Reverse differential staining of sister chromatids after substitution with BUdR and incubation in sodium phosphate solution

Chinese hamster strain cells were cultured in the presence of BUdR and air-dried on slides. The chromosome preparations were incubated in 1 M NaH₂PO₄ at 88 °C for 4–6 min and stained with Giemsa. The reverse type of sister chromatid differential staining occurred, in which unifilarly BUdR-substituted chromatids stained faintly and bifilarly substituted chromatids stained darkly. Feulgen reaction performed on the same chromosomes after removing Giemsa stain showed the same type of differential staining.     

Topographic examination of sister chromatid differential staining by nomarski interference microscopy and scanning electron microscopy

BrdU-substituted Chinese hamster chromosomes were treated with a hot Na₂HPO₄ solution and stained with Giemsa to produce sister chromatid differential staining (SCD). The process of SCD was examined with the Nomarski differential interference microscope and the scanning electron microscope. After the Na₂HPO₄ treatment alone, unifilarly BrdU-substituted (TB) chromatids appeared somewhat more severely collapsed than the bifilarly substituted (BB) chromatids. Subsequent Giemsa staining, however, brought about pronounced piling up of the Giemsa dye on the TB-chromatids but not on the BB-ones, causing highly distinct differential Giemsa staining as well as a marked differentiation in surface topography between the sister chromatids. Removal of the Giemsa dye from the differentially Giemsa stained chromosomes resulted in a disappearance of such a pronounced topographic differentiation.     

Sister chromatid differentiation after in situ detection of ultraviolet-induced DNA breaks under electron microscopy

Summary— Chinese hamster DON cells with 5-bromodeoxyuridine (BrdU)-substituted chromosomes were ultraviolet (UV)-exposed and processed for in situ detection of induced DNA breaks under electron microscopy. For this purpose, UV-induced breaks were amplified by an exonuclease III digestion to obtain single stranded DNA motifs which could hybridize with oligonucleotides of random sequences. These reannealed motifs could be used as primers which were extended by the Klenow polymerase, incorporating biotinylated-dUTP that was detected by a gold-tagged streptavidin. After processing, the chromatid whose DNA was BrdU-substituted in one strand showed a higher electron density than the chromatid substituted in both strands. In contrast, the unifilarly substituted chromatid showed about twice the labelling of DNA breaks as the bifilarly substituted one. This result could be the consequence of a greater loss of chromatin tracts in the bifilarly substituted chromatid, as implied by an X-ray microanalysis which showed that the amount of phosphorous lost by the bifilarly substituted chromatid was higher than that of the unifilarly substituted chromatid.     

Involvement of sulfhydryl groups of chromosomal proteins in sister chromatid differentiation

The fluorescence of human lymphocyte chromosomes stained with sulfhydryl group-specific fluorochromes is markedly enhanced by a mild near-ultraviolet irradiation pretreatment, indicating breakage of protein disulfide bonds. When metaphase preparations of cells cultured in the presence of BrdU during two cell cycles are irradiated and subsequently stained with the sulfhydryl group-specific fluorescent reagents used in this study, a differential fluorescence of sister chromatids is observed. After staining with the DNA-specific fluorochrome DAPI an opposite pattern of lateral differentiation appears. It can be concluded that the chromatid containing bifilarly BrdU-substituted DNA has a higher content of sulfhydryl groups than the chromatid containing unifilarly BrdU-substituted DNA. This implies a more pronounced effect of breakage of disulfide bonds in the chromatid with the higher degree of BrdU-substitution. BrdU-containing chromosomes pretreated with the mild near-ultraviolet irradiation procedure used by us, do not show any differentiation of sister chromatids after Feulgen staining. Using sulfhydryl group-specific reagents, differential fluorescence of sister chromatids could still be induced by irradiation with near-ultraviolet light after the complete removal of DNA from the chromosomes by incubation with DNase I. Thus, the protein effect of irradiation of BrdU-containing chromosomes takes place independently of what occurs to DNA.Our results indicate that subsequent to the primary alteration of chromatin structure caused by the incorporation of BrdU into DNA, breakage of disulfide bonds of chromosomal proteins might play an important role in bringing about differential staining of sister chromatids, at least for those procedures that use irradiation as a pretreatment or prolonged illumination during microscopic examination.     

Sister chromatid differential staining by direct staining in Na2HPO4-Giemsa solution and the mechanism involved

The direct staining of BrdU-substituted Chinese hamster chromosomes in a Na₂HPO₄-Giemsa solution without any pretreatments resulted in a B-dark type SCD in which bifilarly substituted (BB) chromatids stained dark and unifilarly substituted (TB) chromatids stained light. Detailed examinations of the staining process suggested that the Na₂HPO₄ solution acts to collapse chromosomes whereas the Giemsa dye works to reconstruct the collapsed chromosomes, and that during the reconstruction process preferential binding of the Giemsa dye to the BB-chromatids occurs to produce the B-dark SCD. It was revealed that not only the time but the temperature at which chromosome preparations are kept prior to use considerably affect the occurrence of SCD.     

Dansyl chloride-stained nucleolar organizers and core-like structures in Chinese hamster metaphase chromosomes

When chromosomes containing both BrdU-substituted and unsubstituted regions were treated with hot NaH₂PO₄ at high or low pH and then stained with dansyl chloride, brightly fluorescent nucleolar organizer regions (NORs) and core-like structures were apparent in the chromosomes. These structures closely parallel the appearance of the same structures in silver-stained chromosomes. Since dansyl chloride is a protein-specific fluorochrome, the distribution of fluorescence suggests that the NORs and central zone of each chromatid contain higher concentrations of protein relative to other chromosome regions. The fluorescent core structures are interpreted to be artefacts of the NaH₂PO₄ pretreatment induced by changes in the concentration of chromatin (including protein) between the chromatin-dense center and more dispersed peripheral region of each chromatid.     

Reverse differential staining of sister chromatids induced by Hoechst plus black light and endonuclease

A differential Giemsa staining between sister chromatids was obtained by treating chromosomes replicated twice in medium containing 5-bromodeoxyuridine (BrdU) with Hoechst 33258 plus black light at 55 degrees C (HB pretreatment) and deoxyribonuclease (DNase) I, II, or micrococcal nuclease. In this staining pattern the BrdU bifilarly substituted chromatids were darkly and the unifilarly substituted chromatids lightly stained. This staining pattern was obtained only by staining the HB-DNase I-treated chromosomes with Giemsa and methylene blue, not by several other dyes tested. Relatively more DNA labelling was removed from the non-BrdU-substituted than the BrdU-substituted chromosomes, when the HB-pretreated chromosomes were digested with DNase I. But the protein labelling was not removed appreciably in the same treatment. The differential DNase I sensitivity between the non-BrdU-substituted and BrdU-substituted chromosomes disappeared when the HB-pretreated chromosomes were incubated with proteinase K before The DNase I digestion. Moreover, no differential DNase I sensitivity was found between the HB-pretreated isolated DNA containing and not containing BrdU. We propose that during the HB pretreatment, more DNA-protein cross-linkings are induced in BrdU bifilarly substituted than the unifilarly substituted chromatids. This structure protects the chromosomal DNA against the DNase I digestion. Thus, a reverse differential Giemsa staining between sister chromatids is obtained by the HB-DNase I treatment.     

Dotted chromosomes produced in sodium phosphate solution supersaturated with NaHCO3

Dotted chromosomes were consistently produced in both BrdU and non-BrdU substituted Chinese hamster cells after treatment with 1.0 M Na-phosphate solution, adjusted to pH 9.0 with a supersaturating amount of NaHCO₃, and at a temperature of 80–95° C. — A series of changes in chromosome morphology was produced as the temperature of the solution was progressively increased. In BrdU-treated cells, G-banding and differentially stained sister chromatids were sequentially produced prior to the appearance of dots. In non-BrdU treated cells, only G-banding was produced before dot formation. In general, the patterns of dots correspond to the G-banding patterns. — Chromatids, with uni- or bifilarly BrdU substituted DNA or with normal DNA, required differential temperatures for the production of dots. Since the temperature required for dot formation was always slightly higher than that required for producing differentially stained chromatids, this phenomenon can be used as an important indicator for determining the optimal temperature required for revealing differentially stained chromatids.     

Differential giemsa staining of sister chromatids after extraction with acids

Chromosomes of Chinese hamster strain cells were air-dried on slides after BrdU substitution for two or three rounds of replication. The preparations were treated with 20% PCA at 55 degrees C for 20-30 min, or 5N HCl at 55 degrees C for 15-20 min. After staining with Giemsa, unifilarly BrdU-substituted chromatids stained faintly and bifilarly substituted chromatids stained darkly. Such a pattern of sister chromatid differential staining was confirmed by the examination of metaphase cells grown with BrdU for three rounds of replication.     

Effects of bromodeoxyuridine substitution on metaphase chromosome structures examined by scanning electron microscopy

Chinese hamster chromosomes were differentially substituted with 50 M 5-bromodeoxyuridine (BrdU) to obtain chromosomes with bifilarly and unifilarly substituted (BB-TB) and unifilarly and non-substituted (TB-TT) chromatid constitutions. To avoid the effect of Giemsa staining on the ultrastructure of chromosomes, unstained preparations were exclusively used. When TB-TT chromosomes were prepared with the conventional air-drying method followed by the osmium tetroxide-thiocarbohydrazide (OsO₄-TCH) technique and examined by scanning electron microscopy (SEM), the TB-chromatid appeared somewhat more slender and showed more conspicuous spiral structures, thereby appearing more loosened compared to the TT-chromatid. At higher magnifications, however, 30 nm chromatin fibres which were seen to constitute both chromatids showed no discernible differences in dimension between the TT- and TB-chromatids. On the other hand, TB-TT chromosomes specially prepared for SEM without the process of air-drying appeared in their entirety less extended and no spiral configuration was observed even in the TB-chromatid. The TB-chromatid instead appeared rather less loosened than the TT-chromatid whereas thick fibre-like structures which in turn seemed to consist of 30 nm fibres were more easily discernible in the TT-chromatid compared to the TB. Such seemingly contradictory results obtained from the two different preparatory procedures were tentatively explained on the basis of our multiple coiling model (Taniguchi and Takayama 1986).     

Reverse sister chromatid differential staining by Coomassie Brilliant Blue R-250

A sister chromatid differential staining pattern is observed if chromosomes replicate for two cycles in the presence of 5-bromodeoxyuridine (BUdR) and are subsequently stained in Hoechst 33258, irradiated with black light, and then stained in Coomassie Brilliant Blue R-250. In this pattern the chromatids containing DNA that is bifilarly substituted with BrdUrd are darkly stained and the chromatids with DNA that is unifilarly substituted are lightly stained. This staining pattern is the reverse of that found when slides are stained in Hoechst plus Giemsa. Slides stained with either Giemsa or Coomassie Blue can be destained and restained repeatedly with the other stain to alternate the pattern observed.     

Differential giemsa staining of sister chromatids and the study of sister chromatid exchanges without autoradiography

Chinese hamster ovary cells grown for two rounds of DNA replication in the presence of BrdUrd contain sister chromatids that fluoresce differentially when stained with Hoechst 33258. If such fluorescent treatments are followed by incubation in 2 X SSC or water at 62° C and staining in 3% Giemsa, the chromosomes now contain one dark (unifilarly substituted) chromatid and one light (bifilarly substituted) chromatid, i.e. are harlequinized. These preparations do not fade and can be studied without resorting to fluorescence microscopy. Sister chromatid exchanges (SCE's) are seen with great clarity and resolution; and all the chromosomes in a cell can be scored, which is contrary to the usual experience with autoradiography. It was found that a) the yield of SCE's is dependent upon the concentration of BrdUrd in which the cells are grown and that the maximum number of SCE's that can occur spontaneously is 0.15 per chromosome per division cycle, b) the yield of SCE's doubles if the cells are exposed to visible light that can cause the photolysis of BrdUrd-containing DNA, and c) chromosomes that appear isolabelled in autoradiographic preparations come from observable multiple exchanges and are not the result of the segregation of DNA from a binemic chromosome. Furthermore, the staining patterns obtained in endoreduplicated cells clearly confirm that the polynucleotide strands of the DNA segregate into sister chromatids as though the newly synthesized strands were laid on the outside of the replicating double helix.     

The mechanism responsible for reciprocal BrdU-Giemsa staining

Cytological and biochemical experiments were undertaken to elucidate the mechanisms responsible for the reciprocal Giemsa staining of BrdU-substituted and unsubstituted chromosome regions subjected to high or low pH NaH₂PO₄ treatments. These experiments included staining of chromosome preparations with ethidium bromide (EB), acridine orange (AO), or dansyl chloride, digestion of BrdU-substituted and unsubstituted chromatin with pancreatic DNase I, and SDS polyacrylamide gel electrophoresis of the proteins extracted from, and those remaining in isolated, fixed, air-dried nuclei subjected to either NaH₂PO₄ treatment. The collective evidence from this and previous work clearly indicates that, although the staining reactions following the different pH treatments are reciprocal, the mechanisms of induction of the staining effects are not. After the high pH treatment, BrdU-substituted and unsubstituted chromosome regions are palely and intensely stained with Giemsa, respectively. This treatment preferentially solubilizes BrdU-substituted DNA, probably as a result of the photolysis or high temperature hydrolysis of BrdU-DNA. Concomitantly, this treatment selectively denatures the BrdU-DNA. The reduction in the amount of DNA in the BrdU regions leads to a quantitative decrease in Giemsa-dye binding, resulting in pale staining relative to unsubstituted regions. The extraction of BrdU-substituted DNA does not appear to simultaneously extract much chromosomal protein. After the low pH treatment, BrdU-substituted and unsubstituted regions appear intensely and palely stained with Giemsa, respectively. BrdU substitution greatly increases the binding affinity of histone H1 to DNA, and the low pH treatment preferentially extracts the less tightly bound H1 of the unsubstituted chromatin. This extraction of H1 is presumably responsible for the preferential dispersion of unsubstituted DNA outside the boundaries of the chromosome onto the surrounding area of the slide. The unsubstituted chromosome regions subsequently stain relatively palely with Giemsa, because the DNA in these regions is more dispersed than that in the BrdU-substituted regions. The low pH treatment concomitantly denatures the unsubstituted DNA.     

Nuclease activity in human metaphase chromosomes substituted with 5′-bromodeoxyuridine

Human metaphase chromosomes, substituted with 5-bromodeoxyuridine (BrdUrd) for one, two or three rounds of replication, were briefly pretreated with ultraviolet light (UV), in the presence of 33258 Hoechst, and subsequently digested with either exonuclease III or S1 nuclease. Pretreatment alone was not sufficient to induce sister chromatid differential staining (SCD), but allowed subsequent digestion with exonuclease III or S1. Such enzymes were found to induce SCD with ethidium bromide, as unifilarly BrdUrd-substituted chromatids (TB) were more resistant than bifilarly substituted chromatids (BB). Other experiments with DNase I or the AluI and HaeIII restriction endonucleases showed that only HaeIII was capable of inducing SCD by attacking BB more than TB chromatids preincubated with UV in the presence of Hoechst. SCD with exonuclease III/S1 nuclease seems to be due to (1) UV-induced DNA debromination occurring twice in BB as opposed to TB chromatids, and (2) alteration of chromatin protein structure occurring to a different extent in differently BrdUrd-substituted chromatids. Our findings with endonucleases, on the contrary, may depend on the capacity of enzymatic cleavage to cancel the different protein alterations induced differentially by UV in TB as opposed to BB chromatids.     

Effects on chromosomal proteins in sister chromatid differentiation by incorporation of 5-bromodeoxyuridine into DNA

When fixed metaphase chromosomes of human lymphocytes grown in the presence of BrdUr for two cell cycles were stained with amino group-specific 2-methoxy-2,4-diphenyl-3(2H)furanone (MDPF) after a previous extraction of DNA, sister chromatids showed a light-independent differential staining. Although more faintly differential, a similar staining pattern being just the reverse of the DNA-specific DAPI pattern was obtained without prior removal of DNA. We conclude that the chromatid containing bifilarly BrdUr-substituted DNA has a higher protein content, at least after fixation, than the chromatid containing unifilarly BrdUr-substituted DNA. Possibly, a higher degree of BrdUr substitution leads to a tighter binding of chromosomal proteins. In line with this suggestion we found a markable difference in DNA extractability of BrdUr-containing and normal cytological preparations.     

Considerations on the mechanism of differential Giemsa staining of BrdU-substituted chromosomes

Summary The staining properties of unifilarly bromodeoxyuridine (BrdU)-substituted chromatids were compared using fluorescent-plus-Giemsa (FPG) staining methods. It was found that the staining intensity of chromatids which had incorporated BrdU in the next to last S-phase is less than that of chromatids whose BrdU-containing strand came from the last cell cycle. Thus, FPG-staining is not a function of the number of BrdU-substituted DNA strands alone. These findings lead to the conclusion that the primary point of action of PFG staining leading to sister chromatid differentiation (SCD) are chromosomal proteins which have been altered in the replication of BrdU-substituted DNA and that the demonstration of the SCD and replication patterns with the same staining procedure is based on different mechanisms.     

Identification of late DNA-replicating regions in Chinese hamster chromosomes using a BrdU-giemsa technique

Asynchronous Chinese hamster cells were labelled with BrdU for 3 h prior to harvesting the metaphase cells. The late DNA replicating sites became unifilarly BrdU-substituted as compared to the earlier replicating sites having a normal DNA constitution. Those late replicating sites were identified by pale coloration or dot formation after treatment with 1.0 M Na-phosphate solution (adjusted to pH 9.0 with supersaturated amount of NaHCO₃ and at a temperature of 69–75° C) and staining with Giemsa dye. Using this technique, nuclei with incorporated BrdU could be distinguished from nuclei that had not incorporated BrdU. — One of the advantages of using this technique for identification of late DNA replicating sites is that cells are treated continuously with BrdU for a short period of time before harvesting and only one sampling, rather than a series of samplings, is required to achieve a clear-cut result.     

Two opposite types of sister chromatid differential staining in BUdR-substituted chromosomes using tetrasodium salt of EDTA

The direct staining of BUdR-substituted Chinese hamster chromosomes in a 4Na-EDTA-Giemsa solution resulted in a B-dark type of sister chromatid differential staining (SCD) in which bifilarly substituted chromatids stained dark. On the other hand, when BUdR-substituted chromosomes were pretreated with a 4Na-EDTA solution and then stained with Giemsa, a B-light type SCD was obtained in which bifilarly substituted chromatids stained light.     

DNA lysis is involved in the simplified fluorescence plus Giemsa method for differential staining of sister chromatids

The DNA labelling of the bifilarly 5-bromodeoxyuridine- to-substituted chromatid decreased relative to that of the unifilarly substituted chromatid with increasing duration of HB pretreatment (Hoechst 33258 plus black light at 55° C). Sister chromatid differential staining was detected by Giemsa as well as a DNA-specific dye, ethidium bromide, after 4 s of HB pretreatment. The contrast of sister chromatid differential staining was improved with increased duration of HB pretreatment or by incubation with exonucleases. Hydrogen donors such as cysteamine, cysteine, and L-ascorbic acid inhibited the HB pretreatment, but this inhibition could be overcome by increasing the duration of HB pretreatment.     

Differential silver carbonate staining of sister chromatids in BrdU-substituted chromosomes

Summary Differential staining of sister chromatids in BrdU-substituted human chromosomes is demonstrated by an ammoniacal silver carbonate procedure. With this method the chromosomes exhibit a subchromatid structure. Because proteolytic treatment indicated that the silver carbonate binds the chromosome proteins, changes of these components may be inferred in the BrdU-substituted chromosomes. Sister chromatid exchanges could be identified.This study was supported in part by research grant 12/119/77 from the Instituto Nacional de Previsión (Seguridad Social).