PXD033047

PXD033047 is an original dataset announced via ProteomeXchange.

Title	Dissecting the chloroplast proteome of potato (Solanum tuberosum L.) and its comparison with the tuber amyloplast proteome
Description	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.
HostingRepository	PRIDE
AnnounceDate	2022-08-12
AnnouncementXML	Submission_2022-08-12_00:18:57.023.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD033047
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Liu Shengxuan
SpeciesList	scientific name: Solanum tuberosum (Potato); NCBI TaxID: 4113;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2022-04-07 02:55:49	ID requested
⏵ 1	2022-08-12 00:18:57	announced

Liu S, Liu T, Wang E, Cheng Y, Liu T, Chen G, Guo M, Song B, L.) and Its Comparison with the Tuber Amyloplast Proteome. Plants (Basel), 11(15):(2022) [pubmed]

submitter keyword: Poatao, Leaf, Chloroplast, LC-MSMS

Song Botao
contact affiliation	Key Laboratory of Horticultural Plant Biology, MOE, and Key Laboratory of Potato Biology and Biotechnology, MARA, Huazhong Agricultural University, Wuhan 430070, China
contact email	songbotao@mail.hzau.edu.cn
lab head
Liu Shengxuan
contact affiliation	Shihezi University
contact email	741126929@qq.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD033047
     1. Label: PRIDE project
     2. Name: Dissecting the chloroplast proteome of potato (Solanum tuberosum L.) and its comparison with the tuber amyloplast proteome