Protocol for capturing genome-wide chromatin interactions in Arabidopsis
Summary: High-order chromatin structure is essential for the regulation of plant growth and development. Here, we present a protocol for capturing genome-wide chromatin interactions in Arabidopsis. We describe steps for tissue fixation, nuclei isolation, chromatin digestion, ligation, sonication, an...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-06-01
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| Series: | STAR Protocols |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S266616672500108X |
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| author | Jiayue Shu Suxin Xiao Dingyue Wang Minqi Yang Yue Zhou |
| author_facet | Jiayue Shu Suxin Xiao Dingyue Wang Minqi Yang Yue Zhou |
| author_sort | Jiayue Shu |
| collection | DOAJ |
| description | Summary: High-order chromatin structure is essential for the regulation of plant growth and development. Here, we present a protocol for capturing genome-wide chromatin interactions in Arabidopsis. We describe steps for tissue fixation, nuclei isolation, chromatin digestion, ligation, sonication, and library preparation. This protocol has potential application in 3D chromatin analysis in many species of plants.For complete details on the use and execution of this protocol, please refer to Shu et al.,1 Yin et al.,2 and Yang et al.3,4 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| format | Article |
| id | doaj-art-05b79c99ddda4c359f9c85d152db2e99 |
| institution | DOAJ |
| issn | 2666-1667 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj-art-05b79c99ddda4c359f9c85d152db2e992025-08-20T02:55:54ZengElsevierSTAR Protocols2666-16672025-06-016210370210.1016/j.xpro.2025.103702Protocol for capturing genome-wide chromatin interactions in ArabidopsisJiayue Shu0Suxin Xiao1Dingyue Wang2Minqi Yang3Yue Zhou4State Key Laboratory of Gene Function and Modulation Research, School of Advanced Agricultural Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, ChinaState Key Laboratory of Gene Function and Modulation Research, School of Advanced Agricultural Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, ChinaState Key Laboratory of Gene Function and Modulation Research, School of Advanced Agricultural Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, ChinaState Key Laboratory of Gene Function and Modulation Research, School of Advanced Agricultural Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, ChinaState Key Laboratory of Gene Function and Modulation Research, School of Advanced Agricultural Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China; Corresponding authorSummary: High-order chromatin structure is essential for the regulation of plant growth and development. Here, we present a protocol for capturing genome-wide chromatin interactions in Arabidopsis. We describe steps for tissue fixation, nuclei isolation, chromatin digestion, ligation, sonication, and library preparation. This protocol has potential application in 3D chromatin analysis in many species of plants.For complete details on the use and execution of this protocol, please refer to Shu et al.,1 Yin et al.,2 and Yang et al.3,4 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S266616672500108XGeneticsSequencingPlant sciences |
| spellingShingle | Jiayue Shu Suxin Xiao Dingyue Wang Minqi Yang Yue Zhou Protocol for capturing genome-wide chromatin interactions in Arabidopsis STAR Protocols Genetics Sequencing Plant sciences |
| title | Protocol for capturing genome-wide chromatin interactions in Arabidopsis |
| title_full | Protocol for capturing genome-wide chromatin interactions in Arabidopsis |
| title_fullStr | Protocol for capturing genome-wide chromatin interactions in Arabidopsis |
| title_full_unstemmed | Protocol for capturing genome-wide chromatin interactions in Arabidopsis |
| title_short | Protocol for capturing genome-wide chromatin interactions in Arabidopsis |
| title_sort | protocol for capturing genome wide chromatin interactions in arabidopsis |
| topic | Genetics Sequencing Plant sciences |
| url | http://www.sciencedirect.com/science/article/pii/S266616672500108X |
| work_keys_str_mv | AT jiayueshu protocolforcapturinggenomewidechromatininteractionsinarabidopsis AT suxinxiao protocolforcapturinggenomewidechromatininteractionsinarabidopsis AT dingyuewang protocolforcapturinggenomewidechromatininteractionsinarabidopsis AT minqiyang protocolforcapturinggenomewidechromatininteractionsinarabidopsis AT yuezhou protocolforcapturinggenomewidechromatininteractionsinarabidopsis |