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| Status |
Public on Aug 08, 2019 |
| Title |
Genome-wide occupancy of BDR1, BDR2 and FPA (ChIP-seq) |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We generated Arabidopsis lines expressing tagged (3X Myc tag) versions of BDR1 or BDR2 driven by their endogenous promoters on a bdrs triple mutant background (bdrs: cross of bdr1/AT5G25520 mutant SALK_142108C, bdr2/AT5G11430 mutant CS852350 and bdr3/AT2G25640 mutant SALK_059905). The genome-wide distribution of BDR1 and BDR2 in 8-day old seedlings were analyzed by ChIP-seq using an anti Myc antibody. We also analyzed by ChIP-seq the genome-wide distribution of FPA (AT2G43410) in wild-type seedlings using a rabbit anti-FPA polyclonal antibody raised against the C-terminal portion (position 536-901) of the FPA protein. Controls include sequencing of input DNA for each sample and a ChIP perfomed in wild-type seedlings with the anti-Myc tag antibody. We found that BDR1 and BDR2 are enriched at the border of a large number of genes in Arabidopsis genome and that FPA localizes mostly at the 3' end of genes.
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| Overall design |
ChIP-seq profiles in 8-day old seedlings of FPA, Myc tag-BDR1 and Myc tag-BDR2 (Myc tag-BDR proteins expressed in bdrs triple mutant background). Controls include sequencing of input DNA for each sample as well as a ChIP perfomed in wild-type plants (not expressing a tagged protein) with the anti-Myc tag antibody.
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| Contributor(s) |
Michaels SD, Martin PG, Yu X, Huang J, Ford JB |
| Citation(s) |
31554790 |
| Submission date |
Apr 12, 2018 |
| Last update date |
Nov 07, 2019 |
| Contact name |
Pascal GP Martin |
| E-mail(s) |
pascal.martin@inrae.fr
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| Organization name |
INRAE
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| Department |
UMR1332 BFP
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| Lab |
FDFE
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| Street address |
71 avenue Edouard Bourlaux
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| City |
Villenave d'Ornon |
| ZIP/Postal code |
33140 |
| Country |
France |
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| Platforms (1) |
| GPL19580 |
Illumina NextSeq 500 (Arabidopsis thaliana) |
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| Samples (9)
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| This SubSeries is part of SuperSeries: |
| GSE112443 |
RNA-seq, ChIP-seq and MNase-seq in WT, fpa mutant and bdr1,2,3 mutant Arabidopsis seedlings |
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| Relations |
| BioProject |
PRJNA449914 |
| SRA |
SRP139788 |
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