Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells
Summary: Understanding chromatin dynamics in red blood cells (RBCs) is critical for exploring the differentiation process and homeostasis maintenance during erythropoiesis. Here, we describe a protocol for isolation of zebrafish erythrocytes labelled with gata1:dsRed by fluorescence-activated cell s...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-12-01
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| Series: | STAR Protocols |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166722007699 |
| _version_ | 1798005216328548352 |
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| author | Yanyan Ding Feng Liu |
| author_facet | Yanyan Ding Feng Liu |
| author_sort | Yanyan Ding |
| collection | DOAJ |
| description | Summary: Understanding chromatin dynamics in red blood cells (RBCs) is critical for exploring the differentiation process and homeostasis maintenance during erythropoiesis. Here, we describe a protocol for isolation of zebrafish erythrocytes labelled with gata1:dsRed by fluorescence-activated cell sorting. We detail steps for ATAC-seq library construction from the isolated RBCs and describe how to analyze the quality of the library. The library can then be used to assay genome-wide chromatin accessibility in these RBCs.For complete details on the use and execution of this protocol, please refer to Ding et al. (2021).1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| first_indexed | 2024-04-11T12:35:35Z |
| format | Article |
| id | doaj.art-7b1c5002b02b4b38b4fe61e365e033e3 |
| institution | Directory Open Access Journal |
| issn | 2666-1667 |
| language | English |
| last_indexed | 2024-04-11T12:35:35Z |
| publishDate | 2022-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj.art-7b1c5002b02b4b38b4fe61e365e033e32022-12-22T04:23:37ZengElsevierSTAR Protocols2666-16672022-12-0134101889Protocol for isolation and ATAC-seq library construction of zebrafish red blood cellsYanyan Ding0Feng Liu1State Key Laboratory of Membrane Biology, Institute of Zoology, Chinese Academy of Sciences, Institute for Stem Cell and Regeneration, University of Chinese Academy of Sciences, Beijing, China; School of Life Sciences, Shandong University, Qingdao, ChinaState Key Laboratory of Membrane Biology, Institute of Zoology, Chinese Academy of Sciences, Institute for Stem Cell and Regeneration, University of Chinese Academy of Sciences, Beijing, China; School of Life Sciences, Shandong University, Qingdao, China; Corresponding authorSummary: Understanding chromatin dynamics in red blood cells (RBCs) is critical for exploring the differentiation process and homeostasis maintenance during erythropoiesis. Here, we describe a protocol for isolation of zebrafish erythrocytes labelled with gata1:dsRed by fluorescence-activated cell sorting. We detail steps for ATAC-seq library construction from the isolated RBCs and describe how to analyze the quality of the library. The library can then be used to assay genome-wide chromatin accessibility in these RBCs.For complete details on the use and execution of this protocol, please refer to Ding et al. (2021).1 : 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/S2666166722007699Cell BiologyDevelopmental biology |
| spellingShingle | Yanyan Ding Feng Liu Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells STAR Protocols Cell Biology Developmental biology |
| title | Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells |
| title_full | Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells |
| title_fullStr | Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells |
| title_full_unstemmed | Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells |
| title_short | Protocol for isolation and ATAC-seq library construction of zebrafish red blood cells |
| title_sort | protocol for isolation and atac seq library construction of zebrafish red blood cells |
| topic | Cell Biology Developmental biology |
| url | http://www.sciencedirect.com/science/article/pii/S2666166722007699 |
| work_keys_str_mv | AT yanyanding protocolforisolationandatacseqlibraryconstructionofzebrafishredbloodcells AT fengliu protocolforisolationandatacseqlibraryconstructionofzebrafishredbloodcells |