Deciphering the response of Mycobacterium smegmatis to nitrogen stress using bipartite active modules

BMC Genomics

Table 2 KEGG pathways identified using genes differentially expressed under nitrogen stress

KEGG pathway	KEGG ID	Size*	p-value	q-value
Up
Glycine, serine and threonine metabolism	msm00260	41	0.0002	0.0243
Tyrosine metabolism	msm00350	41	0.0003	0.0243
Down
Carotenoid biosynthesis	msm00906	3	0.0000	0.0000
Geraniol degradation	msm00281	72	0.0002	0.0025
Benzoate degradation	msm00362	94	0.0002	0.0025
Vitamin B6 metabolism	msm00750	6	0.0006	0.0069
Propanoate metabolism	msm00640	94	0.0015	0.0162
Peptidoglycan biosynthesis	msm00550	16	0.0022	0.0223
Valine, leucine and isoleucine degradation	msm00280	91	0.0025	0.0238
One carbon pool by folate	msm00670	14	0.0031	0.0247
Fatty acid metabolism	msm00071	94	0.0032	0.0247
Terpenoid backbone biosynthesis	msm00900	23	0.0040	0.0259
Phenylalanine, tyrosine and tryptophan biosynthesis	msm00400	27	0.0087	0.0470

KEGG enrichment analysis on all DE genes at 10 vs 12 hours. Pathways shown are significant under a one-tailed Fisher’s exact test at a FDR of 5%. *Size denotes number of genes on the microarray mapped to that KEGG pathway.

ISSN: 1471-2164