Effects of colonization-associated gene yqiC on global transcriptome, cellular respiration, and oxidative stress in Salmonella Typhimurium

Fan, Hung-Hao; Fang, Shiuh-Bin; Chang, Yu-Chu; Huang, Sheng-Tung; Huang, Chih-Hung; Chang, Pei-Ru; Chang, Wei-Chiao; Yang, Lauderdale Tsai-Ling; Lin, Pei-Chun; Cheng, Hung-Yen

doi:10.1186/s12929-022-00885-0

Journal of Biomedical Science

Table 1 RNA-seq analysis revealed the 20 most significantly upregulated genes (A) and the 20 most significantly downregulated genes (B) of ΔyqiC relative to S. Typhimurium SL1344 after in vitro infection with Caco-2 cells for 2 h

From: Effects of colonization-associated gene yqiC on global transcriptome, cellular respiration, and oxidative stress in Salmonella Typhimurium

No.	SL1344 gene name (or locus tag)	LT2 gene name	Description	Log2 fold change (ΔyqiC/SL1344)	q value
A
1	pyrB	pyrB	Aspartate carbamoyltransferase catalytic subunit	4.205	0.001601
2	pyrI	pyrI	Aspartate carbamoyltransferase regulatory subunit	3.928	0.001601
3	carA	carA	Carbamoyl phosphate synthase small subunit	3.267	0.001601
4	SL1344_RS07420	STM1493	Osmoprotectant ABC transporter substrate-binding protein OsmX	2.661	0.012098
5	carB	carB	Carbamoyl phosphate synthase large chain	2.358	0.001601
6	fimH	fimH	Fimbrial adhesin FimH	2.279	0.001601
7	fimA	fimA	Type 1 fimbrial protein subunit FimA	2.059	0.001601
8	hyaA	STM1786	[Ni/Fe] hydrogenase small subunit	2.015	0.006092
9	fimI	fimI	Type 1 fimbrial protein subunit FimI	1.998	0.001601
10	SL1344_RS06225	STM1254	Hypothetical protein	1.974	0.001601
11	SL1344_RS25015	–	Hypothetical protein	1.931	0.001601
12	pyrE	pyrE	Orotate phosphoribosyltransferase	1.923	0.001601
13	fimD	fimD	Outer membrane usher protein	1.899	0.001601
14	iscS	nifS	IscS subfamily cysteine desulfurase	1.899	0.001601
15	glnK	glnK	Nitrogen regulatory protein P-II 2	1.882	0.007075
16	pdhR	pdhR	Pyruvate dehydrogenase complex repressor	1.881	0.001601
17	fimC	fimC	Fimbrial chaperone protein FimC	1.862	0.001601
18	SL1344_RS07595	STM1527	Hypothetical protein	1.814	0.001601
19	ygaC	ygaC	Hypothetical protein	1.805	0.001601
20	fimF	fimF	Fimbrial-like protein FimF	1.799	0.001601
B
1	ivbL	ivbL	ilvB operon leader peptide IvbL	− 25.492	0.022391
2	yqiC	yqiC	Hypothetical protein	− 23.906	0.001601
3	ybaM	ybaM	DUF2496 domain-containing protein	− 21.810	0.002902
4	SL1344_RS26070	–	Hypothetical protein	− 19.967	0.022391
5	SL1344_RS08230	–	Hypothetical protein	− 19.143	0.022391
6	tdcB	tdcB	Serine/threonine dehydratase	− 4.197	0.001601
7	tdcA	tdcA	Transcriptional regulator TdcA	− 3.979	0.038047
8	fljB	fljB	Flagellin FliC	− 3.689	0.001601
9	fljA	fljA	Phase 1 flagellin transcriptional repressor	− 3.536	0.002902
10	SL1344_RS22905	STM4465	Ornithine carbamoyltransferase	− 3.419	0.011296
11	SL1344_RS12015	STM2342	PTS ascorbate transporter subunit IIC	− 3.350	0.001601
12	tdcD	tdcD	Propionate kinase	− 3.106	0.001601
13	cadA	cadA	Lysine decarboxylase CadA	− 2.988	0.001601
14	SL1344_RS22110	STM4306	Dimethylsulfoxide reductase, chain B	− 2.979	0.001601
15	SL1344_RS22105	STM4305	Dimethyl sulfoxide reductase subunit A	− 2.883	0.001601
16	tdcC	tdcC	Threonine/serine transporter TdcC	− 2.869	0.001601
17	cadB	cadB	Arginine:agmatine antiporter	− 2.809	0.001601
18	SL1344_RS23095	STM4502	DUF1062 domain-containing protein	− 2.641	0.007995
19	pndA	STM0886	Protein PndA	− 2.557	0.001601
20	SL1344_RS25925	–	Hypothetical protein	− 2.509	0.001601

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ISSN: 1423-0127

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