|Fig. 1 Sugar Variants|
To be a bit more exact as to the importance of considering the atoms involved in cognition of microbes, today I am including appendices that reflect the E. Coli amino acid to Codon relationships, in terms of atom counts.
The same principle is being discussed, but (since the example post at the Small Things Considered blog featured E.Coli microbes and referred to a published paper and its precursor that had not been published or peer reviewed) the focus now switches to E.Coli atoms.
The principles involved are the same, i.e., there is no brain in an E.Coli bacterium so it is "playing-with-dolls" to imagine a brainless E.Coli building bridges, hitchhiking, or otherwise enjoying the bliss of "happily moving ... to their preferred microenvironments".
The Amino Acid to Codon to atoms details can be viewed in the following appendices (a, b, c, d, e, f, g, h, i, j, k, and l), with links (URLS) to their GenBank genomes (which all have 272 bp in "Pseudo Genes"; but which also all have a different Amino Acid/Codon structure in their GenBank genomes).
What was explained about the previous appendices applies to today's appendices:
"The amino acid letters "(M)" ... "(E)" are from the GenBank .gbff
file @ "CDS ... /translation=" areas (12 CDS areas total), which are the
letters ascribed to the amino acids that the Codons are said "to code
for" (whatever that means).
As you can see, the amino acids, codons, and atoms are not brains, no, they are inanimate objects (C=carbon, H=hydrogen,N=nitrogen, O=oxygen).
The amino acids (first column in the Table above) are composed of atoms which the Codons (which are said to "code for" the amino acid) do not match in terms of quantity (the underlined value at the end of each Codon atom list is the total number of atoms in that Codon).
That is, there is no coherent association between the atoms of the Codons and the atoms of the amino acid which the Codons are said "to code for" (notice also that the RNA values i.e. Codons with a 'U' in them, do not match the DNA values i.e. Codons with a 'T' in them)."
C5H5N2O2 (see Fig. 1) etc. Dolls: