A novel bioinformatics pipeline to discover genes related to arbuscular mycorrhizal symbiosis based on their evolutionary conservation pattern among higher plants

Table 2 Criteria used for gene expression filtering of M. truncatula genes identified in Task4

	Name (Figure 3)		Name of treatment in MtGEA
Criterion 1	LCM	test	Root LCM arbuscular
Criterion 1	LCM	cont	Root LCM cortical
Criterion 2	AM	test*	Root (28dpi) Myc (G. intraradices) 6wk 20 uM P
		test*	Root (28dpi) Myc (G. mosseae) 6wk 20 uM P
		cont	Root non-Myc (control) 6wk 20 uM P
Criterion 3	dmi3	test	Root DMI3 inoculated with Gigaspora (early contact)
Criterion 3	dmi3	cont	Root DMI3 control
Criterion 4	MF_6 h	test	Root WT nsMyc-LCOs 6 h
Criterion 4	MF_6 h	cont	Root WT MF control 6 h
Criterion 5	MF_24 h	test	Root WT nsMyc-LCOs 24 h
Criterion 5	MF_24 h	cont	Root WT MF control 24 h
Criterion 6	P-repressed	test	Root non-Myc (control) 6wk 20 uM P
Criterion 6	P-repressed	cont	Root non-Myc 6wk 2 mM P

These 6 criteria were applied to the 1526 genes of Task4 (Additional file 7: Table S2) for which a reliabel probe set was available in the M. truncatula Gene Atlas (http://mtgea.noble.org/v3). *Expression values were averaged for the two samples inoculated by G. intraradices and G. mosseae, respectively.

ISSN: 1471-2229