Proteomic changes in the base of chrysanthemum cuttings during adventitious root formation

Liu, Ruixia; Chen, Sumei; Jiang, Jiafu; Zhu, Lu; Zheng, Chen; Han, Shuang; Gu, Jing; Sun, Jing; Li, Huiyun; Wang, Haibin; Song, Aiping; Chen, Fadi

doi:10.1186/1471-2164-14-919

BMC Genomics

Table 1 MALDI-TOF/TOF identification of proteins from 0 d and 5 d cutting bases of chrysanthemum and the expression profiles of the corresponding genes

From: Proteomic changes in the base of chrysanthemum cuttings during adventitious root formation

^aSpot number	^bAccession number	^cSpecies	^dProtein description	^eAbb.	^fObserved Mr(kDa)/pI	^gSpecificity 5d: 0d	^hCov. (%)
Carbohydrate and energy metabolism associated proteins
8	gi\|7708624	Roussea simplex	ATP synthase beta subunit	AtpB	50.0/5.4	−2.36^±0.36	13
51	gi\|6017842	Simmondsia chinensis	ATP synthase beta subunit	AtpB	44.1/5.8	0d only	11
52	gi\|6017842	Simmondsia chinensis	ATP synthase beta subunit	AtpB	49.7/6.0	0d only	14
68	gi\|6017842	Simmondsia chinensis	ATP synthase beta subunit	AtpB	33.8/7.0	0d only	11
15	gi\|2497857	Brassica napus	Malate dehydrogenase	MDH	31.4/6.4	−3.67^±0.33	4
61	gi\|2497857	Brassica napus	Malate dehydrogenase	MDH	36.1/6.6	0d only	7
18	gi\|1346698	Spinacia oleracea	Phosphoglycerate kinase	PGK	46.0/6.1	−3.33^±0.33	3
28	gi\|1766048	Arabidopsis thaliana	NAD ⁺ dependent isocitrate dehydrogenase subunit 2	IDH	42.0/6.8	−3.57^±0.15	5
35	gi\|255575381	Ricinus communis	Putative fructose-bisphosphate aldolase	ALDOA	33.9/5.3	−3.03^±0.19	3
37	gi\|169039	Pisum sativum	Aldolase	ALD	43.8/5.4	+3.33^±0.33	8
39	gi\|169039	Pisum sativum	Aldolase	ALD	50.0/5.4	5d only	10
58	gi\|169039	Pisum sativum	Aldolase	ALD	46.0/6.1	0d only	10
63	gi\|169039	Pisum sativum	Aldolase	ALD	20.8/6.9	0d only	10
N assimilation and metabolism
36	gi\|152962665	Lactuca sativa	Glutamate dehydrogenase	GDH	37.6/5.4	+2.70^±0.41	6
Lipid metabolism
62	gi\|134944	Carthamus tinctorius	Stearoyl-ACP desaturase	S-ACP-DES	35.9/6.7	0d only	7
Photosynthesis
4	gi\|6716783	Euphorbia esula	Chlorophyll a/b binding protein precursor	CAB	28.5/5.3	−7.26^±1.85	8
12	gi\|100380	Nicotiana tabacum	Ribulose-bisphosphate carboxylase activase	RCA	44.1/5.8	−5.33^±0.19	7
25	gi\|100380	Nicotiana tabacum	Ribulose-bisphosphate carboxylase activase	RCA	20.8/6.9	−2.88^±0.31	7
32	gi\|100380	Nicotiana tabacum	Ribulose-bisphosphate carboxylase activase	RCA	21.1/7.2	−3.00^±0.17	5
31	gi\|47604692	Freycinetia formosana	RuBisCO large subunit	RbcL	50.1/6.9	−2.67^±0.67	5
56	gi\|4754913	Gossypium hirsutum	Carbonic anhydrase isoform 1	CA1	39.4/6.2	0d only	5
59	gi\|15234905	Arabidopsis thaliana	Magnesium-protoporphyrin IX methyltransferase	CHLM	35.3/6.4	0d only	3
Hormone related
6	gi\|222051629	Lactuca sativa	ACC oxidase 1	ACO	37.6/5.4	−2.31^±0.68	4
45	gi\|728744	Nicotiana tabacum	Auxin-induced protein PCNT115	PCNT115	40.5/5.9	5d only	4
Plant defense
7	gi\|255563252	Ricinus communis	Disease resistance protein RPS5, putative	RPS5	43.8/5.4	−2.78^±0.40	0
33	gi\|77744871	Populus balsamifera	Temperature-induced lipocalin	TIL	20.7/5.4	−3.46^±0.288	9
34	gi\|77744871	Populus balsamifera	Temperature-induced lipocalin	TIL	28.5/5.3	+4.00^±0.58	9
Ascorbate biosynthesis
17	gi\|15241945	Arabidopsis thaliana	GDP-mannose 3,5-epimerase	GME	39.4/6.2	−2.60^±0.21	7
Cell structure
23	gi\|82394883	Gerbera hybrid cultivar	Xyloglucan endotransglucosylase	XTH	35.9/6.7	−4.00^±1.00	5
54	gi\|17366765	Petunia hybrida	Actin-depolymerizing factor 2	ADF2	64.7/6.0	5d only	8
Protein fate
10	gi\|33325121	Hevea brasiliensis	Eukaryotic translation initiation factor 5A isoform III	eIF-5A	21.9/5.9	−3.96^±0.44	18
13	gi\|1709798	Solanum tuberosum	26S protease regulatory subunit 6B homolog	PRS6B	49.7/6.0	−3.43^±0.37	4
14	gi\|1709798	Solanum tuberosum	26S protease regulatory subunit 6B homolog	PRS6B	64.7/6.0	−2.46^±0.83	4
40	gi\|1155261	Arabidopsis thaliana	Eukaryotic release factor 1 homolog	eRF1	21.9/5.9	5d only	2
2	gi\|46806499	Oryza sativa Japonica Group	Putative heterogeneous nuclearribonucleoprotein A2	hnRNPA2	20.7/5.4	+2.44^±0.43	4
Unknown
5	gi\|168065628	Physcomitrella patens subsp. patens	Predicted protein		33.9/5.3	−2.49^±0.19	7
11	gi\|168044242	Physcomitrella patens subsp. patens	Predicted protein		40.5/5.9	−2.67^±0.44	1
21	gi\|224111100	Populus trichocarpa	Predicted protein		35.3/6.4	−2.19^±0.31	10
22	gi\|326530532	Hordeum vulgare subsp. vulgare	Predicted protein		36.1/6.6	−2.50^±0.50	3
27	gi\|224111100	Populus trichocarpa	Predicted protein		33.8/7.0	+3.88^±0.60	10
55	gi\|224116012	Populus trichocarpa	Predicted protein		31.4/6.4	0d only	15
69	gi\|302852099	Volvox carteri f. nagariensis	Hypothetical protein VOLCADRAFT_98675		42.0/6.8	0d only	0

Proteins were considered to be differentially expressed if they showed at least a two-fold difference between the 0 and 5 d gels at p < 0.05 in t-tests of three biological replicates.
^aNumbering corresponds to the 2-DE gels shown in Figure 2.
^bAccession number of the homologous proteins obtained via the MASCOT software from the NCBI.nr database.
^cSpecies of the homologous proteins obtained via the MASCOT software from the NCBI.nr database.
^dNames of the homologous proteins obtained via the MASCOT software from the NCBI.nr database.
^eAbbreviation of the homologous proteins from the NCBI.nr database.
^fMr and pI of the protein spots on gel calculated with PDQuest software.
^gSpecificity indicates the ratio of accumulation of a particular protein between 5-day-old cutting bases versus 0-day-old cutting bases protein preparations. A plus sign indicate spots that up-regulated. A minus sign indicate spots that down-regulated. Each value represents the mean of three independent replicates ± SE. ^hPercentage of predicted protein sequence covered by matched peptides.

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