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21 Fluorescent Protein-Based DNA Staining Dyes

Fluorescent protein–DNA-binding peptides or proteins (FP-DBP) are a powerful means to stain and visualize large DNA molecules on a fluorescence microscope. Here, we constructed 21 kinds of FP-DBPs using various colors of fluorescent proteins and two DNA-binding motifs. From the database of fluoresce...

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Autores principales: Kim, Yurie Tehee, Oh, Hyesoo, Seo, Myung Jun, Lee, Dong Hyeun, Shin, Jieun, Bong, Serang, Heo, Sujeong, Hapsari, Natalia Diyah, Jo, Kyubong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9412447/
https://www.ncbi.nlm.nih.gov/pubmed/36014487
http://dx.doi.org/10.3390/molecules27165248
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author Kim, Yurie Tehee
Oh, Hyesoo
Seo, Myung Jun
Lee, Dong Hyeun
Shin, Jieun
Bong, Serang
Heo, Sujeong
Hapsari, Natalia Diyah
Jo, Kyubong
author_facet Kim, Yurie Tehee
Oh, Hyesoo
Seo, Myung Jun
Lee, Dong Hyeun
Shin, Jieun
Bong, Serang
Heo, Sujeong
Hapsari, Natalia Diyah
Jo, Kyubong
author_sort Kim, Yurie Tehee
collection PubMed
description Fluorescent protein–DNA-binding peptides or proteins (FP-DBP) are a powerful means to stain and visualize large DNA molecules on a fluorescence microscope. Here, we constructed 21 kinds of FP-DBPs using various colors of fluorescent proteins and two DNA-binding motifs. From the database of fluorescent proteins (FPbase.org), we chose bright FPs, such as RRvT, tdTomato, mNeonGreen, mClover3, YPet, and mScarlet, which are four to eight times brighter than original wild-type GFP. Additionally, we chose other FPs, such as mOrange2, Emerald, mTurquoise2, mStrawberry, and mCherry, for variations in emitting wavelengths. For DNA-binding motifs, we used HMG (high mobility group) as an 11-mer peptide or a 36 kDa tTALE (truncated transcription activator-like effector). Using 21 FP-DBPs, we attempted to stain DNA molecules and then analyzed fluorescence intensities. Most FP-DBPs successfully visualized DNA molecules. Even with the same DNA-binding motif, the order of FP and DBP affected DNA staining in terms of brightness and DNA stretching. The DNA staining pattern by FP-DBPs was also affected by the FP types. The data from 21 FP-DBPs provided a guideline to develop novel DNA-binding fluorescent proteins.
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spelling pubmed-94124472022-08-27 21 Fluorescent Protein-Based DNA Staining Dyes Kim, Yurie Tehee Oh, Hyesoo Seo, Myung Jun Lee, Dong Hyeun Shin, Jieun Bong, Serang Heo, Sujeong Hapsari, Natalia Diyah Jo, Kyubong Molecules Article Fluorescent protein–DNA-binding peptides or proteins (FP-DBP) are a powerful means to stain and visualize large DNA molecules on a fluorescence microscope. Here, we constructed 21 kinds of FP-DBPs using various colors of fluorescent proteins and two DNA-binding motifs. From the database of fluorescent proteins (FPbase.org), we chose bright FPs, such as RRvT, tdTomato, mNeonGreen, mClover3, YPet, and mScarlet, which are four to eight times brighter than original wild-type GFP. Additionally, we chose other FPs, such as mOrange2, Emerald, mTurquoise2, mStrawberry, and mCherry, for variations in emitting wavelengths. For DNA-binding motifs, we used HMG (high mobility group) as an 11-mer peptide or a 36 kDa tTALE (truncated transcription activator-like effector). Using 21 FP-DBPs, we attempted to stain DNA molecules and then analyzed fluorescence intensities. Most FP-DBPs successfully visualized DNA molecules. Even with the same DNA-binding motif, the order of FP and DBP affected DNA staining in terms of brightness and DNA stretching. The DNA staining pattern by FP-DBPs was also affected by the FP types. The data from 21 FP-DBPs provided a guideline to develop novel DNA-binding fluorescent proteins. MDPI 2022-08-17 /pmc/articles/PMC9412447/ /pubmed/36014487 http://dx.doi.org/10.3390/molecules27165248 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Kim, Yurie Tehee
Oh, Hyesoo
Seo, Myung Jun
Lee, Dong Hyeun
Shin, Jieun
Bong, Serang
Heo, Sujeong
Hapsari, Natalia Diyah
Jo, Kyubong
21 Fluorescent Protein-Based DNA Staining Dyes
title 21 Fluorescent Protein-Based DNA Staining Dyes
title_full 21 Fluorescent Protein-Based DNA Staining Dyes
title_fullStr 21 Fluorescent Protein-Based DNA Staining Dyes
title_full_unstemmed 21 Fluorescent Protein-Based DNA Staining Dyes
title_short 21 Fluorescent Protein-Based DNA Staining Dyes
title_sort 21 fluorescent protein-based dna staining dyes
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9412447/
https://www.ncbi.nlm.nih.gov/pubmed/36014487
http://dx.doi.org/10.3390/molecules27165248
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