Arbitrariness is not enough: towards a functional approach to the genetic code

Arbitrariness in the genetic code is one of the main reasons for a linguistic approach to molecular biology: the genetic code is usually understood as an arbitrary relation between amino acids and nucleobases. However, from a semiotic point of view, arbitrariness should not be the only condition for definition of a code, consequently it is not completely correct to talk about “code” in this case. Yet we suppose that there exist a code in the process of protein synthesis, but on a higher level than the nucleic bases chains. Semiotically, a code should be always associated with a function and we propose to define the genetic code not only relationally (in basis of relation between nucleobases and amino acids) but also in terms of function (function of a protein as meaning of the code). Even if the functional definition of meaning in the genetic code has been discussed in the field of biosemiotics, its further implications have not been considered. In fact, if the function of a protein represents the meaning of the genetic code (the sign’s object), then it is crucial to reconsider the notion of its expression (the sign) as well. In our contribution, we will show that the actual model of the genetic code is not the only possible and we will propose a more appropriate model from a semiotic point of view.     

Morphometry of the Stone Loach, Barbatula Barbatula: Do Mensural Characters Reflect the Species' Life History Thresholds?

Growth variability in 23 mensural characters was examined in 387 specimens of stone loach, Barbatula barbatula, from England. The standard length (SL) of the specimens ranged from 15.3 to 115.4 mm. We tested the hypothesis that body proportions change abruptly, rather than gradually, at certain intervals of ontogeny by fitting linear, quadratic and split linear curves to plots of each variable against SL. Based on patterns of allometric growth, two groups and two subgroups of mensural characters have been found. Three characters were best explained by a linear regression, indicating isometric growth. Eight characters were best explained by a quadratic curve, indicating gradual allometry. The remaining 12 characters were best explained by a split regression, indicating mainly isometric growth with abrupt allometry occurring at a specific SL (breakpoint). The first shift in morphometric values (a transformation of the head; breakpoints in three characters) occurred at 26-35 mm SL, the second (a change in fin shape and size as well as body form; breakpoints in six characters) at 36-47 mm SL. The coincidence of shifts in body morphology with those in microhabitat use (between the respective size classes) suggests that thresholds (though not as sudden as those between embryo and early larva steps) do occur during this interval of stone loach life history. We suggest that the larva period ends with the completion of the first shift in relative growth (i.e. not later than at 35 mm SL, depending on individual variability), and that the second shift in morphometric values reflects a threshold between the first and the second step of juvenile period. The importance of changes in external morphology decreased as the fish grew bigger and older.     

Chemoselective biotransformation of nitriles by Rhodococcus equi A4

Resting cells of Rhodococcus equi A4 (free or immobilized in hydrogels) produced monomethyl isophtalate 1c and monomethyl terephtalate 2c from methyl-3-cyanobenzoate 1a and methyl-4-cyanobenzoate 2a, respectively, via the intermediate carboxamides 1b and 2b. The use of dried immobilized biocatalysts resulted in an increased formation of the unwanted cyano acids 1d and 2d. © Rapid Science Ltd. 1998     

Prevalence of β-lactam and fluoroquinolone resistance, and virulence factors in Escherichia coli isolated from chickens in Slovakia

The incidence of infections due to organisms resistant to β-lactam antibiotics has increased sharply in recent years. The goal of this study was to investigate the β-lactam resistance in 151 Escherichia coli strains isolated from chickens over a two-year period. Extended spectrum β-lactamases (ESBLs) were present in 24 strains (16%), ESBL phenotype was identified by interpretative reading of minimal inhibitory concentration values of ceftriaxon (CRT ≥ 7.1 mg/L), ceftazidime (CAZ ≥ 3.4 mg/L) and ceftiofur (CFF ≥ 8.7 mg/L). PCR detection revealed the presence of the bla _CMY-2 gene and CTX-M-1 group. We detected high resistance to ampicillin (92%), streptomycin (63%), tetracyclin (70%), ceftiofur (40%), floroquinolones (enrofloxacin 68%, ciprofloxacin 62%), florfenicol (18%), chloramphenicol (21%) and cotrimoxazol (43%). We also investigated the presence of virulence factors and mobile genetic elements, and performed plasmid replicon typing in 24 selected strains. The most prevalent integrase among the isolates was the integrase 1 with gene cassettes dfrA, aadA and genes sul1 and sul2. Plasmid mediated quinolone resistances (qnrS) were also detected in two strains. Plasmid typing showed that the Y and IncI1 were dominant plasmid replicons. The genes iss, kpsII, tsh, iutA were the most frequently detected virulence genes in ESBL-positive strains. These results demonstrate that broilers in Slovakian food markets and farms could be the source of ESBL-producing E. coli, as well as virulent and resistant strains representing a potential risk for the human population.