more tightly to RNA rather than to DNA. Thermodynamic data obtained by Van't Hoff fitting of the melting curves indicated that, in the case of RNA, a more favorable interaction occurs between the pyrenyl unit and the RNA nucleobases, leading to a very favorable enthalpic contribution.The fluorescence analysis showed specific quenching of the pyrene emission associated to the formation of the full-match PNA-DNA or PNA-RNA duplexes. Again, this behavior was more evident in the case of RNA, consistently with the stronger interaction of the pyrenyl unit with the complementary strand. In order to study the sequence specificity of the pyrenyl-PNA probe (pyr-PNA), recognition experiments on mismatched DNA and RNA sequences were also performed.","PeriodicalId":8444,"journal":{"name":"Artificial DNA: PNA & XNA","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2010-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.4161/adna.1.2.13899","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"29947322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 16