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  • 1
    Electronic Resource
    Electronic Resource
    Comparative Analysis of Different DNA Extraction Protocols: A Fast, Universal Maxi-Preparation of High Quality Plant DNA for Genetic Evaluation and Phylogenetic Studies (1998)
    Springer
    Plant molecular biology reporter 16 (1998), S. 69-86 
    Details
    ISSN: 1572-9818
    Keywords: cpDNA ; DNA extraction ; fingerprinting ; forest trees ; M13 fingerprinting ; method ; PCR ; rDNA ; RFLP ; rhododendron ; plant
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Four DNA extraction protocols were compared for ability to produce DNA from the leaves or needles of several species: oak, elm, pine, fir, poplar and maize (fresh materials) and rhododendron (silica dried or frozen material). With the exception of maize and poplar, the species are known to be difficult for DNA extraction. Two protocols represented classical procedures for lysis and purification, and the other two were a combination of classical lysis followed by anion exchange chromatography. The DNA obtained from all procedures was quantified and tested by PCR and Southern hybridisation.Test results indicated superiority of one of the four protocols; a combination of CTAB lysis followed by anion exchange chromatography which enabled DNA extraction from all seven species. A second protocol also produced DNA from leaves or needles of all species investigated and was well suited for PCR applications but not Southern hybridisations. The remaining protocols produced DNA from some but not all species tested. Abbreviations: CTAB, hexadecyltrimethylammonium bromide; EtOH, Ethanol; TBE, tris-borate-EDTA.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1023/A:1007428009556
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  • 2
    Electronic Resource
    Electronic Resource
    Molecular phylogeny of mangroves VII. PCR-RFLP of trnS-psbC and rbcL gene regions in 24 mangrove and mangrove-associate species (2000)
    Springer
    Theoretical and applied genetics 100 (2000), S. 454-460 
    Details
    ISSN: 1432-2242
    Keywords: Key words Mangroves ; trnS-psbC ; rbcL ; cpDNA ; PCR-RFLP ; Phylogeny
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Chloroplast DNA (cpDNA) regions, trnS-psbC and rbcL, from 120 individuals of 24 mangrove and mangrove associate species belonging to 11 orders, 13 families and 17 genera of Angiospermae were amplified by the polymerase chain reaction (PCR) and restriction-digested with HaeIII. Analysis of polymorphism in the restriction fragments (PCR-RFLP) revealed 18 classes of restriction banding pattern in trnS-psbC region. This has provided molecular evidence for diversity in the mangrove floral component at the above-species level. Intra-generic variations were observed in three genera, viz. Rhizophora, Avicennia and Suaeda. Species-specific restriction patterns were found in the genera Rhizophora and Suaeda. A natural hybrid belonging to the genus Rhizophora was also analysed, and its restriction pattern was the same as that of a putative parental species.PCR-RFLP analysis of rbcL gene region was less differentiating. However, it showed 13 different classes of restriction patterns and revealed the usefulness of these investigations for genome analysis at a higher taxonomic level. Intra-specific variation was not observed in any of the species in either of the cpDNA regions analysed. This is the first report which describes variations in the chloroplast genome of mangrove species.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050059
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  • 3
    Electronic Resource
    Electronic Resource
    Microsatellite analysis of maternal half-sib families of Quercus robur, pedunculate oak: detection of seed contaminations and inference of the seed parents from the offspring (1999)
    Springer
    Theoretical and applied genetics 99 (1999), S. 185-191 
    Details
    ISSN: 1432-2242
    Keywords: Key words Oak ; Quercus ; Half-sibs ; Microsatellites ; Simple-sequence repeats
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Microsatellites were used for genetic analysis of maternal half-sib families of Quercus robur, pedunculate oak, a highly outcrossing tree species. A model half-sib family including the mother tree and 28 offspring individuals as well as samples from six single tree harvests from a forestry company, 4–8 individuals each, were genotyped at 9 microsatellite loci. No prior information about the genotypes of the mother trees were available for these six seedlot samples. Analysis of the model half-sib family revealed that the maternal genotypes can be inferred from the offspring genotypes due to codominant Mendelian inheritance of the microsatellites. Analysis of the single tree harvests, supplied as six maternal half-sib families, revealed contaminations with unrelated seedlings in four out of six cases. Average relatedness between the remaining individuals indicated that they were indeed half-sibs, probably with a proportion of full-sibs among them. For five samples the genotypes of the mother trees were partially inferred from the offspring genotypes. The supposed number of five different mother trees was confirmed by direct comparison of the maternal genotypes and by pairwise FST calculations between families. We show that correct genotype reconstruction can be confirmed by monitoring recombination events between linked markers. Our results demonstrate that microsatellite analysis is a suitable means to approach two key problems of legal regulations on the marketing of seed material from pedunculate oak: the number of trees included in seed harvests and the detection of seed contaminations.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220051223
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  • 4
    Electronic Resource
    Electronic Resource
    Variation in the psbC gene region of gymnosperms and angiosperms as detected by a single restriction site polymorphism (1997)
    Springer
    Theoretical and applied genetics 94 (1997), S. 1065-1071 
    Details
    ISSN: 1432-2242
    Keywords: Key words Trees ; Chloroplast DNA ; PCR-RFLP ; Genetic variation ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  This paper reports on a PCR-RFLP analysis in a chloroplast DNA region consisting of coding and intergenic spacer sequences of trnS and the adjacent psbC gene. This region was PCR-amplified in 62 woody plant species, predominantly tree species, that represent a broad systematic range in both gymnosperms and dicotyledonous angiosperms. The amplification products were digested by the restriction endonuclease HaeIII (GG↓CC). Fourteen different restriction patterns occurred, 5 of which characterised representatives of the gymnosperms, and 9 angiosperm representatives. A single restriction site polymorphism revealed most of the species to share restriction patterns. Groups formed which showed relationships to plant systematic units. This phenomenon is discussed with regard to the psbC gene and the GGCC motif for tracing species’ relationships on a high taxonomic level of gymnosperms and angiosperms.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050516
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  • 5
    Electronic Resource
    Electronic Resource
    Chloroplast DNA markers reveal a geographical divide across Argentinean southern beech Nothofagus nervosa (Phil.) Dim. et Mil. distribution area (1998)
    Springer
    Theoretical and applied genetics 97 (1998), S. 642-646 
    Details
    ISSN: 1432-2242
    Keywords: Key words Chloroplast DNA ; Intraspecific variation ; Geographical differentiation ; Glacial refugia ; Nothofagus ; Fagaceae
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract   Nothofagus nervosa is one of the most important species of the temperate forests of southern South America. On the eastern slope of the Andes Mountains (Argentina) it has a very small and narrow natural distribution area which follows the valleys of the numerous west-east lake basins. Re-colonisation after the last glaciation is assumed to have originated from refugia located in the western pacific coast or even in free interglacial patches of the Andes Mountains. Sixteen pairs of primers were used to amplify 16 non-coding regions of chloroplast DNA in 11 populations from over the entire distribution area in Argentina. After restriction analysis two polymorphic fragments were found which defined two haplotypes and allowed a differentiation among populations. A clear geographic divide occurs separating populations distributed south and north of a west-east mountain chain. This suggests that after the last glaciation the species spread out from at least two different refugia. Hypotheses about the possible location of these refugia are discussed.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050940
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