Rootstock-regulated gene expression patterns associated with fire blight resistance in apple

BMC Genomics

Table 2 KEGG functional analysis of candidate rootstock-regulated, fire blight susceptibility-associated transcripts

		Whole array	Suppl Table 2		Table 3 transcripts		Table 5 transcripts		p-value >
Pathway	KEGG no.	Total	Exp	Obs	Exp	Obs	Exp	Obs	Suppl Table 2	Table 3	Table 5
Fatty acid metabolism	71	10	0.1	4	n/a	n/a	n/a	n/a	0.001	n/a	n/a
Protein processing in endoplasmic reticulum	4141	60	0.8	8	0.3	3	0.3	3	0.001	0.001	0.001
Carbon fixation pathways in prokaryotes	720	10	0.1	3	n/a	n/a	n/a	n/a	0.001	n/a	n/a
Peroxisome	4146	30	0.4	5	0.2	1	n/a	n/a	0.001	0.05	n/a
Photosynthesis-antenna proteins	196	12	1.5	7	0.7	1	0.7	2	0.001	NS	0.001
Endocytosis	4144	30	0.4	3	0.2	2	0.2	1	0.001	0.001	0.05
Valine, leucine and isoleucine degradation	280	20	0.3	2	n/a	n/a	n/a	n/a	0.001	n/a	n/a
Carbon fixation in photosynthetic organisms	710	22	2.8	8	1.3	2	n/a	n/a	0.01	NS	n/a
Methane metabolism	680	19	2.4	7	1.1	2	n/a	n/a	0.01	NS	n/a
Spliceosome	3040	95	12.2	3	5.5	1	5.2	1	0.01	NS	NS
Arginine and proline metabolism	330	30	0.4	2	n/a	n/a	n/a	n/a	0.01	n/a	n/a
Flavonoid biosynthesis	941	13	1.7	5			0.7	2	0.01		NS
Antigen processing and presentation	4612	6	0.8	3	0.3	2	0.3	2	0.05	0.01	0.01
Purine metabolism	230	75	9.6	2	n/a	n/a	n/a	n/a	0.05	n/a	n/a
Pentose and glucuronate interconversions	40	10	0.1	1	n/a	n/a	n/a	n/a	0.05	n/a	n/a
Indole alkaloid biosynthesis	901	1	0.1	1	n/a	n/a	n/a	n/a	0.05	n/a	n/a
Neuroactive ligand-receptor interaction	4080	1	0.1	1	n/a	n/a	n/a	n/a	0.05	n/a	n/a
Renin-angiotensin system	4614	1	0.1	1	n/a	n/a	n/a	n/a	0.05	n/a	n/a
Benzoate degradation	362	4	0.5	2	n/a	n/a	0.3	1	0.05	n/a	NS
Fructose and mannose metabolism	51	16	2.1	5	0.9	1	n/a	n/a	0.05	NS	n/a
Ubiquitin mediated proteolysis	4120	47	6.0	1	n/a	n/a	3.2	1	0.05	n/a	NS
Cell cycle-yeast	4111	46	5.9	1	n/a	n/a	3.1	1	0.05	n/a	NS
Phagosome	4145	26	3.3	7	n/a	n/a	1.4	3	0.05	n/a	NS
NOD-like receptor signaling pathway	4621	3	0.4	1	0.2	1	0.2	1	NS	0.05	NS

ISSN: 1471-2164