BMC Microbiology

Table 1 Differential protein expressions in Rhodospirillum rubrum S1H

From: New perspectives on butyrate assimilation in Rhodospirillum rubrum S1H under photoheterotrophic conditions

Locus	Protein	FC^a B/S	P^b	pept ^c	FC^a T1/T0	P^b	FC^a T2/T1	P^b	FC^a T3/T2	P^b	FC^a T4/T3	P^b	pept ^c
Rru_A1471	Butyryl-CoA:acetate CoA transferase	1.5	7e-01	1	n.a.	n.a.	n.a.	n.a.	n.a.	n.a.	n.a.	n.a.	n.a.
Rru_A1927	Acetyl-CoA hydrolase	4.1	2e-10	6	1.0	5e-01	1.0	9e-01	1.0	1e+ 00	0.5	3e-08	6
Rru_A3801	Short chain enoyl-CoA hydratase	1.2	1e-02	6	1.0	1e+ 00	1.1	7e-01	1.0	8e-01	1.0	5e-02	6
Rru_A3079	3-hydroxyacyl-CoA dehydrogenase	1.9	5e-08	5	1.0	3e-01	0.9	2e-02	1.3	4e-05	0.9	2e-01	6
Rru_A1946	Acetoacetyl-CoA thiolase	3.7^d	2e-02	2	0.8	3e-02	0.8	1e-02	1.2	7e-03	0.9	2e-01	3
Rru_A0273	Acetoacetyl-CoA reductase	0.3	4e-07	5	0.8	7e-05	0.9	2e-02	1.2	8e-05	1.4	1e-05	6
Rru_A2964	(R)-specific enoyl-CoA hydratase	0.9	5e-01	6	0.8	4e-01	1.2	9e-01	0.7	7e-01	1.7	6e-03	5
Rru_A2413	Poly(R)-hydroxyalkanoic acid synthase	1.7	1e-04	5	1.0	3e-01	1.1	5e-02	1.0	3e-01	1.5	4e-06	6
Rru_A2817	Phasin	49.8	5e-06	6	0.4	2e-03	1.1	8e-01	0.7	2e-02	0.2	1e-04	6
Rru_A3283	Activator of polymer mobilization	9.7	6e-06	6	0.9	7e-01	1.1	7e-02	0.9	8e-02	0.9	4e-03	6
Rru_A1585	Polyhydroxyalkanoate depolymerase PhaZ1	1.9	2e-05	5	0.9	7e-02	1.0	8e-01	1.1	3e-02	1.3	2e-05	6
Rru_A3356	Polyhydroxyalkanoate depolymerase PhaZ2	4.4	7e-03	1	1.0	1e+ 00	1.1	3e-01	0.9	7e-02	0.4	9e-05	1
Rru_A1057	3-hydroxybutyrate dehydrogenase	2.7	1e-06	6	1.0	9e-01	0.9	1e-01	1.3	5e-03	1.1	6e-02	6
Rru_A3695	Acetoacetyl-CoA synthase	2.2	8e-04	6	1.1	7e-02	1.1	2e-02	1.0	7e-01	1.4	8e-05	6
Rru_A3063	Crotonyl-CoA carboxylase/reductase	3.0	4e-04	6	0.7	2e-02	1.0	8e-01	1.0	3e-01	1.8	9e-05	6
Rru_A1572	Ethylmalonyl-CoA/Methylmalonyl-CoA epimerase	0.9	6e-01	5	1.4	2e-02	0.5	1e-04	2.3	6e-07	0.7	3e-03	4
Rru_A3062	Methylmalonyl-CoA mutase (EC 5.4.99.2)	3.7	2e-03	3	1.0	8e-01	1.3	5e-01	1.4	3e-01	1.0	8e-01	2
Rru_A3064	Methylsuccinyl-CoA dehydrogenase	1.5	2e-03	6	0.8	1e-02	0.9	3e-01	1.1	1e+ 00	1.6	3e-05	6
Rru_A1201	Mesaconyl-CoA hydratase	1.5	2e-05	5	1.0	2e-01	1.0	8e-01	1.0	8e-01	1.2	3e-04	6
Rru_A0217	L-Malyl-CoA/b-methylmalyl-CoA lyase	1.0	8e-01	6	1.0	5e-01	1.0	5e-01	1.1	3e-01	1.3	4e-04	6
Rru_A1200	Malyl-CoA thioesterase	1.3	2e-02	6	0.8	2e-03	1.0	8e-01	1.1	9e-02	1.1	3e-02	6
Rru_A0052	Biotin carboxylase	1.2	7e-02	6	0.8	3e-05	0.9	4e-02	1.0	1e-01	1.1	1e-02	6
Rru_A0053	Carboxyl transferase	1.2	8e-03	6	0.8	8e-05	0.9	2e-02	1.0	1e-01	1.1	9e-03	6
Rru_A2479	Methylmalonyl-CoA mutase	1.3	2e-02	5	1.0	8e-01	1.2	1e-01	1.5	3e-01	0.7	6e-01	6
Rru_A1927	Acetyl-CoA hydrolase	4.1	2e-10	6	1.0	5e-01	1.0	9e-01	1.0	1e+ 00	0.5	3e-08	6
Rru_A1205	Succinate dehydrogenase iron-sulfur subunit	1.1	3e-03	5	1.1	1e-01	0.8	4e-03	1.1	6e-02	1.1	5e-01	6
Rru_A1204	Succinate dehydrogenase flavoprotein subunit	1.2	4e-05	5	1.0	6e-01	1.0	1e-01	1.0	3e-02	1.0	8e-02	6
Rru_A1203	Succinate dehydrogenase subunit D	2.0	2e-01	6	1.0	6e-01	1.1	4e-01	0.6	2e-01	1.1	7e-01	1
Rru_A2129	Fumarate hydratase class II	1.9	7e-05	2	1.3	1e+ 00	0.7	1e-01	1.0	1e-01	1.3	2e-01	6
Rru_A2206	Fumarate hydratase class I	1.2	9e-02	6	1.0	4e-01	1.0	1e+ 00	0.9	3e-02	1.0	2e-01	6
Rru_A2398	Pyruvate-flavodoxin oxidoreductase	1.4	4e-03	6	0.9	4e-01	1.0	8e-01	1.3	2e-06	0.8	1e-01	6
Rru_A0695	2-isopropylmalate synthase	1.2	8e-02	6	1.0	3e-01	1.3	3e-02	1.0	6e-01	0.8	4e-01	4
Rru_A1189	3-isopropylmalate dehydratase large subunit	0.8	8e-04	6	1.1	1e-03	1.0	4e-01	1.0	2e-01	0.8	9e-04	6
Rru_A1190	3-isopropylmalate dehydratase small subunit	0.7	1e-02	6	1.2	4e-02	0.9	2e-03	1.1	6e-02	0.9	1e-02	4
Rru_A1191	3-isopropylmalate dehydrogenase	0.9	5e-01	6	1.1	2e-03	0.9	2e-02	1.0	3e-01	0.9	2e-03	5
Rru_A0467	Acetolactate synthase, large subunit	1.5	7e-06	6	1.1	7e-02	0.9	7e-03	0.9	3e-01	1.1	5e-01	6
Rru_A0468	Acetolactate synthase, small subunit	2.0	1e-08	6	1.0	8e-01	1.0	6e-01	0.8	5e-02	1.1	4e-02	6
Rru_A0469	Ketol-acid reductoisomerase (NADP(+))	1.8	1e-05	6	1.0	9e-03	0.9	1e-01	0.9	5e-03	0.9	2e-02	6
Rru_A1786	Dihydroxy-acid dehydratase	1.0	5e-01	6	0.9	1e-02	0.8	7e-02	1.1	5e-01	1.0	6e-01	6
Rru_A2223	Branched chain amino acid aminotransferase	4.3	1e-11	5	0.9	2e-04	0.9	7e-04	0.9	9e-03	0.8	2e-04	6
Rru_A0508	Aminotransferase, class IV	0.3	4e-05	1	2.9	2e-01	0.9	9e-03	1.5	2e-04	1.1	1e-01	1
Rru_A1040	Leucine dehydrogenase	0.1	9e-05	2	0.9	5e-01	0.7	2e-01	2.0	2e-01	2.3	3e-03	2
Rru_A1977	Pyruvate/ketoisovalerate oxidoreductase subunit beta	1.8	1e-02	4	2.3	6e-02	0.8	6e-01	1.2	4e-01	0.3	6e-04	2
Rru_A1978	Pyruvate/ketoisovalerate oxidoreductase subunit alpha	1.9	3e-04	6	1.5	9e-04	0.9	4e-01	1.1	7e-02	0.3	1e-05	6
Rru_A1835	2-methylbutanoyl-CoA dehydrogenase	4.0	6e-06	5	0.8	6e-03	0.8	1e-03	1.3	1e-02	0.9	1e-01	5
Rru_A1833	3-hydroxybutyrate dehydrogenase	2.3	2e-03	5	0.8	2e-03	0.7	7e-04	1.9	3e-06	0.9	1e-02	6
Rru_A1948	Isovaleryl-CoA dehydrogenase	2.8	1e-02	4	0.9	9e-02	0.8	3e-03	1.2	9e-03	0.8	9e-04	4
Rru_A1834	3-hydroxyisobutyryl-CoA hydrolase	2.0	2e-05	5	0.8	2e-02	1.0	9e-01	1.1	2e-01	0.8	9e-04	6
Rru_A1945	Short-chain dehydrogenase/reductase SDR	2.0	3e-07	6	0.8	1e-05	1.0	8e-01	1.0	3e-01	1.2	8e-05	6
Rru_A1946	3-ketoacyl-CoA thiolase	2.3	8e-02	2	0.8	3e-02	0.8	1e-02	1.2	7e-03	0.9	2e-01	3

^aThe protein fold change (FC) is defined as the ratio of the abundance of a protein under different conditions. “B/S” stands for “butyrate vs succinate”. “T1/T0”, “T2/T1”, “T3/T2”
and “T4/T3”’ stand for ratios observed between each culture points of the kinetic proteomic experiment
^bThe statistical significance (P-value) of the fold change observed between each condition was determined with an unpaired t-test
^c“pept” represents the number of peptides identified with a confidence higher than 95% and used for quantification
dDue to interference in MS signal, fold change and P-value were manually corrected

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