Article

Variability of rDNA loci in dioecious Rumex acetosa L. detected by fluorescence in situ hybridization

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Abstract

Rumex acetosa is a dioecious plant with a XX/XY1Y2 sex chromosome system. The molecular cytogenetic organization of the 5S rDNA and ITS rDNA on the chromosomes of male and female plants of R. acetosa was investigated by multi-color fluorescence in situ hybridization (McFISH). Different patterns of the FISH signals were observed between the male and female plants depending on the probes, 5S and 17S rDNA. In the female plants, two distinctive types of signals were observed based on the number of 17S rDNA signals, showing one or two pairs on the somatic metaphase chromosomes. In contrast, the signals in the male plants were observed on one of the homologous chromosomes or between the homologous chromosomes with a different size. One pair of 5S rDNA signals was commonly observed in both the male and female plants. This is the first report to identify the diversity of the rDNA FISH patterns in dioecious plants.

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... The fluorescent staining allowed the identification of repetitive sequences (AT-rich, GC-rich and rDNA) in chromosomes of R. acetosa and provided a starting point for comparative studies of other Rumex species [Ruiz Rejon et al., 1994;Shibata et al., 1999Shibata et al., , 2000aLengerova and Vyskot, 2001;Koo et al., 2004;Mosiołek et al., 2005;Navajas-Pérez et al., 2006;Cuñado et al., 2007]. In the research described here, C-banding/DAPI and CMA 3 /DA/ DAPI were used for the first time for making a detailed characterization of the karyotype structure in R. thyrsiflorus . ...
... It has been shown that in plants NORs were almost always CMA 3 -positive [Guerra, 2000]. The presence of 45S rDNA sites on the fifth autosome pair has been demonstrated in R. acetosa by, among others, Koo et al. [2004] and Mosiołek [2005]. Moreover, Lengerova and Vyskot [2001] revealed that rDNA located on this chromosome is hypermethylated and inactive. ...
... In R. thyrsiflorus , the GC-rich chromatin was also observed on the longer arm of the fourth autosome. In R. acetosa , 2 loci of 5S rDNA were evidenced in this chromosome arm [Koo et al., 2004;Mosiołek, 2005]. It is also interesting that segments of AT-rich chromatin in the smallest autosomes, though polymorphic or absent in R. acetosa [Wilby and Parker, 1988b; our observations], appear to be a permanent element of the R. thyrsiflorus genome, which resembles the situation described in R. papillaris [Navajas-Pérez et al., 2009a]. ...
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The object of this work was to analyze the karyotype structure of Rumex thyrsiflorus using differential fluorescent methods of chromosome staining (C-banding/DAPI and CMA3/DA/DAPI) and molecular sex markers. The results obtained were compared with data on the structure of the sex chromosomes and autosomes in R. acetosa, a model species in studies of sex determination and sex chromosome evolution in plants with an XX/XY1Y2 system. A high level of similarity was found in the sex chromosome structure of the 2 species, along with small differences in their autosomal complexes. It suggests that differentiation of these 2 closely related species was not accompanied by major structural changes within their sex chromosomes. Molecular tests, however, revealed differences in the composition of male-specific repetitive sequence RAYSII, occurring in the Y1 chromosome. Amplification of this sequence showed the presence of a single product (∼700 bp) in R. acetosa and of 2 products (∼600 bp and ∼700 bp) in R. thyrsiflorus. The longer product (∼700 bp) was also revealed in R. arifolius, another species closely related to R. acetosa. The shorter DNA fragment, characteristic of R. thyrsiflorus, differed from the common product by of a large indel with a length of 110 bp. This fragment may serve as a species-specific molecular marker useful in taxonomical and population studies as well as in further research on the sex chromosome differentiation in R. thyrsiflorus.
... Previous research determining the number and location of 5S and 35S ribosomal DNA loci distribution in Polygonaceae does not show a clear tendency of 5S or 35S loci to be in higher or lower abundance than the other; in Fagopyrum and Persicaria most species present more 35S than 5S loci (Choi et al. 2008;Kikuchi et al. 2008;Sheng et al. 2013), while in Rumex it is the other way round (Koo et al. 2004;Kim et al. 2006). Nevertheless, the number of rDNA sites detected for Calligonum is consistent with the most commonly found numbers in angiosperms. ...
... Two authors have determined the number and location of the 35S and 5S rRNA loci in Polygonaceae, also finding a variation in the number of the rDNA sites in Fagopyrum esculentum: Kikuchi et al. (2008) reported the presence of six signals of both 35S and 5S rDNA, but Sheng et al. (2013) detected eight 35S rDNA and four 5S rDNA sites. A considerable variation in rDNA loci number was also identified in the species Rumex acetosa: according to Kim et al. (2006), it presented four 35S and 5S rDNA sites, while Koo et al. (2004) showed two 5S rDNA sites and three to four 35S rDNA sites. Many other examples outsides family Polygonaceae can be found showing that intraspecific variation in the number of rDNA loci is a common finding (Garcia et al. 2012). ...
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Most Calligonum species are desert plants, characteristic of the Saharan bioclimatic region. All species karyologically analyzed until present have the basic chromosome number x = 9 and comprise diploids, triploids and tetraploids. The Tunisian flora comprises diploid Calligonum arich and C. azel, of restricted distribution, and the tetraploid C. comosum with wider distribution. Analyses of their karyotypes and polyploidisation-linked rDNA changes by orcein staining, fluorochrome banding with chromomycin A3 and fluorescent in situ hybridisation with 5S and 26S ribosomal DNA probes have been performed. We report the chromosome number for Calligonum arich (2n = 18) as well as the diploid level for C. comosum for the first time. Chromosome counts have also verified the earlier described tetraploid cytotype (2n = 36) of C. comosum. A general pattern of six GC-rich bands as well as two 35S sites and four 5S sites is described for Calligonum species at the diploid level although there is intraspecific variation regarding the site number in a second type of C. comosum, with one pair of 35S rDNA sites and two pairs of 5S rDNA sites. The tetraploid cytotype of C. comosum has undergone locus loss and genome downsizing. Genome size assessments confirmed previous data. Nonetheless, statistically significant differences were found depending on the type of tissue used for estimation. Measurements from seeds had always larger values than from leaves. The presence of cytosolic compounds in leaves, interfering with DNA staining, is discussed as a possible cause of the differences.
... During the compilation of the data, it was often observed that acrocentric chromosomes had rDNA sites on the short arm, as for example in species of Ipheion [35], Nothoscordum [34,46], Rumex [47] , and Alstroe- meria [48] . To assess whether the short arm of acrocentric chromosomes is a especially preferred region for rDNA cluster location, 266 species with single site or multiple sites having at least one acrocentric chromosome per karyotype were analyzed. ...
Article
Background 45S rDNA sites are the most widely documented chromosomal regions in eukaryotes. The analysis of the distribution of these sites along the chromosome in several genera has suggested some bias in their distribution. In order to evaluate if these loci are in fact non-randomly distributed and what is the influence of some chromosomal and karyotypic features on the distribution of these sites, a database was built with the position and number of 45S rDNA sites obtained by FISH together with other karyotypic data from 846 plant species. Results In angiosperms the most frequent numbers of sites per diploid karyotype were two and four, suggesting that in spite of the wide dispersion capacity of these sequences the number of rDNA sites tends to be restricted. The sites showed a preferential distribution on the short arms, mainly in the terminal regions. Curiously, these sites were frequently found on the short arms of acrocentric chromosomes where they usually occupy the whole arm. The trend to occupy the terminal region is especially evident in holokinetic chromosomes, where all of them were terminally located. In polyploids there is a trend towards reduction in the number of sites per monoploid complement. In gymnosperms, however, the distribution of rDNA sites varied strongly among the sampled families. Conclusions The location of 45S rDNA sites do not vary randomly, occurring preferentially on the short arm and in the terminal region of chromosomes in angiosperms. The meaning of this preferential location is not known, but some hypotheses are considered and the observed trends are discussed.
... This fusion must have occurred between the centromeres of two acrocentric chromosomes and resulted in the loss of their short arms, since no 45S rDNA signal were observed in the extra metacentric chromosomes. Fusion of acrocentric chromosomes bearing nucleolar organizer regions on their short arms, with the loss of ribosomal sites, has been reported in several other genera such as Lillium (Muratović et al., 2005) and Rumex (Koo et al., 2004). In Nothoscordum, Robertsonian translocations seems to be a common phenomenon and may also have occurred between acrocentric and metacentric chromosomes, as in N. arenarium (Souza et al., 2009) and in four individuals of N. gracile from Santa Maria (Brazil) which have a metacentric chromosome with a proximal CMA band on one of its arms. ...
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Nothoscordum gracile is an apomitic tetraploid widely distributed throughout the Americas and naturalized in many temperate regions of other continents. It has been suggested to form a species complex with sexual and apomictic N. nudicaule and N. macrostemon. Tetraploids of these species also share a structurally heterozygous chromosome complement 2n = 19 (13M + 6A). In this work, the origin of N. gracile and its relationships with its related species was investigated based on cytological and molecular data. Cytogenetic analyses were based on meiotic behaviour, CMA bands, localization of 5S and 45S rDNA sites, and genomic in situ hybridization (GISH). Nuclear ITS and plastidial trnL-trnF sequences were also obtained for most individuals. Proximal CMA bands were observed in the long arms of all acrocentrics of 2x and 4x N. macrostemon but not in diploid and some tetraploid cytotypes of N. nudicaule. Samples of N. gracile showed a variable number of CMA bands in the long arms of acrocentrics. Analysis of ITS sequences, dot-blot, GISH, and 5S and 45S rDNA sites, revealed no differentiation among the three species. The trnL-trnF cpDNA fragment showed variation with a trend to geographical structuring irrespective of morphospecies and fully congruent with karyotype variation. The 2n = 19 karyotype was probably formed by a centric fusion event occurring in N. nudicaule and later transmitted to tetraploid cytotypes of N. macrostemon. Diploids of N. nudicaule and N. macrostemon appeared as consistent recently diverged species, whereas tetraploid apomicts seem to constitute an assemblage of polyploid hybrids originating from multiple independent hybridization events between them, part of which are morphologically recognizable as N. gracile.
... The tetraploid R. acetosella had four 45S rDNA loci and two 5S rDNA loci in different chromosomes (Figure 2A). In R. acetosa, the 45S ribosomal unit was present in two autosomal loci (Figure 2C), while there is one 5S rDNA locus (Koo et al. 2004). Both Southern-blot hybridization and PCR amplification techniques demonstrated the presence of RAE180 satellite-DNA sequences in the three species analysed (seeFigure 5). ...
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The dioecious plant Rumex acetosa has a multiple sex chromosome system: females are 2n = XX + 12, males are 2n = XY1Y2 + 12, and the two Y chromosomes are heterochromatic. A DNA sequence abounded in the mare genome was isolated and analyzed. The sequence (RAE180) was a 180-bp-long tandemly arranged repetitive sequence, distributed in chromosomes Y1 and Y2, and two pairs of autosomes. Both Y chromosomes contained large amounts of RAE180 and the sequence formed many DAPI bands, while, on the two pairs of autosomes, RAE180 did not form DAPI bands. The internal structure and morphological changes of the Y chromosomes were analyzed by FISH, using RAE180 and the Y-chromosome-specific sequence RAYSI as probes. The pattern of the FISH signals caused by the accumulation of RAE180 and RAYSI suggested the structural change in the Y chromosomes during the process of sex chromosome evolution, and the morphological change in the Y chromosomes was explained by reciprocal translocation and inversion.