Nuclear DNA amplification in cultured cells of Oryza sativa L.

Zheng, Kl; Castiglione, Stefano; Biasini, M. G.; Biroli, A; Morandi, Carlo; Sala, F.

doi:10.1007/bf00290085

Cited by 60 publications

(21 citation statements)

References 19 publications

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“…However, changes affecting only a proportion of regenerants would probably have gone undetected in this experiment, and the process of regeneration may select against genomic variants produced in tissue culture. Other studies have demonstrated changes in the copy number of repeated DNA families in rice tissue culture (18,19).…”

Section: Resultsmentioning

confidence: 94%

Detection of DNA "fingerprints" of cultivated rice by hybridization with a human minisatellite DNA probe.

Dallas

1988

Proc. Natl. Acad. Sci. U.S.A.

176

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A human minisatellite DNA probe detects several restriction fragment length polymorphisms in cultivars of Asian and African rice. Certain fragments appear to be inherited in a Mendelian fashion and may represent unlinked loci. The hybridization patterns appear to be cultivar-specific and largely unchanged after the regeneration of plants from tissue culture. The results suggest that these regions of the rice genome may be used to generate cultivar-specific DNA fingerprints. The demonstration of similarity between a human minisatellite sequence and polymorphic regions in the rice genome suggests that such regions also occur in the genomes of many other plant species.The detection of restriction fragment length polymorphisms (RFLPs) by single-copy or cDNA probes has allowed the construction of linkage maps in some crop plants (1, 2) and the diagnostic identification of strains of commercial fungi (3). In these studies, the probes detecting RFLPs were isolated from random collections of single-copy DNA or cDNA sequences of each species. In cases where the level of RFLP detected by single-copy DNA sequences is low, hypervariable regions that are dispersed throughout the genome may provide more informative RFLP markers. Furthermore, such regions will be systematically detectable if they share sufficient sequence similarity between distantly related species. The approach taken in this study was to determine whether human minisatellite probes (4) can detect RFLPs in cultivated rice. The human minisatellite family (4, 5) consists of many dispersed arrays of short (10-to 50-basepair) tandem direct repeats that contain variants ofa common "core" sequence. The arrays exhibit a high degree of length variability, probably due to changes in the copy number of tandem repeats. The "polycore" probes, 33.6 and 33.15 (4), were chosen due to their ability to detect polymorphic regions in vertebrate genomes (4-9). The Asian and African cultivated rices, Oryza sativa and Oryza glaberrima, were chosen for their small genome size (0.6 pg ofDNA per haploid genome; ref. 10) and the availability of crosses and regenerated material. The former was expected to facilitate the detection of low levels of core sequence similarity. MATERIALS AND METHODSRice seeds were obtained from the International Rice Research Institute (Manila, Philippines) and from the Botany Department, University of Nottingham. Production of seed material from crosses and plant regeneration has been described (11, 12). Seeds were surface-sterilized by washing in 70% (vol/vol) ethanol for 10 min and 10% (vol/vol) domestic bleach for 30 min, followed by six washes in sterile distilled water. Seeds were germinated on MSO agar (13) and grown for 3-6 weeks (30'C, 18-hr light cycle). Genomic DNA was isolated by a rapid method devised for fungi (14). Restriction enzyme digests contained 3-5 pug of DNA and 10 units of restriction enzyme with the supplier's recommended buffer (Bethesda Research Laboratories), as well as 2 tig of RNase per ml and 4 mM spermidine trihydrochl...

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Section: Resultsmentioning

confidence: 94%

Detection of DNA "fingerprints" of cultivated rice by hybridization with a human minisatellite DNA probe.

Dallas

1988

Proc. Natl. Acad. Sci. U.S.A.

176

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“…However, other known mechanisms might play a role in our study as well, such as (a) a differential transposition of somatically active transposable elements, which have been described in, so far, both invertebrates and vertebrates [43,44] or (b) the presence of heritable changes involving DNA within a single generation that have been observed in the annual flax [45]. We cannot exclude from our consideration the possibility of environmentally induced changes of genome size, as these changes have been observed during cell culturing [46][47][48]. Also, observed genome size changes may have been associated (not necessarily directly selected for) with changes in cell volume and/or in karyoplasmatic ratio.…”

Section: Selection For Genome Size In Cyclamen?mentioning

confidence: 96%

Genome size microscale divergence of Cyclamen persicum in Evolution Canyon, Israel

et al. 2008

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Using DAPI flow cytometry, we examined genome size divergence of the Persian violet, Cyclamen persicum (Primulaceae) (2n=48) on close opposite slopes of Evolution Canyon (EC), Mt. Carmel, Israel. The range of genome size variation detected among measured cyclamens was 6.41% in relation to the smallest measured DNA content. Our data on C. persicum at EC showed that local variability in the 2C-value exists. Significantly less DNA was recorded in plants growing in one station of the African savannah-like south-facing slope (AS) but not in the remaining two stations of the same slope. We were not able to reject the null hypothesis that there are no significant interslope differences in the genome size between the temperate European garrigue-like north-facing slope (ES) and the drier AS. In spite of the nonsignificant interslope trend for the higher genome size in C. persicum, the data-fusion (meta-analysis) test using correlations between C-values in C. persicum, and earlier studied carob tree (Ceratonia siliqua), trifoil (Lotus peregrinus) and a beetle (Oryzaephilus surinamensis) and their distribution along the aridity gradient indicates a positive relationship between drought and genome size at the microsite.

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“…Such rearrangements can be of two types, first, loss of hybridization fragments characteristic for one of the parental species, or second, the occurrence of new fragments which are not present in the parental genomes. Several investigations have shown that amplification and deletion of chromosomal regions or specific DNA sequences is a common reaction of plant genomes to various stress factors (ZHENG et al 1987;LAPI-TAN et al 1988;MOORE and SINK 1988;KIDWELL and OSBORN 1993).…”

Section: Discussionmentioning

confidence: 99%

“…Species-specific DNA probes were first used for the identification of somatic hybrids by SAUL and POTRYCUS (1984). Such studies mostly describe amplification and deletion of repetitive DNA sequences (ZHENG et al 1987;LAPITAN et al 1988). These effects are usually explained by the stress influence of in vitro cultivation.…”

mentioning

confidence: 99%

Molecular Analysis of the Genomes of Wide Hybrids in Cereals

Svitashev¹,

Вершинин²,

Trunova³

et al. 2004

Hereditas

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The structural organization of various highly repetitive DNA sequences from barley (H. vulgare) and rye (S. cereale) were studied by blot‐hybridization in hybrids of Hordeum × Secale, the tri‐generic hybrid H. vulgare × T. timopheevii × S. cereale, and regenerants of the tri‐generic hybrid after in vitro cultivation. The set of repetitive DNA sequences used proved to be valuable as molecular markers for the analysis of the hybrid genetic material. Use of the probes permitted the identification of each generation during wide crossing and following backcrosses. Structural rearrangements of certain repetitive sequences were revealed, which were probably generated by such stress factors as wide crosses and in vitro cultivation. New RFLP patterns, not found in the parental species, arose on two occasions, once in a backcross of the hybrid H. geniculatum × S. cereale, once in a regenerant of the tri‐generic hybrid. When the hybrid H. genicula‐tum × S. cereale was backcrossed to S. cereale, new hybridization fragments, characteristic of the wild barley species H. jubatum were discovered. Changes in the structural organization of several repetitive sequences are described, while the non‐random nature of these rearrangements is discussed.

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Nuclear DNA amplification in cultured cells of Oryza sativa L.

Cited by 60 publications

References 19 publications

Detection of DNA "fingerprints" of cultivated rice by hybridization with a human minisatellite DNA probe.

Detection of DNA "fingerprints" of cultivated rice by hybridization with a human minisatellite DNA probe.

Genome size microscale divergence of Cyclamen persicum in Evolution Canyon, Israel

Molecular Analysis of the Genomes of Wide Hybrids in Cereals

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