Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture

BMC Genomics

Table 1 Differentially expressed genes that are involved in uptake of nitrogen compounds during nitrogen limitation

Predicted transported substrate	mc²155 locus^a	Expression ratio^b	FDR^c	Description
Amino acids	msmeg_2525	13.18	8.41E-26	amino acid permease
	msmeg_2184	7.09	4.86E-11	amino acid permease
	msmeg_6735	6.11	1.56E-13	amino acid permease
	msmeg_2981	5.81	5.53E-29	branched-chain amino acid ABC transporter permease
	msmeg_1613^d	4.88	3.38E-07	polar amino acid ABC transporter inner membrane protein
	msmeg_3231	2.16	1.80E-02	cysteine ABC transporter permease/ATP-binding protein
	msmeg_6876	2.14	9.32E-03	branched-chain amino acid transport ATP-binding protein
	msmeg_3203^d	0.33	4.71E-05	transporter LysE family protein
Ammonium	msmeg_4635	7.49	9.82E-37	ammonium transporter
	msmeg_6259	2.70	2.06E-04	ammonium transporter
	msmeg_2425	2.70	3.95E-11	ammonium transporter
Nucleotides	msmeg_2570	6.79	4.33E-08	xanthine / uracil permease
	msmeg_5730	6.55	1.50E-26	permease for cytosine / purines / uracil / thiamine / allantoin
	msmeg_4011	6.30	2.56E-12	pyrimidine permease RutG
	msmeg_6660	4.22	1.88E-17	permease for cytosine / purines / uracil / thiamine / allantoin
	msmeg_1177	4.22	4.90E-08	cytosine / purines / uracil / thiamine / allantoin permease
	msmeg_1293	3.98	1.09E-17	xanthine / uracil permease
	msmeg_3402	2.23	3.57E-06	cytosine permease
Nitrate	msmeg_0433	3.67	1.73E-04	nitrite extrusion protein

^aLocus number of gene in M. smegmatis mc²155
^bMean gene expression ratio of three biological replicates
^c P-values of gene expression ratio from three biological replicates were corrected for multiple testing using the Benjamini and Hochberg False Discovery Rate (FDR)
^dGenes in the nitrogen regulated transcriptome that were discovered in this study

ISSN: 1471-2164