A rapid quantitative determination of deoxyribonucleoside triphosphates based on the enzymatic synthesis of DNA.

Inhibition of bacterial DNA replication by 6-(p-Hydroxyphenylazo)-uracil: Differential effect on repair and semi-conservative synthesis in Bacillus subtilis

In vitro inhibitions by coumermycin A1 of DNA and RNA synthesis in toluenized cells were studied. In a sensitive strain, 50% inhibitions of replication and transcription were observed at 0.035 and 0.600 mug/ml, respectively. DNA synthesis in a toluenized-resistant mutant was 50% inhibited at 0.140 mug/ml of coumermycin A1, whereas RNA synthesis was unaffected at all concentrations tested. Studies with a mixture of toluenized-sensitive and -resistant bacteria ruled out the presence of a diffusable activator or inhibitor of coumermycin A1 action. Density label studies with toluenized pol A+ and pol A- strains indicated that replicative DNA synthesis was specifically inhibited, in agreement with the in vivo studies in the preceding paper of this issue (Ryan, M. J. (1976), Biochemistry 15). Highly purified Escherichia coli DNA polymerase III and RNA polymerase both were inhibited by this antibiotic. However, the high concentrations necessary for these inhibitions suggest that they are not biologically relevant. No interaction between DNA and coumermycin A1 was observed with the following analytical procedures: ultraviolet difference spectra, DNA absorbance-temperature transitions, equilibrium buoyant density centrifugation, and DNA cross-linking determinations.

Coumermycin A1: A preferential inhibitor of replicative DNA synthesis in Escherichia coli. I. In vivo characterization.

We previously reported that lagging-strand genes accumulate mutations faster than those encoded on the leading strand in Bacillus subtilis. Although we proposed that orientation-specific encounters between replication and transcription underlie this phenomenon, the mechanism leading to the increased mutagenesis of lagging-strand genes remained unknown. Here, we report that the transcription-dependent and orientation-specific differences in mutation rates of genes require the B. subtilis Y-family polymerase, PolY1 (yqjH). We find that without PolY1, association of the replicative helicase, DnaC, and the recombination protein, RecA, with lagging-strand genes increases in a transcription-dependent manner. These data suggest that PolY1 promotes efficient replisome progression through lagging-strand genes, thereby reducing potentially detrimental breaks and single-stranded DNA at these loci. Y-family polymerases can alleviate potential obstacles to replisome progression by facilitating DNA lesion bypass, extension of D-loops, or excision repair. We find that the nucleotide excision repair (NER) proteins UvrA, UvrB, and UvrC, but not RecA, are required for transcription-dependent asymmetry in mutation rates of genes in the two orientations. Furthermore, we find that the transcription-coupling repair factor Mfd functions in the same pathway as PolY1 and is also required for increased mutagenesis of lagging-strand genes. Experimental and SNP analyses of B. subtilis genomes show mutational footprints consistent with these findings. We propose that the interplay between replication and transcription increases lesion susceptibility of, specifically, lagging-strand genes, activating an Mfd-dependent error-prone NER mechanism. We propose that this process, at least partially, underlies the accelerated evolution of lagging-strand genes.

https://www.pnas.org/content/pnas/112/10/E1096.full.pdf

An underlying mechanism for the increased mutagenesis of lagging-strand genes in Bacillus subtilis

In short matings between two donor strains with distinguishable isogenic conjugative plasmids (derivatives of pAD1), only the strain preexposed to the sex pheromone cAD1 behaved as a donor.

Sex pheromone cAD1 in Streptococcus faecalis: induction of a function related to plasmid transfer.

Inhibition of the Synthesis of Deoxyribonucleic Acid in Bacteria by 6-(p-Hydroxyphenylazo)-2,4-dihydroxypyrimidine: I. METABOLIC STUDIES IN STREPTOCOCCUS FECALIS

N.C. Brown

Papers

Inhibition of the Synthesis of Deoxyribonucleic Acid in Bacteria by 6-(p-Hydroxyphenylazo)-2,4-dihydroxypyrimidine: I. METABOLIC STUDIES IN STREPTOCOCCUS FECALIS