Site-specific strand bias in gene correction using single-stranded oligonucleotides

Charlotte B Sørensen; Anne-Margrethe Krogsdam; Marie S Andersen; Karsten Kristiansen; Lars Bolund; Thomas G Jensen

doi:10.1007/s00109-004-0592-6

Site-specific strand bias in gene correction using single-stranded oligonucleotides

Charlotte B Sørensen, Anne-Margrethe Krogsdam, Marie S Andersen, Karsten Kristiansen, Lars Bolund, Thomas G Jensen

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

17 Citationer (Scopus)

Abstract

Udgivelsesdato: 2005-Jan

Originalsprog	Engelsk
Tidsskrift	Journal of Molecular Medicine
Vol/bind	83
Udgave nummer	1
Sider (fra-til)	39-49
Antal sider	10
ISSN	0946-2716
DOI	https://doi.org/10.1007/s00109-004-0592-6
Status	Udgivet - 2004
Udgivet eksternt	Ja

Bibliografisk note

Keywords: Animals; Base Sequence; CHO Cells; Cricetinae; Cricetulus; DNA, Single-Stranded; Gene Targeting; Molecular Sequence Data; Oligodeoxyribonucleotides; Point Mutation; RNA; beta-Galactosidase

Adgang til dokumentet

10.1007/s00109-004-0592-6

Citationsformater

@article{b0426b10a8ea11debc73000ea68e967b,

title = "Site-specific strand bias in gene correction using single-stranded oligonucleotides",

abstract = "Targeted gene editing mediated by chimeric RNA-DNA oligonucleotides (RDOs) or single-stranded oligo-deoxyribonucleotides (ssODNs) has been demonstrated in a wide variety of cell types both in vitro and in vivo. In this study we investigated the correlation between the polarity of the used oligonucleotides and the obtained correction frequency in targeted ssODN-mediated correction of two G>A mutations (introduced at positions 659 and 1567, respectively) in an episomal beta-galactosidase gene. At position 659 the highest correction efficiency was observed using an ssODN complementary to the transcribed strand of the target gene. In contrast, at position 1567 the highest correction frequency was observed using an ssODN complementary to the nontranscribed strand of the target gene. It has been reported that site-specific gene editing mediated by ssODNs targeting the nontranscribed strand of the target gene results in a higher gene editing frequency, and it has been suggested that steric hindrance or displacement of ssODNs by traversing transcription complexes prevents efficient targeting of the transcribed strand. However, the results of the present study demonstrate that occupancy by transcriptional complexes alone does not dictate strand bias in ssODN-mediated gene editing, and that the sequences surrounding the targeted nucleotide may profoundly influence strand bias. This finding has important implications for the design of optimal ssODNs for targeted editing of a given nucleotide sequence.",

author = "S{\o}rensen, {Charlotte B} and Anne-Margrethe Krogsdam and Andersen, {Marie S} and Karsten Kristiansen and Lars Bolund and Jensen, {Thomas G}",

note = "Keywords: Animals; Base Sequence; CHO Cells; Cricetinae; Cricetulus; DNA, Single-Stranded; Gene Targeting; Molecular Sequence Data; Oligodeoxyribonucleotides; Point Mutation; RNA; beta-Galactosidase",

year = "2004",

doi = "10.1007/s00109-004-0592-6",

language = "English",

volume = "83",

pages = "39--49",

journal = "Journal of Molecular Medicine",

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T1 - Site-specific strand bias in gene correction using single-stranded oligonucleotides

AU - Sørensen, Charlotte B

AU - Krogsdam, Anne-Margrethe

AU - Andersen, Marie S

AU - Kristiansen, Karsten

AU - Bolund, Lars

AU - Jensen, Thomas G

N1 - Keywords: Animals; Base Sequence; CHO Cells; Cricetinae; Cricetulus; DNA, Single-Stranded; Gene Targeting; Molecular Sequence Data; Oligodeoxyribonucleotides; Point Mutation; RNA; beta-Galactosidase

PY - 2004

Y1 - 2004

N2 - Targeted gene editing mediated by chimeric RNA-DNA oligonucleotides (RDOs) or single-stranded oligo-deoxyribonucleotides (ssODNs) has been demonstrated in a wide variety of cell types both in vitro and in vivo. In this study we investigated the correlation between the polarity of the used oligonucleotides and the obtained correction frequency in targeted ssODN-mediated correction of two G>A mutations (introduced at positions 659 and 1567, respectively) in an episomal beta-galactosidase gene. At position 659 the highest correction efficiency was observed using an ssODN complementary to the transcribed strand of the target gene. In contrast, at position 1567 the highest correction frequency was observed using an ssODN complementary to the nontranscribed strand of the target gene. It has been reported that site-specific gene editing mediated by ssODNs targeting the nontranscribed strand of the target gene results in a higher gene editing frequency, and it has been suggested that steric hindrance or displacement of ssODNs by traversing transcription complexes prevents efficient targeting of the transcribed strand. However, the results of the present study demonstrate that occupancy by transcriptional complexes alone does not dictate strand bias in ssODN-mediated gene editing, and that the sequences surrounding the targeted nucleotide may profoundly influence strand bias. This finding has important implications for the design of optimal ssODNs for targeted editing of a given nucleotide sequence.

AB - Targeted gene editing mediated by chimeric RNA-DNA oligonucleotides (RDOs) or single-stranded oligo-deoxyribonucleotides (ssODNs) has been demonstrated in a wide variety of cell types both in vitro and in vivo. In this study we investigated the correlation between the polarity of the used oligonucleotides and the obtained correction frequency in targeted ssODN-mediated correction of two G>A mutations (introduced at positions 659 and 1567, respectively) in an episomal beta-galactosidase gene. At position 659 the highest correction efficiency was observed using an ssODN complementary to the transcribed strand of the target gene. In contrast, at position 1567 the highest correction frequency was observed using an ssODN complementary to the nontranscribed strand of the target gene. It has been reported that site-specific gene editing mediated by ssODNs targeting the nontranscribed strand of the target gene results in a higher gene editing frequency, and it has been suggested that steric hindrance or displacement of ssODNs by traversing transcription complexes prevents efficient targeting of the transcribed strand. However, the results of the present study demonstrate that occupancy by transcriptional complexes alone does not dictate strand bias in ssODN-mediated gene editing, and that the sequences surrounding the targeted nucleotide may profoundly influence strand bias. This finding has important implications for the design of optimal ssODNs for targeted editing of a given nucleotide sequence.

U2 - 10.1007/s00109-004-0592-6

DO - 10.1007/s00109-004-0592-6

M3 - Journal article

C2 - 15517130

VL - 83

SP - 39

EP - 49

JO - Journal of Molecular Medicine

JF - Journal of Molecular Medicine

SN - 0946-2716

IS - 1

ER -