Living with an imperfect cell wall: compensation of femAB inactivation in Staphylococcus aureus

BMC Genomics

Table 2 Functional classification and numbers of genes that were found differentially expressed in the femAB+ backcross BB1305 compared to the corresponding wild type BB903 as determined by microarray analysis

Function^a	Number of ORFs			Overrepresentation^b
	Chip	Down	Up		p -value
Cell wall	63	2	0
Membrane bioenergetics (electron transport chain and ATP synthase)	58	1	2
Transport/binding proteins and lipoproteins	254	16	11	down	< 0.001
Protein secretion	12	0	0
Sensors (signal transduction)	19	0	0
Cell division, germination, sporulation, and transformation/competence	34	0	0
DNA modification, repair, recombination, replication, packaging, and segregation	80	0	3
Protein folding and modification	35	1	1
Protein synthesis	85	6	0	down	0.015
RNA modification	20	0	0
RNA synthesis	132	3	8
Metabolism of lipids	50	4	3	down	0.030
Metabolism of amino acids and related molecules	143	7	10	up	0.029
Metabolism of carbohydrates and related molecules	134	2	10	up	0.023
Metabolism of coenzymes and prosthetic groups	70	0	1
Metabolism of nucleotides and nucleic acids	74	5	3	down	0.030
Metabolism of phosphate and sulfur	8	0	0
Adaptation to atypical conditions	44	0	1
Pathogenic factors (toxins and colonization factors)	97	1	9	up	0.006
Phage-related functions	43	0	7	up	0.001
Detoxification, transposon and IS, miscellaneous	66	1	2
Similar to unknown proteins, no similarity	811	7	10
Total ORFs	2332	56	81

^aThe cellular main roles are in accordance with the annotation on the DOGAN website [73].
^bOverrepresented functions either among the down- or the upregulated genes are printed in bold and the respective p- values as determined by Fisher's exact test are given.

ISSN: 1471-2164