REPAIR OF UV DAMAGE IN ESCHERICHIA COLI UNDER NON-GROWTH CONDITIONS

Abstract. –A large difference in survival occurs between buffered suspensions of E. coli irradiated with UV radiation at a low fluence rate and those irradiated at a high fluence rate. For sufficiently large fluences, the extent of this fluence rate dependent recovery (FRR) is about two orders of magnitude greater than that which can be brought about by liquid holding recovery (LHR) following high fluence rate irradiation in most of the E. coli strains studied. LHR and FRR occur in excision resynthesis repair proficient (ERR⁺) but not ERR^- strains of E. coli , although its observation can be masked in strains with complete repair potential upon subsequent growth on nutrient plates. Accumulation of DNA strand interruptions and excision of cyclobutyl dipyrimidine occur during LHR and FRR but are more extensive for the latter. Our data suggest mat events beyond incision and excision occur during LHR and FRR, but differences in the extent of ERR during LHR and FRR cannot account for the difference in cell survival between these two phenomena.     

PHOTOADDITION OF 8-METHOXYPSORALEN TO E. coli DNA POLYMERASE I. ROLE OF PSORALEN PHOTO-ADDUCTS IN THE PHOTOSENSITIZED ALTERATIONS OF POL I ENZYMATIC ACTIVITIES

Abstract— We have previously demonstrated that 8-methoxypsoralen (8-MOP)‡ plus UVA is able to inactivate the three enzymatic activities of E. coli DNA polymerase I and that oxygen is required for these reactions (M. Granger et al. , (1982) Photochem. Photobiol. , 36 , 175–180). We now show that UV-A irradiation produces a covalent incorporation of the psoralen derivative into the enzyme either in the presence or in the absence of oxygen. The excited psoralen binds directly to the protein in an oxygen-independent reaction; no complex was detected in the absence of irradiation. Fluorescence measurements reveal that at least two photoadducts are formed.
The 8-MOP-photomodified enzyme is still fully active but further irradiation leads to an inhibition of the 5'→ 3' polymerase activity whereas the 5'→ 3' exonuclease activity is not affected. A major part of the inhibition reaction is shown to be oxygen-dependent but singlet oxygen quenchers have no effect on the kinetics. This oxygen-dependent reaction is attributed to a photosensitization, due to covalently bound 8-MOP, of neighbouring amino acids through an intermediate reactive oxygen species which is not singlet oxygen. The oxygen-independent reaction is attributed to a direct photosensitization through, for example, a radical mechanism.     

UNIQUE DNA REPAIR PROPERTY OF AN ULTRAVIOLET-SENSITIVE (radC MUTANT OF Dictyostelium discoideum

Abstract— Dictyostelium discoideum is an organism that shows higher UV resistance than other organisms, such as Escherichia coli and human cultured cells. We examined the removal of cyclobutane pyrimidine dimers (CPD) and 6–4 photoproducts from DNA in the radC mutant and the wild-type strain using an enzyme-linked immunosorbent assay with monoclonal antibodies. Wild-type cells excised more than 90% of both CPD and 6–4 photoproducts within 4 h. Dictyostelium discoideum appeared to have a special repair system, because 6–4 photoproducts were repaired faster than CPD in E. coli and human cultured cells. In radC mutant cells, although only 50% of CPD were excised from DNA within 8 h, effective removal of 6–4 photoproducts (80% in 8 h) was observed. Excision repair-deficient mutants generally cannot remove both CPD and 6–4 photoproducts. Though the radC mutant shows deficient excision repair, it can remove 6–4 photoproducts to a moderate degree. These results suggest that D. discoideum has two kinds of repair systems, one mainly for CPD and the other for 6–4 photoproducts, and that the radC mutant has a defect mainly in the repair enzyme for CPD.     

PHOTOCHEMISTRY OF THE BISBENZIMIDAZOLE DYE 33258 HOECHST WITH BROMODEOXYURIDINE AND ITS BIOLOGICAL EFFECTS ON BrdUrd-SUBSTITUTED ESCHERICHIA COLI

Abstract— Exposure of BrdUrd-substituted E. coli cells to 360 nm light in the presence of the bisbenzimi-dazole dye 33258 Hoechst increases their sensitivity dramatically. Mutant cells deficient in excision repair of DNA damage ( uur B) are more sensitive than wild type cells, indicating that the cells are able to repair this type of damage. However, they perform only a limited amount of liquid holding recovery (LHR). Exposure of the dye with BrdUrd to near UV light in solution results in the appearance of two BrdUrd derived photoproducts. One appears to be deoxyuridine, and the other — an adduct of BrdUrd-dye. The adduct is acid labile and as a result only uracil is observed in acid-hydrolyzates of DNA after exposure of BrdUrd-substituted cells to 360 nm light in the presence of 33258 Hoechst. The production of uracil is linearly dependent on light exposure. Cells in which 85% of thymidine was replaced by BrdUrd are unable to remove more than 5–10% of uracil from their DNA during postirradiation incubation. However, when only 4% of thymidine is replaced, about 50% of the uracil is removed during 30min incubation after exposure. The results are consistent with our previous work, indicating that BrdUrd interferes with repair via excision-resynthesis. A working hypothesis is suggested to explain this interference.     

Absence of repair replication following ultraviolet irradiation of an excision-deficient mutant of Escherichia coli

The excision -repair of damaged DNA in bacteria and other systems probably requires at least three enzymes to carry out the following steps in sequence: (1) Recognition of a structural distortion in the DNA and the production of an endonucleolytic cleavage of the damaged strand near the lesion. (2) The simultaneous peeling back of the damaged strand and resynthesis of the excised region, with eventual cleavage of the damaged segment from the DNA. (3) The rejoining of the newly synthesized strand to contiguous parental DNA. Evidence for all three steps has been obtained from in vivo studies. The E. coli DNA polymerase has been shown to carry out step # 2 in vitro [1] and the polynucleotide ligase has the required specificity for step # 3[2–4]. An enzyme responsible for step # 1 has been purified from Micrococcus lysodeikticus [5,6] but not from E. coli, although a class of u.v. sensitive mutants in E. coli has been shown to be defective in this step in the repair sequence. In such mutants the release of pyrimidine dimers from the damaged DNA is not observed during post-irradiation growth of u.v. irradiated cultures [7]. It would be predicted, as a consequence, that the next step, non-conservative repair replication, would not be seen in these mutants. Hanawalt and Petti-john showed this to be true for the double mutant E. coli B_8-1 that includes a deficiency in dimer excision [8]. In the present study we have looked more closely at an E. coli K-12 strain that has only the uvrA6 deficiency that results in inability to excise pyrimidine dimers.     

EFFECT OF LIQUID HOLDING ON THE REPAIR OF PHOTOINDUCED DAMAGES IN ACRIFLAVINE SENSITIZED ESCHERICHIA COLI CELLS

Abstract— Damage caused by visible light in the presence of acriflavine can be repaired in various strains of Escherichia coli possessing one or the other repair mechanism. The number of viable cells of the irradiated E. coli cultures increases on holding in buffer. The results of liquid holding suggest that the major role played by holding in liquid medium is the removal of dye molecules from inside the cells; this would create a favourable condition for recovery during subsequent incubation.     

SINGLE-STRAND BREAKS IN THE DNA OF THE uvrA AND uvrB STRAINS OF ESCHERICHIA COLI K-12 AFTER ULTRAVIOLET IRRADIATION

Abstract— DNA single-strand breaks were produced in uvrA and uvrB strains of E. coli K-12 after UV (254 nm) irradiation. These breaks appear to be produced both directly by photochemical events, and by a temperature-dependent process. Cyclobutane-type pyrimidine dimers are probably not the photoproducts that lead to the temperature-dependent breaks, since photoreactivation had no detectable effect on the final yield of breaks. The DNA strand breaks appear to be repairable by a process that requires DNA polymerase I and polynucleotide ligase, but not the recA, recB, recF, lexA 101 or uvrD gene products. We hypothesize that these temperature-dependent breaks occur either as a result of breakdown of a thermolabile photoproduct, or as the initial endonucleolytic event of a uvrA , uvrB -independent excision repair process that acts on a UV photoproduct other than the cyclobutane-type pyrimidine dimer.     

REPAIR OF ULTRAVIOLET-DAMAGED TRANSFORMING DNA IN A MISMATCH REPAIR-DEFICIENT STRAIN OF HAEMOPHILUS INFLUENZAE

Abstract— Ultraviolet inactivation of Haemophilus influenzae transforming DNA followed inverse square root kinetics in both mismatch repair-proficient(hex₊) and deficient (hex-1) recipients. No DNA concentration effect was seen with UV-excision repair-deficient(uvr_-) strains. Low-efficiency genetic markers remained more sensitive than high-efficiency ones when they were assayed on excision repair-deficienthex₊ uvr_- strains. They were equally resistant whenhex₊ uvr_- recipients were used. We explain this by assuming that recombinational repair of UV lesions in the donor strand and mismatch repair of the recipient strand may overlap and cause double strand interruptions. This will eliminate low-efficiency transformants.     

Sequence-specifically platinum metal deposition on enzymatically synthesized DNA block copolymer

Platinum metal was sequence-specifically deposited on the DNA block copolymer synthesized by the Klenow fragment of E. coli DNA polymerase I (3'-5' exonuclease deficient).     

THE EXPRESSION OF LIQUID HOLDING RECOVERY IN ULTRAVIOLET-IRRADIATED ESCHERICHIA COLI REQUIRES A DEFICIENCY IN GROWTH MEDIUM-DEPENDENT DNA REPAIR

Ultraviolet (UV) irradiated Escherichia coli K-12 recA cells (but not rec⁺ cells) show enhanced survival if they are held in buffer prior to plating for viability. To understand the role of the recA mutation in this liquid holding recovery (LHR) phenomenon, we have studied LHR in a temperature sensitive recA 200 mutant. The detection of LHR requires that the irradiated cells be recA when they are plated on growth medium, but the recA deficiency plays no role during liquid holding (LH). We conclude that it is the extreme sensitivity of recA cells in growth medium to unrepaired DNA daughter-strand gaps that magnifies the beneficial effects of the excision repair of DNA lesions during LH. Furthermore, we demonstrate a correlation between a strain's inability to perform growth medium dependent repair and its ability to express LHR. The relative amount of LHR was: recA > recF > lexA > recB > wild type (with the recB and wild-type strains showing negative LHR). Two strains did not show this correlation; the uvrD strain showed less LHR than expected from its UV radiation sensitivity, while the polA strain showed more. The molecular bases for these exceptions are explored.     

Excision-repair capacity of UV-irradiated strains of Escherichia coli and Streptococcus pneumoniae, estimated by plasmid recovery

Although the biological role of many bacterial repair genes is known, there is still an interest in evaluating the capacity of repair pyrimidine dimers in some strains. For this purpose, we have developed a rapid assay. Cells bearing a plasmid are UV irradiated and incubated to allow recovery. The plasmid DNA is extracted, purified and treated with UV endonuclease from Micrococcus luteus that specifically produces single strand breaks at the site of pyrimidine dimers. The amount of open circular and covalently closed circular forms of the plasmid DNA after treatment and post-incubation provides an estimate of the repair capability of the host strain. The wild type strain and the uvrA mutant of Escherichia coli were used to adjust the assay. The lexA mutant of E. coli has been tested and its repair capability is equivalent to that of wild-type strain. The assay has been extended to Streptococcus pneumoniae, which is naturally deficient in photoreactivation and SOS-like functions. This strain is efficient in the repair of pyrimidine dimers, formed after UV irradiation.     

Base excision repair synthesis of DNA containing 8-oxoguanine in Escherichia coli

8-oxo-7,8-dihydroguanine (8-oxo-G) in DNA is a mutagenic adduct formed by reactive oxygen species. In Escherichia coli, 2,6-dihydroxy-5N-formamidopyrimidine (Fapy)-DNA glycosylase (Fpg) removes this mutagenic adduct from DNA. In this report, we demonstrate base excision repair (BER) synthesis of DNA containing 8-oxo-G with Fpg in vitro. Fpg cut the oligonucleotide at the site of 8-oxo-G, producing one nucleotide gap with 3' and 5' phosphate termini. Next, 3' phosphatase(s) in the supernatant obtained by precipitating a crude extract of E. coli with 40% ammonium sulfate, removed the 3' phosphate group at the gap, thus exposing the 3' hydroxyl group to prime DNA synthesis. DNA polymerase and DNA ligase then completed the repair. These results indicate the biological significance of the glycosylase and apurinic/ apyrimidinic (AP) lyase activities of Fpg, in concert with 3' phosphatase(s) to create an appropriately gapped substrate for efficient BER synthesis of DNA containing 8-oxo-G.     

DNA DAMAGE and ITS REPAIR IN Dictyostelium discoideum IRRADIATED BY HEALTH LAMP LIGHT (UV- B)

Irradiation by health lamp (HL) light (280–320 nm) more efficiently induced cell killing and mutation in a radiation sensitive mutant (TW8) of Dictyostelium discoideum as compared with the parental wild-type strain (NC4). This light as well as a germicidal lamp-light (254 nm) produced pyrimidine dimers. The dimers were removed from DNA molecules by excision repair in NC4, but more slowly in TW8. It is suggested that pyrimidine dimers are the main DNA damage caused by HL light in D. discoideum , and that this results in cell killing and induced mutation.     

USE OF SYNTHETIC POLYNUCLEOTIDES TO CHARACTERISE AN ANTISERUM MADE AGAINST UV-IRRADIATED DNA

UV—irradiated single-stranded synthetic homopolymers were used to characterise an antiserum made against UV-irradiated DNA. Using induction data obtained by reversed-phase high performance liquid chromatography, the relative antigenicity of the polymers could be converted to relative binding affinity for each DNA photoproduct. Since no Pyr(6–4)Pyo adducts could be detected at 320 nm under these conditions, the affinity of the antiserum for this lesion could be compared with that for cyclobutane dimers. The relative binding capacity of Thy(6–4)Thy: Thy(5–6)Thy: Cyt(6–4)Cyt: Cyt(5–6)Cyt = 166: 1: 0.25: 0.062.     

ATP-stimulated polymerase activity involving DNA polymerase I and a recB-dependent factor in extracts of Escherichia coli cells

ATP-stimulated DNA polymerase activity involving DNA polymerase I has been found to be present in cell extracts from wild type and recC mutant strains of Escherichia coli, but not in extracts from recB strain. The activity has been separated from recBC DNase by DEAE-cellulose ion exchange. It is suggested that recB-dependent factor is involved in the ATP-stimulation of polymerase. Evidence is provided that this stimulation may be due to the interaction of recB-dependent factor with DNA polymerase I.     

DIFFERENTIAL CAUSES OF MUTATION AND KILLING IN ESCHERICHIA COLI AFTER PSORALEN PLUS LIGHT TREATMENT: MONOADDUCTS AND CROSS-LINKS

Abstract— On treatment with 8-methoxypsoralen plus near UV light, an excisionless ( uvrB^- ) strain of Escherichia coli showed about 3– and 10 times higher sensitivities to killing and mutation, respectively, than its parental strain. On re-irradiation with near UV in the absence of unbound psoralen, the uvrB^- strain pretreated with psoralen plus near UV showed a decrease in both survival and mutation. After treatment with psoralen plus near UV, re-irradiation of T7 DNA in the absence of unbound psoralen caused an increase in the cross-linked fraction with an equivalent decrease in the non-cross-linked fraction. From these and previous results, we conclude that monoadducts produced by treatment with psoralen plus near UV are converted to cross-links by further irradiation and that, in E. coli , monoadducts are responsible for the mutation induced by psoralen-plus-light whereas cross-links are the major cause of its lethal action.     

PHOTOCHEMISTRY, PHOTOPHYSICS, AND MECHANISM OF PYRIMIDINE DIMER REPAIR BY DNA PHOTOLYASE

Abstract— DNA photolyases photorepair pyrimidine dimers (PyroPyr) in DNA as well as RNA and thus reverse the harmful effects of UV-A (320–400 nm) and UV-B (280–320 nm) radiations. Photolyases from various organisms have been found to contain two noncovalently bound cofactors; one is a fully reduced flavin adenine dinucleotide (FADH^-) and the other, commonly known as second chromophore, is either methenyltetrahydrofolate (MTHF) or 8-hydroxydeazaflavin (8-HDF). The second chromophore in photolyase is a light-harvesting molecule that absorbs mostly in the near-UV and visible wavelengths (300–500 nm) with its high extinction coefficient. The second chromophore then transfers its excitation energy to the FADH^-. Subsequently, the photoexcited FADH^- transfers an electron to the Pyr<>Pyr generating a dimer radical anion (Pyr<>Pyr^-) and a neutral flavin radical (FADH^-). The Pyr<>Pyr^- is very unstable and undergoes spontaneous splitting followed by a back electron transfer to the FADH^-. In addition to the main catalytic cofactor FADH^-, a Trp (Trp277 in Escherichia coli ) in apophotolyase, independent of other chromophores, also functions as a sensitizer to repair Pyr <> Pyr by direct electron transfer.     

INHIBITION OF DNA REPAIR AND PRODUCTION OF SINGLE-STRAND BREAKS IN ESCHERICHIA COLI BY REDUCTONE

Abstract— Reductone (HOCH₂COCHO), a keto-aldehyde produced by thermal degradation of some sugars, at alkaline pHs, blocks the excision repair of DNA lesions in uv-irradiated wild type Escherichia coli. This probably occurs as a result of inhibition of the exonucleolytic activity of DNA polymerase I. In addition, reductone alone induces DNA single-strand breaks. Repair of this damage is mainly dependent on the polA gene products.     

QUANTITATIVE EVIDENCE FOR ENZYMATICALLY-INDUCED DNA DOUBLE-STRAND BREAKS AS LETHAL LESIONS IN UV IRRADIATED pol+ AND polAl STRAINS OF E. COLI K-12

Abstract— We have recently reported that DNA double-strand breaks arise enzymatically during the course of excision repair in uvr ⁺ strains of Escherichia coli K-12. Survival curves for ultraviolet (UV) irradiated E. coli K-12 pol⁺ (JG139) and polA1 (JG138) strains have a pronounced shoulder region. The regions of the survival curves at which killing approaches exponential correspond to the fiuences at which DNA double-strand breaks (assumed to be lethal events) accumulate linearly. Reducing the number of UV photoproducts either by photoreactivation or fluence fractionation results in an increase in survival and a decrease in the yield of DNA double-strand breaks in both strains. These data support the hypothesis that enzymatically-induced DNA double-strand breaks may be the lesion ultimately responsible for UV-induced cell killing in the pol⁺ strain of E. coli K-12. and perhaps also in the polA1 strain.