Table 3.

COG functional assignment of CDS detected in the genomes of STM 2683 and STM 4661

COG Class ID	Process	Description	CDS Number
			2683*	4661**
B	INFORMATION STORAGE AND PROCESSING	Chromatin structure and dynamics	5	6
C1, 2	METABOLISM	Energy production and conversion	370	393
D2	CELLULAR PROCESSES AND SIGNALING	Cell cycle control, cell division, chromosome partitioning	54	51
E1	METABOLISM	Amino acid transport and metabolism	1111	1135
F	METABOLISM	Nucleotide transport and metabolism	134	128
G1	METABOLISM	Carbohydrate transport and metabolism	628	604
H	METABOLISM	Coenzyme transport and metabolism	194	210
I	METABOLISM	Lipid transport and metabolism	279	295
J1, 2	INFORMATION STORAGE AND PROCESSING	Translation, ribosomal structure and biogenesis	247	257
K	INFORMATION STORAGE AND PROCESSING	Transcription	526	540
L2	INFORMATION STORAGE AND PROCESSING	Replication, recombination and repair	278	257
M1, 2	CELLULAR PROCESSES AND SIGNALING	Cell wall/membrane/envelope biogenesis	322	343
N2	CELLULAR PROCESSES AND SIGNALING	Cell motility	69	48
O2, 3	CELLULAR PROCESSES AND SIGNALING	Posttranslational modification, protein turnover, chaperones	227	213
P1, 3	METABOLISM	Inorganic ion transport and metabolism	629	654
Q	METABOLISM	Secondary metabolite biosynthesis, transport and catabolism	249	263
R1	POORLY CHARACTERIZED	General function prediction only	994	1058
S	POORLY CHARACTERIZED	Function unknown	421	454
T2	CELLULAR PROCESSES AND SIGNALING	Signal transduction mechanisms	237	237
U2	CELLULAR PROCESSES AND SIGNALING	Intracellular trafficking, secretion, and vesicular transport	107	91
V	CELLULAR PROCESSES AND SIGNALING	Defense mechanisms	204	205
W	CELLULAR PROCESSES AND SIGNALING	Extracellular structures	1	1

* 4,903 CDS out of 6,844 (71.6%) were assigned to at least one COG class ID for STM 2683.

** 5,042 CDS out of 6,994 (72.1%) were assigned to at least one COG Class ID for STM 4661.

¹ COG Class representing more than 5% of the transcriptomes for both strains and for all treatments (cf. Figure 3).

² Transcriptionally over-active COG Class for both strains and in all treatments (cf. Figure 4).

³ COG Class presenting a higher proportion of differentially regulated genes for both strains and both metal treatments when compared to control treatments (cf. Figure 5).