Reduced catabolic protein expression in Clostridium butyricum DSM 10702 correlate with reduced 1,3-propanediol synthesis at high glycerol loading

Mine Gungormusler-Yilmaz; Dmitry Shamshurin; Marine Grigoryan; Marcel Taillefer; Victor Spicer; Oleg V Krokhin; Richard Sparling; David B Levin

doi:10.1186/s13568-014-0063-6

AMB Express

Table 2 The average Z-scores for 1D comparative LC/MS proteomic analyses (four columns after description) and MRM results (last four columns) for the key proteins

From: Reduced catabolic protein expression in Clostridium butyricum DSM 10702 correlate with reduced 1,3-propanediol synthesis at high glycerol loading

Locus Tag	Description	ST170 mM- EXP170 mM	ST620 mM-EXP620 mM	EXP620 mM-EXP170 mM	ST620 mM-ST170 mM	ST170 mM- EXP170 mM	ST620 mM- EXP620 mM	EXP620 mM-EXP170 mM	ST620 mM-ST170 mM
CBY_0205	phosphate acetyltransferase	−0.04	1.24	−0.85	0.25	NQ	0.68	NQ	NQ
CBY_0206	acetate kinase	0.00	0.19	−1.00	−0.99	0.25	0.60	−0.73	−0.40
CBY_0233	pyruvate:ferredoxin oxidoreductase	−0.84	0.09	0.30	1.32	NQ	NQ	NQ	NQ
CBY_0500	1.3-propanediol dehydrogenase	−0.26	−0.47	0.06	−0.12	−0.20	−0.32	−0.61	−0.75
CBY_0501	glycerol dehydratase (activator)	−0.63	−0.52	−1.02	−1.05	−0.64	−0.59	−1.56	−1.53
CBY_0502	glycerol dehydratase^a	−0.34	−0.87	0.24	−0.21	−0.71	−0.74	−0.63	−0.67
CBY_0505	dihydroxyacetone kinase. (phosphotransfer subunit)	−0.31	−1.55	−1.14	−2.52	0.18	−0.06	−1.32	−1.57
CBY_0506	dihydroxyacetone kinase (L subunit)	0.47	0.28	0.08	−0.15	0.52	−0.27	−0.15	−0.95
CBY_0508	Glycerol dehydrogenase^b	0.07	−0.19	0.04	−0.24	−0.39	−0.17	−1.97	−1.77
CBY_0742	L-lactate dehydrogenase	0.19	−0.79	1.08	0.29	0.22	−0.59	0.26	−0.56
CBY_1290	acetyl-CoA acetyltransferase	0.58	0.06	1.19	0.83	0.23	0.27	0.68	0.71
CBY_1889	pyruvate:ferredoxin oxidoreductase	−0.35	0.00	0.32	0.75	−0.04	0.50	−1.12	−0.60
CBY_2300	FeFe hydrogenase-1	−0.27	−1.46	1.57	0.69	−0.27	−0.49	−0.43	−0.67
CBY_2341	L-lactate dehydrogenase	0.66	0.10	0.51	−0.02	1.31	0.95	0.13	−0.25
CBY_2757	L-lactate dehydrogenase	−1.08	−1.43	0.28	0.08	NQ	0.07	NQ	NQ
CBY_2919	phosphate butyryltransferase	0.60	0.16	1.15	0.86	0.36	0.59	0.00	0.22
CBY_2920	butyrate kinase	0.62	0.54	0.89	0.91	0.26	0.32	−0.38	−0.33
CBY_3041	3-hydroxybutyryl-CoA dehydratase	0.50	0.29	1.17	1.11	NQ	NQ	NQ	NQ
CBY_3042	acyl-coa dehydrogenase (short-chain specific)	0.20	−0.25	0.90	0.60	−0.06	−0.06	0.96	0.94
CBY_3045	3-hydroxybutyryl-coa dehydrogenase	0.24	0.20	1.16	1.28	0.31	0.06	−0.04	−0.30
CBY_3235	Glycerol dehydrogenase^c	−0.02	−0.52	−1.47	−2.23	−0.34	−0.36	−2.66	−2.70
CBY_3258	acyl-coa dehydrogenase (short-chain specific)	0.13	0.41	−0.39	−0.20	0.16	0.64	−1.51	−1.05
CBY_3642	pyruvate:ferredoxin oxidoreductase	−0.05	0.29	0.02	0.35	−0.01	0.49	−1.04	−0.56
CBY_3690	dihydroxyacetone kinase.(L subunit)	0.57	0.75	−1.75	−1.94	0.13	0.40	−2.44	−2.19
CBY_3691	dihydroxyacetone kinase (DhaK subunit)	0.42	0.58	−0.79	−0.81	NQ	NQ	NQ	NQ
CBY_3747	NADPH-dependent butanol dehydrogenase	0.35	−1.12	−0.12	−1.61	−0.13	−0.22	−1.01	−1.11
CBY_3751	NADPH-dependent butanol dehydrogenase	0.23	0.08	0.36	0.26	0.53	0.18	−0.57	−0.94
CBY_3753	Ethanol dehydrogenase (aldehyde-alcohol dehydrogenase 2)	−2.58	−1.08	2.61	4.78	−0.27	−0.12	−0.15	−0.01
CBY_9999	glycerol uptake facilitator protein	NQ	NQ	NQ	NQ	NQ	NQ	NQ	NQ

NQ: Not quantifiable. ^aWrongly annotated as pyruvate formate-lyase.^bWrongly annotated as 3-dehydroquinate synthase.^cWrongly annotated as 3-dehydroquinate synthase.
The values indicate the differences between the samples taken from different growth phases (EXP; exponential and ST; stationary) and/or different initial glycerol concentrations (170 mM and 620 mM) of C. butyricum cells. Numbers in bold indicate differences in protein measurements that are greater that 2 fold.

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