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Series GSE167871 Query DataSets for GSE167871
Status Public on Jun 28, 2021
Title Direct regulons of the master virulence regulator AtxA of Bacillus anthracis
Organism Bacillus anthracis
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary AtxA, the master virulence regulator of Bacillus anthracis, regulates the expression of three toxins that are required for the pathogenicity of Bacillus anthracis. Recent transcriptome analyses also showed that AtxA affects a large number of genes on both chromosome and plasmid, suggesting its role as a global regulator. Its mechanism of gene regulation nor binding target in vivo was, however, not well understood. In this work, we conducted ChIP-seq for cataloging binding sites of AtxA in vivo and Cappable-seq for catalogging the transcription start sites on the B. anthracis genome. For detected regulons, single knockout strains were constructed and RNA-seq was conducted for each strain.
 
Overall design ChIP-seq was conducted for genomic DNA of B. anthracis 34F2 WT and the strain that produce AtxA with 1xFLAG tag at its C-terminus. Cappable-seq was conducted for B. anthracis 34F2 WT and ΔatxA. RNA-seq was conducted for B. anthracis 34F2 WT, ΔatxA, ΔxrrA, ΔxrrB, and ΔxrrC. All strains were grown in NBY medium supplemented with 8% NaHCO3 under 15% CO2 at 37°C.
 
Contributor(s) Furuta Y, Cheng C, Zorigt T, Paudel A, Izumi S, Tsujinouchi M, Shimizu T, Meijer W, Higashi H
Citation(s) 34282944
Submission date Feb 27, 2021
Last update date Sep 14, 2021
Contact name Yoshikazu Furuta
E-mail(s) yfuruta@czc.hokudai.ac.jp
Organization name Hokkaido University
Department International Institute for Zoonosis Control
Lab Division of Infection and Immunity
Street address North 20 West 10, Kita-ku
City Sapporo
State/province Hokkaido
ZIP/Postal code 001-0020
Country Japan
 
Platforms (2)
GPL29781 Illumina MiSeq (Bacillus anthracis)
GPL29782 HiSeq X Ten (Bacillus anthracis)
Samples (37)
GSM5114314 [ChIP-seq] B. anthracis 34F2 WT #1 enriched
GSM5114315 [ChIP-seq] B. anthracis 34F2 WT #2 enriched
GSM5114316 [ChIP-seq] B. anthracis 34F2 WT #3 enriched
Relations
BioProject PRJNA705366
SRA SRP308498

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE167871_RAW.tar 8.9 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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