Unraveling microalgal molecular interactions using evolutionary and structural bioinformatics |
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Authors: | Dimitrios Vlachakis Athanasia PavlopoulouDorothea Kazazi Sophia Kossida |
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Affiliation: | Bioinformatics & Medical Informatics Team, Biomedical Research Foundation, Academy of Athens, Soranou Efessiou 4, Athens 11527, Greece |
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Abstract: | Microalgae are unicellular microorganisms indispensible for environmental stability and life on earth, because they produce approximately half of the atmospheric oxygen, with simultaneously feeding on the harmful greenhouse gas carbon dioxide. Using gene fusion analysis, a series of five fusion/fission events was identified, that provided the basis for critical insights to their evolutionary history. Moreover, the three-dimensional structures of both the fused and the component proteins were predicted, allowing us to envisage putative protein–protein interactions that are invaluable for the efficient usage, handling and exploitation of microalgae. Collectively, our proposed approach on the five fusion/fission alga protein events contributes towards the expansion of the microalgae knowledgebase, bridging protein evolution of the ancient microalgal species and the rapidly evolving, modern, bioinformatics field. |
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Keywords: | CO2, Carbon dioxide SAFE, Software for the Analysis of Fusion Events 3D, Three-dimensional BLAST, Basic Local Alignment Search Tool Fra10Ac1, Fragile site, folic acid type, rare, fra(10)(q23.3) or fra(10)(q24.2) candidate 1 DOT1, Disruptor of Telomeric silencing COX2A, cytochrome c oxidase subunit II, transmembrane domain COX2B, cytochrome c oxidase subunit II C-terminal G6PDH, glucose-6-phosphate 1-dehydrogenase TIM, Triosephosphate isomerase 6PGDH, 6-phosphogluconate dehydrogenase GAPDH, glyceraldehyde-3-phosphate dehydrogenase DMRL, 6,7-dimethyl-8-(1&prime -d-ribityl)-lumanizine G3P, d-Glyceraldehyde 3-phosphate DHAP, dihydroxyacetone phosphate PDB, Protein Data Bank RNA, Ribonucleic acid NCBI, National Center for Biotechnology Information ATP, Adenosine triphosphate WD, Trp-Asp SH3, Src homology 3 domain NPS, Network Protein Sequence Analysis MOE, Molecular Operating Environment MEP, Molecular electrostatic potential NVT, Number of atoms, Volume and Temperature RMSD, Root-mean-square deviation |
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