Comment[ArrayExpressAccession]	E-GEOD-5906
Investigation Title	Transcription profiling of rice cells reveal bacterial lipopolysaccharides induce defense responses associated with programmed cell death
Comment[Submitted Name]	Bacterial lipopolysaccharides induce defense responses associated with Programmed cell death in rice cell
Publication Title	Bacterial lipopolysaccharides induce defense responses associated with programmed cell death in rice cells.
Publication Author List	Yoshitake Desaki, Ayako Miya, Balakrishnan Venkatesh, Shinji Tsuyumu, Hisakazu Yamane, Hanae Kaku, Eiichi Minami, Naoto Shibuya
Publication DOI	
PubMed ID	17018557
Experimental Design	unknown_experiment_design_type	transcription profiling by array
Experimental Design Term Source REF		EFO
Experimental Factor Name	COMPOUND
Experimental Factor Type	compound
Person Last Name	Kaku
Person First Name	Hanae
Person Mid Initials	
Person Email	kaku@isc.meiji.ac.jp
Person Address	Life Sciences, Meiji University, 1-1-1, Higashi-Mita, Tama-ku, Kawasaki, 214-8571, Japan
Person Affiliation	Meiji University
Person Roles	submitter
Public Release Date	2008-11-06
Comment[ArrayExpressSubmissionDate]	2006-09-25
Comment[GEOReleaseDate]	2006-09-28
Comment[SecondaryAccession]	GSE5906	GDS2480
Experiment Description	PAMP (Pathogen-Associated Molecular Pattern) recognition plays an important role in innate immune responses both in plants and animals. Lipopolysaccharides (LPS) of gram-negative bacteria are a typical PAMP molecule and have been reported to induce defense-related responses such as suppression of hypersensitive responses, defense gene espression and systemic resistance in plant. However the detailed analysis of these cellular responses and the molecular machinery involved in the perception and transduction of LPS molecule largely remains to be studied. Furthermore, the biological activities of LPS on plants have so far been reported only for dicots and no information is available on the action of LPS on monocots. We report here that bacterial LPSs, both from plant pathogens and non-pathogens, could induce various defense responses in rice cells, including reactive oxygen generation and defense gene expression. Global analysis of gene expression induced by two PAMP elicitors, LPS and chitin oligosaccharide elicitor, showed a close correlation between the gene responses induced by these elicitors, indicating the convergence of signaling cascades downstream of corresponding receptors. Further, we show that the defense responses induced by LPS are associated with programmed cell death, a finding so far not reported for LPS action on plant cells. Experiment Overall Design: 1. LPS treatment (WT), 2. LPS treatment (WT) color-swap, 3. N-acetylchitooctaose treatment (WT), 4. N-acetylchitooctaose treatment (WT) color-swap
Protocol Name	P-G5906-1	P-G5906-3	P-G5906-2
Protocol Type	bioassay_data_transformation	bioassay_data_transformation	bioassay_data_transformation
Protocol Description	Data heading descriptions from GEO:<br>#ID_REF = ID Ref<br>#VALUE = log10 ratio (NormCH1/NormCH2)<br>#NormCH1 = <br>#NormCH2 = 	Data heading descriptions from GEO:<br>#ID_REF = ID Ref<br>#VALUE = log10 ratio (NormCH2/NormCH1)<br>#NormCH1 = <br>#NormCH2 = 	Data heading descriptions from GEO:<br>#ID_REF = ID Ref<br>#VALUE = log10 ratio (NormCH2/NormCH1)<br>#Normch1 = <br>#NormCh2 = 
Protocol Parameters			
Protocol Software			
Term Source Name	efo.obo		EFO
Term Source File	/nfs/ma/ma-exp/GEOImportDownload/efo.obo
SDRF File	E-GEOD-5906.sdrf.txt