Table 2.

Gene numbers for each COG in Aspergillus luchuensis NBRC 4314, A. niger CBS 513.88, and A. kawachii NBRC 4308

		A. luchuensis	A. niger	A. kawachii
Information storage and processing
J	Translation, ribosomal structure, and biogenesis	308	302	300
A	RNA processing and modification	210	203	207
K	Transcription	240	238	244
L	Replication, recombination, and repair	193	193	190
B	Chromatin structure and dynamics	93	88	91
Cellular processes and signaling
D	Cell cycle control, cell division, chromosome partitioning	159	156	152
Y	Nuclear structure	26	27	26
V	Defense mechanisms	50	57	49
T	Signal transduction mechanisms	370	370	372
M	Cell wall/membrane/envelope biogenesis	93	97	92
N	Cell motility	1	1	1
Z	Cytoskeleton	107	111	110
W	Extracellular structures	4	4	5
U	Intracellular trafficking, secretion, and vesicular transport	282	273	284
O	Posttranslational modification, protein turnover, chaperones	453	456	444
Metabolism
C	Energy production and conversion	393	396	390
G	Carbohydrate transport and metabolism	285	284	291
E	Amino acid transport and metabolism	386	380	373
F	Nucleotide transport and metabolism	87	87	89
H	Coenzyme transport and metabolism	114	116	113
I	Lipid transport and metabolism	384	356	373
P	Inorganic ion transport and metabolism	144	143	142
Q	Secondary metabolite biosynthesis, transport, and catabolism	461	446	433
Poorly characterized
R/Sa	General function prediction only/function unknown	1,417	1,448	1,401
Xb	Gene with unknown function	6,161	7,663	5,806
COG hit		5,530	5,497	5,446
Total		11,691	13,160	11,252

Genes that encoded polypeptides longer than 100 amino acids were used in the analysis. Genes that shared homology with ≥2 COGs were counted redundantly in each COG.

^aGenes that shared homology with COGs other than R/S were excluded.

^bGenes that shared no homology with any COGs including the genes sharing homology with R/S.

COG, cluster of orthologous group.