Microarray Experiment Search Results for yfdT

23 total

Reference	Variable	Value    fold ratio ln log2	Experiments	Contact
DeLisa,2001	unconditioned vs AI2 conditioned	-7.7	Growth_1, Exp Data	William E. Bentley
Domka,2006	bssR	6.245	Gene_1, Exp Data	Thomas K. Wood
Peter,2004	gyrB	5.812	Gene_34, Exp Data	Brian J Peter
Méndez-Ortiz,2006	yddV	-5	Gene_1, Exp Data	Jorge Membrillo-Hernandez
Zoetendal,2008	A. mearnsii (black wattle) tannin extract (WTE)	4.7	Chemical_1, Exp Data	Alexandra H. Smith
Peter,2004	novobiocin	-3.227	Chemical_27, Exp Data	Brian J Peter
Hayes,2006	pH 5.7 vs pH 8.5	3.15	Growth_3, Exp Data	Joan L Slonczewski
Hayes,2006	pH 7.0 vs pH 8.5	-3.136	Growth_2, Exp Data	Joan L Slonczewski
Ito,2009	outside biofilm vs inside biofilm	2.828	Growth_1, Exp Data	Satoshi Okabe
Peter,2004	gyrB	2.818	Gene_33, Exp Data	Brian J Peter
Peter,2004	37C vs 42C	2.77	Growth_29, Exp Data	Brian J Peter
Ito,2008	rpoS	2.694	Gene_1, Exp Data	Satoshi Okabe
Peter,2004	norfloxacin	2.601	Chemical_19, Exp Data	Brian J Peter
Mukhopadhyay,2004	oxyR	2.47	Gene_7, Exp Data	Gisela Storz
Zheng,2001	hydrogen peroxide (H2O2)	2.267	Chemical_2, Exp Data	Gisela Storz
Li,2003	rnpA	2.2	Gene_3, Exp Data	Sidney Altman
Peter,2004	norfloxacin	2.19	Chemical_4, Exp Data	Brian J Peter
Peter,2004	norfloxacin	-2.173	Chemical_9, Exp Data	Brian J Peter
Mukhopadhyay,2004	fur	2.16	Gene_6, Exp Data	Gisela Storz
Zheng,2001	hydrogen peroxide (H2O2)	2.149	Chemical_1, Exp Data	Gisela Storz
Peter,2004	gyrB	2.141	Gene_32, Exp Data	Brian J Peter
Stoebel,2009	rpoS+3 WT evolved strain	2.127	Gene_4, Exp Data	Charles J. Dorman
Stoebel,2009	rpoS+4 wt evolved strain	2.029	Gene_5, Exp Data	Charles J. Dorman

Experimental Details

Ito,2009 All Experiments Top growth experimental details: Exp ID Exp Data Name Variable Shift time Duration Comments 1 Show Data outside biofilm vs inside biofilm inside biofilm 5 mL for 0–6 h; 500 mL for 8–12 h Cultures were grown in MOPS minimal media supplemented with 0.2% glucose at 37 degrees C.

Stoebel,2009 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 4 Show Data rpoS+3 WT evolved strain rpoS+3 5 Show Data rpoS+4 wt evolved strain rpoS+4

Ito,2008 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 1 Show Data rpoS rpoS::kan(deletion)

Zoetendal,2008 All Experiments Top chemical experimental details: Exp ID Exp Data Name Concentration Time added Duration Comments 1 Show Data A. mearnsii (black wattle) tannin extract (WTE) 1 % OD600~=0.2 Cultures were grown anaerobically at 37 degrees C in MOPS medium with 0.4% glucose.

Méndez-Ortiz,2006 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 1 Show Data yddV overexpression Induced at OD600=0.3 for with 1mM IPTG. RNA was extracted 2h post induction.

Domka,2006 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 1 Show Data bssR KO LB w/ glucose, glass wool (biofilm cells processed only for array analysis), compared to WT

Hayes,2006 All Experiments Top growth experimental details: Exp ID Exp Data Name Variable Shift time Duration Comments 2 Show Data pH 7.0 vs pH 8.5 pH 8.5 Over-night OD600=0.2 3 Show Data pH 5.7 vs pH 8.5 pH 8.5 Over-night OD600=0.2

Mukhopadhyay,2004 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 6 Show Data fur fur::kan(deletion) Cultures were treated with 1mM GSNO. P1 transductions after deletion construction. 7 Show Data oxyR oxyR::kan(deletion) Cultures were treated with 1mM GSNO. P1 transductions after deletion construction.

Peter,2004 All Experiments Top chemical experimental details: Exp ID Exp Data Name Concentration Time added Duration Comments 4 Show Data norfloxacin 15ug/ml 20 min gyrAr/parCCr cells, publication indicates no changes in supercoiling, transcription profile changes due to unknown targets of antibiotic. 19 Show Data norfloxacin 50 ug/ml 20 min gyrA+/parC+ 9 Show Data norfloxacin 50ug/ml 20 min gyrAr/parCCr cells, publication indicates no changes in supercoiling, transcription profile changes due to unknown targets of antibiotic. 27 Show Data novobiocin 200 ug/ml 5 min growth experimental details: Exp ID Exp Data Name Variable Shift time Duration Comments 29 Show Data 37C vs 42C 42C steady 5 min gyrB+, served as a control for the gyrB ts experiments to ensure changes due to gyrB mutation, not temperature shift. gene experimental details: Exp ID Exp Data Gene name Allele Comments 32 Show Data gyrB gyrB ts(temperature sensitive) 42C for 2 minutes compared to gyrBts at 37C 33 Show Data gyrB gyrB ts(temperature sensitive) 42C for 5 minutes compared to gyrB ts at 37C 34 Show Data gyrB gyrB ts(temperature sensitive) 42C for 10 minutes compared to gyrB ts at 37C

Li,2003 All Experiments Top gene experimental details: Exp ID Exp Data Gene name Allele Comments 3 Show Data rnpA A49 to G(temperature sensitive) RNA was extracted 45 min post shift 30C to 42C.

Zheng,2001 All Experiments Top chemical experimental details: Exp ID Exp Data Name Concentration Time added Duration Comments 2 Show Data hydrogen peroxide (H2O2) 1mM OD600=0.2-0.5 10 min oxyR deletion mutant, in LB media 1 Show Data hydrogen peroxide (H2O2) 1mM OD600=0.2-0.5 10 min wild type (MC4100) cells in LB media

DeLisa,2001 All Experiments Top growth experimental details: Exp ID Exp Data Name Variable Shift time Duration Comments 1 Show Data unconditioned vs AI2 conditioned AI2 conditioned steady 20 min luxS::Tcr, in W3110 background grown in LB+50mM glucose 30C, OD600=1.0.