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  • 1
    Electronic Resource
    Electronic Resource
    Expansion of the IR in the chloroplast genomes of buckwheat species is due to incorporation of an SSC sequence that could be mediated by an inversion (1997)
    Springer
    Current genetics 31 (1997), S. 276-279 
    Details
    ISSN: 1432-0983
    Keywords: Key words Buckwheat ; Chloroplast DNA ; Inversion ; Inverted repeats
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The chloroplast genomes in buckwheat species contain large inverted repeats which are at least 4 kbp longer than the majority of those in land plants. The length of the buckwheat inverted repeats was attributable to an additional region located adjacent to the borders of the small single-copy region. We have cloned and sequenced a 5.2-kbp SmaI fragment corresponding to this extra region in the inverted repeats. A homology search revealed that the sequence of the SmaI fragment is highly homologous to one side of the small single-copy region of the inverted repeats in dicot chloroplast DNAs such as tobacco and beechdrops. Interestingly, a 3.7-kbp segment in the middle of the SmaI fragment is inserted in the opposite orientation relative to those of the other dicot species, and 17-bp direct repeats are found located at both the ends of the additional region. These results suggest that expansion of the inverted repeats in buckwheat chloroplast DNA might have been associated with an inversion.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s002940050206
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  • 2
    Electronic Resource
    Electronic Resource
    Physical mapping of differences between the chloroplast DNAs of Beta vulgaris and B. webbiana (1995)
    Oxford, UK : Blackwell Publishing Ltd
    Plant breeding 114 (1995), S. 0 
    Details
    ISSN: 1439-0523
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: A physical map of Beta webbiana (a wild species of the section Pro-cumbentes) chloroplast genome was constructed by localizing the cleavage sites of SmaI, PstI, PvuII, XhoI, and HindIII, and the map was then aligned with the map of sugarbeet (B. vulgaris) chloroplast DNA. This alignment shows 27 restriction-site changes and 11 insertions/deletions, most of which occur in the large single-copy region of the genome. A 0.7-kb long mutation, located within an unidentified open reading frame (ORF2280) in the inverted repeat, was also found.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1111/j.1439-0523.1995.tb01251.x
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  • 3
    Electronic Resource
    Electronic Resource
    Chloroplast DNA diversity in the cytoplasms of sugar beet and its related species
    Amsterdam : Elsevier
    Plant Science Letters 36 (1984), S. 231-235 
    Details
    ISSN: 0304-4211
    Keywords: Beta ; chloroplast DNA ; phylogenetic relationship ; restriction endonuclease
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1016/0304-4211(84)90174-3
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  • 4
    Electronic Resource
    Electronic Resource
    Ubiquity of the genes for components of a NADH dehydrogenase in higher plant chloroplast genomes
    Amsterdam : Elsevier
    Plant Science 47 (1986), S. 181-184 
    Details
    ISSN: 0168-9452
    Keywords: NADH dehydrogenase ; broad bean ; chloroplast ; gene ; rice ; sugar beet
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0168-9452(86)90176-7
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  • 5
    Electronic Resource
    Electronic Resource
    Tam3 in Antirrhinum majus is exceptional transposon in resistant to alteration by abortive gap repair: identification of nested transposons (1998)
    Springer
    Molecular genetics and genomics 259 (1998), S. 468-474 
    Details
    ISSN: 1617-4623
    Keywords: Key words Abortive gap repair ; Antirrhinum majus ; Nested transposons ; Structural conservation ; Tam3
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Most transposon families consist of heterogeneous copies with varying sizes. In contrast, the Tam3 copies in Antirrhinum majus are known to have exceptionally conserved structures of uniform size. Gap repair has been reported to be involved in the structural alteration of copies from several transposon families. In this study, we have asked whether or not gap repair has affected Tam3 copies. Five Tam3 copies carrying aberrant sequences were selected from 40 independent Tam3 clones and their sequences were analyzed. Two of the five copies contain insertions in the Tam3 sequence. These two insertions, designated Tam356 and Tam661, are typical transposon-like sequences, which have terminal inverted repeats and cause target site duplication. These nested transposons were obviously associated with transpositional events, and did not originate from the gap-repair process. The remaining three copies had lost large parts of the Tam3 sequence. We could not find any relationship between the deletions of Tam3 sequence in the three copies and gap repair. PCR analysis of a Tam3 excision site in the nivea recurrence:Tam3 mutant also showed that most of the repair events after the Tam3 excision involved end-joining. In addition to the results obtained here, among the other clones isolated, we could not find any of the internally deleted copies that comprise a major part of other transposon families. All of these data suggest that some feature of the Tam3 structure suppresses the structural alterations that are otherwise generated during the gap repair process.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s004380050837
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  • 6
    Electronic Resource
    Electronic Resource
    Organelle genome diversity in sugar beet with normal and different sources of male sterile cytoplasms (1985)
    Springer
    Theoretical and applied genetics 71 (1985), S. 166-171 
    Details
    ISSN: 1432-2242
    Keywords: Sugar beet ; Cytoplasmic male sterility ; Mitochondrial and chloroplast DNAs ; Restriction endonuclease fragment analysis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Mitochondrial (mt) and chloroplast (ct) DNAs from sugar beet lines carrying normal and introduced sources of male sterile cytoplasms have been characterized and compared on the basis of restriction enzyme analysis. Normal cytoplasm was shown to contain mt and ctDNAs which differed from those of the male sterile cytoplasms examined in the present investigation. On the other hand, four groups of male sterile cytoplasms could be differentiated by their own characteristic mtDNA digest patterns, while two were separated by ctDNA comparisons. In addition, a greater degree of variability of the mitochondrial genome is suggested. Our results also imply strict maternal inheritance of mt and ctDNAs. Thus, the organelle DNA assay provides a positive and alternative means of identifying various male sterile cytoplasms.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00252051
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  • 7
    Electronic Resource
    Electronic Resource
    Immobilized copies with a nearly intact structure of the transposon Tam3 in Antirrhinum majus: implications for the cis-element related to the transposition (1997)
    Springer
    Theoretical and applied genetics 95 (1997), S. 1246-1251 
    Details
    ISSN: 1432-2242
    Keywords: Key words Antirrhinum majus ; Subterminal region ; Tam3 ; Terminal inverted repeats ; The immobilized copy ; Transposon
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  In this study we have focused on two copies of the transposon Tam3 isolated from an Antirrhinum majus plant which has flower variegation due to the excision of Tam3 from the nivea locus. These two copies possess a high homology, over 95%, to an active Tam3 element found in the nivea recurrence:Tam3 allele. Although somatic excision of the Tam3 copy from the nivea locus can be detected at 15°C by Southern blotting, neither of the two copies showed any sign of the excision. Both of the immobilized copies were also found in five varieties from different A. majus sources, all of which contain common fragments. The results suggest that the two copies have been fixed in the genomes of many A. majus varieties. Structural differences between these immobilized copies and the known active copy were mainly observed in the subterminal regions, including the terminal inverted repeats. The immobility of the two Tam3 copies might be due to mutations within the end regions of essential cis-elements in Tam3 transposition, as reported for Ac and En/Spm.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050688
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  • 8
    Electronic Resource
    Electronic Resource
    Beta chloroplast genomes: analysis of Fraction I protein and chloroplast DNA variation (1987)
    Springer
    Theoretical and applied genetics 73 (1987), S. 330-336 
    Details
    ISSN: 1432-2242
    Keywords: Beta ; Fraction I protein ; Chloroplast DNA ; Comparative restriction site mapping ; Phylogenetic relationship
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The interrelationships of Beta chloroplast genomes have been investigated on the basis of the analysis of Fraction I protein and chloroplast (ct) DNA. Three groups of the chloroplast genomes could be demonstrated by the difference in isoelectric points of the large subunit of Fraction I protein. Restriction enzyme analysis revealed inter- and intra-specific variations among the ctDNAs, which enabled us to detect seven distinct ctDNA types. In Vulgares and Corollinae species, the observed differences were physically mapped taking advantage of the restriction fragment map available for sugar beet (B. vulgaris) ctDNA. The DNA variations were found to result either from gains or losses of restriction sites or from small deletions/ insertions, and most of them were located in the large single-copy region of the genome. Moreover, the ctDNAs from Patellares species are more diverged from those of other Beta taxa. Our results also indicate that there is a close correlation between the chloroplast genome diversity and the accepted taxonomic classification of the species included in this survey.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00262497
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  • 9
    Electronic Resource
    Electronic Resource
    Structural differences in the vicinity of the waxy locus among the Oryza species with the AA-genome: identification of variable regions (2000)
    Springer
    Theoretical and applied genetics 100 (2000), S. 376-383 
    Details
    ISSN: 1432-2242
    Keywords: Key words AA-genome ; BAC clone ; Oryza species ; The waxy locus ; Variable regions
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  We constructed a fine physical map for a 260-kb rice BAC contig surrounding the waxy locus. In order to identify variable regions within this 260-kb as to the restriction fragments length polymorphisms and copy numbers, sixty overlapping fragments derived from the 260-kb contig were used as probes to compare their corresponding structures among the Oryza species with AA-genome. According to the hybridization patterns, each fragment was classified into four types; true single copy (class 1), single copy with a smear background (class 2), multiple copy without a smear background (class 3), and only a smear background (class 4). Out of 16 single copy (class 1 and class 2) regions obtained in this map, the one site corresponding to wx gave rise to remarkable polymorphisms among AA-genome species in Oryza. In most of the fragments observed as repetitive segments (class 4), we could not find obvious differences in the hybridization pattern. However, interestingly, one site sorted into class-3 showed copy numbers varying among the lines. The lines belonging to O. sativa O. rufipogon, O. meridionalis,and O. longistaminata possessed high-copy numbers of this fragment, whereas only a few bands were detected in the lines from O. glaberrima, O. barthii, and O. glumaepatula. The two variable regions found within the AA-genome species represented genomic dynamisms.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050049
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