Impact of non-nucleotidic bulges on recognition of mixed-sequence dsDNA by pyrene-functionalized Invader probes

Dale C. Guenther; Raymond G. Emehiser; Allison Inskeep; Saswata Karmakar; Patrick J. Hrdlicka

doi:10.1039/d0ob01052a

Impact of non-nucleotidic bulges on recognition of mixed-sequence dsDNA by pyrene-functionalized Invader probes

Organic & Biomolecular Chemistry ◽

10.1039/d0ob01052a ◽

2020 ◽

Vol 18 (24) ◽

pp. 4645-4655

Author(s):

Dale C. Guenther ◽

Raymond G. Emehiser ◽

Allison Inskeep ◽

Saswata Karmakar ◽

Patrick J. Hrdlicka

Keyword(s):

Specific Recognition ◽

Double Stranded Dna ◽

Mixed Sequence

Invader probes featuring non-nucleotidic bulges are energetically activated for highly specific recognition of complementary double-stranded DNA targets.

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Head-to-head comparison of LNA, MPγPNA, INA and Invader probes targeting mixed-sequence double-stranded DNA

Organic & Biomolecular Chemistry ◽

10.1039/c9ob02111f ◽

2020 ◽

Vol 18 (1) ◽

pp. 56-65 ◽

Cited By ~ 3

Author(s):

Raymond G. Emehiser ◽

Eric Hall ◽

Dale C. Guenther ◽

Saswata Karmakar ◽

Patrick J. Hrdlicka

Keyword(s):

Specific Recognition ◽

Double Stranded Dna ◽

Mixed Sequence ◽

Modified Dna ◽

Dna Strands

Double-stranded (ds) Invader and INA probes allow for efficient and specific recognition of mixed-sequence dsDNA targets, whereas recognition is less efficient and specific with single-stranded LNA-modified DNA strands and fully modified MPγPNAs.

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A colorimetric method for the sequence-specific recognition of double-stranded DNA on the surface of a silver-coated glass slide

Canadian Journal of Chemistry ◽

10.1139/cjc-2017-0544 ◽

2018 ◽

Vol 96 (5) ◽

pp. 466-470

Author(s):

Xiaoting Guo ◽

Jing Wang ◽

Zhifang Zhu ◽

Manjun Zhang ◽

Haigang Li ◽

...

Keyword(s):

Colorimetric Method ◽

Colour Change ◽

Glass Slide ◽

Coated Glass ◽

Specific Recognition ◽

Double Stranded Dna ◽

Pcr Products ◽

Polymerase Chain ◽

Good Sequence ◽

Coated Glass Slide

In this study, a colorimetric method for sequence-specific recognition of double-stranded DNA (dsDNA) was established on the surface of a silver-coated glass slide. Oligo-1 was assembled on the surface of a silver-coated glass slide through an Ag–S bond, and Oligo-2 as reporter was used to bind with streptavidin-horseradish peroxidase (SA–HRP). They could bind with target dsDNA that was composed of Oligo-3 and Oligo-4 on the surface of a silver-coated glass slide through triplex formation. The bound HRP could be moved into the solution by DNase I and catalyze the oxidation of 3,3′,5,5′-tetramethylbenzidine (TMB). Therefore, the concentration of target dsDNA could be determined with the colour change of TMB. Under the optimum conditions, the absorbance was proportional to the concentration of target dsDNA over the range of 100 pmol/L to 2.0 nmol/L, with a detection limit of 13 pmol/L. In addition, this method showed good sequence selectivity, enabling it to be further developed for the detection of other polymerase chain reaction (PCR) products.

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Selective recognition of G-quadruplexes by a dimeric carbocyanine dye

RSC Advances ◽

10.1039/c6ra05474a ◽

2016 ◽

Vol 6 (90) ◽

pp. 87400-87404 ◽

Cited By ~ 4

Author(s):

P. Chilka ◽

P. R. Patlolla ◽

B. Datta

Keyword(s):

Selective Recognition ◽

Dna Molecules ◽

Double Stranded Dna ◽

Mixed Sequence ◽

Carbocyanine Dye ◽

G Quadruplex

A novel dimeric carbocyanine dye is found to recognise G-quadruplex structures selectively compared to mixed sequence or double-stranded DNA molecules.

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