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Table 1 Chloroplast proteins over-accumulated in the clpc1 mutant that were previously identified [11] in clpc1 mutant (1a) or clpp6 antisense line (1b) as putative targets of CLPP

From: The caseinolytic protease complex component CLPC1 in Arabidopsis maintains proteome and RNA homeostasis in chloroplasts

 

1st batch

4-week-old (LD)

2nd batch (2 biological replicates)

2-week-old (LD)

Nishimura et al (2013)

6-week-old (SD)

symbol

accession

clpc1/WS

ΔN/WS

CP/WS

clpc1/WS

ΔN/WS

CP/WS

clpc1–1/wt

1a. Previous identified misregulated proteins in clpcl mutant

 RH3

AT5G26742.1

8.3 ± 0.8*

3.0 ± 0.3

0.7 ± 0.1

2.6 ± 0.1*

2.0 ± 0.1

0.8 ± 0.1

1.0

 CPN60A

AT2G28000.1

4.9 ± 0.2

3.6 ± 0.1

0.8 ± 0.1

1.9 ± 0.1

1.9 ± 0.1

0.7 ± 0.2

1.4

 TCP-1

AT3G13470.1

4.7 ± 0.2

3.5 ± 0.1

0.8 ± 0.1

1.8 ± 0.0

2.0 ± 0.0

0.6 ± 0.1

1.7

 HSP90.5

AT2G04030.1

4.0 ± 0.2

2.7 ± 0.2

0.9 ± 0.1

1.6 ± 0.1

1.5 ± 0.1

0.6 ± 0.0

1.6

 cpHsc70–2

AT5G49910.1

3.7 ± 0.1*

2.8 ± 0.1

0.8 ± 0.1

1.8 ± 0.2*

1.8 ± 0.1

0.5 ± 0.0

1.1

 cpHsc70–1

AT4G24280.1

3.7 ± 0.1*

2.9 ± 0.1

0.8 ± 0.1

1.8 ± 0.3*

1.9 ± 0.2

0.5 ± 0.0

1.0

 RNA-binding

AT2G37220.1

3.5 ± 0.3

2.2 ± 0.2

0.8 ± 0.1

1.8 ± 0.0

1.9 ± 0.1

0.6 ± 0.1

2.3

 EF-Ts

AT4G29060.1

3.5 ± 0.2*

2.2 ± 0.2

0.8 ± 0.1

1.4 ± 0.2

1.3 ± 0.1

0.6 ± 0.1

0.9

 CPN21

AT5G20720.1

2.8 ± 0.2

3.1 ± 0.1

0.7 ± 0.1

1.8 ± 0.3

1.7 ± 0.2

0.5 ± 0.0

2.1

 ATTIC110

AT1G06950.1

2.6 ± 0.2*

2.0 ± 0.1

0.9 ± 0.1

1.3 ± 0.0*

1.4 ± 0.0

0.7 ± 0.1

0.0

 lipoxygenase 2

AT3G45140.1

1.5 ± 0.1*

1.0 ± 0.1

1.3 ± 0.1

1.5 ± 0.0*

1.6 ± 0.0

1.5 ± 0.2

1.0

 AtcpSecA

AT4G01800.1

1.4 ± 0.1

1.4 ± 0.1

0.9 ± 0.1

1.0 ± 0.1

1.1 ± 0.1

0.6 ± 0.1

1.4

1b. Clpc1 mutant mis-regulated CLPP6 knocking down line identified targets

 

 RH3

AT5G26742.1

8.3 ± 0.8*

3.0 ± 0.3

0.7 ± 0.1

2.6 ± 0.1*

2.0 ± 0.1

0.8 ± 0.1

1.0

 HSP90.5

AT2G04030.1

4.0 ± 0.2

2.7 ± 0.2

0.9 ± 0.1

1.6 ± 0.1

1.5 ± 0.1

0.6 ± 0.0

1.6

 EF-Ts

AT4G29060.1

3.5 ± 0.2*

2.2 ± 0.2

0.8 ± 0.1

1.4 ± 0.2

1.3 ± 0.1

0.6 ± 0.1

0.9

 FBA2

AT4G38970.1

2.9 ± 0.1*

2.0 ± 0.1

0.7 ± 0.1

1.4 ± 0.3

1.2 ± 0.1

0.5 ± 0.1

0.9

 ATNDPK2

AT5G63310.1

2.8 ± 0.6

2.3 ± 0.5

0.8 ± 0.1

1.3 ± 0.0

1.3 ± 0.0

0.6 ± 0.1

1.2

 Ribose 5-phospha

AT3G04790.1

2.7 ± 0.3

2.0 ± 0.3

0.8 ± 0.1

1.1 ± 0.0

1.1 ± 0.1

0.6 ± 0.2

1.0

 ROC4

AT3G62030.1

1.8 ± 0.1

1.5 ± 0.1

0.9 ± 0.1

1.1 ± 0.1

1.3 ± 0.1

0.3 ± 0.0

0.9

  1. WS: wild type; clpc1: the clpc1 mutant; ΔN, N-terminal (1–93 amino acid) deleted CLPC1 complementary line; CP, full-length CLPC1 complementary line, LD, long-day; SD, short-day
  2. The first batch dataset was from 4-week-old seedlings with three technical replicates. The second batch was from 2-week-old seedlings with two biological replicates. Each biological replicate included 3 technical replicates
  3. Data are means and standard errors of protein abundance relative to the wild type (WS)
  4. Data from Nishimura et al... (2013) in [28]
  5. Proteins marked with * are significantly (p < 0.05) over- or under-accumulated in the clpc1 mutant in the current study that were not significantly altered or not detected in a previous study (Nishimura et al..... 2013)
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