The problem of cytoplasmic DNA: its extrusion/uptake by cultured cells and its possible role in cell-cell information transfer

Cancer progression mediated by horizontal gene transfer in an in vivo model

It is known that cancer progresses by vertical gene transfer, but this paradigm ignores that DNA circulates in higher organisms and that it is biologically active upon its uptake by recipient cells. Here we confirm previous observations on the ability of cell-free DNA to induce in vitro cell transformation and tumorigenesis by treating NIH3T3 recipient murine cells with serum of colon cancer patients and supernatant of SW480 human cancer cells. Cell transformation and tumorigenesis of recipient cells did not occur if serum and supernatants were depleted of DNA. It is also demonstrated that horizontal cancer progression mediated by circulating DNA occurs via its uptake by recipient cells in an in vivo model where immunocompetent rats subjected to colon carcinogenesis with 1,2-dimethylhydrazine had increased rate of colonic tumors when injected in the dorsum with human SW480 colon carcinoma cells as a source of circulating oncogenic DNA, which could be offset by treating these animals with DNAse I and proteases. Though the contribution of biologically active molecules other than DNA for this phenomenon to occur cannot be ruled out, our results support the fact that cancer cells emit into the circulation biologically active DNA to foster tumor progression. Further exploration of the horizontal tumor progression phenomenon mediated by circulating DNA is clearly needed to determine whether its manipulation could have a role in cancer therapy.

An extracellular DNA mediated bystander effect produced from low dose irradiated endothelial cells

The human umbilical vein endothelial cells culture was exposed to X-ray radiation in a low dose of 10cGy. The fragments of extracellular genomic DNA (ecDNA(R)) were isolated from the culture medium after the short-term incubation. A culture medium of unirradiated endothelial cells was then supplemented with ecDNA(R), followed by analysing the cells along the series of parameters (bystander effect). The exposed cells and bystander endotheliocytes showed similar response to low doses: approximation of the 1q12 loci of chromosome 1 and their transposition into the cellular nucleus, change in shape of the endotheliocytic nucleus, activation of the nucleolus organizing regions (NORs), actin polymerization, and an elevated level of DNA double-stranded breaks. Following blockade of TLR9 receptors with oligonucleotide-inhibitor or chloroquine in the bystander cells these effects - except of activation of NORs - on exposure to ecDNA(R) disappeared, with no bystander response thus observed. The presence of the radiation-induced apoptosis in the bystander effect being studied suggests a possibility for radiation-modified ecDNA fragments (i.e., stress signaling factors) to be released into the culture medium, whereas inhibition of TLR9 suggests the binding these ligands to the recipient cells. A similar DNA-signaling pathway in the bystander effect we previously described for human lymphocytes. Integrity of data makes it possible to suppose that a similar signaling mechanism which we demonstrated for lymphocytes (humoral system) might also be mediated in a monolayer culture of cells (cellular tissue) after the development of the bystander effect in them and transfer of stress signaling factors (ecDNA(R)) through the culture medium.

The virtosome-a novel cytosolic informative entity and intercellular messenger

Studies on a range of prokaryote and eukaryote cells and tissues have shown that a newly synthesized DNA/RNA-lipoprotein complex is released in a regulated manner. This complex, termed a virtosome, is a novel cytosolic component of eukaryote cells. The released virtosomes can readily enter other cells where they can modify the biology of the recipient cells. Such modifications include immunological changes and transformation from normal to cancer cells. The virtosomes form a normal component of the circulating nucleic acids in plasma and serum currently used for clinical diagnostic purposes. Given the transformative powers of virtosomes released from tumour cells, the presence of such a complex in human plasma could readily offer the basis of an alternative mechanism for the initiation of metastases.

A new biodosimetric method: branched DNA-based quantitative detection of B1 DNA in mouse plasma

A simple and accurate method for measuring the biological effects of radiation is of increasing importance, especially in mass casualty scenarios. We have therefore developed a new biodosimetric technique targeting circulating B1 DNA in mouse plasma by branched DNA signal amplification for rapid quantification of plasma DNA. This technology targets repetitive elements of the B1 retrotransposon in the mouse genome, followed by signal amplification using Panomics Quantigene 2.0 reagents. Evaluation was conducted concerning precision, accuracy and linearity. Plasma samples were collected from mice 0-24 h after 0-10 Gy total body irradiation (TBI). The average inter- and intra-assay coefficients of variance were 8.7% and 12.3%, respectively. The average recovery rate of spiked DNA into plasma was 89.5%. This assay revealed that when BALB/c and NIH Swiss mice were exposed to 6 Gy TBI, plasma B1 DNA levels increased significantly at 3 h post-TBI, peaked at 9 h and gradually returned toward baseline levels in 24 h. A dose-dependent change in plasma DNA was observed at 9 h post-TBI; the dose-response relation was monotonic, exhibiting linearity for BALB/c mice from 3 to 6 Gy (r = 0.993) and NIH Swiss mice from 3 to 7 Gy (r = 0.98). This branched DNA-based assay is reliable, accurate and sensitive in detecting plasma B1 DNA quantitatively. A radiation dose-correlated increase in plasma B1 DNA was demonstrated in BALB/c and NIH Swiss mice in the dose range from 3 to 6 Gy, suggesting that plasma B1 DNA has potential as a biomarker for radiation biological effect.

Circulating DNA: intracellular and intraorgan messenger?

The circulation of both foreign and endogenous DNA within plants and its ability to be expressed in the host plants and FI generation is described. These data, together with those from animal systems are used to support the concept that a DNA fraction can act as a messenger between cells and tissues.

Circulating nucleic acids (CNAs) and cancer--a survey

It has been known for decades that it is possible to detect small amounts of extracellular nucleic acids in plasma and serum of healthy and diseased human beings. The unequivocal proof that part of these circulating nucleic acids (CNAs) is of tumor origin, initiated a surge of studies which confirmed and extended the original observations. In the past few years many experiments showed that tumor-associated alterations can be detected at the DNA and RNA level. At the DNA level the detection of point mutations, microsatellite alterations, chromosomal alterations, i.e. inversion and deletion, and hypermethylation of promoter sequences were demonstrated. At the RNA level the overexpression of tumor-associated genes was shown. These observations laid the foundation for the development of assays for an early detection of cancer as well as for other clinical means.

Low-molecular-weight DNA in blood plasma as an index of the influence of ionizing radiation

Low-molecular-weight DNA (180 bp) appears in blood plasma of irradiated rats. Its amount correlates directly with the irradiation dose. The cloned low-molecular-weight DNA is enriched with G/C pairs (48% compared with 40% in the rodent genome). Computer search against EMBL data showed that the sequence of these clones is homologous to various genomic repetitive elements. The program for identification of nucleosome-positioning sequences in eukaryotic nuclear DNA has shown that low-molecular-weight DNA fragments are able to form rather sustainable nucleosomes and have some peculiarity. The difference in the composition of low-molecular-weight DNA isolated from blood plasma of rats after irradiation at doses of 8 and 100 Gy consisted of the change in the levels of two dinucleotides (CpG and CpT). The DNA in question originates from different types of cells.

In vitro stimulation by tumour cell media of [3H]-thymidine incorporation by mouse spleen lymphocytes

Mouse spleen lymphocyte (SL) cells show a three to four-fold increase in [3H]-thymidine incorporation when incubated in tumour cell media, or in media containing tumour cell cytosol. Agarose gel chromatography of both [3H]-thymidine-labelled tumour cell media and cytosol shows a sharp peak of DNA-associated material eluting at about 60 kDa. This DNA-associated material is imported rapidly and efficiently by SL cells and is recoverable from their cytosol. The stimulating effect on SL cell thymidine incorporation resides primarily, if not exclusively, in this extruded/cytosolic 60 kDa DNA material. Tumour cells incubated in media containing normal or liver, but not tumour, cytosol show a reduced rate of [3H]-thymidine incorporation, indicating competition between normal and tumour associated DNA complexes. The results indicate that such cell-extruded DNA complexes may transmit 'genetic messages' to other cells, and are discussed in terms of interactions in the tumour-bearing host.

Extracellular nucleic acids as possible messengers in regulatory information transfer from immune system to non-lymphoid tissues

The goal of this review is to connect the information on the regulation of growth and differentiation of non-lymphoid tissues by the immune system and the release/uptake of nucleic acids by living cells (especially by lymphocytes). Nucleic acids are suggested to be the messengers in regulatory information transfer from the immune system to other cells.

The search for the DNA of the chick embryo fibroblast cytosolic complex

1. Conventional DNA extraction procedures have failed to release free DNA from the chick embryo fibroblast cytosolic DNA-RNA complexes. 2. Free DNA has been released only from the smallest cell cytosol DNA fraction, which is not in the native state associated with RNA: it is very small (of the order of 100 bases) and single stranded. 3. However, phenol extraction does separate complex DNA-associated material from the RNA which has invariably been found to accompany it in all but the smallest fraction (see 2 above). 4. The principal factor preventing DNA release appears to be a massive aggregation of partially purified DNA-associated material.

The chick embryo fibroblast cytosolic DNA complex--a possible cell-cell messenger

1. The uptake of [3H]thymidine and [3H]uridine labelled DNA-RNA cytosol complex has been studied in chick embryo fibroblast cells. 2. The complex appears to be cleaved into DNA and RNA containing fragments in the recipient cell nucleus: both then enter the cell cytosol fraction, but the RNA fragment in particular is rapidly degraded. 3. Although [3H]thymidine labelled material present in the nucleus co-extracts with bulk nuclear DNA, caesium gradienting shows little or no evidence that integration of host and imported DNA has occurred. 4. It is suggested that the cytosolic/extruded DNA complex may be a "messenger" DNA, capable of the transfer of regulatory information between cells on a transient basis.

A reverse transcriptase-like activity of wheat (Triticum aestivum) embryo microsomal fraction

A reverse transcriptase-like activity was isolated from germinating wheat (Triticum aestivum) embryos. The activity was found to be associated with a microsomal fraction (70,000 g pellet) of the embryo homogenate. The microsome-associated enzyme prefers homologous polyadenylated RNA to any other polynucleotides as template and requires all four deoxyribonucleoside triphosphates for maximal activity. The reaction product appears in the incubation mixture in the form of an RNA-DNA hybrid, which can be converted into single-stranded DNA by mild alkaline hydrolysis. These observations suggest that normal wheat embryo cells contain an enzyme which, functionally, is similar to retroviral reverse transcriptase.

The triplet code: is it enough?

It is suggested that the triplet code dogma that the role of DNA as an information carrier can only be defined in terms of a code for amino acids embodied in the sequence of nucleotides, is inadequate to encompass the totality of information/instruction/organisation necessary for the maintenance of living systems. It is proposed that, as a minimum, a second independent but complementary mechanism is necessary involving direct DNA--DNA intercommunication. Further, that this mechanism may operate on the basis of a chemically switched microprocessor network system with individual DNA sequences able to act as individual microprocessors.

The assembly of the DNA complex present in chick embryo cell cytosol

Chromatography of chick embryo fibroblast cytosol labelled with [3H]thymidine or [3H]uridine precursors has shown the presence of early labelled DNA and RNA eluting at a position corresponding to a relative molecular mass of approximately 1.5-10(5). The early DNA-RNA (heteroduplex?) then moves progressively to a higher molecular weight peak, relative molecular mass approximately 10(6). The process appears similar in cytosol from cultured cells and from whole amniotically labelled chick embryos: consequently the cytosolic DNA complex is not an artefact of cell culturing. The relative contribution of artefactual and specific cytosol-associated DNA material is discussed: it is concluded that while both are present in cytosol as prepared, it is possible to discriminate between specific and artefactual DNA material.

The nature of the scrapie agent

There now seems little doubt that the infective agent of scrapie cannot be accommodated within current concepts of virology/molecular biology. It is proposed: that the basic infective entity is a nucleic acid fragment (oligonucleotide) of some 40 bp coupled with specific (but host encoded) protein totalling approximately 10(5) daltons, a significant proportion of which is in the form of proteolipid; that the nucleic acid fragment reprograms the host cell on the chemically switched microprocessor network analogy already proposed; that the nucleic acid fragment has no initiation sequence for replication: it is therefore non-infective; that the nucleic acid fragment can replicate when associated with the specific protein component because the resulting complex is able to displace mobile genetic element flanking sequences (similar to the yeast delta sequence). The function of the protein is to provide a scaffolding which allows the nucleic acid fragment to be assimilated into the replication cycle of the mobile genetic element as a whole.

Further studies on the size and composition of the chick embryo fibroblast cytosolic DNA complex

The chick embryo fibroblast cytosolic DNA complex shows anomalous elution behaviour on agarose gel column chromatography. The indicated molecular size varies between 5 X 10(5) dalton (higher exclusion limit gels) and 1.4 X 10(6) dalton (lower exclusion limit gels). Chromatography on lower exclusion limit gels shows the [3H]thymidine labelled (DNA) complex as a sharp peak, coincident with a peak of [3H]uridine and [3H]lysine labelling and similar pulse labelling patterns for the three precursors but with DNA labelling lagging behind RNA and protein. Both cultured and uncultured cell cytosols show an A260 peak coincident with the [3H]precursor labelling peaks.