Genome-wide microarray analysis of tomato roots showed defined responses to iron deficiency

Zamboni, Anita; Zanin, Laura; Tomasi, Nicola; Pezzotti, Mario; Pinton, Roberto; Varanini, Zeno; Cesco, Stefano

doi:10.1186/1471-2164-13-101

BMC Genomics

Table 2 List of transcripts modulated in response to Fe-deficiency and reported in the Discussion

From: Genome-wide microarray analysis of tomato roots showed defined responses to iron deficiency

#	ProbeID^a	Description^b	UniProtID^c	TC-ID^d	FC^e	p, value, adj^f
	Biological process GO:0008150
1	TC192724_853_37_S	SRC2	B6SND5	TC192724	3.02	0.014
2	TC192763_241_40_S	Putative uncharacterized protein	C6T3H9	TC192763	2.11	0.030
3	TC193319_801_34_X2	Putative uncharacterized protein	Q40127	TC193319	-3.35	0.016
4	TC195341_998_35_S	Putative uncharacterized protein	Q40127	TC195341	-3.33	0.011
5	TC196753_1279_37_S	D-protein	Q8VWY8	TC196753	6.11	0.028
6	TC197095_638_34_X2	NtEIG-E80 protein (elicitor inducible gene product)	Q9FXS6	TC197095	4.69	0.024
7	TC198323_947_40_S	Predicted protein	B9MWQ1	TC198323	2.51	0.032
8	TC199253_1439_39_S	Zinc finger protein. putative	B9SLY6	TC199253	2.82	0.029
9	TC202360_487_40_S	EF-1 alpha-like protein	O49604	TC202360	2.15	0.024
10	TC204571_463_40_S	ATBET12, putative	B9STJ3	TC204571	-2.62	0.023
11	TC205207_890_35_S	Putative uncharacterized protein	Q40127	TC205207	-3.09	0.048
12	TC207200_893_35_S	VIT_00038707001	E0CVH7	TC207200	2.44	0.042
13	TC207407_739_37_S	Predicted protein	B9HQW6	TC207407	2.36	0.042
14	TC207665_362_36_S	Putative uncharacterized protein	A9PCS8	TC207665	-2.39	0.048
15	TC208712_583_40_S	Germin-like protein	Q5DT23	TC208712	2.35	0.046
16	TC208745_692_37_S	Putative uncharacterized protein	A5C0F7	TC208745	4.84	0.016
17	TC209321_482_35_S	VITISV_041870	A5C9V2	TC209321	6.94	0.011
18	TC209504_302_40_S	Hydrolase	Q4PSL3	TC209504	2.78	0.013
19	TC211515_728_35_S	Amino acid binding protein, putative	B9RBU8	TC211515	3.66	0.014
20	TC212954_1137_35_S	Predicted protein	B9HZ36	TC212954	2.02	0.046
21	TC213456_100_34_S	Putative D-protein	Q6K482	TC213456	4.97	0.035
22	TC214599_1004_37_S	Nodulin-like proteinAt2g16660/T24I21.7	Q9SLF1	TC214599	6.87	0.042
23	TC215994_489_36_S	Putative aminotransferase, class V family protein	Q1H8R9	TC215994	2.08	0.036
	Biological regulation GO: 0065007
24	TC191806_907_40_S	BHLH transcriptional	Q5GA67	TC191806	6.56	0.024
25	TC191963_1058_37_S	Ferritin	Q308A9	TC191963	-4.71	0.008
26	TC194645_664_37_S	DNA binding protein	B9SZX2	TC194645	12.34	0.015
27	TC198138_1325_39_S	Thioredoxin peroxidase 1	Q7Y240	TC198138	7.06	0.046
28	TC203853_451_35_S	Heterogeneous nuclear ribonucleoprotein 27C	B9SSS5	TC203853	2.90	0.028
29	TC206202_500_40_S	Thioredoxin II	B9RLX0	TC206202	-2.47	0.048
30	TC215976_330_38_X2	Ferritin	Q308A9	TC215976	-3.64	0.005
	Cellular component organization or biogenesis GO:0071840
31	NP000231_1302_40_S	Extensin-like protein Dif54	Q43505	NP000231	8.22	0.011
32	TC191669_1238_40_S	Extensin-like protein Ext1	Q8VWM5	TC191669	5.53	0.003
33	TC204863_245_40_S	Extensin-like protein Ext1	Q8VWM5	TC204863	8.98	0.013
34	TC212258_415_40_S	Extensin-like protein Dif54	Q43505	TC212258	9.13	0.011
35	TC212487_279_40_S	Extensin-like protein Ext1	Q8VWM5	TC212487	6.44	0.0004
36	TC214133_1133_40_S	Extensin-like protein Dif10	Q43504	TC214133	5.42	0.024
	Cellular process GO:0009987
37	TC207486_546_40_S	Pollen specific actin-depolymerizing factor 2	Q8H2B6	TC207486	4.81	0.005
	Establishment of localization GO: 0051234
38	NP796451_1558_36_S	Root-specific metal transporter	Q84LR1	NP796451	12.00	0.024
39	TC191581_1150_36_S	Iron-regulated transporter 1	Q9XFB2	TC191581	9.42	0.013
40	TC192292_1560_39_S	Hippocampus abundant transcript 1 protein	B9SG70	TC192292	14.79	0.0004
41	TC200857_1001_40_S	Ammonium transporter 1 member 1	P58905	TC200857	2.05	0.043
42	TC205660_580_35_S	Metal tolerance protein	B9GLJ8	TC205660	3.77	0.049
43	TC206149_966_36_S	Aluminum-activated malate transporter 9	Q9LS46	TC206149	2.41	0.048
44	TC208376_922_36_S	Oligopeptide transporter, putative	B9SA63	TC208376	17.67	0.004
45	TC215768_1111_35_X2	Aquaporin	Q8W506	TC215768	-2.03	0.023
46	TC215874_553_40_S	Sec14 cytosolic factor, putative	B9S6A7	TC215874	3.5	0.009
47	TC216882_1121_38_X2	Hippocampus abundant transcript 1 protein	B9SG70	TC216882	9.29	0.003
	Metabolic process GO:0008152; Carbon utilization GO:0015976
48	TC204225_1412_35_S	Phosphoenolpyruvate carboxylase	P27154	TC204225	3.31	0.039
49	TC214978_700_36_S	Phosphoenolpyruvate carboxylase	P27154	TC214978	3.74	0.036
	Metabolic process GO:0008152; Catabolic process GO:0009056
50	TC194584_1854_37_S	Cysteine-type peptidase, putative	B9STX0	TC194584	3.61	0.011
51	TC203350_1573_40_S	Vacuolar processing enzyme 1	B2M1T0	TC203350	2.18	0.026
52	TC208154_2059_38_S	Beta-amylase PCT-BMYI	Q94EU9	TC208154	-3.06	0.042
53	TC215970_3405_40_S	Protease Do-like 7	Q8RY22	TC215970	4.01	0.032
	Metabolic process GO:0008152; Cellular metabolic process GO:0044237
54	TC192049_1645_40_S	Sulfate adenylyltransferase	Q43183	TC192049	-2.48	0.029
55	TC193934_828_38_X2	Methylthioribose kinase, putative	B9RY82	TC193934	2.12	0.023
56	TC194380_182_36_S	S-adenosylmethionine-dependent methyltransferase, putative	B9SZS6	TC194380	2.03	0.045
57	TC195032_699_35_S	CBL-interacting serine/threonine-protein kinase 11	O22932	TC195032	-2.62	0.030
58	TC198109_708_34_X2	Phosphofructokinase, putative	B9RRX6	TC198109	2.00	0.036
59	TC199972_1164_40_S	Fructose-bisphosphate aldolase	Q2PYX3	TC199972	2.53	0.022
60	TC201350_645_36_S	Protein phosphatase-2C	O82469	TC201350	2.10	0.028
61	TC201692_547_40_S	Xyloglucan endotransglucosylase/hydrolase 14	B9RKL5	TC201692	7.29	0.013
62	TC206357_361_38_S	Catalase isozyme 1	P30264	TC206357	-2.79	0.046
63	TC212978_951_34_S	Phosphoenolpyruvate carboxylase	Q8S915	TC212978	3.62	0.030
64	TC214826_1684_35_S	ATP binding protein, putative	B9RII2	TC214826	12.39	0.011
65	TC214837_697_40_S	Cytokinin oxidase/dehydrogenase	C3VPM8	TC214837	4.64	0.015
66	TC216529_896_39_S	Peroxidase 7	Q9SY33	TC216529	9.25	0.011
67	TC216572_542_40_S	Avr9/Cf-9 rapidly elicited protein 216	Q84QE0	TC216572	-2.61	0.042
	Metabolic process GO:0008152; Oxidation reduction GO:0055114
68	TC191412_2284_38_S	Ferric-chelate reductase	Q6EMC0	TC191412	15.21	0.008
69	TC191893_9_37_S	Superoxide dismutase	Q7YK44	TC191893	-2.29	0.030
70	TC194139_2083_38_S	Ferric-chelate reductase	B9RIU2	TC194139	-10.76	0.023
71	TC194227_76_41_X2	Superoxide dismutase	Q7YK44	TC194227	-2.20	0.038
72	TC196465_645_40_X2	Gibberellin 20 oxidase	B9RUX2	TC196465	3.46	0.009
73	TC199400_1132_37_S	Peroxidase 2, putative	B9SZA0	TC199400	-2.05	0.022
74	TC201832_1136_40_S	Gibberellin 20 oxidase	B9RUX2	TC201832	3.00	0.013
75	TC205699_961_40_S	Chlorophyll synthase, putative	B9RJ38	TC205699	7.12	0.019
76	TC207549_14_41_S	Cytochrome C oxidase polypeptide vib	B9RJN9	TC207549	3.05	0.016
77	TC208767_662_38_S	Cationic peroxidase 1	B9SWU3	TC208767	4.75	0.022
78	TC213071_429_40_S	Peroxidase	Q07446	TC213071	-3.29	0.032
	Metabolic process GO:0008152; Primary metabolic process GO:0044238
79	TC197609_880_35_S	Zinc finger protein. putative	B9T6Q0	TC197609	3.54	0.014
80	TC192838_1967_36_S	Endo-1,4-beta-glucanase	B9RLZ9	TC192838	2.45	0.042
	Metabolic process GO:0008152; Secondary metabolic process GO:0019748
81	TC197109_626_37_S	Flavonoid 3-hydroxylase, putative	B9T1C6	TC197109	2.56	0.024
82	TC198786_1057_37_S	UDP-glucose:glucosyltransferase	B6EWY6	TC198786	2.19	0.022
83	TC203267_704_38_S	UDP-glucose:flavonoid glucoside 1,6-glucosyltransferase	C5NN14	TC203267	2.76	0.013
84	TC212095_566_35_S	UDP-glucose:flavonoid glucoside 1,6-glucosyltransferase	C5NN14	TC212095	3.69	0.018
	Response to stimulus GO:0050896
85	TC193192_66_41_X2	Peroxidase 4	B7UCP4	TC193192	-3.86	0.029
86	TC208216_282_40_S	Pit1 protein	Q40539	TC208216	4.71	0.019
87	TC195700_1019_40_S	Peroxidase	B9VRK9	TC195700	-2.67	0.013
	No hits found
88	TC203837_663_35_S	No hits found		TC203837	2.06	0.046
89	TC204355_604_36_S	No hits found		TC204355	-3.09	0.038
90	TC207055_310_37_S	No hits found		TC207055	3.05	0.030
91	TC209134_260_40_S	No hits found		TC209134	30.06	0.007
92	TC209988_335_40_S	No hits found		TC209988	6.82	0.013
93	TC211287_216_38_S	No hits found		TC211287	7.63	0.011
94	TC212074_241_40_S	No hits found		TC212074	6.44	0.023
95	TC212933_306_37_S	No hits found		TC212933	9.59	0.011
96	TC214074_254_40_S	No hits found		TC214074	2.22	0.041
97	TC215128_252_35_S	No hits found		TC215128	3.86	0.029

^aID of TomatoArray2.0 probes
^bDescription of each transcript. Bold discussed; italics undiscussed.
^cUniProtID [26] of the first hit obtained by BlastP analysis
^dID of the TC of DFCI Tomato Gene Index (Release 12.0) [92]
^eFold change value
^fadjusted p-value

Back to article page

ISSN: 1471-2164

Contact us

Submission enquiries: bmcgenomics@biomedcentral.com
General enquiries: ORSupport@springernature.com