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Chromatin accessibility landscapes activated by cell surface and intracellular immune receptors

View ORCID ProfilePingtao Ding, View ORCID ProfileToshiyuki Sakai, View ORCID ProfileRam Krishna Shrestha, Nicolas Manosalva Perez, View ORCID ProfileWenbin Guo, View ORCID ProfileBruno Pok Man Ngou, View ORCID ProfileShengbo He, View ORCID ProfileChang Liu, View ORCID ProfileXiaoqi Feng, View ORCID ProfileRunxuan Zhang, View ORCID ProfileKlaas Vandepoele, View ORCID ProfileDan MacLean, View ORCID ProfileJonathan DG Jones
doi: https://doi.org/10.1101/2020.06.17.157040
Pingtao Ding
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Pingtao Ding
  • For correspondence: pingtao.ding@tsl.ac.uk jonathan.jones@tsl.ac.uk
Toshiyuki Sakai
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Toshiyuki Sakai
Ram Krishna Shrestha
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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Nicolas Manosalva Perez
2Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium
3VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
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Wenbin Guo
4Information and Computational Sciences, The James Hutton Institute, Dundee DD2 5DA, United Kingdom
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  • ORCID record for Wenbin Guo
Bruno Pok Man Ngou
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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Shengbo He
5John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Shengbo He
Chang Liu
6Institute of Biology, University of Hohenheim, Garbenstrasse 30, 70599 Stuttgart, Germany
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  • ORCID record for Chang Liu
Xiaoqi Feng
5John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Xiaoqi Feng
Runxuan Zhang
4Information and Computational Sciences, The James Hutton Institute, Dundee DD2 5DA, United Kingdom
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  • ORCID record for Runxuan Zhang
Klaas Vandepoele
2Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium
3VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
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Dan MacLean
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Dan MacLean
Jonathan DG Jones
1The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich NR4 7UH, United Kingdom
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  • ORCID record for Jonathan DG Jones
  • For correspondence: pingtao.ding@tsl.ac.uk jonathan.jones@tsl.ac.uk
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Abstract

Activation of cell Surface and Intracellular Receptor-Mediated Immunity (SRMI and IRMI) results in rapid transcriptional reprogramming that underpins disease resistance. However, the mechanisms by which SRMI and IRMI lead to transcriptional changes are not clear. Here, we combine RNA-seq and ATAC-seq to define changes in gene expression and chromatin accessibility; both SRMI and IRMI increase chromatin accessibility at induced defense genes. Analysis of ATAC-seq and RNA-seq data combined with publicly available information on transcription factor DNA-binding motifs enabled comparison of individual gene regulatory networks activated by SRMI and IRMI, and by both. These results and analyses reveal overlapping and conserved transcriptional regulatory mechanism between the two immune systems.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted June 18, 2020.
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Chromatin accessibility landscapes activated by cell surface and intracellular immune receptors
Pingtao Ding, Toshiyuki Sakai, Ram Krishna Shrestha, Nicolas Manosalva Perez, Wenbin Guo, Bruno Pok Man Ngou, Shengbo He, Chang Liu, Xiaoqi Feng, Runxuan Zhang, Klaas Vandepoele, Dan MacLean, Jonathan DG Jones
bioRxiv 2020.06.17.157040; doi: https://doi.org/10.1101/2020.06.17.157040
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Chromatin accessibility landscapes activated by cell surface and intracellular immune receptors
Pingtao Ding, Toshiyuki Sakai, Ram Krishna Shrestha, Nicolas Manosalva Perez, Wenbin Guo, Bruno Pok Man Ngou, Shengbo He, Chang Liu, Xiaoqi Feng, Runxuan Zhang, Klaas Vandepoele, Dan MacLean, Jonathan DG Jones
bioRxiv 2020.06.17.157040; doi: https://doi.org/10.1101/2020.06.17.157040

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