Decoding the Virtual 2D Map of the Chloroplast Proteomes
Abstract Background The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the chloroplast proteomes of 2893 species wa...
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| Format: | Article |
| Language: | English |
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BMC
2022-12-01
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| Series: | Biological Procedures Online |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12575-022-00186-8 |
| _version_ | 1811292484122181632 |
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| author | Tapan Kumar Mohanta Yugal Kishore Mohanta Ahmed Al-Harrasi |
| author_facet | Tapan Kumar Mohanta Yugal Kishore Mohanta Ahmed Al-Harrasi |
| author_sort | Tapan Kumar Mohanta |
| collection | DOAJ |
| description | Abstract Background The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the chloroplast proteomes of 2893 species was conducted, and a virtual 2D map was constructed. Results The resulting virtual 2D map of the chloroplast proteome exhibited a bimodal distribution. The molecular mass of the chloroplast proteome ranged from 0.448 to 616.334 kDa, and the isoelectric point (pI) ranged from 2.854 to 12.954. Chloroplast proteomes were dominated by basic pI proteins with an average pI of 7.852. The molecular weight and isoelectric point of chloroplast proteome were found to show bimodal distribution. Leu was the most abundant and Cys the least abundant amino acid in the chloroplast proteome. Notably, Trp amino acid was absent in the chloroplast protein sequences of Pilostyles aethiopica. In addition, Selenocysteine (Sec) and Pyrrolysine (Pyl) amino acids were also found to be lacking in the chloroplast proteomes. Conclusion The virtual 2D map and amino acid composition of chloroplast proteome will enable the researchers to understand the biochemistry of chloroplast protein in detail. Further, the amino acid composition of the chloroplast proteome will also allow us to understand the codon usage bias. The codon usage bias and amino acid usage bias of chloroplast will be crucial to understanding their relationship. |
| first_indexed | 2024-04-13T04:45:59Z |
| format | Article |
| id | doaj.art-6c23f3d0d1fa48efb517bc0f996a8944 |
| institution | Directory Open Access Journal |
| issn | 1480-9222 |
| language | English |
| last_indexed | 2024-04-13T04:45:59Z |
| publishDate | 2022-12-01 |
| publisher | BMC |
| record_format | Article |
| series | Biological Procedures Online |
| spelling | doaj.art-6c23f3d0d1fa48efb517bc0f996a89442022-12-22T03:01:51ZengBMCBiological Procedures Online1480-92222022-12-0124111410.1186/s12575-022-00186-8Decoding the Virtual 2D Map of the Chloroplast ProteomesTapan Kumar Mohanta0Yugal Kishore Mohanta1Ahmed Al-Harrasi2Natural and Medical Sciences Research Center, University of NizwaDepartment of Applied Biology, University of Science and Technology MeghalayaNatural and Medical Sciences Research Center, University of NizwaAbstract Background The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the chloroplast proteomes of 2893 species was conducted, and a virtual 2D map was constructed. Results The resulting virtual 2D map of the chloroplast proteome exhibited a bimodal distribution. The molecular mass of the chloroplast proteome ranged from 0.448 to 616.334 kDa, and the isoelectric point (pI) ranged from 2.854 to 12.954. Chloroplast proteomes were dominated by basic pI proteins with an average pI of 7.852. The molecular weight and isoelectric point of chloroplast proteome were found to show bimodal distribution. Leu was the most abundant and Cys the least abundant amino acid in the chloroplast proteome. Notably, Trp amino acid was absent in the chloroplast protein sequences of Pilostyles aethiopica. In addition, Selenocysteine (Sec) and Pyrrolysine (Pyl) amino acids were also found to be lacking in the chloroplast proteomes. Conclusion The virtual 2D map and amino acid composition of chloroplast proteome will enable the researchers to understand the biochemistry of chloroplast protein in detail. Further, the amino acid composition of the chloroplast proteome will also allow us to understand the codon usage bias. The codon usage bias and amino acid usage bias of chloroplast will be crucial to understanding their relationship.https://doi.org/10.1186/s12575-022-00186-8ChloroplastProteomeIsoelectric pointMolecular weight2D |
| spellingShingle | Tapan Kumar Mohanta Yugal Kishore Mohanta Ahmed Al-Harrasi Decoding the Virtual 2D Map of the Chloroplast Proteomes Biological Procedures Online Chloroplast Proteome Isoelectric point Molecular weight 2D |
| title | Decoding the Virtual 2D Map of the Chloroplast Proteomes |
| title_full | Decoding the Virtual 2D Map of the Chloroplast Proteomes |
| title_fullStr | Decoding the Virtual 2D Map of the Chloroplast Proteomes |
| title_full_unstemmed | Decoding the Virtual 2D Map of the Chloroplast Proteomes |
| title_short | Decoding the Virtual 2D Map of the Chloroplast Proteomes |
| title_sort | decoding the virtual 2d map of the chloroplast proteomes |
| topic | Chloroplast Proteome Isoelectric point Molecular weight 2D |
| url | https://doi.org/10.1186/s12575-022-00186-8 |
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