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Series GSE56856 Query DataSets for GSE56856
Status Public on May 08, 2014
Title Effects of carbazole-degradative plasmid pCAR1 on biofilm morphology in three Pseudomonas strains.
Platform organisms Pseudomonas; Pseudomonas putida KT2440
Sample organism Pseudomonas putida
Experiment type Expression profiling by genome tiling array
Summary To elucidate the impact of the carriage of carbazole-degradative plasmid pCAR1 on biofilm formation by host bacteria, we compared biofilm morphology of pCAR1-free and pCAR1-carrying three Pseudomonas hosts: P. putida KT2440, P. aeruginosa PAO1 and P. fluorescens Pf0-1 using confocal laser scanning microscopy. Although pCAR1 carriage had no significant influence on biofilm formed by PAO1 and Pf0-1, pCAR1-carrying KT2440 became filamentous and formed flat biofilm, whereas pCAR1-free KT2440 formed mushroom-like biofilm. pCAR1 carries three genes encoding nucleoid-associated proteins (NAPs); Pmr, Pnd, and Phu. Because intensive filamentous morphology was observed in two double mutants (DpmrDpnd and DpmrDphu), these NAPs cooperatively suppress cell filamentation and flat biofilm formation in KT2440(pCAR1) cells. Based on the results of transcriptome analyses of these double mutants, we could find 32 candidate genes which may be involved in the filamentation of KT2440(pCAR1). Overproduction in KT2440 and KT2440(pCAR1) of three of candidate genes (PP_2193, PP_0308, or PP_0309) induced temporal filamentation of the cells, suggesting that pCAR1 induced the abnormal filamentous morphology of KT2440 cells by overexpression of plural genes including PP_2193, PP_0308, and PP_0309. In addition, pCAR1-borne NAPs suppress the morphological changes probably by decreasing the transcriptome change by pCAR1 carriage.
Overall design The pCAR1 carriage impact of chromosomal RNA maps in biofilm formation.
Contributor(s) Lee S, Takahashi Y, Oura H, Okada K, Yamane H, Nomura N, Nojiri H
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Submission date Apr 16, 2014
Last update date May 08, 2014
Contact name Hideaki Nojiri
Phone +81-3-5841-3067
Organization name The University of Tokyo
Department Biotechnology Research Center
Lab Laboratory of Environmental Biochemistry
Street address 1-1-1 Yayoi, Bunkyo-ku
City Tokyo
ZIP/Postal code 113-8657
Country Japan
Platforms (2)
GPL6591 [pCAR1_8b520435F] Affymetrix CustomExpress IncP-7 plasmid pCAR1 Tiling Array
GPL8296 [KT2440b520511F] Pseudomonas putida KT2440 chromosome Array
Samples (7)
GSM1370268 KT2440-biofilm
GSM1370269 KT2440(pCAR1)-biofilm
GSM1370270 KT2440(pCAR1DpmrDpnd)-biofilm
BioProject PRJNA246405

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

Supplementary file Size Download File type/resource
GSE56856_KT2440b520511FF-3.bpmap.gz 10.1 Mb (ftp)(http) BPMAP
GSE56856_KT2440b520511FR-3.bpmap.gz 10.1 Mb (ftp)(http) BPMAP
GSE56856_RAW.tar 148.5 Mb (http)(custom) TAR (of BAR, CEL)
GSE56856_pCAR1_8b520435FF-3.bpmap.gz 407.3 Kb (ftp)(http) BPMAP
GSE56856_pCAR1_8b520435FR-3.bpmap.gz 415.5 Kb (ftp)(http) BPMAP
Processed data provided as supplementary file

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