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FtsH12 N-terminome: WT / FtsH12 knockdown miRNA

N-terminal Acetylation, N-terminus Proteolysis in Arabidopsis thaliana

1086 modifications in 1045 peptides, found in 1508 proteins

Experiment Details

Exp 118


Experimental Setup
Tissue2-day-old seedlings wild-type/mi12-3
ConditionControl
PTM EnrichmentHUNTER
MS InstrumentImpact II high resolution Q-TOF (Bruker)
MS/MS Search Parameters
Protein DatabaseUniProt (A. thaliana release 2018_01, 41350 sequences)
Decoy StrategyReverse database
FDR ThresholdPeptide 1%
Search Algorithm(s)MaxQuant v1.6.0.16
Precursor Mass Tolerance20 ppm
Identification ScoreMaxQuant score
Proteasesemi Arg-C
Fixed ModificationsCarbamidomethyl (C)
Variable ModificationsOxidation (M)
Acetylation (N-term)
Gln->pyro-Glu (N-term)
Glu->pyro-Glu (N-term)
LabelsLight dimethyl labeling (N-term
Lys) (+28.031300 Da)
Heavy dimethyl labeling (N-term
Lys) (+36.075670 Da)
Other Information
CommentsSupplementary Table 7. Comparison wt/mi12-3.


Publication Information

Mielke et al., 2020

PubMed ID: 33216923

ProteomeXchange: PXD022423

Abstract

J Exp Bot. 2021 Apr 13;72(9):3455-3473. doi: 10.1093/jxb/eraa550.

Abundance of metalloprotease FtsH12 modulates chloroplast development in 
Arabidopsis thaliana.

Mielke K(1), Wagner R(1), Mishra LS(1), Demir F(2), Perrar A(2), Huesgen 
PF(2)(3)(4), Funk C(1).

Author information:
(1)Department of Chemistry, Umeå University, Umeå, Sweden.
(2)Central Institute for Engineering, Electronics and Analytics, Jülich, 
Germany.
(3)CECAD, Medical Faculty and University Hospital, University of Cologne, 
Cologne, Germany.
(4)Institute of Biochemistry, University of Cologne, Cologne, Germany.

The ATP-dependent metalloprotease FtsH12 (filamentation temperature sensitive 
protein H 12) has been suggested to participate in a heteromeric motor complex, 
driving protein translocation into the chloroplast. FtsH12 was immuno-detected 
in proplastids, seedlings, leaves, and roots. Expression of Myc-tagged FtsH12 
under its native promotor allowed identification of FtsHi1, 2, 4, and 5, and 
plastidic NAD-malate dehydrogenase, five of the six interaction partners in the 
suggested import motor complex. Arabidopsis thaliana mutant seedlings with 
reduced FTSH12 abundance exhibited pale cotyledons and small, deformed 
chloroplasts with altered thylakoid structure. Mature plants retained these 
chloroplast defects, resulting in slightly variegated leaves and lower 
chlorophyll content. Label-free proteomics revealed strong changes in the 
proteome composition of FTSH12 knock-down seedlings, reflecting impaired plastid 
development. The composition of the translocon on the inner chloroplast membrane 
(TIC) protein import complex was altered, with coordinated reduction of the 
FtsH12-FtsHi complex subunits and accumulation of the 1 MDa TIC complex subunits 
TIC56, TIC214 and TIC22-III. FTSH12 overexpressor lines showed no obvious 
phenotype, but still displayed distinct differences in their proteome. 
N-terminome analyses further demonstrated normal proteolytic maturation of 
plastid-imported proteins irrespective of FTSH12 abundance. Together, our data 
suggest that FtsH12 has highest impact during seedling development; its 
abundance alters the plastid import machinery and impairs chloroplast 
development.

© The Author(s) 2020. Published by Oxford University Press on behalf of the 
Society for Experimental Biology.

DOI: 10.1093/jxb/eraa550
PMCID: PMC8042743
PMID: 33216923 [Indexed for MEDLINE]