Proteomics

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Dissecting the chloroplast proteome of potato (Solanum tuberosum L.) and its comparison with the tuber amyloplast proteome


ABSTRACT: Chloroplast, the energy organelle unique to plants and green algae, performs a wide range of functions including photosynthesis and biosynthesis of metabolites. However, as the most important tuber crop worldwide, the potato (Solanum tuberosum) chloroplast proteome has not been explored. Here, we use Percoll density gradient centrifugation to isolate intact chloroplasts from leaves of potato cultivar E3 and establish a reference proteome map of potato chloroplast by bottom-up proteomics. A total of 1834 non-redundant proteins, including 51 proteins encoded by the chloroplast genome, were identified in the chloroplast proteome. Extensive sequence-based localization prediction revealed over 62% of proteins to be chloroplast resident by at least one algorithm. A total of 16 proteins were selected for evaluating the prediction result by transient fluorescence assay and confirmed that 14 of them were distributed on distinct internal compartments of the chloroplast. In addition, 136 phosphorylation sites were identified in 61 proteins encoded by chloroplast proteome. Furthermore, by a comparative analysis between chloroplast and previously reported amyloplast proteomes, we reconstruct the starch metabolic pathways in the two different types of plastids. Altogether, our results establish a comprehensive proteome map with post-translationally modified sites of potato chloroplast, which would provide the theoretical principle for the research of photosynthesis pathway and starch metabolism.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Solanum Tuberosum (potato)

TISSUE(S): Leaf

SUBMITTER: Liu Shengxuan  

LAB HEAD: Song Botao

PROVIDER: PXD033047 | Pride | 2022-08-12

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
Chl1_1_21.mzML Mzml
Chl1_1_21_2.mzML Mzml
Chl1_2_21.mzML Mzml
Chl1_2_21_2.mzML Mzml
DM_1-3_516_R44_potato.v6.1_CHL.fasta Fasta
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Publications

Dissecting the Chloroplast Proteome of the Potato (<i>Solanum Tuberosum</i> L.) and Its Comparison with the Tuber Amyloplast Proteome.

Liu Shengxuan S   Liu Tengfei T   Wang Enshuang E   Cheng Yunxia Y   Liu Tiantian T   Chen Guogang G   Guo Minrui M   Song Botao B  

Plants (Basel, Switzerland) 20220724 15


The chloroplast, the energy organelle unique to plants and green algae, performs many functions, including photosynthesis and biosynthesis of metabolites. However, as the most critical tuber crop worldwide, the chloroplast proteome of potato (<i>Solanum tuberosum</i>) has not been explored. Here, we use Percoll density gradient centrifugation to isolate intact chloroplasts from leaves of potato cultivar E3 and establish a reference proteome map of potato chloroplast by bottom-up proteomics. A to  ...[more]

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