Transcriptional profile of P. syringaepv. phaseolicola NPS3121 at low temperature: Physiology of phytopathogenic bacteria

Arvizu-Gómez, Jackeline Lizzeta; Hernández-Morales, Alejandro; Aguilar, Juan Ramiro Pacheco; Álvarez-Morales, Ariel

doi:10.1186/1471-2180-13-81

Table 2 Genes down-regulated at 18°C in P. syringae pv. phaseolicola NPS3121

From: Transcriptional profile of P. syringaepv. phaseolicola NPS3121 at low temperature: Physiology of phytopathogenic bacteria

Gen/ORF	Gene product	Ratio
Cluster 9: Alginate synthesis
PSPPH_1112	alginate biosynthesis protein AlgX	0.52
PSPPH_1113	alginate biosynthesis protein AlgG	0.19
PSPPH_1114	alginate biosynthesis protein AlgE	0.18
PSPPH_1115	alginate biosynthesis protein AlgK	0.19
PSPPH_1118	alginate biosynthesis protein AlgD	0.46
PSPPH_1119	conserved hypothetical protein	0.46
algD	algD (control)	0.25
Cluster 10: Plant-Pathogen interactions
PSPPH_A0075	type III effector HopW1-2, truncated	0.60
PSPPH_A0127	type III effector HopAB1	0.42
PSPPH_A0127	type III effector HopAB1	0.65
PSPPH_A0127	virA type III HopAB1 (control)	0.57
PSPPH_A0120	avrC type III effector AvrB2 (control)	0.53
PSPPH_A0010	avrD type III effector hopD1 (control)	0.56
PSPPH_3992	pectin lyase	0.62
PSPPH_3993	acetyltransferase, GNAT family	0.57
PSPPH_A0072	polygalacturonase	0.50
Cluster 11: Type IV secretion system
PSPPH_B0022	transcriptional regulator, PbsX family	0.65
PSPPH_ B0023	transcriptional regulator	0.64
PSPPH_ B0025	conjugal transfer protein	0.65
PSPPH_ B0027	conjugal transfer protein	0.65
PSPPH_ B0028	conjugal transfer protein	0.61
PSPPH_ B0031	conjugal transfer protein	0.65
PSPPH_ B0032	conjugal transfer protein	0.61
PSPPH_ B0034	conjugal transfer protein	0.62
PSPPH_ B0035	conjugal transfer protein	0.66
PSPPH_ B0036	conjugal transfer protein	0.51
PSPPH_ B0041	conjugal transfer protein	0.58
Cluster 12: Heat-shock proteins
PSPPH_0381	heat shock protein HslVU, ATPase subunit HslU	0.65
PSPPH_0742	clpB protein	0.54
PSPPH_4077	chaperonin, 60 kDa. groEL	0.29
PSPPH_4206	dnaK protein	0.28
PSPPH_4206	dnaK protein	0.57
PSPPH_4207	heat shock protein GrpE	0.65
Cluster 13: Genes related with nucleic acids synthesis
PSPPH_4598	DNA-directed RNA polymerase, beta' subunit	0.59
PSPPH_4599	DNA-directed RNA polymerase, beta' subunit	0.57
PSPPH_2495	DNA polymerase II	0.57
PSPPH_B0043	DNA topoisomerase III	0.64
PSPPH_A0002	Replication protein	0.54
Cluster 14: Unknown function
PSPPH_0220	conserved hypothetical protein	0.64
PSPPH_0609	hypothetical protein PSPPH_0609	0.54
PSPPH_2482	conserved hypothetical protein	0.63
PSPPH_2855	hypothetical protein PSPPH_2855	0.43
PSPPH_3333	conserved hypothetical protein	0.36
PSPPH_3625	conserved hypothetical protein	0.59
PSPPH_4047	conserved hypothetical protein	0.66
PSPPH_A0040	hypothetical protein PSPPH_A0040	0.66
PSPPH_B0048	conserved hypothetical protein	0.60
Cluster 15: Uncharacterized function
PSPPH_0012	glycyl-tRNA synthetase, alpha subunit	0.63
PSPPH_0033	3-oxoadipate enol-lactonase, putative	0.65
PSPPH_0072	membrane protein, putative	0.63
PSPPH_0080	ATP-dependent DNA helicase Rep	0.43
PSPPH_0117	phospholipase D family protein	0.63
PSPPH_0215	aldehyde dehydrogenase family protein	0.35
PSPPH_0296	colicin/pyocin immunity family protein	0.58
PSPPH_0360	periplasmic glucan biosynthesis protein	0.63
PSPPH_1072	oxidoreductase, short chain dehydrogenase/reductase family	0.57
PSPPH_1181	glucose ABC transporter, periplasmic glucose-binding protein, putative	0.65
PSPPH_1211	cytochrome o ubiquinol oxidase, subunit I	0.55
PSPPH_1508	acetyltransferase, GNAT family	0.35
PSPPH_1518	ATP-dependent DNA helicase RecQ	0.53
PSPPH_1575	CAIB/BAIF family protein	0.65
PSPPH_1759	plasmid stabilization system family protein	0.53
PSPPH_1762	transcriptional regulator, AsnC family	0.54
PSPPH_1917	cation ABC transporter, periplasmic cation-binding protein	0.60
PSPPH_1921	peptidase	0.58
PSPPH_1963	electron transfer flavoprotein-ubiquinone oxidoreductase, putative	0.38
PSPPH_2053	membrane protein, putative	0.65
PSPPH_2057	2-methylcitrate synthase	0.62
PSPPH_2159	dehydrogenase, isocitrate/isopropylmalate family	0.60
PSPPH_2246	4-alpha-glucanotransferase	0.66
PSPPH_2695	peptide ABC transporter, permease protein	0.45
PSPPH_2868	major facilitator family transporter	0.63
PSPPH_2892	TonB-dependent siderophore receptor, putative	0.62
PSPPH_2897	yersiniabactin non-ribosomal peptide synthetase	0.40
PSPPH_2899	yersiniabactin polyketide/non-ribosomal peptide synthetase	0.58
PSPPH_2904	isochorismate synthase	0.55
PSPPH_3100	isocitrate dehydrogenase, NADP-dependent	0.63
PSPPH_3251	maleylacetoacetate isomerase	0.53
PSPPH_3528	acetate--CoA ligase	0.52
PSPPH_3558	aconitate hydratase 2	0.61
PSPPH_3782	porin D	0.42
PSPPH_3985	3-oxoacyl-[acyl-carrier protein] reductase	0.54
PSPPH_4221	unnamed protein product	0.44
PSPPH_4654	smtA protein	0.47
PSPPH_4703	coenzyme PQQ biosynthesis protein PqqF	0.32
PSPPH_4805	oxidoreductase FAD-binding domain/oxidoreductase NAD-binding domain/2Fe-2S iron-sulfur cluster binding domain protein	0.55
PSPPH_4833	Rhs family protein	0.33
PSPPH_4859	transporter, BCCT family	0.65
PSPPH_4869	cadmium-translocating P-type ATPase	0.54
PSPPH_4885	D-3-phosphoglycerate dehydrogenase	0.56
PSPPH_4938	amino acid ABC transporter, ATP-binding protein	0.61
PSPPH_4962	prophage PSPPH06, C4-type zinc finger protein, DksA/TraR family	0.35
PSPPH_5024	acetyltransferase, GNAT family	0.64
PSPPH_5027	acetyltransferase, GNAT family	0.64
PSPPH_5170	acyltransferase family protein	0.60
PSPPH_A0062	LysR-family transcription regulator SinR	0.45
PSPPH_A0083	IS801, transposase	0.64
PSPPH_A0109	sulfotransferase, putative	0.49
PSPPH_A0129	Yersinia/Haemophilus virulence surface antigen family	0.53
PSPPH_A0132	ISPsy16, transposase	0.66
PSPPH_A0145	conjugal transfer protein	0.56
PSPPH_B0004	RulB protein	0.63
PSPPH_B0050	relaxase, putative	0.65
PSPPH_B0059	exeA-like protein	0.64

The described functions were obtained from the literature. The down-regulated genes were identified using cutoff criteria ≤ 0.6 of ratio. The ratio is in relation to the expression levels obtained between 18°C and 28°C (18°C/28°C). Control: corresponds to genes obtained by PCR amplification that were printed in the microarray.

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ISSN: 1471-2180

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