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Cyclic Concatenated Genetic Encoder: A mathematical proposal for biological inferences
M E Duarte-González1, O Y Echeverri2, J M Guevara2
1Department of Biomedical, Electronic and Mechatronic Engineering, Universidad Antonio Nariño, Bogotá, Colombia; Department of Electrical Engineering, Universidade Estadual de Campinas, Campinas, SP, Brazil.
Bio Systems
|December 14, 2017
Summary
This study introduces a novel method using concatenated genetic encoders and error-correcting codes (ECCs) to analyze protein sequences for evolutionary relationships. The approach shows promise in identifying biological connections, though further refinement is needed.
Area of Science:
- Bioinformatics
- Computational Biology
- Communication Theory
Background:
- Genetic information organization and error correction are crucial for biological systems.
- Intra-cellular genetic information transmission may employ error detection and correction mechanisms.
- Digital communication models offer insights into biological information processing.
Purpose of the Study:
- To introduce the Concatenated Genetic Encoder concept for protein sequence analysis.
- To explore evolutionary relationships among plant species using error-correcting codes (ECCs).
- To apply BCH codes over ℤ₂₀ and F₄×ℤ₅ for protein representation and identification.
Main Methods:
- Representation of proteins using Error Correcting Codes (ECCs).
- Application of BCH codes over ℤ₂₀ and F₄×ℤ₅ to protein sequences.
- Analysis of cytochrome b6-f complex subunit 6-OS sequences from different plant species.
- Comparison of results with phylogenetic and taxonomic analyses.
Main Results:
- BCH codes identified specific protein sequences differing by only one amino acid from the original.
- Mathematical relationships were established among identified sequences using minimal polynomials.
- The identified sequences demonstrated close relationships consistent with phylogenetic reconstruction.
Conclusions:
- Communication theory offers valuable tools for identifying biological relationships among proteins.
- The proposed methodology, utilizing BCH codes, shows potential for biological analysis.
- Further improvements and rigorous testing are necessary for practical application in biology.
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