Replication of kinetoplast DNA of Crithidia acanthocephali. I. Density shift experiments using deuterium oxide

Sequence organization in African trypanosome minicircles is defined by 18 base pair inverted repeats

We have found that minicircles of African trypanosomes contain 18 base pair sequences that occur as 3 or 4 pairs of imperfect inverted repeats. The 18 base pair sequence is polar; one half is almost perfectly conserved, while the other half has a more variable sequence. The distribution of the 18 base pair sequences in minicircles defines two classes of sequences ('A' and 'B' segments) that have distinct characteristics. 'A' segments vary considerably in length and contain about 10% more G+C than 'B' segments which are all about 100 base pairs long. The 18 base pair sequences are absent from minicircles of other kinetoplastids. Thus, 'B' segments along with their terminal 18 base pair sequences superficially resemble insertion sequences. Minicircles of African trypanosomes therefore conserve their organization but have only limited nucleotide sequence homology.

Homogeneous and heterogeneous mini-circle subpopulations in Trypanosoma cruzi kinetoplast DNA

The small circular components (mini-circles) from Trypanosoma cruzi kinetoplast DNA (kDNA) were cloned in the plasmid vector pBR325. These clones have been used before to demonstrate the rapid evolution of mini-circle subpopulations (S anchez , D.O., Frasch , A.C.C., Carrasco , A.E., Gonzalez Cappa , S.M., Isola , E. and Stoppani , A.O.M. (1984) Mol. Biochem. Parasitol ., in the press). We have now analyzed the cloned molecules and used them to study some structural characteristics of T. cruzi mini-circles and their distribution in total kDNA restriction endonuclease digests. Most molecules partially conserved TaqI, HaeIII and HapII site clusters (constant regions) separated by one-quarter of the total mini-circle length, also detected in total kDNA digests. In addition, in one of the cloned mini-circles, the constant region was present only once, instead of four times as expected. Outside the conserved regions, the mini-circles diverged enough so that no cross-hybridization took place even under relaxed conditions. The recombinant molecules were used to probe total kDNA digests from T. cruzi. Some of them hybridized with most restriction endonuclease kDNA fragments, while one cloned mini-circle ( pTck -14) detected only its homologous subpopulation. The mini-circles detected with the latter probe proved to be nearly homogeneous, and were present in the proportion of 1/20 molecules. These results suggest that some of the generated molecules might have acquired a higher replication rate, giving rise to the homogeneous subpopulation detected. Further mutations, insertions and/or deletions, together with recombination between molecules, would bring this process to an end.

Sequence heterogeneity and anomalous electrophoretic mobility of kinetoplast minicircle DNA from Leishmania tarentolae

Several unit-length minicircles from the kinetoplast DNA of Leishmania tarentolae were cloned into pBR322 and into M13 phage vectors. The complete nucleotide sequences of three different partially homologous minicircles were obtained. The molecules contained a region of approx. 80% sequence homology extending for 160-270 bp and a region unique to each minicircle . A 14-mer was found to be conserved in all kinetoplast minicircle sequences reported to date. The frequency distributions of various minicircle sequence classes in L. tarentolae were obtained by quantitative gel electrophoresis and by examination of the "T ladder" patterns of minicircles randomly cloned into M13 at several sites. By these methods we could assign approx. 50% of the total minicircle DNA into a minimum of five sequence classes. A sequence-dependent polyacrylamide gel migration abnormality was observed with several minicircle fragments both cloned and uncloned. The abnormality was dependent on the presence of a portion of the conserved region of the minicircle .

A unique ATP-dependent DNA topoisomerase from trypanosomatids

Crithidia fasciculata DNA topoisomerase (22) has been purified to near homogeneity from trypanosomatid cell extracts. The purified enzyme catalyzes the reversible interconversion of monomeric duplex DNA circles and catenanes in an ATP dependent reaction. Reversible catenane formation is affected by the ionic strength and is dependent upon the action of a crithidial DNA binding protein, which could be substituted for the polyamine spermidine. Covalently sealed DNA circles are specifically used as substrates for decatenation. Nicking, but not relaxation per se, inhibits network decatenation and has little or no effect on catenane formation. The catalytic properties of this enzyme and its potential role in the prereplication release and post replication reattachment of kDNA minicircles are discussed.

Reversible decatenation of kinetoplast DNA by a DNA topoisomerase from trypanosomatids

DNA topoisomerase activity detected in cell extracts of the trypanosomatid Crithidia fasciculata interlocks kinetoplast DNA duplex minicircles into huge catenane forms resembling the natural kinetoplast DNA networks found in trypanosomes. Catenation of duplex DNA circles is reversible and equilibrium is affected by ionic strength, and by spermidine. The reaction requires magnesium, is ATP dependent and is inhibited by high concentrations of novobiocin. Extensive homology between duplex DNA rings was not required for catenane formation since DNA circles with unrelated sequences could be interlocked into mixed network forms. Covalently sealed catenaned DNA circles are specifically used as substrates for decatenation. No such preference for covalently sealed duplex DNA rings was observed for catenate formation. Its catalytic properties and DNA substrate preference, suggest a potential role for this eukaryotic topoisomerase activity in the replication of kinetoplast DNA.

Sequences of two kinetoplast DNA minicircles of Tryptanosoma brucei

Kinetoplast DNA of Trypanosoma brucei is composed of a network of about 10,000 interlocked minicircle DNA molecules (1.0 kilobase) that are catenated with about 50 maxicircle DNA molecules (23 kilobases). Several different DNA . DNA hybridization techniques using individual minicircle DNA sequences cloned in Escherichia coli have indicated that each minicircle molecule contains about one-fourth of its sequence in common with most other minicircles and the remaining three-fourths in common with about 1 out of every 300 minicircles. We have determined the complete sequence of two cloned minicircle DNA molecules that were released from the total kinetoplast DNA network by different restriction enzymes; one minicircle is 1004 base pairs long, the other is 983 base pairs. Both are about 72% dA + dT. They share about 27% of their sequences; the largest continuous region in common is 122 base pairs of near-perfect homology. Twelve other regions of perfect homology equal to or greater than 10 base pairs are also present. Both sequences contain a large number of translation termination codons in all potential translation reading frames. The largest oligopeptide potentially specified by one minicircle sequence is 52 amino acids; the largest by the other minicircle sequence is 71 amino acids. One minicircle contains a decanucleotide sequence that is repeated in tandem five times. It is proposed that massive recombination among the interlocked minicircles in the kinetoplast DNA network may account for much of the homology observed in the two minicirce sequences.

A selected bibliography of biomedical and environmental applications of stable isotopes. I--Deuterium 1971-1976

A compilation of selected references to the use of deuterium in biochemical, pharmacological, clinical and environmental applications for the period 1971-1976 is presented. As a further aid, author and subject indices have been compiled.

Pulse-labeling of kinetoplast DNA: localization of 2 sites of synthesis within the networks and kinetics of labeling of closed minicircles

Short pulse-labeling of log phase Crithidia fasciculata cells with [3H]thymidine allowed the autoradiographic visualization of 2 sites of replication of kinetoplast DNA situated at the periphery of the networks and separated by 180 degrees. Longer pulse-labeling led to the previously reported total peripheral labeling pattern. Pulse-labeled networks possess an intermediate density in ethidium bromide-CsCl equilibrium gradients between the densities characteristic of closed networks and open or linear DNA. Removal of ethidium bromide by several methods and treatment of intermediate band networks with RNase and pronase had no effect on the equilibrium rebanding pattern. Closed minicircles of Leishmania tarentolae are not labeled by a short pulse of intact cells with [3H]thymidine. A chase of approximately 3-4 hr is required for the appearance of radioactivity in closed minicircles, a time delay which implies the existence of intermediate events between replication and eventual covalent closure of the minicircles.