TABLE 1.

Summary of probes on GeoChip 5.0M by functional gene categories^c

Functional gene category	No. of:						% of probe changes compared to GeoChip 4
	Subcategories	Genes or enzymes	Sequence-specific probes	Group-specific probes	Total probes	Covered CDS
C cycling	3	118	4,354	19,261	23,615	50,040	+114
N cycling	7	22	2,397	3,600	5,997	11,654	−19
S cycling	5	17	1,969	2,317	4,286	6,823	+38
P cycling	4	7	960	2,300	3,260	6,245	+143
Metal homeostasis	24	105	5,084	37,543	42,627	91,614	+360
Organic contaminant degradation	7	157	2,204	9,241	11,445	27,938	−33
Electron transport	3	35	612	1,348	1,960	3,351	+72.3
Stress response	18	86	2,098	23,634	25,732	79,356	+19
Plant growth promotion	7	31	957	2,263	3,220	5,720	NAa
Microbial defense	4	87	3,284	19,954	23,238	50,019	+597
Virulence	10	587	1,264	3,596	4,860	10,863	+30
Virus specific	4	115	1,521	1,336	2,857	5,182	+167
Protozoan specific	10	84	845	615	1,460	2,146	NAa
Fungus specific	9	66	2,559	2,079	4,638	6,987	−7
GyrB	1	1	532	2,234	2,766	9,997	+18
Total	116	1,447	30,640	131,321	161,961	365,651b	+97

^aNA (not applicable) because this is a new category for GeoChip 5.0.

^bTotal number of covered coding DNA sequences (CDS) does not equal the sum of those from individual categories due to the presence of CDS that were covered in two or more categories.

^cDetailed information on individual subcategories of functional genes is presented in Table S1.