Comparative genomic analysis revealed great plasticity and environmental adaptation of the genomes of Enterococcus faecium

Table 1 Functional categories of representative core and pan genes of Enterococcus faecium genomes

COG Functional category	No. of core genes	No. of pan genes	Proportion of core genes among pan genes (%)
[J] Translation, ribosomal structure and biogenesis	113	435	25.98
[A] RNA processing and modification	0	0	0
[K] Transcription	79	506	15.61
[L] Replication, recombination and repair	55	515	10.68
[B] Chromatin structure and dynamics	0	0	0
[D] Cell cycle control, cell division, chromosome partitioning	15	61	24.59
[Y] Nuclear structure	0	0	0
[V] Defense mechanisms	16	200	8.00
[T] Signal transduction mechanisms	31	204	15.20
[M] Cell wall/membrane/envelope biogenesis	49	539	9.09
[N] Cell motility	2	24	8.33
[Z] Cytoskeleton	0	0	0
[W] Extracellular structures	0	0	0
[U] Intracellular trafficking, secretion, and vesicular transport	12	229	5.24
[O] Post-translational modification, protein turnover, and chaperones	34	102	33.33
[C] Energy production and conversion	36	289	12.46
[G] Carbohydrate transport and metabolism	75	729	10.29
[E] Amino acid transport and metabolism	81	263	30.80
[F] Nucleotide transport and metabolism	52	91	57.14
[H] Coenzyme transport and metabolism	29	84	34.52
[I] Lipid transport and metabolism	31	85	36.47
[P] Inorganic ion transport and metabolism	63	207	30.43
[Q] Secondary metabolites biosynthesis, transport, and catabolism	9	55	16.36
[R] General function prediction only	136	545	24.95
[S] Function unknown	101	559	18.07