High-throughput sequencing of sorted expression libraries reveals inhibitors of bacterial cell division

Mediati, Daniel G.; Burke, Catherine M.; Ansari, Shirin; Harry, Elizabeth J.; Duggin, Iain G.

doi:10.1186/s12864-018-5187-7

BMC Genomics

Table 2 UTI89 chromosomal regions identified to contain mediators of filamentation (high stringency hits in both replicate screens)

From: High-throughput sequencing of sorted expression libraries reveals inhibitors of bacterial cell division

Genomic Region (bp)^a	Locus ID	Gene Name(s)^b	COG^c	Length (bp)	Fold Enrichment^d	Significance score^d
14,519–15,641	UTI89_C0017	dnaJ	O	1123	6.9	197.3
14,519–15,641	UTI89_C0018	gef (hok)	R	1123	6.9	197.3
361,550–364,162	UTI89_C0348	yahD	R	2613	17.1	935.0
	UTI89_C0349	yahE	S
	UTI89_C0350	yahF	C
640,717–641,788	UTI89_C0629	ybeM	R	1072	4.3	112.5
	UTI89_C0630	tatE	U
	UTI89_C0631	lipA	H
690,222–691,856	UTI89_C0684	glnS	J	1635	79.2	8504.0
1,016,170–1,016,793	UTI89_C1021	matP	MD	624	9.1	575.5
1,016,170–1,016,793	UTI89_C1022	ompA	M	624	9.1	575.5
1,139,704–1,141,232	UTI89_C1147		S	1529	9.6	321.3
	UTI89_C1148	(cbeA/yeeU)	S
	UTI89_C1149	(cbtA/yeeV)	S
	UTI89_C1150		S
1,245,504–1,247,434	UTI89_C1276	bet	S	1931	415.2	43,744.9
	UTI89_C1277	gamW	R
	UTI89_C1278		S
	UTI89_C1279	kil1	R
	UTI89_C1280	λ-cIII	S
	UTI89_C1281	(ea10)	S
	UTI89_C1282	ral	R
1,297,038–1,299,321	UTI89_C1357	(ycgI)	S	2284	4.7	174.7
	UTI89_C1358		S
	UTI89_C1359	minE	D
	UTI89_C1360	minD	D
	UTI89_C1361	minC	D
1,392,009–1,395,131	UTI89_C1459	exoO	SR	3123	70.7	10,266.0
	UTI89_C1460		S
	UTI89_C1461	dicB	D
	UTI89_C1462	dicF	RD
	UTI89_C1463	ydfC	S
	UTI89_C1464	ydfB	S
	UTI89_C1465	ydfA	S
	UTI89_C1466	dicA	KT
	UTI89_C1467	dicC	R
1,961,291–1,963,326	UTI89_C2055	zwf	G	2036	19.0	1044.3
2,011,010–2,012,850	UTI89_C2102	(yecI/ftnB)	P	1841	6.7	159.7
	UTI89_C2103	yecJ	S
	UTI89_C2104		S
	UTI89_C2105	yecR	SR
	UTI89_C2106	ftnA	P
2,632,799–2,635,972	RS13095		S	3174	15.0	1023.6
	UTI89_C2682	λ-cIII	S
	UTI89_C2683	kil2	R
	UTI89_C2684		S
	UTI89_C2685		S
	UTI89_C2686	erf	S
	UTI89_C2687		S
	UTI89_C2688	hkaJ	S
	UTI89_C2689	hkaH	S
	RS13145		S
2,927,393–2,928,805	UTI89_C2990		G	1413	193.2	17,052.9
	UTI89_C2991		S
	UTI89_C2992		S
	UTI89_C2993		S
2,933,266–2,935,042	UTI89_C3000	ymfN	K	1777	36.0	3042.5
	UTI89_C3001	ymfM	RD
	UTI89_C3002	ymfL	S
	UTI89_C3003	ymfT	S
	UTI89_C3004	ymfK	KT
3,029,776–3,031,529	UTI89_C3112	nlpD	M	1754	92.6	23,091.7
3,029,776–3,031,529	UTI89_C3114	pcm	O	1754	92.6	23,091.7
3,162,699–3,166,774	UTI89_C3238	tas	C	4076	8.1	372.1
	UTI89_C3239	lplT	U
	UTI89_C3240	aas	IQ
3,426,907–3,428,106	UTI89_C3489	glnE	OT	1200	12.8	1200.0
3,426,907–3,428,106	UTI89_C3490	ygiF	S	1200	12.8	1200.0
3,553,759–3,555,227	UTI89_C3621	ispB	H	1469	11.8	666.4
	UTI89_C3622	nlp	K
	UTI89_C3623	murA	M
3,723,755–3,724,973	UTI89_C3832	rpoB	K	1219	42.4	7961.0
	UTI89_C3834	rplL	J
	UTI89_C3835	rplJ	J
3,767,241–3,770,673	UTI89_C3884	rpe	G	3433	61.3	5157.4
	UTI89_C3885	dam	L
	UTI89_C3886	damX	D
	UTI89_C3887	aroB	E
3,921,231–3,922,700	UTI89_C4038	hmuV	P	1470	19.0	1402.3
3,921,231–3,922,700	UTI89_C4039	yhiD	S	1470	19.0	1402.3
4,049,515–4,052,967	UTI89_C4158	yibP (envC)	D	3453	51.7	12,724.5
	UTI89_C4159	yibQ	S
	UTI89_C4160	yibD	M
	UTI89_C4162	tdh	ER
4,997,073–4,999,597	UTI89_C5098		S	2525	14.8	584.6
	UTI89_C5099		S
	UTI89_C5100		S
	UTI89_C5101	yfdN2	S
	UTI89_C5102		S

^aCoordinates were determined from Genbank accession NC_007946.1 as the minimal region identified in common between both replicates, with an overlap > 100 bp
^bGenes within or overlapping the hit region are shown, and named based on characterized homologs in other strains; alternative names may also be given in parentheses. Hypothetical or proteins with no characterized homologs are left blank
^cCOG Clusters of Orthologous Groups functional classification code
^dThe significance score (log₁₀[P-value]) and fold-enrichment are shown as the means from the two replicate screens

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