Dataset Information

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803

ABSTRACT: Synechocystis sp. PCC 6803 is a model organism for study photosynthesis, energy metabolism, and environmental stress. It was the first fully sequenced phototrophic organism, but still nearly half of its proteome without functional annotation. In this study, we obtained 291 protein complexes, including 24092 PPIs among 2062 proteins by using co-fractionation and LC/MS/MS. From the protein network, we can learn more detail about how photosynthesis related to metabolism, cell motility, DNA repair, cell division, and other physiological processes. Meanwhile, the PPIs showed how protein function vary from bacterial to higher plant due to the protein interaction changed. It also allows us to uncover functions of hypothetical protein, such as Sll0445, Sll0446, Sll0447 participate in photosynthesis and cell motility, and Sll1334 regulates the expression of fatty acid. It is the most extensive protein interaction data in Synechocystis so far, which might provide critical insights into the fundamental molecular mechanism in Cyanobacterium.

ORGANISM(S): Synechocystis Sp. Pcc 6803

SUBMITTER: Cuihong Wan

PROVIDER: PXD015948 | iProX | Tue Oct 22 00:00:00 BST 2019

REPOSITORIES: iProX

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Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803.

Xu Chen C Wang Bing B Yang Lin L Zhongming Hu Lucas L Yi Lanxing L Wang Yaxuan Y Chen Shenglan S Emili Andrew A Wan Cuihong C

Genomics, proteomics & bioinformatics 20210224 4

Synechocystis sp. PCC 6803 (hereafter: Synechocystis) is a model organism for studying photosynthesis, energy metabolism, and environmental stress. Although known as the first fully sequenced phototrophic organism, Synechocystis still has almost half of its proteome without functional annotations. In this study, by using co-fractionation coupled with liquid chromatography-tandem mass spectrometry (LC-MS/MS), we define 291 multi-protein complexes, encompassing 24,092 protein-protein interactions ...[more]

PMID: 33636367

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Project description:Iron is an essential cofactor in many metabolic reactions. Mechanisms controlling iron homeostasis need to respond to changes in extracellular conditions, but must also keep the concentration of intracellular iron under strict control, as free ferrous iron (Fe2+) can lead to the generation of reactive oxygen species. Due to its role as redox carrier in photosynthesis, the iron quota in cyanobacteria is about 10 times higher than in model enterobacteria, but the molecular details how such high quota is tightly regulated have remained obscure. Here, we measured time-resolved gene expression changes after iron depletion in the cyanobacterium Synechocystis sp. PCC 6803 using a comprehensive microarray platform monitoring both protein-coding and non-coding transcripts. In total, 644 protein-coding genes were differentially expressed during the first 72h. Many of these proteins are associated with iron transport, photosynthesis or ATP synthesis. Comparing our data with three previous studies, we identified a core set of 28 genes involved in the iron stress response. Among them were genes encoding proteins important for assimilation of inorganic carbon, suggesting a previously unknown link between the carbon and iron regulatory networks. Nine of the 28 genes are of unknown function and constitute key targets for detailed functional analysis. Applying identical statistical and clustering criteria as for the protein-coding fraction, we also identified 10 small RNAs, 62 anti-sense RNAs, four 5M-bM-^@M-^YUTRs and 7 intergenic elements as likely to be involved in the iron regulatory network. Hence, our genome-wide profiling results indicate an unprecedented complexity in the iron-related regulatory network of cyanobacteria. We monitored iron limitation stress induced gene expression changes in the cyanobacterial model organism Synechocystis sp. PCC 6803. We included a control sample without iron-stress (0h) and 5 samples from timepoints after stress induction (3h, 12h, 24h, 48h, 72h). Each timepoint was sampled from two independent biological replicates.

Dataset Information

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803

Publications

Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803.

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