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. 2008 Sep;148(1):620–641. doi: 10.1104/pp.108.123141

Table III.

Identification and relative carbonyl content of oxidized proteins during Arabidopsis seed aging

No.a Experimental Molecular Mass Experimental pI Arabidopsis Protein Name Theoretical Molecular Mass Theoretical pI AGI No. Coverage Relative Abundanceb
kD kD ratio 7 d:0 d
Protein metabolism
    140c 60.26 4.15 Calreticulin 1 (precursor) 48.51 4.2 At1g56340 15% 2.3
    1c 79.36 5.08 dnaK-type molecular chaperone BiP 71.17 5.08 At5g42020 20% >100
    135c 80.5 5.04 dnaK-type molecular chaperone BiP 71.17 5.08 At5g42020 20% >100
    136c 77.87 4.87 Heat shock cognate 70-kD protein 1 71.37 5.03 At5g02500 19% >100
    43c 78.9 5.06 Heat shock cognate 70-kD protein 3 71.13 4.69 At3g09440 15% >100
    137c 76.06 5.07 Heat shock protein 70 71.37 5.03 At3g12580 38% >100
    614d 68.68 5.83 Aspartyl-tRNA synthetase 62.90 6.12 At4g31180 26% 3.8
    90c 64.11 4.81 Protein disulfide isomerase 55.60 4.81 At1g21750 39% 2.1
Energy metabolism and photosynthesis
    109c 64.79 6.35 Malate oxidoreductase or malic enzyme 64.28 6.32 At2g19900 14% >100
    63c 57.09 6.11 Isocitrate lyase 50.42 6.29 At3g21720 30% >100
    10c 57.36 5.77 Ribulose bisphosphate carboxylase large chain 53.47 6.25 AtCg00490 30% >100
    319c 57.36 5.57 Ribulose bisphosphate carboxylase large chain 53.47 6.25 AtCg00490 26% >100
    320c 57.36 5.82 Ribulose bisphosphate carboxylase large chain 53.47 6.25 AtCg00490 21% >100
    321c 57.36 5.84 Ribulose bisphosphate carboxylase large chain 53.47 6.25 AtCg00490 30% >100
Stress response
    60c 66.68 5.74 Late embryogenesis abundant (LEA) 67.19 5.78 At2g42560 25% 1.2
    61c 66.68 5.78 Late embryogenesis abundant (LEA) 67.19 5.78 At2g42560 43% 1.5
    431c 66.68 5.79 Late embryogenesis abundant (LEA) 67.19 5.78 At2g42560 32% 2.2
Hydrolase
    96c 64.62 6.08 Glycosyl hydrolase family 1 protein 57.83 6.02 At3g21370 11% >100
    207c 64.96 5.92 Glycosyl hydrolase family 1 protein 57.83 6.02 At3g21370 21% >100
    208c 64.96 6.23 Glycosyl hydrolase family 1 protein 57.83 6.02 At3g21370 14% >100
Seed storage proteins
    35c 56.47 6.84 12S seed storage protein (precursor) 55.86 6.36 At4g28520 16% >100
    70c 49.43 7.19 12S seed storage protein (precursor) 52.59 7.68 At5g44120 22% >100
    71c 50.44 7.67 12S seed storage protein (precursor) 52.59 7.68 At5g44120 34% >100
    110c 57 6.4 12S seed storage protein (precursor) 55.86 6.36 At4g28520 19% >100
    111c 56.89 7.19 12S seed storage protein (precursor) 55.86 6.36 At4g28520 16% >100
    271d 59.96 6.52 12S seed storage protein (precursor) 55.86 6.36 At4g28520 30% >100
    239c 28.95 6.64 α-Cruciferin 12S (seed storage protein fragment) 48.03 6.56 At1g03880 18% >100
    80c 32.64 5.85 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 33% 3.29
    82c 33.89 6.24 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 42% 1.6
    83c 34.35 6.42 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 33% 1
    84c 30.46 6.61 α-Cruciferin 12S (seed storage protein fragment) 31.75 6.49 At5g44120 42% 2.1
    85c 27.2 6.5 α-Cruciferin 12S (seed storage protein fragment) 27.24 6.34 At1g03880 32% 2.9
    118c 29.21 6.04 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 26% 1
    119c 30.66 6.16 α-Cruciferin 12S (seed storage protein fragment) 31.75 6.49 At5g44120 28% 2.9
    134c 26.35 6.34 α-Cruciferin 12S (seed storage protein fragment) 27.24 6.34 At1g03880 21% 3.9
    238c 29.42 6.5 α-Cruciferin 12S (seed storage protein fragment) 31.75 6.49 At5g44120 28% 2.1
    240c 27.28 6.74 α-Cruciferin 12S (seed storage protein fragment) 27.24 6.34 At1g03880 16% 3.57
    241c 34.11 5.87 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 32% 1.2
    243c 34.92 6.62 α-Cruciferin 12S (seed storage protein fragment) 34.68 6.42 At4g28520 19% 1
    278c 27.24 6.44 α-Cruciferin 12S (seed storage protein fragment) 31.75 6.49 At5g44120 24% >100
    98c 18.08 6.12 β-Cruciferin 12S (seed storage protein fragment) 20.8 7.03 At1g03880 45% 4.9
    498c 22.82 8.85 β-Cruciferin 12S (seed storage protein fragment) 21.2 6.19 At4g28520 79% 12.4
    87c 18.43 6.36 β-Cruciferin 12S (seed storage protein fragment) 20.8 7.03 At1g03880 33% >100
    88c 22.82 8.68 β-Cruciferin 12S (seed storage protein fragment) 21.2 6.19 At4g28520 44% 1.8
    231c 19.71 8.82 β-Cruciferin 12S (seed storage protein fragment) 21.2 6.19 At4g28520 39% >100
    233c 18.45 9.1 β-Cruciferin 12S (seed storage protein fragment) 20.84 9.06 At5g44120 52% >100
    497c 18.45 6.12 β-Cruciferin 12S (seed storage protein fragment) 21.2 6.19 At4g28520 64% >100
    499c 20.67 8.85 β-Cruciferin 12S (seed storage protein fragment) 20.84 9.06 At5g44120 53% 5.3
Other processes
    259c 27.01 6.1 Expressed protein 27.28 6.7 At1g05510 21% 5.7
a

Protein numbering following Arabidopsis seed protein reference maps available at http://www.seed-proteome.com.

b

Data obtained from densitometric analysis of individual spots from carbonylated proteins on 2D gels revealed by anti-DNP immunoassay (examples are shown in Fig. 4): normalized spot volume in the deteriorated seeds (7 d of CDT) divided by the normalized spot volume in the nondeteriorated control seeds (0 d of CDT; ratio of carbonylation in deteriorated dry seeds [7 d of CDT] over carbonylation in nondeteriorated dry seeds [0 d of CDT]) from three different and independent protein extractions. >100 means that the accumulation level of the corresponding carbonylated protein in the nondeteriorated dry seeds (0 d of CDT) was close to background.

c

Listed proteins correspond to previously identified proteins (Gallardo et al., 2001, 2002a; Rajjou et al., 2004, 2006a; Job et al., 2005).

d

Listed proteins correspond to proteins identified during this work; the peptide sequences determined are available in Supplemental Table S2.