| Title |
Protein co-migration database (PCoM -DB) for Arabidopsis thylakoids and Synechocystis cells
|
|---|---|
| Published in |
SpringerPlus, April 2013
|
| DOI | 10.1186/2193-1801-2-148 |
| Pubmed ID | |
| Authors |
Atsushi Takabayashi, Ryosuke Kadoya, Masayoshi Kuwano, Katsunori Kurihara, Hisashi Ito, Ryouichi Tanaka, Ayumi Tanaka |
| Abstract |
Protein-protein interactions are critical for most cellular processes; however, many remain to be identified. Here, to comprehensively identify protein complexes in photosynthetic organisms, we applied the recently developed approach of blue native PAGE (BN-PAGE) coupled with LC-MS/MS to the thylakoid proteins of Arabidopsis thaliana and the whole cell proteins of whole cell proteins of Synechocystis sp. PCC 6803. We identified 245 proteins from the purified Arabidopsis thylakoid membranes and 1,458 proteins from the whole cells of Synechocystis using the method. Next, we generated protein migration profiles that were assessed by plotting the label-free estimations of protein abundances versus migration distance in BN-PAGE. Comparisons between the migration profiles of the major photosynthetic complexes and their band patterns showed that the protein migration profiles were well correlated. Thus, the protein migration profiles allowed us to estimate the molecular size of each protein complex and to identify co-migrated proteins with the proteins of interest by determining the protein pairs that contained peaks in the same gel slice. Finally, we built the protein co-migration database for photosynthetic organisms (PCoM-DB: http://pcomdb.lowtem.hokudai.ac.jp/proteins/top) to make our data publicly accessible online, which stores the analyzed data with a user-friendly interface to compare the migration profiles of proteins of interest. It helps users to find unidentified protein complexes in Arabidopsis thylakoids and Synechocystis cells. The accumulation of the data from the BN-PAGE coupled with LC-MS/MS should reveal unidentified protein complexes and should aid in understanding the adaptation and the evolution of photosynthetic organisms. |
X Demographics
The data shown below were collected from the profiles of 2 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Japan | 1 | 50% |
| Unknown | 1 | 50% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 1 | 50% |
| Scientists | 1 | 50% |
Mendeley readers
The data shown below were compiled from readership statistics for 39 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Germany | 1 | 3% |
| Unknown | 38 | 97% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 10 | 26% |
| Student > Master | 6 | 15% |
| Professor > Associate Professor | 5 | 13% |
| Student > Doctoral Student | 4 | 10% |
| Researcher | 4 | 10% |
| Other | 7 | 18% |
| Unknown | 3 | 8% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 16 | 41% |
| Biochemistry, Genetics and Molecular Biology | 14 | 36% |
| Arts and Humanities | 2 | 5% |
| Unspecified | 1 | 3% |
| Medicine and Dentistry | 1 | 3% |
| Other | 0 | 0% |
| Unknown | 5 | 13% |
Attention Score in Context
This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 13 July 2013.
All research outputs
#13,383,750
of 22,708,120 outputs
Outputs from SpringerPlus
#692
of 1,852 outputs
Outputs of similar age
#106,516
of 199,278 outputs
Outputs of similar age from SpringerPlus
#40
of 133 outputs
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