An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it>
<p>Abstract</p> <p>Background</p> <p>The physiological function of eukaryotic DNA occurs in the context of nucleosomal arrays that can expose or obscure defined segments of the genome. Certain DNA sequences are capable of strongly positioning a nucleosome <it>in v...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2010-07-01
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| Series: | Epigenetics & Chromatin |
| Online Access: | http://www.epigeneticsandchromatin.com/content/3/1/13 |
| _version_ | 1811246348671909888 |
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| author | Gracey Lia E Chen Zhi-Ying Maniar Jay M Valouev Anton Sidow Arend Kay Mark A Fire Andrew Z |
| author_facet | Gracey Lia E Chen Zhi-Ying Maniar Jay M Valouev Anton Sidow Arend Kay Mark A Fire Andrew Z |
| author_sort | Gracey Lia E |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The physiological function of eukaryotic DNA occurs in the context of nucleosomal arrays that can expose or obscure defined segments of the genome. Certain DNA sequences are capable of strongly positioning a nucleosome <it>in vitro</it>, suggesting the possibility that favorable intrinsic signals might reproducibly structure chromatin segments. As high-throughput sequencing analyses of nucleosome coverage <it>in vitro </it>and <it>in vivo </it>have become possible, a vigorous debate has arisen over the degree to which intrinsic DNA:nucleosome affinities orchestrate the <it>in vivo </it>positions of nucleosomes, thereby controlling physical accessibility of specific sequences in DNA.</p> <p>Results</p> <p>We describe here the <it>in vivo </it>consequences of placing a synthetic high-affinity nucleosome-positioning signal, the 601 sequence, into a DNA plasmid vector in mice. Strikingly, the 601 sequence was sufficient to position nucleosomes during an early phase after introduction of the DNA into the mice (when the plasmid vector transgene was active). This positioning capability was transient, with a loss of strong positioning at a later time point when the transgenes had become silent.</p> <p>Conclusions</p> <p>These results demonstrate an ability of DNA sequences selected solely for nucleosome affinity to organize chromatin <it>in vivo</it>, and the ability of other mechanisms to overcome these interactions in a dynamic nuclear environment.</p> |
| first_indexed | 2024-04-12T14:52:12Z |
| format | Article |
| id | doaj.art-0ba3194979ca44e9ab77cc8ed91ed262 |
| institution | Directory Open Access Journal |
| issn | 1756-8935 |
| language | English |
| last_indexed | 2024-04-12T14:52:12Z |
| publishDate | 2010-07-01 |
| publisher | BMC |
| record_format | Article |
| series | Epigenetics & Chromatin |
| spelling | doaj.art-0ba3194979ca44e9ab77cc8ed91ed2622022-12-22T03:28:23ZengBMCEpigenetics & Chromatin1756-89352010-07-01311310.1186/1756-8935-3-13An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it>Gracey Lia EChen Zhi-YingManiar Jay MValouev AntonSidow ArendKay Mark AFire Andrew Z<p>Abstract</p> <p>Background</p> <p>The physiological function of eukaryotic DNA occurs in the context of nucleosomal arrays that can expose or obscure defined segments of the genome. Certain DNA sequences are capable of strongly positioning a nucleosome <it>in vitro</it>, suggesting the possibility that favorable intrinsic signals might reproducibly structure chromatin segments. As high-throughput sequencing analyses of nucleosome coverage <it>in vitro </it>and <it>in vivo </it>have become possible, a vigorous debate has arisen over the degree to which intrinsic DNA:nucleosome affinities orchestrate the <it>in vivo </it>positions of nucleosomes, thereby controlling physical accessibility of specific sequences in DNA.</p> <p>Results</p> <p>We describe here the <it>in vivo </it>consequences of placing a synthetic high-affinity nucleosome-positioning signal, the 601 sequence, into a DNA plasmid vector in mice. Strikingly, the 601 sequence was sufficient to position nucleosomes during an early phase after introduction of the DNA into the mice (when the plasmid vector transgene was active). This positioning capability was transient, with a loss of strong positioning at a later time point when the transgenes had become silent.</p> <p>Conclusions</p> <p>These results demonstrate an ability of DNA sequences selected solely for nucleosome affinity to organize chromatin <it>in vivo</it>, and the ability of other mechanisms to overcome these interactions in a dynamic nuclear environment.</p>http://www.epigeneticsandchromatin.com/content/3/1/13 |
| spellingShingle | Gracey Lia E Chen Zhi-Ying Maniar Jay M Valouev Anton Sidow Arend Kay Mark A Fire Andrew Z An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> Epigenetics & Chromatin |
| title | An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> |
| title_full | An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> |
| title_fullStr | An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> |
| title_full_unstemmed | An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> |
| title_short | An <it>in vitro</it>-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome <it>in vivo</it> |
| title_sort | it in vitro it identified high affinity nucleosome positioning signal is capable of transiently positioning a nucleosome it in vivo it |
| url | http://www.epigeneticsandchromatin.com/content/3/1/13 |
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