ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens
Identification of transcription factor binding sites is one of the most important steps in understanding the function of transcription factors and regulatory networks in organisms. The assay for transposase accessible chromatin sequencing (ATAC-seq) is a simple protocol for detection of open chromat...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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The American Phytopathological Society
2021-07-01
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| Series: | Molecular Plant-Microbe Interactions |
| Subjects: | |
| Online Access: | https://apsjournals.apsnet.org/doi/10.1094/MPMI-01-21-0006-A |
| _version_ | 1819081387342299136 |
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| author | Xiaoyang Chen Hao Liu Xiaolin Chen Junbin Huang Tom Hsiang Lu Zheng |
| author_facet | Xiaoyang Chen Hao Liu Xiaolin Chen Junbin Huang Tom Hsiang Lu Zheng |
| author_sort | Xiaoyang Chen |
| collection | DOAJ |
| description | Identification of transcription factor binding sites is one of the most important steps in understanding the function of transcription factors and regulatory networks in organisms. The assay for transposase accessible chromatin sequencing (ATAC-seq) is a simple protocol for detection of open chromatin that could be a powerful tool to advance studies of protein-DNA interactions. Although ATAC-seq has been used in systematic identification of cis-regulatory regions in animal and plant genomes, this method has been rarely applied in fungi. Here, we describe a valuable ATAC-seq resource in the genome of an economically important phytopathogen, the rice false smut fungus Ustilaginoidea virens. The ATAC-seq data of U. virens mycelia collected from potato sucrose broth (PSB) and PSB supplied with rice spikelet extract were both generated. This is the first genome-wide profiling of open chromatin and transcription factor binding sites in U. virens.[Graphic: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license. |
| first_indexed | 2024-12-21T19:59:58Z |
| format | Article |
| id | doaj.art-4e257e67eddb4b0e9f7ffed20de2905c |
| institution | Directory Open Access Journal |
| issn | 0894-0282 1943-7706 |
| language | English |
| last_indexed | 2024-12-21T19:59:58Z |
| publishDate | 2021-07-01 |
| publisher | The American Phytopathological Society |
| record_format | Article |
| series | Molecular Plant-Microbe Interactions |
| spelling | doaj.art-4e257e67eddb4b0e9f7ffed20de2905c2022-12-21T18:51:59ZengThe American Phytopathological SocietyMolecular Plant-Microbe Interactions0894-02821943-77062021-07-0134783083410.1094/MPMI-01-21-0006-AATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virensXiaoyang Chen0Hao Liu1Xiaolin Chen2Junbin Huang3Tom Hsiang4Lu Zheng5Hubei Key Laboratory of Plant Pathology, Huazhong Agricultural University, Wuhan 430070, ChinaHubei Key Laboratory of Plant Pathology, Huazhong Agricultural University, Wuhan 430070, ChinaHubei Key Laboratory of Plant Pathology, Huazhong Agricultural University, Wuhan 430070, ChinaHubei Key Laboratory of Plant Pathology, Huazhong Agricultural University, Wuhan 430070, ChinaSchool of Environmental Sciences, University of Guelph, Guelph N1G 2W1, CanadaHubei Key Laboratory of Plant Pathology, Huazhong Agricultural University, Wuhan 430070, ChinaIdentification of transcription factor binding sites is one of the most important steps in understanding the function of transcription factors and regulatory networks in organisms. The assay for transposase accessible chromatin sequencing (ATAC-seq) is a simple protocol for detection of open chromatin that could be a powerful tool to advance studies of protein-DNA interactions. Although ATAC-seq has been used in systematic identification of cis-regulatory regions in animal and plant genomes, this method has been rarely applied in fungi. Here, we describe a valuable ATAC-seq resource in the genome of an economically important phytopathogen, the rice false smut fungus Ustilaginoidea virens. The ATAC-seq data of U. virens mycelia collected from potato sucrose broth (PSB) and PSB supplied with rice spikelet extract were both generated. This is the first genome-wide profiling of open chromatin and transcription factor binding sites in U. virens.[Graphic: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.https://apsjournals.apsnet.org/doi/10.1094/MPMI-01-21-0006-AATAC-seqbinding sitetranscription factorUstilaginoidea virens |
| spellingShingle | Xiaoyang Chen Hao Liu Xiaolin Chen Junbin Huang Tom Hsiang Lu Zheng ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens Molecular Plant-Microbe Interactions ATAC-seq binding site transcription factor Ustilaginoidea virens |
| title | ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens |
| title_full | ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens |
| title_fullStr | ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens |
| title_full_unstemmed | ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens |
| title_short | ATAC-Seq Data for Genome-Wide Profiling of Transcription Factor Binding Sites in the Rice False Smut Fungus Ustilaginoidea virens |
| title_sort | atac seq data for genome wide profiling of transcription factor binding sites in the rice false smut fungus ustilaginoidea virens |
| topic | ATAC-seq binding site transcription factor Ustilaginoidea virens |
| url | https://apsjournals.apsnet.org/doi/10.1094/MPMI-01-21-0006-A |
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