Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality
Summary: Despite the symmetrical structure of nucleosomes, in vitro studies have shown that transcription proceeds with different efficiency depending on the orientation of the DNA sequence around them. However, it is unclear whether this functional asymmetry is present in vivo and whether it could...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2024-01-01
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| Series: | Cell Reports |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2211124723016170 |
| _version_ | 1797382909289562112 |
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| author | Alicia García Laura Durán Mar Sánchez Sara González Rodrigo Santamaría Francisco Antequera |
| author_facet | Alicia García Laura Durán Mar Sánchez Sara González Rodrigo Santamaría Francisco Antequera |
| author_sort | Alicia García |
| collection | DOAJ |
| description | Summary: Despite the symmetrical structure of nucleosomes, in vitro studies have shown that transcription proceeds with different efficiency depending on the orientation of the DNA sequence around them. However, it is unclear whether this functional asymmetry is present in vivo and whether it could regulate transcriptional directionality. Here, we report that the proximal and distal halves of nucleosomal DNA contribute differentially to nucleosome stability in the genome. In +1 nucleosomes, this asymmetry facilitates or hinders transcription depending on the orientation of its underlying DNA, and this difference is associated with an asymmetrical interaction between DNA and histones. These properties are encoded in the DNA signature of +1 nucleosomes, since its incorporation in the two orientations into downstream nucleosomes renders them asymmetrically accessible to MNase and inverts the balance between sense and antisense transcription. Altogether, our results show that nucleosomal DNA endows nucleosomes with asymmetrical properties that modulate the directionality of transcription. |
| first_indexed | 2024-03-08T21:12:26Z |
| format | Article |
| id | doaj.art-75d51a40174e4e3d97626f15fdd078f6 |
| institution | Directory Open Access Journal |
| issn | 2211-1247 |
| language | English |
| last_indexed | 2024-03-08T21:12:26Z |
| publishDate | 2024-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj.art-75d51a40174e4e3d97626f15fdd078f62023-12-22T05:32:45ZengElsevierCell Reports2211-12472024-01-01431113605Asymmetrical nucleosomal DNA signatures regulate transcriptional directionalityAlicia García0Laura Durán1Mar Sánchez2Sara González3Rodrigo Santamaría4Francisco Antequera5Instituto de Biología Funcional y Genómica (IBFG), CSIC–Universidad de Salamanca, Campus Miguel de Unamuno, 37007 Salamanca, SpainInstituto de Biología Funcional y Genómica (IBFG), CSIC–Universidad de Salamanca, Campus Miguel de Unamuno, 37007 Salamanca, SpainInstituto de Biología Funcional y Genómica (IBFG), CSIC–Universidad de Salamanca, Campus Miguel de Unamuno, 37007 Salamanca, SpainInstituto de Biología Funcional y Genómica (IBFG), CSIC–Universidad de Salamanca, Campus Miguel de Unamuno, 37007 Salamanca, SpainDepartamento de Informática y Automática, Universidad de Salamanca/Facultad de Ciencias, Plaza de los Caídos s/n, 37007 Salamanca, SpainInstituto de Biología Funcional y Genómica (IBFG), CSIC–Universidad de Salamanca, Campus Miguel de Unamuno, 37007 Salamanca, Spain; Corresponding authorSummary: Despite the symmetrical structure of nucleosomes, in vitro studies have shown that transcription proceeds with different efficiency depending on the orientation of the DNA sequence around them. However, it is unclear whether this functional asymmetry is present in vivo and whether it could regulate transcriptional directionality. Here, we report that the proximal and distal halves of nucleosomal DNA contribute differentially to nucleosome stability in the genome. In +1 nucleosomes, this asymmetry facilitates or hinders transcription depending on the orientation of its underlying DNA, and this difference is associated with an asymmetrical interaction between DNA and histones. These properties are encoded in the DNA signature of +1 nucleosomes, since its incorporation in the two orientations into downstream nucleosomes renders them asymmetrically accessible to MNase and inverts the balance between sense and antisense transcription. Altogether, our results show that nucleosomal DNA endows nucleosomes with asymmetrical properties that modulate the directionality of transcription.http://www.sciencedirect.com/science/article/pii/S2211124723016170CP: Molecular biology |
| spellingShingle | Alicia García Laura Durán Mar Sánchez Sara González Rodrigo Santamaría Francisco Antequera Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality Cell Reports CP: Molecular biology |
| title | Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality |
| title_full | Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality |
| title_fullStr | Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality |
| title_full_unstemmed | Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality |
| title_short | Asymmetrical nucleosomal DNA signatures regulate transcriptional directionality |
| title_sort | asymmetrical nucleosomal dna signatures regulate transcriptional directionality |
| topic | CP: Molecular biology |
| url | http://www.sciencedirect.com/science/article/pii/S2211124723016170 |
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