Photoreactivation of killing in Streptomyces. 3. Action spectra for photolysis of pyrimidine dimers and adducts in S. griseus and S. griseus PHR-1

Abstract— Photolysis of tritium-labelled thymine-derived photoproducts by 254-nm ultraviolet radiation (u.v.) in conidia of Streptomyces griseus was measured by chromatography of cell hydrolysates. The relative photolysis cross-sections of uracilthymine dimer (UT○) at various wavelengths are the same as those of thymine-thymine dimer (TT○), and their ratios at 313, 365, 405 and 436 nm are 2:1:2:3. Except at 436 nm, these relative values agree very well with cross-sections previously reported for photoreactivation of u.v. killing in this organism, leading to the conclusion that photoreactivation in the wild type is due to repair of cyclobutane-type pyrimidine dimers. In a mutant showing restricted photoreactivation (S. griseus PHR-1), post-u.v. treatments at the above wavelengths did not affect UT○ and TT○ in the conidia, supporting the earlier suggestion that this organism does not contain active PR enzyme. Another u.v. photoproduct, the precursor of a pyrimidine adduct (PO-T) that appears in cell hydrolysates, was removed from both wild-type and mutant cells very efficiently at 313 nm. This is presumably a direct photochemical reaction. In addition, in wild-type cells, the precursor of PO-T appeared to be inefficiently removed photoenzymatically at all wavelengths. Removal of the precursor of PO-T appears to be biologically significant, however, only in the mutant.     

Action of photoreactivating light on pyrimidine heteroadduct in bacteria

Abstract— In stationary-phase Escherichia coli B/r, photoreactivation (PR) at 313 nm of ultraviolet (u.v.) killing is inefficient compared with PR at 405 nm, and can be explained solely by photoenzymatic reversal of pyrimidine dimers. In Staphylococcus epidermidis, PR shows a maximum at 313 nm, suggesting that this organism shows the Type III PR proposed by Jagger et al.[5] for Streptomyces strains. Reversal of pyrimidine dimers is not sufficient to explain this PR. The mechanism of Type III PR remains unknown. With both S. epidermidis and E. coli B/r, the amount of uracil–thymine heteroadduct in DNA hydrolysates decreases if the cells are given a post-u.v. treatment at 313 nm, but no decrease is observed if the post-u.v. treatment is at 405 nm. The biological significance of this adduct and of its removal is not clear. It may play a role in Type III PR.     

Excision of cytosine-thymine adduct from the DNA of ultraviolet-irradiated Micrococcus radiodurans

Abstract— 6-4‘-[pyrimidin-2’-one]-thymine (PO-T), a deamination product of a cytosine–thymine adduct accounted for about 17 per cent of the total detectable thymine-derived photoproducts in u.v.-irradiated Micrococcus radiodurans. On incubation of the irradiated cells, oligonucleotides containing the photoproducts were released into the medium. After various periods of incubation the different photoproducts were isolated both from the cells and from the medium. Analysis of these different photoproducts showed that during the excision process the ratio of PO–T to total thymine-derived products remained constant both in the cells and in the medium. This shows that the precursor to PO–T is excised at the same rate as the other thymine-derived photoproducts by the dark repair mechanisms exhibited by this radiation-resistant organism.     

Photoreactivation of killing in Streptomyces: action spectra and kinetic studies

Abstract— An action spectrum was obtained for photoreactivation of killing (PR) of Streptomyces griseus conidia. This spectrum shows a major peak around 436 nm, originally observed by A. Kelner, and a secondary peak at 313 nm not previously reported. The rate of PR shows a strong dependence upon temperature and dose rate of the PR light at 436 nm, but this decreases to only a slight dependence upon these parameters at 313 nm. These findings suggested that PR at 436 nm in this organism is of the usual photoenzymatic type, but that PR at 313 nm might be of a different kind. A mutant (PHR-1) of S. griseus was found that shows only a narrow range of PR (roughly 310–400 nm) with a single peak at 313 nm. The PR efficiency was lower than for wild type and the PR sector not greater than one-half that of wild type. This PR shows no temperature dependence. Essentially similar behavior was observed with wild-type Streptomyces coelicolor. These findings show that at least some of the PR at 313 nm is a separable phenomenon. It is therefore unlikely to involve a mechanism identical to that at 436 nm. The nature of PR at 313 nm in Streptomyces is not known. If it is enzymatic, it is remarkable in having little or no dependence upon temperature and dose rate. Absence of photoprotection and liquid-holding recovery indicate that it is not indirect PR. Some of it (that part exhibited by S. griseus PHR-1 and S. coelicolor) might result from a direct photochemical action on DNA.     

Photochemical Hydrogen Abstraction and Electron Transfer Reactions of Tetrachlorobenzoquinone with Pyrimidine Nucleobases

Pentachlorophenol, a widespread environmental pollutant that is possibly carcinogenic to humans, is metabolically oxidized to tetrachloroquinone (TCBQ) which can result in DNA damage. We have investigated the photochemical reaction dynamics of TCBQ with two pyrimidine type nucleobases (thymine and uracil) upon UVA (355 nm) excitation using the technique of nanosecond time-resolved laser flash photolysis. It has been found that 355 nm excitation populates TCBQ molecules to their triplet state ³TCBQ^*, which are highly reactive towards thymine or uracil and undergo two parallel reactions, the hydrogen abstraction and electron transfer, leading to the observed photoproducts of TCBQH· and TCBQ·^- in transient absorption spectra. The concomitantly produced nucleobase radicals and radical cations are expected to induce a series of oxidative or strand cleavage damage to DNA afterwards. By characterizing the photochemical hydrogen abstraction and electron transfer reactions, our results provide potentially important molecular reaction mechanisms for understanding the carcinogenic effects of pentachlorophenol and its metabolites TCBQ.     

Independence of photoproduct formation on DNA conformation.

Abstract— In an ethanolic solution native T7 DNA can undergo conformational transitions from the B conformation (0% ethanol) to the C-like (60% w/w ethanol) and the A (80% w/w ethanol) conformations. We have investigated the formation of three classes of thymine-derived photoproducts in T7 DNA irradiated (280 nm) in the B, C-like, and A conformations, which were monitored by circular dichroism measurements. We find that the predominant class of thymine-derived photoproducts in any conformational state is cyclobutyl dipyrimidines. While the ‘spore product,’ 5-thyminyl-5,6-dihydrothymine, which belongs to another class of photoproductsf does form in native DNA in the A conformation, its yield in denatured DNA at 80% ethanol is the same as that in native DNA. The yield of pyrimidine adduct, a third photoproduct class, is a maximum at 50–60% ethanol. This effect of ethanol is probably not due to the ethanol-induced C-like conformation, however, since pyrimidine adduct formation is not enhanced when T7 DNA is irradiated in the C conformation in 6 M CsCl or in intact phage. We conclude from these and other data in the literature that the degree of hydration rather than the conformational state is the critical factor in determining which of the photoproducts will form in native DNA.     

Photoreactivation of tobacco mosaic virus and potato virus X ribonucleic acids inactivated by acetone-sensitized photoreaction

Abstract— Acetone-sensitized photoinactivation and subsequent in vivo photoreactivation of tobacco mosaic virus (TMV) and potato virus X (PVX) ribonucleic acids (RNA's) were demonstrated. The photoreactivable sectors were comparable to those obtained for the same RNA's irradiated at 253·7 nm. Only dimers were detected in these RNA's. Irradiation of E. coli rRNA at a higher dose indicated that photoreversible pyrimidine dimers were the main photoproducts detected in the sensitized reaction, whereas pyrimidine hydrates were formed only in negligible amounts. These results have led us to conclude that photoreversible pyrimidine dimers constitute both a lethal and photorepairable type of lesion in u.v.-damaged viral RNA.     

Photochemical reactions. 134th Communication. Photochemistry of 5,6-epoxy-5,6-dihydro-3,4-methano-β-ionone: Influence of a cyclopropane ring on the reactivity of an ylide intermediate

On ¹n,π*-excitation(λ > 347 nm), the diastereomeric methanoepoxyenones (E)- 6 undergo isomerization via C,O-cleavage of the oxirane leading to diastereomeric photoproducts ((E)- 5 →(E/Z)- 13 and 14 ; (E)- 6 →(E/Z)- 16 and 17 ). On ¹π,π*-excitation (λ = 254 nm) of either (E)- 5 ) or (E- 6 the photoproducts 9, 10 and 11 are formed. By laser flash photolysis (λ = 265 nm) the ylide intermediate 3 was detected, with a lifetime of 10 μs in MeCN at ambient temperature. Stern-Volmer analysis of the ylide quenching by MeOH disclosed that compounds 9 and 10 , but not 11 , arise from the ylide intermediate e .     

Near-U.V. photolysis of pyrimidine heteroadducts in E. coli DNA

Abstract— The cytosine-thymine precursor of the U–T adduct is not subject to enzymatic photoreactivation, but can be eliminated directly from u.v.-irradiated E. coli DNA by exposure to wavelengths around 313 nm.     

Quinone sensitized electron transfer photooxidation of nucleic acids: chemistry of thymine and thymidine radical cations in aqueous solution

The 2-methyl-1,4-naphthoquinone (MQ) sensitized photooxidation of nucleic acid derivatives has been studied by laser flash photolysis and steady state methods. Thymine and thymidine, as well as other DNA model compounds, quench triplet MQ by electron transfer to give MQ radical anions and pyrimidine or purine radical cations. Although the pyrimidine radical cations cannot be directly observed by flash photolysis, the addition of N,N,N',N'-tetramethyl-1,4-phenylenediamine (TMPD) results in the formation of the TMPD radical cation via scavenging of the pyrimidine radical cation. The photooxidation products for thymine and thymidine are shown to result from subsequent chemical reactions of the radical cations in oxygenated aqueous solution. The quantum yield for substrate loss at limiting substrate concentrations is 0.38 for thymine and 0.66 for thymidine. The chemistry of the radical cations involves hydration by water leading to C(6)-OH adduct radicals of the pyrimidine and deprotonation from the N(1) position in thymine and the C(5) methyl group for thymidine. Superoxide ions produced via quenching of the quinone radical anion with oxygen appear to be involved in the formation of thymine and thymidine hydroperoxides and in the reaction with N(1)-thyminyl radicals to regenerate thymine. The effects of pH were examined in the range pH 5-8 in both the presence and absence of superoxide dismutase. Initial C(6)-OH thymine adducts are suggested to dehydrate to give N(1)-thyminyl radicals.     

Photochemical Reactions 150th Communication. Wavelength Dependence of the Photochemistry of 7-Methyl-β-ionone

The wavelength dependence of the photolysis of 7-methyl-β-ionone ((E)- 1 ) was investigated. Irradiation of (E)- 1 with light of λ > 347 nm leads primarily to (E/Z)-isomerization followed by transformation to the tricyclic enol ether 3 as the only secondary photoproduct. On photolysis of (E)- 1 with light of shorter wavelength (λ > 280 nm or λ = 254 nm), however, a series of other products was formed (via a) photocyclization of the dienone chromophore (→ 5 ), (b) photo-enolization (→ 8 ), and (c) a 1,5-sigmatropic H-shift (→ (E/Z)- 7 ). For the structure elucidation of the new products, 7-[¹³C]methyl-β-ionone ((E)-[7-methyl-¹³C]- 1 ) was prepared and irradiated furnishing the corresponding ¹³C-labelled photoproducts.     

Far-UV-lnduced Dimeric Photoproducts in Short Oligonucleotides: Sequence Effects

Cyclobutane pyrimidine dimers and pyrimidine(6-4)pyrimidone adducts represent the two major classes of far-UV-induced DNA photoproducts. Because of the lack of appropriate detection methods for each individual photoproduct, little is known about the effect of the sequence on their formation. In the present work, the photoproduct distribution obtained upon exposure of a series of dinucleoside monophosphates to 254 nm light was determined. In the latter model compounds, the presence of a cytosine, located at either the 5′- or the 3′- side of a thymine moiety, led to the preferential formation of (6-4) adducts, whereas the cis-syn cyclobutane dimer was the main thymine-thymine photoproduct. In contrast, the yield of dimeric photoproducts, and particularly of (6-4) photoadducts, was very low upon irradiation of the cytosine–cytosine dinucleoside monophosphate. However, substitution of cytosine by uracil led to an increase in the yield of (6-4) photoproduct. It was also shown that the presence of a phosphate group at the 5′- end of a thymine-thymine dinucleoside monophosphate does not modify the photoproduct distribution. As an extension of the studies on dinucleoside monophosphates, the trinucleotide TpdCpT was used as a more relevant DNA model. The yields of formation of the thymine-cytosine and cytosine–thymine (6-4) photoproducts were in a 5:1 ratio, very close to the value obtained upon photolysis of the related dinucleoside monophosphates. The characterization of the two TpdCpT (6-4) adducts was based on H NMR, UV and mass spectroscopy analyses. Additional evidence for the structures was inferred from the analysis of the enzymatic digestion products of the (6-4) adducts of TpdCpT with phosphodiesterases. The latter enzymes were shown to induce the quantitative release of the photoproduct as a modified dinucleoside monophosphate in a highly sequence-specific manner.     

On the Formation of Thymine Photodimers in Thymine Single Strands and Calf Thymus DNA

Solar light leads to thymine dimers that are mutagenic and primary cause of skin cancer. Here, we report absorption and synchrotron radiation circular dichroism (CD) spectra of T_n single strands with different number n of bases (n = 2–7, 10, 11) recorded after various 254 nm irradiation times. From a principal component analysis of the CD spectra, we extract fingerprint spectra of both the cyclobutane pyrimidine dimer (CPD) and the pyrimidine (6‐4) pyrimidone photoadduct (64PP). Extending the CD measurements to the vacuum ultraviolet region in combination with systematic examinations of size effects is a new approach to gain insight on the dimeric photoproducts. We find a simple linear correlation between n and average number of dimers formed after 1 h of irradiation. The probability for a thymine to engage in a dimer increases from 32% for n = 2 to 41% for n = 11, which implies limited effects of terminal thymines, i.e., the reaction does not occur preferentially at the extremities of the single strands as previously stated. It is even possible to form two dimers with only two bridging thymines. Finally, experiments conducted on calf thymus DNA provided a similar signature of the photodimer, but differences are also evident.     

Quantification of Cyclobutane Pyrimidine Dimers Induced by UVB Radiation in Conidia of the Fungi Aspergillus fumigatus,Aspergillus nidulans,Metarhizium acridum and Metarhizium robertsii

Conidia are responsible for reproduction, dispersal, environmental persistence and host infection of many fungal species. One of the main environmental factors that can kill and/or damage conidia is solar UV radiation. Cyclobutane pyrimidine dimers (CPD) are the major DNA photoproducts induced by UVB. We examined the conidial germination kinetics and the occurrence of CPD in DNA of conidia exposed to different doses of UVB radiation. Conidia of Aspergillus fumigatus, Aspergillus nidulans and Metarhizium acridum were exposed to UVB doses of 0.9, 1.8, 3.6 and 5.4 kJ m⁻². CPD were quantified using T4 endonuclease V and alkaline agarose gel electrophoresis. Most of the doses were sublethal for all three species. Exposures to UVB delayed conidial germination and the delays were directly related both to UVB doses and CPD frequencies. The frequencies of dimers also were linear and directly proportional to the UVB doses, but the CPD yields differed among species. We also evaluated the impact of conidial pigmentation on germination and CPD induction on Metarhizium robertsii. The frequency of dimers in an albino mutant was approximately 10 times higher than of its green wild-type parent strain after exposure to a sublethal dose (1.8 kJ m⁻²) of UVB radiation.     

Direct demonstration of the monomerization of thymine-containing dimers in U.V.-irradiated DNA by yeast photoreactivating enzyme and light

Abstract— Ultraviolet-irradiated E. coli DNA (³H-thymine-labelled) was mixed with un-irradiated E. coli DNA (¹⁴C-thymine-labelled) and exposed to light in the presence of purified yeast photoreactivating enzyme. As the ³H-thymine-containing cyclobutane dimers disappeared during the photoreactivation, there was a stoichiometric increase of monomeric ³H-thymine as determined from the ³H/¹⁴C ratio in thymine. This is the first direct demonstration that thymine-containing dimers in u.v.-irradiated DNA are monomerized by yeast photoreactivating enzyme in the presence of light.     

STUDIES ON THYMINE-DERIVED UV PHOTOPRODUCTS IN DNA—I. FORMATION AND BIOLOGICAL ROLE OF PYRIMIDINE ADDUCTS IN DNA

Abstract— Pyrimidine (Pyr) adducts constitute a significant fraction of the photoproducts formed in DNA exposed to far UV light. The primary and secondary DNA structure affects the rate of Pyr adduct formation; for example, it increases with decreasing (Ade + Thy)/(Gua + Cyt) of the DNA and with increasing dehydration, and it is greater in double-stranded than in single-stranded DNA. Pyrimidine adducts do not appear to be involved in inter-strand cross-links, and 313 nm-induced photolysis of Pyr adducts does not cause strand breakage. The action spectrum for Pyr adduct formation is qualitatively similar to that for Pyr < > Pyr formation; the calculated quantum yields for its formation is essentially wavelength independent over the range 254 nm to 280 nm, but decreased somewhat at shorter wavelengths (240 nm). The biological role of Pyr adducts is still not clear. The data suggest that either Pyr adducts and their photolysis products are not lethal, or that both are lethal but can be repaired under certain conditions.     

Thymidine-Psoralen Photoaddition: Stereoselective Formation of A trans-syn Pyrone Adduct

To study the photoreactions between thymidine and psoralen and to devise a synthetic route to prepare thymidine-5-methoxypsoralen adducts, we have synthesized a compound in which thymidine is linked to a 5-methoxypsoralen derivative by a short flexible chain located to allow only the formation of syn intramolecular [2+2] cycloadducts. Irradiation at 365 nm carried out at usual concentrations (10^?2-10^?3M) resulted in a regioselective dimerization involving the 3,4 double bonds. Extreme dilution (c 5 × 10⁶M) was necessary to observe the intramolecular photoaddition, which produces exclusively the 3,4-trans-syn adduct. These results are compared to those obtained previously with similar heterodimers that lead exclusively to the 3,4-cis-anti thymine or thymidine-psoralen adduct on exposure to near UV light.     

N4‐Methylation of Cytosine Drastically Favors the Formation of (6‐4) Photoproducts in a TCG Context

Methylation of cytosine is a common biological process both in prokaryotic and eukaryotic cells. In addition to 5‐methylcytosine (5mC), some bacterial species contain in their genome N⁴‐methylcytosine (N4mC). Methylation at C5 has been shown to enhance the formation of pyrimidine dimeric photoproducts but nothing is known of the effect of N4 methylation on UV‐induced DNA damage. In the present work, we compared the yield and the nature of bipyrimidine photoproducts induced in a series of trinucleotides exhibiting a TXG sequence where X is either T, C, 5mC or N4mC. HPLC associated to tandem mass spectrometry was used to quantify cyclobutane pyrimidine dimers (CPD), (6‐4) photoproducts (64PP) and their Dewar valence isomer. Methylation at position N4 was found to drastically increase the reactivity of C upon exposure to both UVC and UVB and to favor the formation of 64PP. In contrast methylation at C5 increased the yield of CPD at the expense of 64PP. In addition, enhancement of photoreactivity by C5 methylation was much higher in the UVB than in the UVC range. These results show the drastic effect of the methylation site on the photochemistry of cytosine.     

PHOTOCHEMICAL REACTIONS OF AROMATIC KETONES WITH NUCLEIC ACIDS AND THEIR COMPONENTS I—. PURINE AND PYRIMIDINE BASES AND NUCLEOSIDES*.

Abstract— The photochemical reactions of benzophenone and acetophenone with purine and pyrimidine derivatives in aqueous solutions have been investigated by flash photolysis and steady-state experiments. Upon excitation of these two ketones in aqueous solutions, two transient species are observed: molecules in their triplet state and ketyl radicals. The triplet state lifetimes are 65 μsec for benzophenone and 125 μsec for acetophenone. The ketyl radicals disappear by a second order reaction, controlled by diffusion. In the presence of pyrimidine derivatives, the triplet state is quenched and the ketyl radical concentration is decreased without any change in its kinetics of disappearance. Ketone molecules in their triplet state react with purine derivatives leading to an increase in the yield of ketyl radicals due to H-atom abstraction from the purines. Steady-state experiments show that benzophenone and acetophenone irradiated in aqueous solution at wavelengths longer than 290 nm undergo photochemical reactions. The rate of these photochemical reactions is increased in the presence of pyrimidine derivatives and even more in the presence of purine derivatives. Following energy transfer from the triplet state of benzophenone to diketopyrimidines, cyclobutane dimers are formed. The energy transfer rate decreases in the order orotic acid > thymine > uracil. Benzophenone molecules in their triplet state can also react chemically with pyrimidine derivatives to give addition photoproducts. All these results are discussed with respect to photosensitized reactions in nucleic acids involving ketones as sensitizers.     

Laser flash photolysis and inactivation of carboxypeptidase A

Abstract— Laser photolysis of CPA at 265 nm photoionizes 3 to 4 Trp residues per molecule inactivated, leading to e^-_aq and the disulfide bridge electron adduct. The electron adduct is formed by an internal process and is not involved in the activity loss. Based on this work and published photochemical and pulse radiolysis studies on CPA it is proposed that photolysis of a key Trp residue, possibly Trp 73 adjacent to zinc ligand Glu 72 , mediates release of the zinc ion and consequent loss of peptidase activity.