11 September 2015 Bioinformatics comparison of sulfate-reducing metabolism nucleotide sequences
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Abstract
The sulfate-reducing bacteria can be traced back to 3.5 billion years ago. The thermodynamics details of the sulfur cycle have been well documented. A recent sulfate-reducing bacteria report (Robator, Jungbluth, et al , 2015 Jan, Front. Microbiol) with Genbank nucleotide data has been analyzed in terms of the sulfite reductase (dsrAB) via fractal dimension and entropy values. Comparison to oil field sulfate-reducing sequences was included. The AUCG translational mass fractal dimension versus ATCG transcriptional mass fractal dimension for the low temperature dsrB and dsrA sequences reported in Reference Thirteen shows correlation R-sq ~ 0.79 , with a probably of about 3% in simulation. A recent report of using Cystathionine gamma-lyase sequence to produce CdS quantum dot in a biological method, where the sulfur is reduced just like in the H2S production process, was included for comparison. The AUCG mass fractal dimension versus ATCG mass fractal dimension for the Cystathionine gamma-lyase sequences was found to have R-sq of 0.72, similar to the low temperature dissimilatory sulfite reductase dsr group with 3% probability, in contrary to the oil field group having R-sq ~ 0.94, a high probable outcome in the simulation. The other two simulation histograms, namely, fractal dimension versus entropy R-sq outcome values, and di-nucleotide entropy versus mono-nucleotide entropy R-sq outcome values are also discussed in the data analysis focusing on low probability outcomes.
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G. Tremberger, G. Tremberger, Sunil Dehipawala, Sunil Dehipawala, A. Nguyen, A. Nguyen, E. Cheung, E. Cheung, R. Sullivan, R. Sullivan, T. Holden, T. Holden, D. Lieberman, D. Lieberman, T. Cheung, T. Cheung, } "Bioinformatics comparison of sulfate-reducing metabolism nucleotide sequences", Proc. SPIE 9606, Instruments, Methods, and Missions for Astrobiology XVII, 960610 (11 September 2015); doi: 10.1117/12.2188390; https://doi.org/10.1117/12.2188390
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