Excised oxidation

Lu, R., Nash, H.M., and Verdine, G.L. (1997) A mammalian DNA repair enzyme that excises oxidatively damaged guanines maps to a locus frequently lost in lung cancer. Curr. Biol., 7, 397-407. 

Because the carotenoids favour hydrophobic domains they are generally localised in the membranes and lipoproteins of animal cells. In this location they can influence the oxidation of membrane lipids and prevent the passage of free radicals from one cellular compartment to another. Thus, DNA in the nucleus is protected from intracellularly generated ROS by (at least) the nuclear membrane and from extracellular ROS by a number of membranes. Should ROS reach the nucleus, base oxidation can occur. The base most susceptible to oxidation is guanine, although all other bases can also be affected. The cell has the ability to detect damaged bases, excise them. 

Osmium tetroxide used in combination with sodium periodate can also effect alkene cleavage.191 Successful oxidative cleavage of double bonds using ruthenium tetroxide and sodium periodate has also been reported.192 In these procedures the osmium or ruthenium can be used in substoichiometric amounts because the periodate reoxidizes the metal to the tetroxide state. Entries 1 to 4 in Scheme 12.18 are examples of these procedures. Entries 5 and 6 show reactions carried out in the course of multistep syntheses. The reaction in Entry 5 followed a 5-exo radical cyclization and served to excise an extraneous carbon. The reaction in Entry 6 followed introduction of the allyl group by enolate alkylation. The aldehyde group in the product was used to introduce an amino group by reductive alkylation (see Section 5.3.1.2). 

Allelopathic inhibition of mineral uptake results from alteration of cellular membrane functions in plant roots. Evidence that allelochemicals alter mineral absorption comes from studies showing changes in mineral concentration in plants that were grown in association with other plants, with debris from other plants, with leachates from other plants, or with specific allelochemicals. More conclusive experiments have shown that specific allelochemicals (phenolic acids and flavonoids) inhibit mineral absorption by excised plant roots. The physiological mechanism of action of these allelochemicals involves the disruption of normal membrane functions in plant cells. These allelochemicals can depolarize the electrical potential difference across membranes, a primary driving force for active absorption of mineral ions. Allelochemicals can also decrease the ATP content of cells by inhibiting electron transport and oxidative phosphorylation, which are two functions of mitochondrial membranes. In addition, allelochemicals can alter the permeability of membranes to mineral ions. Thus, lipophilic allelochemicals can alter mineral absorption by several mechanisms as the chemicals partition into or move through cellular membranes. Which mechanism predominates may depend upon the particular allelochemical, its concentration, and environmental conditions (especially pH). 

Biodesulfurization (BDS) is the excision (liberation or removal) of sulfur from organosul-fur compounds, including sulfur-bearing heterocycles, as a result of the selective cleavage of carbon-sulfur bonds in those compounds by the action of a biocatalyst. Biocatalysts capable of selective sulfur removal, without significant conversion of other components in the fuel are desirable. BDS can either be an oxidative or a reductive process, resulting in conversion of sulfur to sulfate in an oxidative process and conversion to hydrogen sulfide in a reductive process. However, the reductive processes have been rare and mostly remained elusive to development due to lack of reproducibility of the results. Moderate reaction conditions are employed, in both processes, such as ambient temperature (about 30°C) and pressure. 

In contrast to nucleic acids, which can be repaired after oxidative damage by excision and insertion mechanisms (see Chapter 28), the repair of oxidized proteins does not occur except the oxidized sulfur-containing amino acid residues [22]. Instead, oxidized proteins are... 

Utilising a reversion assay in Salmonella enterica, Prieto et al reported an increased frequency of point mutations following bile-salt exposure. Mutations were predominantly nucleotide substitutions (GC to AT transitions) and -1 frameshift mutations.The frameshifts were dependent on SOS induction and linked to the activity of DinB polymerase (Pol IV). The authors proposed that the GC to AT transitions stimulated by bile, could have arisen from oxidative processes giving rise to oxidised cytosine residues. Consistent with this hypothesis, the authors demonstrated that strains of S. enterica-lacking enzymes required for base-excision repair (endonuclease III and exonuclease IV) and the removal of oxidised bases, demonstrated increased bile-acid sensitivity compared with competent strains. In another study using E. coli, resistance to the DNA-damaging effects of bile was associated with Dam-directed mismatch repair, a pathway also involved with the repair of oxidative DNA lesions. ... 

Excision repair. The E. coli mismatch repair is a type of excision repair. However, a different nucleotide excision repair system (NER) is utilized by all organisms from bacteria to human to remove a variety of defects. These include thymine dimers, photohydrates, oxidized bases, adducts of cisplatin (Box 5-B), mutagens derived from polycyclic aromatic compounds,683 and poorly recognized OC mismatched pairs.692 In E. coli this excision repair process depends upon proteins encoded by genes UvrA, B, C, and D and also DNA polymerase I and DNA ligase.693 695a A dimer of protein UvrA forms a complex with helicase UvrB (Eq. 27-22).696 696a... 

Both NER and BER forms of excision repair remove a great variety of defects, many of which are a result of oxidative damage.657 720 Most prominent among these is 7,8-dihydro-8-oxoguanine (8-OG), which is able to base pair with either cytosine (with normal Watson-Crick hydrogen bonding) or with adenine, which will yield a purine-purine mismatch and aC G —> A T transversion mutation (Eq. 27-24), a frequent mutation in human cancers.721 722... 

Brooks PJ, Wise DS, Berry DA, Kosmoski JV, Smerdon MJ, Somers RL, Mackie H, Spoonde AY, Ackerman EJ, Coleman K,TaroneRE, Robbins JH (2000) The oxidative DNA lesion 8,5 -(S)-cyclo-2 -de-oxyadenosine is repaired by the nucleotide excision repair pathway and blocks gene expression in mammalian cells. J Biol Chem 275 22355-22362 Brown AU, Todd AR (1952) Nucleotides 10. Some observations on the structure and chemical behaviour of the nucleic acids. J Chem Soc 52-58... 

---