Literature DB >> 17293504

Detection of low-copy-number genomic DNA sequences in individual bacterial cells by using peptide nucleic acid-assisted rolling-circle amplification and fluorescence in situ hybridization.

Irina Smolina1, Charles Lee, Maxim Frank-Kamenetskii.   

Abstract

An approach is proposed for in situ detection of short signature DNA sequences present in single copies per bacterial genome. The site is locally opened by peptide nucleic acids, and a circular oligonucleotide is assembled. The amplicon generated by rolling circle amplification is detected by hybridization with fluorescently labeled decorator probes.

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Year:  2007        PMID： 17293504      PMCID： PMC1855634          DOI： 10.1128/AEM.02038-06

Source DB:  PubMed          Journal:  Appl Environ Microbiol        ISSN： 0099-2240            Impact factor:   4.792


  32 in total

1.  Peptide nucleic acid-assisted topological labeling of duplex dna.

Authors:  V V Demidov; H Kuhn; I V Lavrentieva-Smolina; M D Frank-Kamenetskii
Journal:  Methods       Date:  2001-02       Impact factor: 3.608

2.  Detection in coal tar waste-contaminated groundwater of mRNA transcripts related to naphthalene dioxygenase by fluorescent in situ hybridization with tyramide signal amplification.

Authors:  Corien Bakermans; Eugene L Madsen
Journal:  J Microbiol Methods       Date:  2002-06       Impact factor: 2.363

Review 3.  Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes.

Authors:  Michael Wagner; Matthias Horn; Holger Daims
Journal:  Curr Opin Microbiol       Date:  2003-06       Impact factor: 7.934

4.  Improved sensitivity of whole-cell hybridization by the combination of horseradish peroxidase-labeled oligonucleotides and tyramide signal amplification.

Authors:  W Schönhuber; B Fuchs; S Juretschko; R Amann
Journal:  Appl Environ Microbiol       Date:  1997-08       Impact factor: 4.792

5.  Detection of mRNA in streptomyces cells by whole-cell hybridization with digoxigenin-labeled probes.

Authors:  D Hahn; R I Amann; J Zeyer
Journal:  Appl Environ Microbiol       Date:  1993-08       Impact factor: 4.792

6.  Environmental whole-genome amplification to access microbial populations in contaminated sediments.

Authors:  Carl B Abulencia; Denise L Wyborski; Joseph A Garcia; Mircea Podar; Wenqiong Chen; Sherman H Chang; Hwai W Chang; David Watson; Eoin L Brodie; Terry C Hazen; Martin Keller
Journal:  Appl Environ Microbiol       Date:  2006-05       Impact factor: 4.792

7.  PD-loop: a complex of duplex DNA with an oligonucleotide.

Authors:  N O Bukanov; V V Demidov; P E Nielsen; M D Frank-Kamenetskii
Journal:  Proc Natl Acad Sci U S A       Date:  1998-05-12       Impact factor: 11.205

8.  Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells.

Authors:  E F DeLong; G S Wickham; N R Pace
Journal:  Science       Date:  1989-03-10       Impact factor: 47.728

9.  Nucleic acid amplification strategies for DNA microarray-based pathogen detection.

Authors:  Gary J Vora; Carolyn E Meador; David A Stenger; Joanne D Andreadis
Journal:  Appl Environ Microbiol       Date:  2004-05       Impact factor: 4.792

10.  Efficient pH-independent sequence-specific DNA binding by pseudoisocytosine-containing bis-PNA.

Authors:  M Egholm; L Christensen; K L Dueholm; O Buchardt; J Coull; P E Nielsen
Journal:  Nucleic Acids Res       Date:  1995-01-25       Impact factor: 16.971
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  19 in total

1.  PNA-based microbial pathogen identification and resistance marker detection: An accurate, isothermal rapid assay based on genome-specific features.

Authors:  Irina Smolina; Nancy S Miller; Maxim D Frank-Kamenetskii
Journal:  Artif DNA PNA XNA       Date:  2010-10

2.  DNA/RNA Fluorescence Imaging by Synthetic Nucleic Acids.

Authors:  Akimitsu Okamoto
Journal:  Adv Exp Med Biol       Date:  2021       Impact factor: 2.622

3.  Identification of nitrite-reducing bacteria using sequential mRNA fluorescence in situ hybridization and fluorescence-assisted cell sorting.

Authors:  Cesar R Mota; Mark Jason So; Francis L de los Reyes
Journal:  Microb Ecol       Date:  2012-02-28       Impact factor: 4.552

4.  Sequence specificity at targeting double-stranded DNA with a γ-PNA oligomer modified with guanidinium G-clamp nucleobases.

Authors:  Heiko Kuhn; Bichismita Sahu; Srinivas Rapireddy; Danith H Ly; Maxim D Frank-Kamenetskii
Journal:  Artif DNA PNA XNA       Date:  2010-07

5.  PNA-based microbial pathogen identification and resistance marker detection: an accurate, isothermal rapid assay based on genome-specific features.

Authors:  Irina Smolina; Nancy S Miller; Maxim Frank-Kamenetskii
Journal:  Artif DNA PNA XNA       Date:  2010-01

6.  Nanopore based sequence specific detection of duplex DNA for genomic profiling.

Authors:  Alon Singer; Meni Wanunu; Will Morrison; Heiko Kuhn; Maxim Frank-Kamenetskii; Amit Meller
Journal:  Nano Lett       Date:  2010-02-10       Impact factor: 11.189

7.  Fluorescence imaging of single-copy DNA sequences within the human genome using PNA-directed padlock probe assembly.

Authors:  Anastasia I Yaroslavsky; Irina V Smolina
Journal:  Chem Biol       Date:  2013-03-21

8.  Target DNA detection and quantitation on a single cell with single base resolution.

Authors:  Tania Konry; Adam Lerner; Martin L Yarmush; Irina V Smolina
Journal:  Technology (Singap World Sci)       Date:  2013-09

9.  Preparation of DNA ladder based on multiplex PCR technique.

Authors:  Tian-Yun Wang; Li Guo; Jun-He Zhang
Journal:  J Nucleic Acids       Date:  2010-07-25

10.  DNA mimics for the rapid identification of microorganisms by fluorescence in situ hybridization (FISH).

Authors:  Laura Cerqueira; Nuno F Azevedo; Carina Almeida; Tatiana Jardim; Charles William Keevil; Maria J Vieira
Journal:  Int J Mol Sci       Date:  2008-10-20       Impact factor: 5.923
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