Identification of genes affecting alginate biosynthesis in Pseudomonas fluorescens by screening a transposon insertion library

Ertesvåg, Helga; Sletta, Håvard; Senneset, Mona; Sun, Yi-Qian; Klinkenberg, Geir; Konradsen, Therese Aursand; Ellingsen, Trond E.; Valla, Svein

doi:10.1186/s12864-016-3467-7

Table 1 Identified mutants and their growth yield and alginate production in the three media^a

From: Identification of genes affecting alginate biosynthesis in Pseudomonas fluorescens by screening a transposon insertion library

Number of independent transposon mutants	Gene ID	Gene	Function	Growth (G) and Alginate production (A) in different media^a
				PIA Gly				0.5xDEF4 Gly				0.5xDEF4 Fru
				G		A		G		A		G		A
				%	SD	%	SD	%	SD	%	SD	%	SD	%	SD
	SBW25 WT			132	6	0	25	86	0	0	0	350	6	1	6
	Control			100	6	100	13	100	2	100	13	100	5	100	3
1	PFLU0460	aceE1	Energy production and conversion	66	2	63	2	57	4	19	4	293	20	0	4
1	PFLU3193	aceE2		108	4	48	2	98	6	89	9	130	3	106	19
1	PFLU5345	cioB		151	18	69	3	102	1	65	5	129	7	119	13
2	PFLU3801	ftsK	Cell cycle control, cell division, chromosome partitioning	38	0	17	5	72	14	4	3	425	42	3	3
	PFLU3801	ftsK		53	7	39	8	102	2	86	8	16	1	7	4
1	PFLU5304			107	6	47	7	100	6	96	8	130	18	101	12
1	PFLU1384		Amino acid transport and metabolism	108	3	18	3	71	1	81	33	148	45	95	6
1	PFLU2019			126	27	0	3	116	14	0	1	338	14	0	0
1	PFLU2124			127	4	40	7	102	2	88	7	294	30	55	27
1	PFLU3475			106	2	45	11	98	7	88	9	132	5	99	32
1	PFLU3887			104	4	12	11	93	6	72	16	132	28	53	5
1	PFLU5797	ilvD		69	22	64	2	60	10	17	1	338	31	2	3
1	PFLU4188	trpF		100	2	34	3	105	5	0	0	343	3	0	5
1	PFLU5559	trpD		62	5	58	11	106	9	9	12	344	23	0	1
2	PFLU5561	trpE		102	2	55	4	140	1	0	3	4	14	1	2
1	PFLU0612	purH	Nucleotide transport and metabolism	44	5	4	2	81	3	0	0	317	13	0	0
1	PFLU4183	purF		55	2	48	21	81	2	9	6	344	11	4	2
4	PFLU5034	purL		50	1	43	10	70	1	1	3	348	7	0	2
2	PFLU6054	purK		84	4	2	5	113	8	0	4	343	3	1	4
1	PFLU6055	purE		88	7	45	25	87	5	37	5	368	9	0	2
2	PFLU5396	amn		79	2	29	17	106	2	66	9	135	16	62	18
2	PFLU1142	glpK	Carbohydrate transport and metabolism	52	2	66	39	19	7	2	4	214	9	52	40
3	PFLU1143	glpF		59	2	4	2	18	3	0	2	128	10	80	4
1	PFLU3030	paaF		109	5	33	7	94	4	84	18	122	7	118	16
2	PFLU3365	treZ		107	2	62	12	97	1	98	3	132	17	132	4
3	PFLU4630	acnA		144	8	73	14	92	7	68	23	125	3	113	20
1	PFLU4949	pykA		107	4	41	14	51	3	132	5	160	3	85	12
1	PFLU0416	hemE	Coenzyme transport and metabolism	147	5	68	8	98	2	66	14	117	11	136	12
1	PFLU5820	nudH	Translation, ribosomal structure and biogenesis	77	3	23	12	78	0	127	5	65	23	31	3
1		23S rRNA	Translation, ribosomal structure and biogenesis	152	10	52	16	98	1	94	14	130	15	142	24
1	PFLU3173		Transcription	92	8	10	3	93	2	89	4	276	0	67	7
1	PFLU3307			165	18	74	11	103	2	88	28	137	10	110	8
1	PFLU4259			125	2	62	1	75	5	84	11	153	20	111	5
1	PFLU4774			102	10	7	3	91	12	75	7	110	3	79	26
1	PFLU5984	dut	Replication, recombination and repair	114	6	45	6	47	3	62	7	149	5	86	1
1	PFLU0013	htrB	Cell wall/ membrane/ envelope biogenesis	117	7	40	5	78	5	62	3	123	24	110	18
1	PFLU1562	nagZ		67	1	5	2	89	2	60	20	186	9	80	7
1	PFLU4993	ampG		58	2	4	2	87	1	53	10	198	6	83	17
1	PFLU5439	mpl		129	6	36	5	103	1	80	8	106	4	46	6
2	PFLU5545			62	3	8	2	99	9	90	11	204	1	65	6
2	PFLU5546	anmK		54	4	3	2	86	4	68	11	192	1	59	26
3	PFLU5573	amgK		95	30	45	10	23	2	15	4	192	18	46	38
1	PFLU5461	ispA		88	5	2	6	85	4	46	8	282	31	15	7
1	PFLU4418	fleN	Cell motility	88	1	43	4	80	4	104	29	80	1	40	12
1	PFLU4439	fliF		140	8	12	2	97	3	0	0	342	3	0	0
1	PFLU4448	fliC		111	8	38	2	87	5	102	7	171	3	132	6
1	PFLU0870	tldD	Posttransla-tional modification, protein turnover, chaperones	111	3	26	5	103	1	88	6	137	6	111	16
4	PFLU2032	prc		100	2	37	6	81	3	59	6	124	7	26	6
2	PFLU2614	sohB		98	3	11	3	96	1	73	8	108	7	109	12
1	PFLU3805	clpA		147	7	60	7	104	1	127	20	256	8	124	21
3	PFLU4383			118	6	21	8	87	22	51	5	298	8	38	13
1	PFLU5007	dsbC		102	7	13	6	97	2	79	5	120	10	84	2
2	PFLU5911	ppx	Inorganic ion transport and metabolism	50	2	82	38	73	3	67	28	90	13	76	2
	PFLU5911	ppx	Inorganic ion transport and metabolism	54	1	0	0	73	4	101	7	107	5	98	15
1	PFLU0511	rsgA	General function prediction only	108	5	86	11	96	4	101	32	104	12	124	26
1	PFLU2104			149	9	66	18	94	1	65	13	117	7	136	15
1	PFLU2996			134	10	66	7	104	3	74	12	122	9	132	5
1	PFLU3202			108	3	76	10	81	3	47	6	403	7	22	3
1	PFLU3391			51	25	58	8	68	1	95	7	118	0	129	13
1	PFLU3411			105	6	50	9	101	2	70	29	135	2	137	19
1	PFLU3456			104	4	47	5	103	0	107	2	151	13	117	6
1	PFLU1883		Function unknown	69	0	0	0	74	14	66	14	712	268	0	0
1	PFLU1995			149	7	85	9	104	1	97	7	158	18	113	17
1	PFLU4517			129	3	82	6	96	3	28	5	377	18	2	6
1	PFLU5579	apaG		39	2	47	21	104	5	4	3	175	32	18	7
1	PFLU2489			93	10	120	51	69	3	75	8	324	40	23	9
1	PFLU5377			107	8	8	3	97	4	76	5	145	1	92	20
1	Upstream PFLU2629			107	6	9	3	106	4	84	13	300	16	106	7
1	Upstream PFLU3162			122	2	77	20	76	1	88	12	280	36	96	15
1	Upstream PFLU3931			97	2	35	3	75	2	3	3	327	11	12	5
1	PFLU2519		Pseudogene	114	4	148	26	102	3	98	6	337	9	89	13
1	PFLU0259	ompR	Signal transduction mechanisms	89	5	7	1	101	4	70	12	127	17	101	12
2	PFLU0461	glnE		85	14	10	4	120	4	104	13	317	11	67	1
1	PFLU4125A			119	4	164	14	112	0	86	4	158	5	72	2
4	PFLU5236	cbrA		140	1	34	7	105	4	55	7	319	5	66	21
2	PFLU5237	cbrB		118	1	15	3	109	3	23	3	483	24	31	2
2	PFLU5819	ptsP		80	12	8	3	90	6	79	15	49	1	5	5
1	PFLU6039	phoB		78	1	44	20	102	2	90	16	110	7	84	21
1	PFLU6040	phoR		25	0	0	0	97	12	87	0	99	22	100	23
1	PFLU2808			100	2	11	3	110	4	75	5	255	52	19	11
1	PFLU3002		Intracellular trafficking, secretion, and vesicular transport	153	6	48	15	93	5	83	6	141	9	94	5
1	PFLU3951			106	6	8	1	105	2	83	1	110	5	101	20
1	PFLU5567			98	9	61	5	0	0	0	0	59	1	2	4

a: The strains were cultivated in microtiter plates for three days before cell and alginate yield were measured. The mutants shown are those that displayed significantly different alginate production levels in at least one of the three tested media. Data are not shown for strains with transposon insertions in the genes encoded by the alginate operon or in algC. The Table shows how many independent transposon insertions mutants that were identified for each gene, the gene identifier, the gene name, and which functional group the corresponding protein is assigned to. Growth above 125% and alginate production above 110% are marked using bold types, growth and alginate production between 10 and 50% are marked using italics, and growth and alginate production below 10% are written in bold italics. Three biological replicates were cultivated for each strain, and the results are given as percent (%) of the values obtained from the control strain MS2. Standard deviations for the three replicates are shown in the columns to the right (SD)

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