Literature DB >> 23900196

Unraveling microalgal molecular interactions using evolutionary and structural bioinformatics.

Dimitrios Vlachakis1, Athanasia Pavlopoulou, Dorothea Kazazi, Sophia Kossida.   

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.
© 2013 Elsevier B.V. All rights reserved.

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Keywords:  3D; 6,7-dimethyl-8-(1′-d-ribityl)-lumanizine; 6-phosphogluconate dehydrogenase; 6PGDH; ATP; Adenosine triphosphate; BLAST; Basic Local Alignment Search Tool; CO(2); COX2A; COX2B; Carbon dioxide; DHAP; DMRL; DOT1; Disruptor of Telomeric silencing; Fra10Ac1; Fragile site, folic acid type, rare, fra(10)(q23.3) or fra(10)(q24.2) candidate 1; G3P; G6PDH; GAPDH; Gene fission; Gene fusion; Homology modeling; MEP; MOE; Microalgae; Molecular Operating Environment; Molecular electrostatic potential; NCBI; NPS; NVT; National Center for Biotechnology Information; Network Protein Sequence Analysis; Number of atoms, Volume and Temperature; PDB; Protein Data Bank; Protein association; RMSD; RNA; Ribonucleic acid; Root-mean-square deviation; SAFE; SH3; Software for the Analysis of Fusion Events; Src homology 3 domain; TIM; Three-dimensional; Triosephosphate isomerase; Trp-Asp; WD; cytochrome c oxidase subunit II C-terminal; cytochrome c oxidase subunit II, transmembrane domain; d-Glyceraldehyde 3-phosphate; dihydroxyacetone phosphate; glucose-6-phosphate 1-dehydrogenase; glyceraldehyde-3-phosphate dehydrogenase

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Year:  2013        PMID: 23900196     DOI: 10.1016/j.gene.2013.07.039

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  5 in total

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Journal:  EMBnet J       Date:  2022-04-04

2.  Drugena: A Fully Automated Immunoinformatics Platform for the Design of Antibody-Drug Conjugates Against Neurodegenerative Diseases.

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Journal:  Adv Exp Med Biol       Date:  2020       Impact factor: 2.622

3.  Structural Study of the DNA: Clock/Bmal1 Complex Provides Insights for the Role of Cortisol, hGR, and HPA Axis in Stress Management and Sleep Disorders.

Authors:  Sofia Raftopoulou; Nicolas C Nicolaides; Louis Papageorgiou; Anastasia Amfilochiou; Spyros G Zakinthinos; Potamitis George; Elias Eliopoulos; George P Chrousos; Dimitrios Vlachakis
Journal:  Adv Exp Med Biol       Date:  2020       Impact factor: 2.622

Review 4.  Olive Oil Polyphenols in Neurodegenerative Pathologies.

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5.  Identifying RNA splicing factors using IFT genes in Chlamydomonas reinhardtii.

Authors:  Huawen Lin; Zhengyan Zhang; Carlo Iomini; Susan K Dutcher
Journal:  Open Biol       Date:  2018-03       Impact factor: 6.411

  5 in total

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