Further studies with Vicia faba on the ends of experimentally produced chromatid fragments

In a recent study, when X-irradiated chromosomes of Vicia faba were treated with trypsin, we observed two types of ends of chromatid fragments, namely “open” and “closed” ends. To put this qualitative finding on a quantitative basis, the fraction of “open” ends among the total number of ends lassified was determined. It amounted to 58.1% (18/31). When the X-irradiation was replaced by treatment with an effective chromosome-breaking agent, namely FUdR (5-fluorodeoxyuridine), again both “open” and “closed” chromatid fragment ends were observed and a similar fraction of “open” ends was found, namely 43.2% (16/37).     

Elevated rates of sister chromatid exchange at chromosome ends

Chromosome ends are known hotspots of meiotic recombination and double-strand breaks. We monitored mitotic sister chromatid exchange (SCE) in telomeres and subtelomeres and found that 17% of all SCE occurs in the terminal 0.1% of the chromosome. Telomeres and subtelomeres are significantly enriched for SCEs, exhibiting rates of SCE per basepair that are at least 1,600 and 160 times greater, respectively, than elsewhere in the genome.     

Architecture of the Chinese hamster metaphase chromosome

The development of procedures for the isolation of unfixed metaphase chromosomes has made feasible a direct analysis of their morphology. Wholemount stereo electron microscopy was used to examine intact and partially disrupted chromosomes produced by physical shearing and extraction with salt and urea solutions. A model of chromosome architecture was developed to accommodate evidence from studies using both light and electron microscopy. In the proposed model the chromatid (anaphase chromosome) consists of two half-chromatids; each half-chromatid contains two deoxyribonucleoprotein ribbons wound into a single fiber (termed the core), with many loops of chromatin (termed epichromatin) attached along its length. The core ribbons are each about 50 Å thick by 4000 Å wide and are composed of many parallel deoxyribonucleoprotein strands. The epichromatin loops appear to be 250 Å supercoiled fibers containing about 75 per cent of the chromosomal DNA. The epichromatin can be selectively removed from the core fibers by extraction with 2.0 M NaCl or 6.0 M urea solutions.     

Suppressor studies on ilvI mutants of Saccharomyces cerevisiae

In order to answer the question whether with the X-ray induction of an achromatic lesion (a gap) an increase of the chromatid length is involved (e.g. by a localized failure of spiralization), the length ratios of 26 straight and 22 flexed metaphase chromosomes of Vicia faba were measured. (The length ratio is defined as the quotient between the length of the chromatid with a gap and that of its sister-chromatid without a gap.) Our results agree with the hypothesis that the induction of a gap does not increase the length of the chromatid. Remarkably in each of the 22 flexed chromosomes the gap was located at the “outer” chromatid. The bearing of our results on the nature of X-ray-induced achromatic lesions is discussed.     

Replication bypass model of sister chromatid exchanges and implications for Bloom's Syndrome and Fanconi's anemia

Summary A model of the sister chromatid exchange (SCE) process is outlined as a replication mechanism to bypass DNA crosslinks. The model suggests that when normal bidirectional replication advances from both sides towards a crosslink along the two opposite parental strands, the complementary parental strand segments can be temporarily displaced at each contralateral 5 side from the crosslink. The free ends produced in this first step will be terminally aligned but will have opposite polarity. The second step of the bypass can, however, be completed by either of two rejoining processes—terminal ligation of the free ends via nascent Okazaki pieces or aberrant complementation by overlapping the free ends. This bypass mechanism (1) allows replication to continue past a crosslink leaving it intact but (2) results in the switching of parental strands and their attached incomplete nascent strands above and below the crosslink site producing an exchange between sister chromatids. This model is compatible with the findings of current SCE studies using the new BUDR/stain techniques as well as with previous autoradiographic studies. It also suggests that the chromatid breaks and deletions in Fanconi's Anemia represent a defect in step two of the replication bypass mechanism and that the high frequency of SCE's and quadriradials in Bloom's Syndrome represent the SCE overload effects of a defect in crosslink repair.     

Involvement of chromatid cohesiveness at the centromere and chromosome arms in meiotic chromosome segregation: A cytological approach

Kinetochores and chromatid cores of meiotic chromosomes of the grasshopper species Arcyptera fusca and Eyprepocnemis plorans were differentially silver stained to analyse the possible involvement of both structures in chromatid cohesiveness and meiotic chromosome segregation. Special attention was paid to the behaviour of these structures in the univalent sex chromosome, and in B univalents with different orientations during the first meiotic division. It was observed that while sister chromatid of univalents are associated at metaphase I, chromatid cores are individualised independently of their orientation. We think that cohesive proteins on the inner surface of sister chromatids, and not the chromatid cores, are involved in the chromatid cohesiveness that maintains associated sister chromatids of bivalents and univalents until anaphase I. At anaphase I sister chromatids of amphitelically oriented B univalents or spontaneous autosomal univalents separate but do not reach the poles because they remain connected at the centromere by a long strand which can be visualized by silver staining, that joins stretched sister kinetochores. This strand is normally observed between sister kinetochores of half-bivalents at metaphase II and early anaphase II. We suggest that certain centromere proteins that form the silver-stainable strand assure chromosome integrity until metaphase II. These cohesive centromere proteins would be released or modified during anaphase II to allow normal chromatid segregation. Failure of this process during the first meiotic division could lead to the lagging of amphitelically oriented univalents. Based on our results we propose a model of meiotic chromosome segregation. During mitosis the cohesive proteins located at the centromere and chromosome arms are released during the same cellular division. During meiosis those proteins must be sequentially inactivated, i.e. those situated on the inner surface of the chromatids must be eliminated during the first meiotic division while those located at the centromere must be released during the second meiotic division.by D.P. Bazett-Jones     

Effects of temperature on sister chromatid exchanges

Summary The influence of temperature on sister chromatid exchanges was investigated, and the results are discussed in connection with factors possibly involved in temperature-induced SCE-formation.Whereas the SCE frequency increased with increasing growth temperature in a cell line of Xenopus laevis (EAX), which permits the examination of great temperature differences, a Chinese hamster cell line (V-79) revealed a U-shaped temperature-response curve. In addition, it was found that cold treatment at 4°C caused an induction of SCEs in the V-79 cell line.Different BrdU concentrations had no effect on the temperature-induced SCE frequencies and mitomycin C led to an induction of SCEs parallel to the base-line values at different temperatures.     

Incomplete sister chromatid separation of long chromosome arms

Chromosome segregation ensures the equal partitioning of chromosomes at mitosis. However, long chromosome arms may pose a problem for complete sister chromatid separation. In this paper we report on the analysis of cell division in primary cells from field vole Microtus agrestis, a species with 52 chromosomes including two giant sex chromosomes. Dual chromosome painting with probes specific for the X and the Y chromosomes showed that these long chromosomes are prone to mis-segregate, producing DNA bridges between daughter nuclei and micronuclei. Analysis of mitotic cells with incomplete chromatid separation showed that reassembly of the nuclear membrane, deposition of INner CENtromere Protein (INCENP)/Aurora B to the spindle midzone and furrow formation occur while the two groups of daughter chromosomes are still connected by sex chromosome arms. Late cytokinetic processes are not efficiently inhibited by the incomplete segregation as in a significant number of cell divisions cytoplasmic abscission proceeds while Aurora B is at the midbody. Live-cell imaging during late mitotic stages also revealed abnormal cell division with persistent sister chromatid connections. We conclude that late mitotic regulatory events do not monitor incomplete sister chromatid separation of the large X and Y chromosomes of Microtus agrestis, leading to defective segregation of these chromosomes. These findings suggest a limit in chromosome arm length for efficient chromosome transmission through mitosis.Electronic supplementary material Supplementary material is available in the online version of this article at and is accessible for authorized users.     

DNS-Gehalt und Chromosomenstruktur bei Amphibien

Comparative karyotype analysis and cytophotometric DNA measurements on further amphibian species (Hyla arborea, Bombina variegata, B. bombina, Triturus vulgaris, T. alpestris, and Salamandra salamandra) were carried out. The relative DNA values of the genomes determined for these species and other amphibians investigated earlier (Ullerich, 1966, 1967), already do nearly exclude the hypothesis that the interspecific differences in DNA content in frogs, toads, and salamanders are caused by differential polynemy of their chromosomes. Electron microscopic investigations on the DNA axes of lampbrush chromosomes of Bufo calamita, B. viridis, B. bufo, Rana esculenta, Bombina variegata, and Triturus alpestris treated with trypsin and ribonuclease confirm that the chromosomes of these species are not polynemic; in all species analysed the lampbrush chromosomes consist of the same number of DNA strands. The double-strandedness observed regularly in several segments of the chromatid axes in the loops as well as in the interchromomeric regions of all species suggest that the chromatids possibly are divided into half-chromatids. The minimum diameter of these two deoxyribonuclease-sensitive fibrills is 20–35 Å, whereas the chromatid axes in those segments which do not show double-strandedness mostly measure 40–65 Å. The high DNA amounts and interspecific differences in DNA content in the amphibian species analysed, probably in all amphibians, therefore must be caused during evolutionary processes by local increase (perhaps in a smaller extent also by-local decrease) in DNA in the chromosomes.     

Homology-mediated end-capping as a primary step of sister chromatid fusion in the breakage-fusion-bridge cycles

Breakage-fusion-bridge (BFB) cycle is a series of chromosome breaks and duplications that could lead to the increased copy number of a genomic segment (gene amplification). A critical step of BFB cycles leading to gene amplification is a palindromic fusion of sister chromatids following the rupture of a dicentric chromosome during mitosis. It is currently unknown how sister chromatid fusion is produced from a mitotic break. To delineate the process, we took an integrated genomic, cytogenetic and molecular approach for the recurrent MCL1 amplicon at chromosome 1 in human tumor cells. A newly developed next-generation sequencing-based approach identified a cluster of palindromic fusions within the amplicon at ∼50-kb intervals, indicating a series of breaks and fusions by BFB cycles. The physical location of the amplicon (at the end of a broken chromosome) further indicated BFB cycles as underlying processes. Three palindromic fusions were mediated by the homologies between two nearby inverted Alu repeats, whereas the other two fusions exhibited microhomology-mediated events. Such breakpoint sequences indicate that homology-mediated fold-back capping of broken ends followed by DNA replication is an underlying mechanism of sister chromatid fusion. Our results elucidate nucleotide-level events during BFB cycles and end processing for naturally occurring mitotic breaks.     

Species and “strange species” in zoology: Do we need a “unified concept of species”?

Eidonomy is the field of taxonomy, which addresses the “species problem”. The latter has several dimensions. The first is the confusions frequently made between species as an evolutionary unit, a taxon, a taxonomic category and a nomenclatural rank. The second is the reductionist temptation to recognize in nature only one kind of “basic entities” of biodiversity. From a practical viewpoint and for all non-systematist users of specific nomina, any animal organism should be referred to a taxon of nomenclatural rank species, designated by a Latin binomen. These nomina are indispensable for administrative and legal documents, for management and conservation of biodiversity, as well as for all biological research. But this does not imply that all these taxa should be referred to a single taxonomic category, a “unified concept of species”. In nature, several kinds of entities correspond to different “species concepts” or specions that are irreducible one to another. These categories can be defined according to the modalities of their reproduction, i.e., of their gametopoiesis (mode of formation of gametes), of their kinetogenesis (mode of initiation of the development of the ovum) and of the gene flow between individuals. The best known of these categories is that of mayron or “mixiological species concept”, which points to an independent bisexual panmictic entity, constituting a protected gene pool, but others do exist. In order to better understand their differences, it is useful to consider the various patterns of speciation. These can be referred to three main categories: monogeny (change within a single lineage), diplogeny (birth of two specions from a single one) and mixogeny (hybridization between two specions). The splitting in two of a single initial gene pool is a rather long process, which often shows different stages. The latter can be expressed taxonomically through the use of particular eidonomic categories. Speciation can be considered completed only when it has become irreversible in case of new contact between the two stocks after a period of separation. In allopatry, it is difficult or impossible to know if this stage has been reached. This is not a reason for abandoning the mixiological criterion for identifying sympatric or parapatric specions. In allopatry, the method of inference can be used and, in the absence of sufficient information, it is fully possible to use “by default” the “phylogenetic concept of species” or simpson. The situation is further complicated by the fact that some of the basic entities of biodiversity of hybrid origin, the kyons, are not mayrons, as they have particular reproductive modes. Contrary to isolated and “normal” hybrids, such entities may persist in the long term in nature. Their gametopoiesis implies either an ameiosis (mitoses) or a metameiosis (modified meiosis), and their kinetogenesis implies zygogenesis (fertilization), gynogenesis or parthenogenesis. Kyons are of two main categories. The klonons are unisexual female entities in which genetic transmission is clonal, reproduction being often through parthenogenesis, or following other mechanisms with similar results in genetic terms. The kleptons are unisexual or bisexual entities, which depend for their reproduction, at each generation, on a mayron or another klepton. Their metameiosis produces particular gametes, which start their development either by zygogenesis (zygokleptons), by gynogenesis (gynokleptons) or by a combination of both systems (tychokleptons). All these particular cases do not constitute, as it has long been believed, “evolutionary dead ends”. On the contrary, some of these forms are advantaged in some conditions, and may also, in some cases, be at the origin of allopolyploid specions. The latter include both “normal mayrons” or eumayrons (allotetraploid bisexual entities) and heteromayrons (allotriploid bisexual entities with metameiosis). Mayron, klepton, klonon and simpson, and their subcategories, are different taxonomic categories which correspond to a single nomenclatural rank, that of species. The existence of interspecific hybridization in nature is a very common phenomenon in animals, the importance of which has long been underestimated. Reticulous relationships between specions have played a major role in the scenario of evolution. This should be acknowledged by the rejection of the “universal tree of life” model for organic evolution and its replacement by a “network of life” model.     

Synaptonemal Complex und Chromosomenstruktur in der achiasmatischen Spermatogenese vonPanorpa communis (Mecoptera)

Meiotic prophase in the spermatocytes ofPanorpa communis was studied. There is a proper sequence of meiotic stages in the testes. Therefore the temporal development of chromosome structure and the synaptonemal complex (SC) could be studied exactly. The structure and function of the SC are interpreted in a new model.—The chromosomes have a lambrush form from leptotene to diakinesis. At leptotene each chromatid produces an additional axis of basic protein and RNA. The axis becomes one of the lateral elements of the SC. At pachytene the DNA of the bivalents is separated into three regions: 1. Most of the DNA forms long loops outside the SC. 2. Smaller portions of the DNA filaments are twisted around the lateral elements of the SC. 3. Short DNA loops (called pairing loops) extend into the pairing space. InPanorpa the SC is composed of two lateral elements (chromosome axes), which are connected by equally spaced transverse filaments, a ladder-like central element in the middle of the pairing space and, on each side of the pairing space parallel to the lateral elements, two RNA containing strands. These are regarded as connected RNA copies of the pairing loops and are responsible for the exact pairing of homologous chromosome segments. At diplotene the axes of the sister chromatids separate to form “double complexes” with four lateral elements. The double complexes of the oocytes contain only transverse filaments between the axes of the homologous chromatids. After a short time they disappear again and the homologues separate to form the chiasmatic bivalents. In the spermatocytes all four chromatid axes are connected by transverse filaments. The pairing complex persists until diakinesis, thereby causing the suppression of the diplotene stage in the light microscope. This may be the only reason for the achiasmatic meiosis in the spermatocytes ofPanorpa.     

Direct measurement of critical concentrations and assembly rate constants at the two ends of an actin filament

Actin filament bundles isolated from Limulus sperm were used for quantitative electron microscope studies of F-actin assembly. The assembly rate constants were calculated. In addition, the critical concentrations (C_os) for both filament ends were directly determined. In 75 mM KCI and 1–5 mM Mg⁺⁺, the C_os were 0.1 μM and 0.5 μM for the barbed and pointed ends, respectively. Substitution of Ca⁺⁺ (20–200 μM) for Mg⁺⁺ resulted in C_os of 0.4 μM for both filament ends. Consistent with these findings, filament growth occurred only from the barbed ends of Limulus bundles “seeded” into F-actin solutions in KCI and Mg⁺⁺. Finally, filaments originally grown from the pointed filament ends of Limulus bundles were gradually lost as the actin solution reached steady state. These results demonstrate that actin filaments can “treadmill” under physiological conditions, albeit at very slow rates.     

Helix-coil transitions in nucleoprotein: Computer-generated curves for independent melting of double-stranded regions with fixed ends

Helix-coil transitions in nucleoprotein at low salt concentrations are known to be characterized by two phases of the process: independent melting of uncomplexed “naked” regions without rearrangement of proteins, followed, at higher temperatures, by melting of complexed DNA. Blocking at the ends of these regions increases their thermal stability and three is a shift of 10–20°C in t_m of the melting profiles. In this study the basic assumption is that the loop entropy effect is mainly responsible for such stabilization. Calculations are made using conventional h-c transition theory for a system of independently melted segments with fixed ends. Segments are either homosize or have randomly distributed lengths. Calculated melting curves are used to obtain t_m, and transition width-dependence on segment length (or average length when randomly distributed) and on the nucleation parameter σ. Base-pair heterogeneity is taken into account by averaging over different base-pair distributions in the individual segments, using Gaussian distribution around the overall (G+C)-content. It is shown that this causes only an additional widening of the transition but no additional t_m shift. Comparison is made with similar systems in the literature. The main conclusion drawn is that the treatment proposed may be useful for analysis of the lower temperature melting phase in nucleoprotein at low counterion concentrations. It may be used as an independent method to reveal the features of nucleoprotein structure.     

A change in sister chromatid behavior precedes nuclear division in Saccharomyces cerevisiae

We used a genetic assay to monitor the behavior of sister chromatids during the cell cycle. We show that the ability to induce sister chromatid exchanges (SCE) with ionizing radiation is maximal in budded cells with undivided nuclei and then decreases prior to nuclear division. SCE can be induced in cells arrested in G2 using either nocodazole or cdc mutants. These data show that sister chromatids have two different states prior to nuclear division. We suggest that the sister chromatids of cir. III, a circular derivative of chromosome III, separate (anaphase A) prior to spindle elongation (anaphase B). Other interpretations are also discussed. SCE can be induced in cdc mutants that arrest in G2 and in nocodazole-treated cells, suggesting that mitotic checkpoints arrest cells prior to sister chromatid separation.     

Transposition of reversed Ac element ends generates novel chimeric genes in maize

The maize Activator/Dissociation (Ac/Ds) elements are members of the hAT (hobo, Ac, and Tam3) superfamily of type II (DNA) transposons that transpose through a “cut-and-paste” mechanism. Previously, we reported that a pair of Ac ends in reversed orientation is capable of undergoing alternative transposition reactions that can generate large-scale chromosomal rearrangements, including deletions and inversions. We show here that rearrangements induced by reversed Ac ends transposition can join the coding and regulatory sequences of two linked paralogous genes to generate a series of chimeric genes, some of which are functional. To our knowledge, this is the first report demonstrating that alternative transposition reactions can recombine gene segments, leading to the creation of new genes.     

A novel approach to characterize branching network: Application to termite tunnel patterns

We defined a novel “branch length similarity” (BLS) entropy, S, on a simple network consisting of a single node and branches. This simple network is referred to as “unit branching network” (UBN) because UBNs are components of larger networks. As an application of BLS entropy, we considered the characterization of termite tunnel patterns because termite tunnel patterns can be broken down into a collection of simple units consisting of a single node and branches. These simple units correspond to UBNs. To this end, in additional to the entropy, we introduced the standard deviation (σ) of the difference in S between UBNs connected by a single tunnel branch. Forty simulated tunnel patterns were created for each of two termite species, Reticulitermes flavipes (Kollar) and Coptotermes formosanus Shiraki. These patterns were projected into <S>–σ phase space in order to assess their topological properties. This approach showed that for R. flavipes, their coordinates were relatively more clustered than those of C. formosanus. This result reflected that these two species were differently constrained by emergent property resulting from simple worker's tunneling behavior. We believe that the approach proposed in this study can be a useful tool to explore termite tunnel systems, but not limited to termite system.     

Effect of caffeine on intrachromosomal distribution of chromatid aberrations induced by chemical mutagens in Crepis capillaris L

The intrachromosomal distribution patterns of chromatid aberrations induced by N-methyl-N-nitrosourethane (MNU), N-ethyl-N-nitrosourethane (ENU) and ethyleneimine (EI) were compared with those induced by combined treatment with the same mutagens and caffeine, the latter being considered as an inhibitor of post-replication repair of DNA.Chromatid aberrations induced by mutagens alone were distributed non-randomly along the chromosomes. In certain regions few aberrations were located; in others pronounced clustering of aberrations was observed and these regions were considered to be hot spots. This refers especially to MNU- and EI-induced aberrations, whereas ENU-induced chromatid aberrations showed a more length-proportional distribution. In ENU experiments, certain chromosomal segments also represented hot spots, but these were less pronounced. The distribution patterns of chromatid aberrations induced by combined treatment with mutagens and caffeine differed significantly from those observed in experiments with the mutagens only. There seemed to be a tendency to approach random distribution here. This was a result both of the decrease in the quantity of the aberrations in the regions, which in the experiments with mutagens only were hot spots, and of its increase in other chromosomal regions. Some of these regions were considered as hot spots but they were less pronounced. These tendencies refer to MNU and EI. Certain differences between the two variants, with the without caffeine, in ENU experiments were observed but these were of lower expressivity.The causes od differential sensivity of chromosomal regions are discussed. The conclusion is drawn that clustering of chromatid aberrations in certain chromosomal regions is due to differences in the repair systems acting in heterochromatic and euchromatic regions.     

Exonuclease VII is involved in “reckless” DNA degradation in UV-irradiated Escherichia coli

The recA mutants of Escherichia coli exhibit an abnormal DNA degradation that starts at sites of double-strand DNA breaks (DSBs), and is mediated by RecBCD exonuclease (ExoV). This “reckless” DNA degradation occurs spontaneously in exponentially growing recA cells, and is stimulated by DNA-damaging agents. We have previously found that the xonA and sbcD mutations, which inactivate exonuclease I (ExoI) and SbcCD nuclease, respectively, markedly suppress “reckless” DNA degradation in UV-irradiated recA cells. In the present work, we show that inactivation of exonuclease VII (ExoVII) by an xseA mutation contributes to attenuation of DNA degradation in UV-irradiated recA mutants. The xseA mutation itself has only a weak effect, however, it acts synergistically with the xonA or sbcD mutations in suppressing “reckless” DNA degradation. The quadruple xseA xonA sbcD recA mutants show no sign of DNA degradation during post-irradiation incubation, suggesting that ExoVII, together with ExoI and SbcCD, plays a crucial role in regulating RecBCD-catalyzed chromosome degradation. We propose that these nucleases act on DSBs to create blunt DNA ends, the preferred substrates for the RecBCD enzyme. In addition, our results show that in UV-irradiated recF recA⁺ cells, the xseA, xonA, and sbcD mutations do not affect RecBCD-mediated DNA repair, suggesting that ExoVII, ExoI and SbcCD nucleases are not essential for the initial targeting of RecBCD to DSBs. It is possible that the DNA-blunting activity provided by ExoVII, ExoI and SbcCD is required for an exchange of RecBCD molecules on dsDNA ends during ongoing “reckless” DNA degradation.     

Ultrastructural pattern of the nucleus of Entamoeba coli

The ultrastructural organization model of the nucleus of Entamoeba coli, as outlined on the basis of our electron microscope research, shows the following characteristics: (1) karyosome located eccentrically in the nucleoplasm (in the equatorial sections of the nucleus), the heterochromatin laid out in rough, tangled sinuous bands; (2) “ball of thread-like” formations at the level of the heterochromatin border; and (3) circular dark bodies falling into two morphological types on account of their size, the “larger inclusions” type being morphologically similar to the “button bodies” of Entamoeba histolytica according to Ludwik &; Shipstone (1970). Characteristic organized clumps of these structures have not been described before and are especially evident in the cystic nuclei. These findings are discussed in relation to the nuclear organization pictures given by E. histolytica, E. moshkovskii, and E. invadens under the electron microscope.